Individual-group diagnostic, all groups
Listing groups by interaction signature
Group  85 is from J3_98298.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_98298.1
This group is considered to be structured ***************************
Number of NTs: 22  Signature: cWW-F-F-F-F-F-F-F-F-tWH-F-F-tHS-cWW-cWW-F-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 UAAUUUGGAG*CGAAG*CAAAUUUGAAA (   1) MLPS -17.06 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_98298.1  5TBW U  149 A  123'

 matches the original group, cWW-F-F-F-F-F-F-F-F-tWH-F-F-tHS-cWW-cWW-F-F
Group  26 is from J3_32857.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_32857.1
This group is considered to be structured ***************************
Number of NTs: 15  Signature: cWW-F-F-F-F-F-cWW-F-cWW-F-F-F-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00   GAAC*GGUGCC*GGAGCC (   1) MLPS -11.24 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_32857.1  4LFB G1003A C 1038'

 matches the original group, cWW-F-F-F-F-F-cWW-F-cWW-F-F-F-F
Group  43 is from J3_47707.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_47707.1
This group is considered to be structured ***************************
Number of NTs: 20  Signature: cWW-F-F-F-F-F-cWW-F-cWW-F-F-cSH-cSH-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 ACGUUACUAACG*UGC*GAUUU (   1) MLPS -14.32 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_47707.1  4WF9 A   56 U  113'

 matches the original group, cWW-F-F-F-F-F-cWW-F-cWW-F-F-cSH-cSH-cWW-F
Group  80 is from J3_94652.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_94652.1
This group is considered to be structured ***************************
Number of NTs: 10  Signature: cWW-F-F-F-F-F-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00        CGGC*GCUAG*CG (   1) MLPS  -6.94 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_94652.1  1G1X C  586 G  755'

 matches the original group, cWW-F-F-F-F-F-cWW-cWW
Group  41 is from J3_47248.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_47248.1
This group is considered to be structured ***************************
Number of NTs: 17  Signature: cWW-F-F-F-F-F-tHH-F-cWW-cWW-F-F-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 CGAGAC*GCAAUA*UCUUAG (   1) MLPS -12.10 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_47248.1  4V88 C 1327 G 1288'

 matches the original group, cWW-F-F-F-F-F-tHH-F-cWW-cWW-F-F-F
Group  60 is from J3_72804.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_72804.1
This group is considered to be structured ***************************
Number of NTs: 16  Signature: cWW-F-F-F-F-F-tHW-F-F-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 GCACAGGG*CAAAGC*GUUACC (   1) MLPS -12.12 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_72804.1  3IWN G    4 C   88'

 matches the original group, cWW-F-F-F-F-F-tHW-F-F-cWW-cWW-F
Group  17 is from J3_20650.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_20650.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-F-F-F-F-cSS-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00      CGAGG*CUG*CACUG (   1) MLPS  -7.57 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_20650.1  5BJO C    5 G   32'

 matches the original group, cWW-F-F-F-F-cSS-cWW-cWW-F
Group  20 is from J3_25670.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_25670.1
This group is considered to be structured ***************************
Number of NTs: 11  Signature: cWW-F-F-F-cWW-F-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00        GUAACU*AG*CAC (   1) MLPS  -8.16 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_25670.1  5TBW G 1640 C 1633'

 matches the original group, cWW-F-F-F-cWW-F-F-cWW
Group  14 is from J3_19256.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_19256.1
This group is considered to be structured ***************************
Number of NTs: 12  Signature: cWW-F-F-F-cWW-F-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00       GAAACCC*GC*GAC (   1) MLPS  -7.39 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_19256.1  7KGA G   65 C   52'

 matches the original group, cWW-F-F-F-cWW-F-F-cWW-F
Better:   0 Equal:   0 Score 1.00       GAAACCC*GC*GAC (   1) MLPS  -7.39 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_19256.1  7KGA G   65 C   52'

 matches the original group, cWW-F-F-F-cWW-F-F-cWW-F
Group  33 is from J3_38151.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_38151.1
This group is considered to be structured ***************************
Number of NTs: 10  Signature: cWW-F-F-F-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00         AAG*CAA*UGCU (   1) MLPS  -7.03 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_38151.1  6ZDP A 1294 U 1343'

 matches the original group, cWW-F-F-F-cWW-cWW-F
Group  64 is from J3_82365.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_82365.1
This group is considered to be structured ***************************
Number of NTs: 10  Signature: cWW-F-F-F-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00        AGAC*GGUG*UAU (   1) MLPS  -7.68 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_82365.1  5J7L A 1155 U 1118'

 matches the original group, cWW-F-F-F-cWW-cWW-F
Better:   0 Equal:   0 Score 1.00        GGAC*GUUU*AAC (   1) MLPS  -7.98 deficit   0.30 prct   0.00 CutScore  97.43;  Ed  0, 0
ans =

    ' J3_82365.1  4V88 G 1386 C 1338'

 matches the original group, cWW-F-F-F-cWW-cWW-F
Better:   1 Equal:   0 Score 0.00        GGAC*GGAG*CGC (   1) MLPS  -8.48 deficit   0.80 prct   0.00 CutScore  93.19;  Ed  0, 0
ans =

    ' J3_82365.1  4LFB G 1155 C 1118'

 scores better against   1 groups: J3_52655.1, 11 NTs, cWW-tSH-cWW-F-cWW-cWW                   , Ed  5, 2, MLPS -7.18, deficit  0.47, prct   0.00; 
Group   7 is from J3_08394.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_08394.2
This group is considered to be structured ***************************
Number of NTs: 20  Signature: cWW-F-F-F-tHW-F-F-F-tSS-F-cWW-cWW-F-F-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 CGUCAG*CGCAACC*GACGACG (   1) MLPS  -7.83 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_08394.2  4LFB C 1063 G 1193'

 matches the original group, cWW-F-F-F-tHW-F-F-F-tSS-F-cWW-cWW-F-F-F
Better:   0 Equal:   0 Score 1.00 CGUCAG*CGCAACC*GACGACG (   1) MLPS  -7.83 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_08394.2  6CZR C 1046 G 1175'

 matches the original group, cWW-F-F-F-tHW-F-F-F-tSS-F-cWW-cWW-F-F-F
Better:   0 Equal:   0 Score 1.00 CGUCAG*CGCAACC*GAUGACG (   1) MLPS  -8.34 deficit   0.51 prct   0.00 CutScore  97.96;  Ed  0, 0
ans =

