| Column number: Node in JAR3D model: Insertion positions indicated by I: Position in motif group: | 1 1 I | 2 2 1 | 3 2 I | 4 3 2 | 5 3 I | 6 3 3 | 7 3 I | 8 3 4 | 9 3 I | 10 3 5 | 11 3 I | 12 3 6 | 13 3 I | 14 3 7 | 15 2 I | 16 2 8 | 17 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_46142.7_Instance_1 HL_46142.7_HL_4FRN_006_U44_A51 | U | U | A | C | U | U | G | A | ||||||||||||||
| HL_46142.7_Sequence_1 HL_46142.7_HL_4FRN_006_U44_A51 | U | U | A | C | U | U | G | A | true | 78 | 0 | 0 | 2.05 | |||||||||
| HL_46142.7_Instance_2 HL_46142.7_HL_6R47_001_G6_C13 | G | U | U | C | G | G | G | C | ||||||||||||||
| HL_46142.7_Sequence_2 HL_46142.7_HL_6R47_001_G6_C13 | G | U | U | C | G | G | G | C | true | 86 | 0 | 0 | 1.37 | |||||||||
| HL_46142.7_Instance_3 HL_46142.7_HL_5K7D_001_G5_C12 | G | U | U | A | G | G | G | C | ||||||||||||||
| HL_46142.7_Sequence_3 HL_46142.7_HL_5K7D_001_G5_C12 | G | U | U | A | G | G | G | C | true | 95 | 0 | 0 | 0.52 | |||||||||
| HL_46142.7_Instance_4 HL_46142.7_HL_6UFJ_003_G5_C12 | G | U | U | U | G | A | G | C | ||||||||||||||
| HL_46142.7_Sequence_4 HL_46142.7_HL_6UFJ_003_G5_C12 | G | U | U | U | G | A | G | C | true | 75 | 0 | 0 | 2.38 | |||||||||
| HL_46142.7_Instance_5 HL_46142.7_HL_2JLT_002_C5_G12 | C | C | U | G | G | G | A | G | ||||||||||||||
| HL_46142.7_Sequence_5 HL_46142.7_HL_2JLT_002_C5_G12 | C | C | U | G | G | G | A | G | true | 64 | 0 | 0 | 3.46 | |||||||||
| HL_46142.7_Instance_6 HL_46142.7_HL_7A0S_055_C2303_G2310 | C | G | C | A | A | A | G | G | ||||||||||||||
| HL_46142.7_Sequence_6 HL_46142.7_HL_7A0S_055_C_2303_G_2310 | C | G | C | A | A | A | G | G | true | 92 | 0 | 0 | 0.76 | |||||||||
| HL_46142.7_Instance_7 HL_46142.7_HL_4Y4O_159_C2324_G2331 | C | G | C | A | A | G | G | G | ||||||||||||||
| HL_46142.7_Sequence_7 HL_46142.7_HL_4Y4O_159_C_2324_G_2331 | C | G | C | A | A | G | G | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_46142.7_Instance_8 HL_46142.7_HL_5TBW_057_C2693_G2700 | C | A | A | A | A | G | G | G | ||||||||||||||
| HL_46142.7_Sequence_8 HL_46142.7_HL_5TBW_057_C_2693_G_2700 | C | A | A | A | A | G | G | G | true | 92 | 0 | 0 | 0.78 | |||||||||
| HL_46142.7_Instance_9 HL_46142.7_HL_5TBW_060_C2776_G2784 | C | G | G | A | A | U | U | U | G | |||||||||||||
| HL_46142.7_Sequence_9 HL_46142.7_HL_5TBW_060_C_2776_G_2784 | C | G | G | A | A | U | U | U | G | true | 52 | 0 | 0 | 4.59 | ||||||||
| HL_46142.7_Instance_10 HL_46142.7_HL_4V9F_014_G416_C424 | G | G | C | A | U | C | G | A | C | |||||||||||||
| HL_46142.7_Sequence_10 HL_46142.7_HL_4V9F_014_G416_C424 | G | G | C | A | U | C | G | A | C | true | 39 | 0 | 0 | 5.81 | ||||||||
| HL_46142.7_Instance_11 HL_46142.7_HL_3SKI_002_G53_C60 | G | A | C | C | C | C | G | C | ||||||||||||||
| HL_46142.7_Sequence_11 HL_46142.7_HL_3SKI_002_G53_C60 | G | A | C | C | C | C | G | C | true | 77 | 0 | 0 | 2.23 | |||||||||
| HL_46142.7_Instance_12 HL_46142.7_HL_4WF9_052_U2351_G2358 | U | G | U | A | A | A | G | G | ||||||||||||||
| HL_46142.7_Sequence_12 HL_46142.7_HL_4WF9_052_U_2351_G_2358 | U | G | U | A | A | A | G | G | true | 83 | 0 | 0 | 1.59 | |||||||||
| HL_46142.7_Instance_13 HL_46142.7_HL_3G9C_007_G71_C79 | G | U | U | C | A | U | C | A | C | |||||||||||||
| HL_46142.7_Sequence_13 HL_46142.7_HL_3G9C_007_G71_C79 | G | U | U | C | A | U | C | A | C | true | 61 | 0 | 0 | 3.68 | ||||||||
| HL_46142.7_Instance_14 HL_46142.7_HL_4V9F_061_G2442_C2450 | G | C | U | U | G | A | U | G | C | |||||||||||||
| HL_46142.7_Sequence_14 HL_46142.7_HL_4V9F_061_G_2442_C_2450 | G | C | U | U | G | A | U | G | C | true | 52 | 0 | 0 | 4.56 | ||||||||
| HL_46142.7_Instance_15 HL_46142.7_HL_5J7L_189_U2324_G2331 | U | G | C | A | A | U | G | G | ||||||||||||||
| HL_46142.7_Sequence_15 HL_46142.7_HL_5J7L_189_U_2324_G_2331 | U | G | C | A | A | U | G | G | true | 91 | 0 | 0 | 0.87 | |||||||||
| HL_46142.7_Instance_16 HL_46142.7_HL_3SKL_005_G52_C59 | G | A | C | C | C | C | G | C | ||||||||||||||
| HL_46142.7_Sequence_16 HL_46142.7_HL_3SKL_005_G52_C59 | G | A | C | C | C | C | G | C | true | 77 | 0 | 0 | 2.23 | |||||||||
| HL_46142.7_Instance_17 HL_46142.7_HL_4V9F_058_U2358_G2365 | U | G | C | A | A | G | A | G | ||||||||||||||
| HL_46142.7_Sequence_17 HL_46142.7_HL_4V9F_058_U_2358_G_2365 | U | G | C | A | A | G | A | G | true | 83 | 0 | 0 | 1.58 | |||||||||
| HL_46142.7_Instance_18 HL_46142.7_HL_6N5P_003_U76_G84 | U | A | C | C | U | U | C | U | G | |||||||||||||
| HL_46142.7_Sequence_18 HL_46142.7_HL_6N5P_003_U76_G84 | U | A | C | C | U | U | C | U | G | true | 25 | 0 | 0 | 7.08 | ||||||||
| HL_46142.7_Instance_19 HL_46142.7_HL_5TBW_009_G303_C312 | G | GU | A | A | A | U | U | C | C | |||||||||||||
| HL_46142.7_Sequence_19 HL_46142.7_HL_5TBW_009_G303_C312 | G | GU | A | A | A | U | U | C | C | true | 27 | 0 | 0 | 6.96 | ||||||||
| HL_46142.7_Instance_20 HL_46142.7_HL_4