    ' J3_08394.2  5J7L C 1063 G 1193'

 matches the original group, cWW-F-F-F-tHW-F-F-F-tSS-F-cWW-cWW-F-F-F
Group  70 is from J3_86907.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_86907.1
This group is considered to be structured ***************************
Number of NTs: 26  Signature: cWW-F-F-F-tSW-F-tSH-tSS-F-F-F-F-F-F-F-cWW-cWW-F-F-F-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 GAAGAACCUUACC*GGGCGAC*GUUUAAUUC (   1) MLPS -17.96 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_86907.1  6CZR G  951 C  940'

 matches the original group, cWW-F-F-F-tSW-F-tSH-tSS-F-F-F-F-F-F-F-cWW-cWW-F-F-F-F
Group  66 is from J3_83516.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_83516.1
This group is considered to be structured ***************************
Number of NTs: 22  Signature: cWW-F-F-F-tWW-F-tSH-tSS-F-F-F-F-F-cWW-cWW-F-F-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 GAAGAACCUUAC*GGCGA*UUUAAUUC (   1) MLPS -14.12 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_83516.1  4LFB G  973 C  962'

 matches the original group, cWW-F-F-F-tWW-F-tSH-tSS-F-F-F-F-F-cWW-cWW-F-F-F
Better:   0 Equal:   0 Score 1.00 GAAGAACCUUAC*GGCUA*UUUAAUUC (   1) MLPS -14.12 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_83516.1  5J7L G  973 C  962'

 matches the original group, cWW-F-F-F-tWW-F-tSH-tSS-F-F-F-F-F-cWW-cWW-F-F-F
Better:   0 Equal:   0 Score 1.00 GGGGAAACUCAC*GGCCG*CUUAAUUU (   1) MLPS -15.61 deficit   1.49 prct   0.00 CutScore  94.03;  Ed  0, 0
ans =

    ' J3_83516.1  4V88 G 1198 U 1187'

 matches the original group, cWW-F-F-F-tWW-F-tSH-tSS-F-F-F-F-F-cWW-cWW-F-F-F
Group  29 is from J3_36387.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_36387.1
This group is considered to be structured ***************************
Number of NTs: 16  Signature: cWW-F-F-F-tWW-tHW-tHW-cWW-F-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00   CUAAG*CCGAAUCC*GUG (   1) MLPS  -7.05 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_36387.1  4WFL C   10 G  102'

 matches the original group, cWW-F-F-F-tWW-tHW-tHW-cWW-F-F-cWW
Group  42 is from J3_47376.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_47376.1
This group is considered to be structured ***************************
Number of NTs: 10  Signature: cWW-F-F-cWS-cWW-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00        GU*ACC*GUCACC (   1) MLPS  -7.72 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_47376.1  6P2H G   21 C   79'

 matches the original group, cWW-F-F-cWS-cWW-F-cWW
Group  22 is from J3_30104.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_30104.1
This group is considered to be structured ***************************
Number of NTs:  8  Signature: cWW-F-F-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00           CUG*CC*GAG (   1) MLPS  -4.51 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_30104.1  5J7L C 2789 G 2894'

 matches the original group, cWW-F-F-cWW-cWW
Group  15 is from J3_19286.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_19286.1
This group is considered to be structured ***************************
Number of NTs: 15  Signature: cWW-F-F-tSH-F-cWW-F-F-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00   CUGAUGAU*AUUG*CACG (   1) MLPS -10.41 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_19286.1  5KPY C   18 G   78'

 matches the original group, cWW-F-F-tSH-F-cWW-F-F-F-cWW-F
Group  86 is from J3_98484.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_98484.1
This group is considered to be structured ***************************
Number of NTs: 16  Signature: cWW-F-F-tSH-cHW-F-cWW-tSS-cSS-F-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00   CUCC*GUCG*UGUGAUUG (   1) MLPS -10.78 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_98484.1  4R4V C  663 G  710'

 matches the original group, cWW-F-F-tSH-cHW-F-cWW-tSS-cSS-F-cWW-cWW
Group   5 is from J3_06335.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_06335.1
This group is considered to be structured ***************************
Number of NTs: 14  Signature: cWW-F-F-tSH-cSS-tWH-F-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00    CAAAC*GUGUCAG*CAG (   1) MLPS  -7.85 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_06335.1  4V9F C  240 G  379'

 matches the original group, cWW-F-F-tSH-cSS-tWH-F-cWW-cWW-F
Group  32 is from J3_37410.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_37410.1
This group is considered to be structured ***************************
Number of NTs: 18  Signature: cWW-F-F-tSH-tHW-F-F-F-cWW-F-cWW-F-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 AAGACAUU*AUUG*CUUAUU (   1) MLPS  -9.88 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_37410.1  5TBW A 2590 U 2517'

 matches the original group, cWW-F-F-tSH-tHW-F-F-F-cWW-F-cWW-F-F
Group  11 is from J3_13944.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_13944.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-F-F-tSS-F-F-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00    GCCGUAG*CGC*GGAAC (   1) MLPS  -9.92 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_13944.1  5J7L G   10 C  110'

 matches the original group, cWW-F-F-tSS-F-F-cWW-cWW
Better:   0 Equal:   0 Score 1.00    CCCAUAG*CGC*GUCAG (   1) MLPS -11.21 deficit   1.30 prct   0.00 CutScore  93.52;  Ed  0, 0
ans =

    ' J3_13944.1  7A0S C   12 G  113'

 matches the original group, cWW-F-F-tSS-F-F-cWW-cWW
Group   1 is from J3_00584.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_00584.1
This group is considered to be structured ***************************
Number of NTs: 14  Signature: cWW-F-F-tWH-cWW-tSS-F-tHS-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     GGUAAG*CGAGG*CAC (   1) MLPS  -7.72 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_00584.1  7A0S G 2781 C 2771'

 matches the original group, cWW-F-F-tWH-cWW-tSS-F-tHS-F-cWW
Group  34 is from J3_38446.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_38446.1
This group is considered to be structured ***************************
Number of NTs: 17  Signature: cWW-F-cWW-F-F-F-F-F-F-cWS-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 GAGGACUGCG*CAAGGA*UC (   1) MLPS -10.63 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_38446.1  5TBW G  588 C  503'

 matches the original group, cWW-F-cWW-F-F-F-F-F-F-cWS-F-cWW-F
Group   3 is from J3_04858.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_04858.1
This group is considered to be structured ***************************
Number of NTs: 12  Signature: cWW-F-cWW-F-F-F-F-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00       UCGACC*GAAA*UA (   1) MLPS  -7.89 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_04858.1  5J7L U 1344 A 1403'

 matches the original group, cWW-F-cWW-F-F-F-F-F-cWW
Better:   0 Equal:   0 Score 1.00      UCGAUC*GGAAU*AA (   1) MLPS  -8.58 deficit   0.69 prct   0.00 CutScore  96.21;  Ed  0, 0
ans =

    ' J3_04858.1  5TBW U 1526 A 1613'

 matches the original group, cWW-F-cWW-F-F-F-F-F-cWW
Group  68 is from J3_84625.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_84625.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-F-cWW-F-F-F-cWW-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     GAUAAGC*GAUUU*AC (   1) MLPS  -8.27 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_84625.1  5J7L G   70 C   57'

 matches the original group, cWW-F-cWW-F-F-F-cWW-F-cWW
Better:   0 Equal:   0 Score 1.00     GAAAAGC*GAUGU*AC (   1) MLPS  -8.27 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_84625.1  7A0S G   69 C   56'

 matches the original group, cWW-F-cWW-F-F-F-cWW-F-cWW
Group  75 is from J3_90744.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_90744.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-F-cWW-F-F-cSS-F-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00      GAUAAAA*UGCC*GC (   1) MLPS -10.10 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_90744.1  4OJI G   35 C   20'

 matches the original group, cWW-F-cWW-F-F-cSS-F-F-cWW
Group  87 is from J3_98985.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_98985.1
This group is considered to be structured ***************************
Number of NTs: 12  Signature: cWW-F-cWW-F-F-cSW-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00       GGAAUCU*AGC*GC (   1) MLPS  -5.37 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_98985.1  6CZR G  357 C   48'

 matches the original group, cWW-F-cWW-F-F-cSW-F-cWW
Better:   0 Equal:   0 Score 1.00       GGAAUAU*AGC*GC (   1) MLPS  -5.70 deficit   0.33 prct   0.00 CutScore  98.10;  Ed  0, 0
ans =

    ' J3_98985.1  5J7L G  361 C   47'

 matches the original group, cWW-F-cWW-F-F-cSW-F-cWW
Group  10 is from J3_11934.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_11934.2
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-F-cWW-F-F-tWW-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     CGCCGAUGG*CAG*UG (   1) MLPS  -6.65 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_11934.2  1G1X C  717 G  673'

 matches the original group, cWW-F-cWW-F-F-tWW-F-cWW-F
Better:   0 Equal:   0 Score 1.00     CGCCGAUGG*CAG*UG (   1) MLPS  -6.65 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_11934.2  6CZR C  701 G  657'

 matches the original group, cWW-F-cWW-F-F-tWW-F-cWW-F
Better:   0 Equal:   0 Score 1.00     CGCCGAUGG*CAG*UG (   1) MLPS  -6.65 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_11934.2  1G1X C  717 G  673'

 matches the original group, cWW-F-cWW-F-F-tWW-F-cWW-F
Better:   0 Equal:   0 Score 1.00     UACCGGUGG*CGG*UA (   1) MLPS  -7.69 deficit   1.04 prct   0.00 CutScore  94.84;  Ed  0, 0
ans =

    ' J3_11934.2  5J7L U  717 A  673'

 matches the original group, cWW-F-cWW-F-F-tWW-F-cWW-F
Group  63 is from J3_82061.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_82061.2
This group is considered to be structured ***************************
Number of NTs:  8  Signature: cWW-F-cWW-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00          CCAG*CC*GCG (   1) MLPS  -6.93 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_82061.2  5T5A C   13 G   48'

 matches the original group, cWW-F-cWW-F-cWW
Better:   0 Equal:   0 Score 1.00          GCAG*CC*GCC (   1) MLPS  -6.98 deficit   0.05 prct   0.00 CutScore  99.53;  Ed  0, 0
ans =

    ' J3_82061.2  5TPY G   43 C   23'

 matches the original group, cWW-F-cWW-F-cWW
Better:   0 Equal:   0 Score 1.00          CCCUC*GU*AG (   1) MLPS  -9.11 deficit   2.18 prct   0.00 CutScore  80.75;  Ed  0, 0
ans =

    ' J3_82061.2  7K16 C   40 G   24'

 matches the original group, cWW-F-cWW-F-cWW
Group  53 is from J3_59914.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_59914.1
This group is considered to be structured ***************************
Number of NTs:  9  Signature: cWW-F-cWW-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00          UAG*CUU*AAG (   1) MLPS  -6.44 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_59914.1  4KR9 U    8 G   28'

 matches the original group, cWW-F-cWW-F-cWW-F
Group  19 is from J3_25217.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_25217.1
This group is considered to be structured ***************************
Number of NTs:  9  Signature: cWW-F-cWW-F-cWW-F-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00         CG*UUCG*CGUG (   1) MLPS  -6.18 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_25217.1  2RFK C   16 G   11'

 matches the original group, cWW-F-cWW-F-cWW-F-F
Group  35 is from J3_38616.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_38616.1
This group is considered to be structured ***************************
Number of NTs: 17  Signature: cWW-F-cWW-F-cWW-F-cWW-F-tWW-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 UAACUACUG*CAUUU*AUCA (   1) MLPS -11.20 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_38616.1  4V88 U  928 A  884'

 matches the original group, cWW-F-cWW-F-cWW-F-cWW-F-tWW-F-cWW
Group  50 is from J3_56708.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_56708.1
This group is considered to be structured ***************************
Number of NTs: 16  Signature: cWW-F-cWW-F-tHW-F-F-F-cWW-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00   AAAACAUAC*GAGAG*CU (   1) MLPS  -9.65 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_56708.1  3EGZ A   53 U   28'

 matches the original group, cWW-F-cWW-F-tHW-F-F-F-cWW-F-cWW
Group  49 is from J3_56052.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_56052.2
This group is considered to be structured ***************************
Number of NTs:  8  Signature: cWW-F-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00          CGG*CUAG*CG (   1) MLPS  -4.40 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_56052.2  6CZR C  570 G  739'

 matches the original group, cWW-F-cWW-cWW-F
Better:   0 Equal:   0 Score 1.00          CGG*CUAG*CG (   1) MLPS  -4.40 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_56052.2  1G1X C  586 G  755'

 matches the original group, cWW-F-cWW-cWW-F
Better:   0 Equal:   0 Score 1.00          CGG*CUAG*CG (   1) MLPS  -4.40 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_56052.2  1KUQ C    4 G   54'

 matches the original group, cWW-F-cWW-cWW-F
Better:   0 Equal:   0 Score 1.00          CGG*CUUG*CG (   1) MLPS  -5.25 deficit   0.85 prct   0.00 CutScore  92.81;  Ed  0, 0
ans =

    ' J3_56052.2  5J7L C  586 G  755'

 matches the original group, cWW-F-cWW-cWW-F
Group  16 is from J3_19431.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_19431.1
This group is considered to be structured ***************************
Number of NTs:  9  Signature: cWW-F-cWW-tSS-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00         CCAUAU*AG*UG (   1) MLPS  -5.42 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_19431.1  5TBW C    9 G  112'

 matches the original group, cWW-F-cWW-tSS-F-cWW
Group  73 is from J3_89737.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_89737.1
This group is considered to be structured ***************************
Number of NTs: 14  Signature: cWW-F-cWW-tSS-cWW-F-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00   CCACAG*CGUUC*GUUCG (   1) MLPS  -8.87 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_89737.1  4V9F C    9 G  114'

 matches the original group, cWW-F-cWW-tSS-cWW-F-cWW-cWW
Group  45 is from J3_51910.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_51910.1
This group is considered to be structured ***************************
Number of NTs: 12  Signature: cWW-F-cWW-tWS-F-F-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00      GAAC*GG*CACAAGC (   1) MLPS  -8.77 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_51910.1  4R4V G  655 C  764'

 matches the original group, cWW-F-cWW-tWS-F-F-cWW-cWW
Group   6 is from J3_06579.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_06579.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-F-tHS-F-tHS-F-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     GGUAUG*CAAG*UGGC (   1) MLPS  -8.07 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_06579.1  2R8S G  175 C  165'

 matches the original group, cWW-F-tHS-F-tHS-F-cWW-cWW
Group   4 is from J3_05170.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_05170.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-F-tSH-tWH-cSH-cWW-tWS-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00    GGGUUGUA*UG*CAAAC (   1) MLPS  -9.69 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_05170.1  7A0S G  269 C  250'

 matches the original group, cWW-F-tSH-tWH-cSH-cWW-tWS-F-cWW
Group  13 is from J3_18709.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_18709.1
This group is considered to be structured ***************************
Number of NTs: 12  Signature: cWW-F-tWW-cSH-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00      UUACG*CAAAG*CUA (   1) MLPS  -8.62 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_18709.1  4V88 U 1079 A 1039'

 matches the original group, cWW-F-tWW-cSH-cWW-cWW-F
Group  76 is from J3_91491.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_91491.2
This group is considered to be structured ***************************
Number of NTs: 11  Signature: cWW-F-tWW-tHW-cWW-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00       CAUAAG*CUC*GAG (   1) MLPS  -5.73 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_91491.2  4WF9 C 2359 G 2350'

 matches the original group, cWW-F-tWW-tHW-cWW-F-cWW
Better:   0 Equal:   0 Score 1.00       CAAAAG*CUC*GAG (   1) MLPS  -5.73 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_91491.2  4V9F C 2366 G 2357'

 matches the original group, cWW-F-tWW-tHW-cWW-F-cWW
Better:   0 Equal:   0 Score 1.00       UAGAAG*CUC*GAG (   1) MLPS  -5.94 deficit   0.21 prct   0.00 CutScore  98.86;  Ed  0, 0
ans =

    ' J3_91491.2  4Y4O U 2332 G 2323'

 matches the original group, cWW-F-tWW-tHW-cWW-F-cWW
Better:   0 Equal:   0 Score 1.00       UAGAAG*CUC*GAG (   1) MLPS  -5.94 deficit   0.21 prct   0.00 CutScore  98.86;  Ed  0, 0
ans =

    ' J3_91491.2  7A0S U 2311 G 2302'

 matches the original group, cWW-F-tWW-tHW-cWW-F-cWW
Better:   0 Equal:   0 Score 1.00       UAAAAG*CUC*GAA (   1) MLPS  -6.49 deficit   0.76 prct   0.00 CutScore  95.88;  Ed  0, 0
ans =

    ' J3_91491.2  5TBW U 2701 A 2692'

 matches the original group, cWW-F-tWW-tHW-cWW-F-cWW
Better:   0 Equal:   0 Score 1.00       CAUAAG*CUA*UAG (   1) MLPS  -7.13 deficit   1.40 prct   0.00 CutScore  92.34;  Ed  0, 0
ans =

    ' J3_91491.2  5J7L C 2332 G 2323'

 matches the original group, cWW-F-tWW-tHW-cWW-F-cWW
Group  18 is from J3_22198.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_22198.1
This group is considered to be structured ***************************
Number of NTs: 12  Signature: cWW-cSH-F-cWW-cSS-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00       AGCC*GAG*CUAAU (   1) MLPS -10.49 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_22198.1  4RGE A   11 U   44'

 matches the original group, cWW-cSH-F-cWW-cSS-cWW-F
Group  82 is from J3_96372.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_96372.1
This group is considered to be structured ***************************
Number of NTs: 16  Signature: cWW-cSH-cWS-F-F-F-tHW-F-cWW-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 GACAAUAC*GAAAG*CUGCC (   1) MLPS -13.63 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_96372.1  4YAZ G    8 C   76'

 matches the original group, cWW-cSH-cWS-F-F-F-tHW-F-cWW-F-cWW-F
Better:   0 Equal:   0 Score 1.00 GCACAGGG*CAAAG*UUACC (   1) MLPS -13.93 deficit   0.30 prct   0.00 CutScore  98.48;  Ed  0, 0
ans =

    ' J3_96372.1  3MXH G   14 C   93'

 matches the original group, cWW-cSH-cWS-F-F-F-tHW-F-cWW-F-cWW-F
Group  81 is from J3_96170.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_96170.1
This group is considered to be structured ***************************
Number of NTs: 16  Signature: cWW-cSH-cWS-tHS-cWH-F-F-cWW-F-tHS-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   1 Equal:   0 Score 0.00  UUAAAACC*GUGGG*CAGA (   1) MLPS -10.59 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_96170.1  6JQ5 U   70 A   67'

 scores better against   1 groups: J3_58453.1, 14 NTs, cWW-cWH-F-cWW-tWS-F-F-cWW-F             , Ed  0, 0, MLPS -9.73, deficit  0.00, prct   0.00; 
Group  62 is from J3_79305.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_79305.1
This group is considered to be structured ***************************
Number of NTs: 19  Signature: cWW-cSH-cWW-cWH-F-tSW-F-F-F-F-F-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 GAGGAAGGAG*CGC*GGACUGC (   1) MLPS -10.12 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_79305.1  6CZR G 1157 C 1144'

 matches the original group, cWW-cSH-cWW-cWH-F-tSW-F-F-F-F-F-cWW-cWW-F
Group  28 is from J3_35321.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_35321.1
This group is considered to be structured ***************************
Number of NTs: 12  Signature: cWW-cSS-F-F-F-F-cWW-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     CAUUUGA*UU*AGAAG (   1) MLPS  -9.33 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_35321.1  5TBW C 1092 G 1066'

 matches the original group, cWW-cSS-F-F-F-F-cWW-F-cWW
Group  31 is from J3_37047.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_37047.2
This group is considered to be structured ***************************
Number of NTs: 15  Signature: cWW-cSS-cSH-F-tWH-F-cWW-cSH-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00  CCCAGUUC*GCCG*CAAUG (   1) MLPS  -8.55 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_37047.2  4LFB C 1296 G 1241'

 matches the original group, cWW-cSS-cSH-F-tWH-F-cWW-cSH-F-cWW-F
Better:   0 Equal:   0 Score 1.00  CCCAGUUC*GCCG*CAAUG (   1) MLPS  -8.55 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_37047.2  6CZR C 1278 G 1223'

 matches the original group, cWW-cSS-cSH-F-tWH-F-cWW-cSH-F-cWW-F
Better:   0 Equal:   0 Score 1.00  CGUAGUCC*GUCG*CAAUG (   1) MLPS  -9.34 deficit   0.79 prct   0.00 CutScore  96.46;  Ed  0, 0
ans =

    ' J3_37047.2  5J7L C 1296 G 1241'

 matches the original group, cWW-cSS-cSH-F-tWH-F-cWW-cSH-F-cWW-F
Better:   0 Equal:   0 Score 1.00  CGUGCUGG*CGAG*CACUG (   1) MLPS -15.48 deficit   6.93 prct   0.00 CutScore  68.82;  Ed  0, 0
ans =

    ' J3_37047.2  4V88 C 1533 G 1474'

 matches the original group, cWW-cSS-cSH-F-tWH-F-cWW-cSH-F-cWW-F
Group  71 is from J3_89044.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_89044.1
This group is considered to be structured ***************************
Number of NTs: 15  Signature: cWW-cSW-F-cWW-cSW-cWW-cHW-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00    CGCAAUC*GUAG*CGAG (   1) MLPS  -9.83 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_89044.1  4R4V C  610 G  775'

 matches the original group, cWW-cSW-F-cWW-cSW-cWW-cHW-F-cWW
Group  52 is from J3_58453.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_58453.1
This group is considered to be structured ***************************
Number of NTs: 14  Signature: cWW-cWH-F-cWW-tWS-F-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00  UUAAAACC*GUGGG*CAGA (   1) MLPS  -9.73 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_58453.1  6JQ5 U   70 A   67'

 matches the original group, cWW-cWH-F-cWW-tWS-F-F-cWW-F
Group  74 is from J3_90256.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_90256.1
This group is considered to be structured ***************************
Number of NTs: 17  Signature: cWW-cWS-F-F-F-F-F-F-cWW-F-tHS-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 GUUAAAACC*GUGGG*CAGAC (   1) MLPS -11.07 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_90256.1  6JQ6 G   69 C   68'

 matches the original group, cWW-cWS-F-F-F-F-F-F-cWW-F-tHS-F-cWW-F
Better:   0 Equal:   0 Score 1.00 GUUAAAACC*GUGGG*CAGAC (   1) MLPS -11.07 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_90256.1  6JQ6 G   69 C   68'

 matches the original group, cWW-cWS-F-F-F-F-F-F-cWW-F-tHS-F-cWW-F
Group  40 is from J3_45941.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_45941.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-cWS-cSH-tWH-F-F-F-F-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     ACGCC*GAA*UGUUGU (   1) MLPS  -9.81 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_45941.1  4O26 A  173 U  217'

 matches the original group, cWW-cWS-cSH-tWH-F-F-F-F-cWW-cWW-F
Group  78 is from J3_93637.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_93637.1
This group is considered to be structured ***************************
Number of NTs: 15  Signature: cWW-cWW-F-F-F-F-F-cWW-cWW-F-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00    UAGUC*GUUGAC*GCUA (   1) MLPS  -7.66 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_93637.1  3KTW U  144 A  234'

 matches the original group, cWW-cWW-F-F-F-F-F-cWW-cWW-F-F
Group  57 is from J3_68440.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_68440.1
This group is considered to be structured ***************************
Number of NTs: 19  Signature: cWW-cWW-F-F-F-cWW-F-F-cWW-F-F-F-F-F-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 CUUGAAAAGCCUG*CA*UAUG (   1) MLPS -12.67 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_68440.1  6DB9 C    9 G   52'

 matches the original group, cWW-cWW-F-F-F-cWW-F-F-cWW-F-F-F-F-F-F
Group   8 is from J3_08465.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_08465.1
This group is considered to be structured ***************************
Number of NTs: 16  Signature: cWW-cWW-F-F-tHW-F-F-tHH-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00   GAGACAG*UUG*CUAACC (   1) MLPS  -8.14 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_08465.1  4WF9 G 2249 C 2228'

 matches the original group, cWW-cWW-F-F-tHW-F-F-tHH-cWW-cWW
Group  44 is from J3_48314.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_48314.1
This group is considered to be structured ***************************
Number of NTs: 11  Signature: cWW-cWW-F-cWW-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00        AGAUG*CUG*CAU (   1) MLPS  -7.75 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_48314.1  5TBW A 3314 U 3300'

 matches the original group, cWW-cWW-F-cWW-F-cWW-F
Group  59 is from J3_72575.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_72575.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-cWW-F-cWW-cSS-cWW-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00      GGUG*CUUUAC*GAC (   1) MLPS  -8.27 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_72575.1  3NDB G  145 C  233'

 matches the original group, cWW-cWW-F-cWW-cSS-cWW-F-cWW
Group  37 is from J3_41097.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_41097.1
This group is considered to be structured ***************************
Number of NTs:  9  Signature: cWW-cWW-F-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00         GUG*CUUUG*UC (   1) MLPS  -5.90 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_41097.1  4KZ2 G    8 C    9'

 matches the original group, cWW-cWW-F-cWW-cWW
Better:   0 Equal:   0 Score 1.00         GUG*CUUUG*UC (   1) MLPS  -5.90 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_41097.1  3R4F G    4 C   63'

 matches the original group, cWW-cWW-F-cWW-cWW
Group  61 is from J3_75187.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_75187.1
This group is considered to be structured ***************************
Number of NTs: 16  Signature: cWW-cWW-tSH-F-F-F-F-tHS-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00  GAGAUACG*CUG*CUAUGC (   1) MLPS -11.01 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_75187.1  3PDR G   43 C  142'

 matches the original group, cWW-cWW-tSH-F-F-F-F-tHS-cWW-cWW
Group  58 is from J3_69441.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_69441.1
This group is considered to be structured ***************************
Number of NTs: 14  Signature: cWW-cWW-tWH-cHW-tSH-cWW-tSS-F-cSS-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00   CAUC*GUGA*UAUUAAAG (   1) MLPS -10.90 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_69441.1  4V9F C 2552 G 2602'

 matches the original group, cWW-cWW-tWH-cHW-tSH-cWW-tSS-F-cSS-cWW
Group  47 is from J3_52842.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_52842.1
This group is considered to be structured ***************************
Number of NTs: 11  Signature: cWW-tHS-F-F-F-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00      CAUCA*UC*GUUAAG (   1) MLPS  -9.55 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_52842.1  7A0S C 2857 G 2811'

 matches the original group, cWW-tHS-F-F-F-cWW-cWW
Group  54 is from J3_64069.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_64069.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-tHS-F-F-F-cWW-cWW-F-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00  GAAC*GUUGAU*AAUGAAC (   1) MLPS -12.63 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_64069.1  5J7L G 2812 C 2888'

 matches the original group, cWW-tHS-F-F-F-cWW-cWW-F-F
Group  56 is from J3_65990.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_65990.1
This group is considered to be structured ***************************
Number of NTs: 14  Signature: cWW-tHW-F-F-cWW-F-F-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00   CUG*UCAACAG*UUAAUG (   1) MLPS  -9.39 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_65990.1  3PDR C   54 G  120'

 matches the original group, cWW-tHW-F-F-cWW-F-F-F-cWW-F
Group  27 is from J3_33851.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_33851.1
This group is considered to be structured ***************************
Number of NTs: 14  Signature: cWW-tSH-F-F-tHS-cWW-cWW-F-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00    CGUAG*UCGAAU*AUAG (   1) MLPS  -9.96 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_33851.1  5TBW C  863 G  831'

 matches the original group, cWW-tSH-F-F-tHS-cWW-cWW-F-F
Group  39 is from J3_44724.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_44724.2
This group is considered to be structured ***************************
Number of NTs: 12  Signature: cWW-tSH-F-cWW-tHS-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00       CGAAC*GAUG*CAG (   1) MLPS  -6.74 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_44724.2  7A0S C  745 G  713'

 matches the original group, cWW-tSH-F-cWW-tHS-cWW-F
Better:   0 Equal:   0 Score 1.00       CGAAC*GAUG*CAG (   1) MLPS  -6.74 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_44724.2  4WF9 C  777 G  745'

 matches the original group, cWW-tSH-F-cWW-tHS-cWW-F
Better:   0 Equal:   0 Score 1.00       CGAAC*GAUG*CAG (   1) MLPS  -6.74 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_44724.2  5J7L C  732 G  700'

 matches the original group, cWW-tSH-F-cWW-tHS-cWW-F
Better:   0 Equal:   0 Score 1.00       CGAAC*GAUG*CAG (   1) MLPS  -6.74 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_44724.2  4Y4O C  732 G  700'

 matches the original group, cWW-tSH-F-cWW-tHS-cWW-F
Better:   0 Equal:   0 Score 1.00      UGUUAG*CGUG*CAA (   1) MLPS -13.09 deficit   6.34 prct   0.00 CutScore  63.37;  Ed  0, 0
ans =

    ' J3_44724.2  4V9F U  823 A  791'

 matches the original group, cWW-tSH-F-cWW-tHS-cWW-F
Group  69 is from J3_85054.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_85054.2
This group is considered to be structured ***************************
Number of NTs: 14  Signature: cWW-tSH-F-tWW-tHS-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00   CGAAG*CGUUAAG*CUAG (   1) MLPS  -9.07 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_85054.2  6CZR C  835 G  813'

 matches the original group, cWW-tSH-F-tWW-tHS-cWW-cWW-F
Better:   0 Equal:   0 Score 1.00   CGAAG*CGUUAAG*CUAG (   1) MLPS  -9.07 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_85054.2  4LFB C  857 G  829'

 matches the original group, cWW-tSH-F-tWW-tHS-cWW-cWW-F
Better:   0 Equal:   0 Score 1.00   CGGAG*CGUUAAG*CUUG (   1) MLPS -10.52 deficit   1.44 prct   0.00 CutScore  92.78;  Ed  0, 0
ans =

    ' J3_85054.2  5J7L C  857 G  829'

 matches the original group, cWW-tSH-F-tWW-tHS-cWW-cWW-F
Better:   0 Equal:   0 Score 1.00   CUAAG*CGCAAAC*GUAG (   1) MLPS -13.37 deficit   4.29 prct   0.00 CutScore  78.53;  Ed  0, 0
ans =

    ' J3_85054.2  4WF9 C 1342 G 1667'

 matches the original group, cWW-tSH-F-tWW-tHS-cWW-cWW-F
Group  12 is from J3_15893.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_15893.1
This group is considered to be structured ***************************
Number of NTs: 14  Signature: cWW-tSH-cSS-tHS-F-cWW-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     UGAAUC*GUAG*CGAA (   1) MLPS  -7.78 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_15893.1  4QK9 U   47 A   90'

 matches the original group, cWW-tSH-cSS-tHS-F-cWW-cWW-cWW
Better:   0 Equal:   0 Score 1.00     UGAAUC*GUAG*CGAA (   1) MLPS  -7.78 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_15893.1  4W90 U   62 A   93'

 matches the original group, cWW-tSH-cSS-tHS-F-cWW-cWW-cWW
Better:   0 Equal:   0 Score 1.00     CGAAUC*GUAG*CGAG (   1) MLPS  -7.83 deficit   0.05 prct   0.00 CutScore  99.75;  Ed  0, 0
ans =

    ' J3_15893.1  4QLM C   43 G   88'

 matches the original group, cWW-tSH-cSS-tHS-F-cWW-cWW-cWW
Better:   0 Equal:   0 Score 1.00     CGAAUC*GUAC*GGAG (   1) MLPS  -7.98 deficit   0.19 prct   0.00 CutScore  99.01;  Ed  0, 0
ans =

    ' J3_15893.1  6N5P C    7 G  111'

 matches the original group, cWW-tSH-cSS-tHS-F-cWW-cWW-cWW
Better:   0 Equal:   0 Score 1.00     UUAAUC*GUAG*CGCA (   1) MLPS  -8.82 deficit   1.04 prct   0.00 CutScore  94.67;  Ed  0, 0
ans =

    ' J3_15893.1  6N5P U   48 A   91'

 matches the original group, cWW-tSH-cSS-tHS-F-cWW-cWW-cWW
Group  46 is from J3_52655.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_52655.1
This group is considered to be structured ***************************
Number of NTs: 11  Signature: cWW-tSH-cWW-F-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00        UGGA*UAC*GGAA (   1) MLPS  -6.70 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_52655.1  4V88 U 1168 A 1577'

 matches the original group, cWW-tSH-cWW-F-cWW-cWW
Better:   0 Equal:   0 Score 1.00        UGGA*UAC*GGAA (   1) MLPS  -6.70 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_52655.1  4LFB U  943 A 1340'

 matches the original group, cWW-tSH-cWW-F-cWW-cWW
Better:   0 Equal:   0 Score 1.00        UGGA*UAC*GGAA (   1) MLPS  -6.70 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_52655.1  5J7L U  943 A 1340'

 matches the original group, cWW-tSH-cWW-F-cWW-cWW
Group  25 is from J3_32852.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_32852.2
This group is considered to be structured ***************************
Number of NTs: 12  Signature: cWW-tSH-tHW-F-F-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00      CGUAAG*CGA*UAAG (   1) MLPS  -7.44 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_32852.2  7A0S C 1311 G 1659'

 matches the original group, cWW-tSH-tHW-F-F-cWW-cWW-F
Better:   0 Equal:   0 Score 1.00      CGGAAG*CAG*CAAG (   1) MLPS  -8.07 deficit   0.63 prct   0.00 CutScore  96.55;  Ed  0, 0
ans =

    ' J3_32852.2  5J7L C 1298 G 1642'

 matches the original group, cWW-tSH-tHW-F-F-cWW-cWW-F
Better:   0 Equal:   0 Score 1.00      CGUAAG*CGG*UCAG (   1) MLPS  -8.92 deficit   1.48 prct   0.00 CutScore  91.97;  Ed  0, 0
ans =

    ' J3_32852.2  4Y4O C 1298 G 1642'

 matches the original group, cWW-tSH-tHW-F-F-cWW-cWW-F
Better:   0 Equal:   0 Score 1.00      CGAUUG*CAA*UAAG (   1) MLPS -10.93 deficit   3.49 prct   0.00 CutScore  81.02;  Ed  0, 0
ans =

    ' J3_32852.2  4WF9 C 1335 G 1686'

 matches the original group, cWW-tSH-tHW-F-F-cWW-cWW-F
Group  83 is from J3_97609.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_97609.1
This group is considered to be structured ***************************
Number of NTs: 15  Signature: cWW-tSH-tHW-F-cWW-tHH-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00   GCUG*CUCAC*GGACACC (   1) MLPS  -8.10 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_97609.1  4V9F G 2131 C 2262'

 matches the original group, cWW-tSH-tHW-F-cWW-tHH-F-cWW-F
Group  72 is from J3_89368.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_89368.2
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-tSH-tHW-F-cWW-tHH-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     GGACAG*UUG*CUAAC (   1) MLPS  -6.34 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_89368.2  4Y4O G 2223 C 2200'

 matches the original group, cWW-tSH-tHW-F-cWW-tHH-cWW
Better:   0 Equal:   0 Score 1.00     GGACCG*UUG*CUAAC (   1) MLPS  -6.42 deficit   0.09 prct   0.00 CutScore  99.57;  Ed  0, 0
ans =

    ' J3_89368.2  7A0S G 2202 C 2183'

 matches the original group, cWW-tSH-tHW-F-cWW-tHH-cWW
Better:   0 Equal:   0 Score 1.00     GGACAG*CUG*CUAAC (   1) MLPS  -7.16 deficit   0.83 prct   0.00 CutScore  95.87;  Ed  0, 0
ans =

    ' J3_89368.2  5J7L G 2223 C 2200'

 matches the original group, cWW-tSH-tHW-F-cWW-tHH-cWW
Group   9 is from J3_11279.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_11279.1
This group is considered to be structured ***************************
Number of NTs: 19  Signature: cWW-tSH-tHW-cSH-tHH-cSS-tWW-F-F-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 UGAUUACG*CCAG*CUAGUAA (   1) MLPS -10.15 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_11279.1  4V88 U 1609 A 1587'

 matches the original group, cWW-tSH-tHW-cSH-tHH-cSS-tWW-F-F-cWW-cWW-F
Better:   0 Equal:   0 Score 1.00 UGAAUACG*CAAG*CUAGUAA (   1) MLPS -10.57 deficit   0.42 prct   0.00 CutScore  98.17;  Ed  0, 0
ans =

    ' J3_11279.1  4LFB U 1372 A 1350'

 matches the original group, cWW-tSH-tHW-cSH-tHH-cSS-tWW-F-F-cWW-cWW-F
Group  65 is from J3_82572.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_82572.1
This group is considered to be structured ***************************
Number of NTs: 11  Signature: cWW-tSH-tWW-F-cWW-tHW-F-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00      CUUG*CAG*CUUACG (   1) MLPS  -7.88 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_82572.1  4LFB C  990 G 1215'

 matches the original group, cWW-tSH-tWW-F-cWW-tHW-F-F-cWW
Better:   0 Equal:   0 Score 1.00      CUUG*CAG*CUUACG (   1) MLPS  -7.88 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_82572.1  5J7L C  990 G 1215'

 matches the original group, cWW-tSH-tWW-F-cWW-tHW-F-F-cWW
Group  67 is from J3_84189.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_84189.2
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-tSH-tWW-tHH-F-tHW-cWW-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     CGCAAAC*GUG*CAAG (   1) MLPS  -7.97 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_84189.2  7A0S C 1621 G 1322'

 matches the original group, cWW-tSH-tWW-tHH-F-tHW-cWW-F-cWW
Better:   0 Equal:   0 Score 1.00     CGCAAAC*GUG*CAAG (   1) MLPS  -7.97 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_84189.2  4Y4O C 1605 G 1309'

 matches the original group, cWW-tSH-tWW-tHH-F-tHW-cWW-F-cWW
Better:   0 Equal:   0 Score 1.00     CUAAUG*CAUG*CAAG (   1) MLPS -12.31 deficit   4.34 prct   0.00 CutScore  77.50;  Ed  0, 0
ans =

    ' J3_84189.2  4V9F C 1404 G 1718'

 matches the original group, cWW-tSH-tWW-tHH-F-tHW-cWW-F-cWW
Group  38 is from J3_42157.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_42157.1
This group is considered to be structured ***************************
Number of NTs: 12  Signature: cWW-tSH-tWW-tHW-F-F-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     CGAGAAC*GUG*UAAG (   1) MLPS  -8.57 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_42157.1  4V9F C 1680 G 1415'

 matches the original group, cWW-tSH-tWW-tHW-F-F-cWW-cWW
Better:   1 Equal:   0 Score 0.00     CCCAAAC*GUG*CAAG (   1) MLPS  -9.32 deficit   0.75 prct   0.00 CutScore  96.11;  Ed  0, 0
ans =

    ' J3_42157.1  5J7L C 1605 G 1309'

 scores better against   1 groups: J3_84189.2, 13 NTs, cWW-tSH-tWW-tHH-F-tHW-cWW-F-cWW         , Ed  1, 1, MLPS -8.29, deficit  0.32, prct   0.00; 
Better:   0 Equal:   0 Score 1.00     UGAUAAC*GUC*GAAA (   1) MLPS  -9.50 deficit   0.92 prct   0.00 CutScore  95.20;  Ed  0, 0
ans =

    ' J3_42157.1  5TBW U 1837 A 1491'

 matches the original group, cWW-tSH-tWW-tHW-F-F-cWW-cWW
Group  88 is from J3_99170.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_99170.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-tSH-tWW-tHW-cWW-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     UGAAGUG*CAA*UCUA (   1) MLPS  -7.65 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_99170.1  5TBW U 1479 A 1874'

 matches the original group, cWW-tSH-tWW-tHW-cWW-F-cWW-F
Group   2 is from J3_02067.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_02067.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-tSS-F-F-F-cWW-cWW-F-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00      GUAUC*GAAG*CAAU (   1) MLPS  -9.54 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_02067.1  4P95 G    7 U  260'

 matches the original group, cWW-tSS-F-F-F-cWW-cWW-F-F
Group  30 is from J3_36499.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_36499.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-tSS-tSH-tHW-tHS-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00      CUAG*CGAAG*CGUG (   1) MLPS  -7.23 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_36499.1  4UYK C   10 G  135'

 matches the original group, cWW-tSS-tSH-tHW-tHS-cWW-cWW-F
Group  23 is from J3_32030.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_32030.1
This group is considered to be structured ***************************
Number of NTs: 15  Signature: cWW-tWH-F-F-cWW-tHS-F-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00    CUGCAAG*CCCAG*CGG (   1) MLPS  -7.83 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_32030.1  3NPQ C   13 G   48'

 matches the original group, cWW-tWH-F-F-cWW-tHS-F-F-cWW-F
Group  84 is from J3_98102.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_98102.1
This group is considered to be structured ***************************
Number of NTs: 15  Signature: cWW-tWH-F-F-tHS-cWW-cWW-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00 CCAGAC*GGGUG*UUAGACG (   1) MLPS -10.29 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_98102.1  4V88 C 1215 G 1448'

 matches the original group, cWW-tWH-F-F-tHS-cWW-cWW-cWW-F
Group  24 is from J3_32601.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_32601.2
This group is considered to be structured ***************************
Number of NTs: 12  Signature: cWW-tWH-cHW-tSH-cWW-tSS-F-cSS-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     AUUAAAG*CAUC*GUU (   1) MLPS  -7.67 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_32601.2  4Y4O A 2561 U 2547'

 matches the original group, cWW-tWH-cHW-tSH-cWW-tSS-F-cSS-cWW
Better:   0 Equal:   0 Score 1.00     AUUAAAG*CAUC*GUU (   1) MLPS  -7.67 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_32601.2  4WF9 A 2588 U 2574'

 matches the original group, cWW-tWH-cHW-tSH-cWW-tSS-F-cSS-cWW
Better:   0 Equal:   0 Score 1.00     AUUAAAG*CAUC*GUU (   1) MLPS  -7.67 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_32601.2  7A0S A 2540 U 2526'

 matches the original group, cWW-tWH-cHW-tSH-cWW-tSS-F-cSS-cWW
Better:   0 Equal:   0 Score 1.00     UUUAAAG*CAUC*GUA (   1) MLPS  -8.88 deficit   1.21 prct   0.00 CutScore  93.52;  Ed  0, 0
ans =

    ' J3_32601.2  5J7L U 2561 A 2547'

 matches the original group, cWW-tWH-cHW-tSH-cWW-tSS-F-cSS-cWW
Group  55 is from J3_65070.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_65070.2
This group is considered to be structured ***************************
Number of NTs: 12  Signature: cWW-tWH-cWW-tSH-F-cWW-F
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00       GUGAAAAG*CC*GC (   1) MLPS  -7.06 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_65070.2  7A0S G  485 C   31'

 matches the original group, cWW-tWH-cWW-tSH-F-cWW-F
Better:   0 Equal:   0 Score 1.00       AUGAAAAG*CG*CU (   1) MLPS  -7.17 deficit   0.11 prct   0.00 CutScore  99.26;  Ed  0, 0
ans =

    ' J3_65070.2  5TBW A  369 U   20'

 matches the original group, cWW-tWH-cWW-tSH-F-cWW-F
Better:   0 Equal:   0 Score 1.00       GCGAAAAG*CC*GC (   1) MLPS  -7.74 deficit   0.67 prct   0.00 CutScore  95.50;  Ed  0, 0
ans =

    ' J3_65070.2  5J7L G  474 C   31'

 matches the original group, cWW-tWH-cWW-tSH-F-cWW-F
Group  77 is from J3_93059.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_93059.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-tWH-cWW-tSH-F-cWW-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00      CUUAAAUG*CUC*GG (   1) MLPS  -7.96 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_93059.1  6MWN C  610 G  667'

 matches the original group, cWW-tWH-cWW-tSH-F-cWW-cWW
Group  36 is from J3_39238.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_39238.2
This group is considered to be structured ***************************
Number of NTs: 11  Signature: cWW-tWH-cWW-tSW-F-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     UGAUCUA*UAG*CGAA (   1) MLPS  -8.36 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_39238.2  4WF9 U  728 A  839'

 matches the original group, cWW-tWH-cWW-tSW-F-F-cWW
Better:   0 Equal:   0 Score 1.00     CGAUCUA*UAG*CGAG (   1) MLPS  -8.45 deficit   0.10 prct   0.00 CutScore  99.52;  Ed  0, 0
ans =

    ' J3_39238.2  4V9F C  774 G  887'

 matches the original group, cWW-tWH-cWW-tSW-F-F-cWW
Better:   0 Equal:   0 Score 1.00     UGAGCUA*UAG*CGAA (   1) MLPS  -8.70 deficit   0.34 prct   0.00 CutScore  98.32;  Ed  0, 0
ans =

    ' J3_39238.2  7A0S U  696 A  807'

 matches the original group, cWW-tWH-cWW-tSW-F-F-cWW
Better:   0 Equal:   0 Score 1.00     CGAGCUA*UAG*CGAG (   1) MLPS  -8.79 deficit   0.43 prct   0.00 CutScore  97.84;  Ed  0, 0
ans =

    ' J3_39238.2  4Y4O C  683 G  794'

 matches the original group, cWW-tWH-cWW-tSW-F-F-cWW
Better:   0 Equal:   0 Score 1.00     UGAACUA*UAG*CGAA (   1) MLPS  -9.21 deficit   0.85 prct   0.00 CutScore  95.76;  Ed  0, 0
ans =

    ' J3_39238.2  5TBW U  814 A  926'

 matches the original group, cWW-tWH-cWW-tSW-F-F-cWW
Better:   0 Equal:   0 Score 1.00     UGAUCUA*UGG*CAAA (   1) MLPS  -9.35 deficit   0.99 prct   0.00 CutScore  95.05;  Ed  0, 0
ans =

    ' J3_39238.2  5J7L U  683 A  794'

 matches the original group, cWW-tWH-cWW-tSW-F-F-cWW
Group  51 is from J3_58090.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_58090.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-tWW-F-F-F-cWW-F-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00    CGUG*CGAUAAGUC*GG (   1) MLPS -10.20 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_58090.1  6LAX C    6 G   50'

 matches the original group, cWW-tWW-F-F-F-cWW-F-F-cWW
Group  79 is from J3_94515.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_94515.1
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-tWW-F-cWW-F-tHS-F-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00      UCGAAU*AGAG*CAG (   1) MLPS  -8.72 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_94515.1  4V88 U  785 G  775'

 matches the original group, cWW-tWW-F-cWW-F-tHS-F-cWW
Group  48 is from J3_52917.1 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_52917.1
This group is considered to be structured ***************************
Number of NTs: 12  Signature: cWW-tWW-cHW-tSH-cWW-tSS-F-cSS-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00     ACUAAUA*UAUC*GUU (   1) MLPS -10.32 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_52917.1  5TBW A 2930 U 2916'

 matches the original group, cWW-tWW-cHW-tSH-cWW-tSS-F-cSS-cWW
Group  21 is from J3_28621.2 which you can see at http://rna.bgsu.edu/rna3dhub/motif/view/J3_28621.2
This group is considered to be structured ***************************
Number of NTs: 13  Signature: cWW-tWW-tHS-tSH-cWW-tSS-F-cSS-cWW
100.00% of rows in the alignment have core edit distance 0 from a sequence in 3D
Sequence (multiplicity in alignment) percentile, core edit distance
Better:   0 Equal:   0 Score 1.00      UUUAAAG*CAC*GGA (   1) MLPS  -7.06 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_28621.2  6PRV U 1081 A 1057'

 matches the original group, cWW-tWW-tHS-tSH-cWW-tSS-F-cSS-cWW
Better:   0 Equal:   0 Score 1.00      UUUAAAG*CAC*GGA (   1) MLPS  -7.06 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_28621.2  1MMS U 1081 A 1057'

 matches the original group, cWW-tWW-tHS-tSH-cWW-tSS-F-cSS-cWW
Better:   0 Equal:   0 Score 1.00      UUUAAAG*CAC*GGA (   1) MLPS  -7.06 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_28621.2  5D8H U 1191 A 1167'

 matches the original group, cWW-tWW-tHS-tSH-cWW-tSS-F-cSS-cWW
Better:   0 Equal:   0 Score 1.00      UUUAAAG*CAC*GGA (   1) MLPS  -7.06 deficit   0.00 prct   0.00 CutScore 100.00;  Ed  0, 0
ans =

    ' J3_28621.2  5J7L U 1081 A 1057'

 matches the original group, cWW-tWW-tHS-tSH-cWW-tSS-F-cSS-cWW
Better:   0 Equal:   0 Score 1.00      UCUAAGA*UAC*GGA (   1) MLPS  -7.42 deficit   0.36 prct   0.00 CutScore  97.80;  Ed  0, 0
ans =

    ' J3_28621.2  4V9F U 1185 A 1161'

 matches the original group, cWW-tWW-tHS-tSH-cWW-tSS-F-cSS-cWW
Better:   0 Equal:   0 Score 1.00      GCUAAGG*CAC*GAC (   1) MLPS  -7.73 deficit   0.67 prct   0.00 CutScore  95.90;  Ed  0, 0
ans =

    ' J3_28621.2  5TBW G 1256 C 1232'

 matches the original group, cWW-tWW-tHS-tSH-cWW-tSS-F-cSS-cWW
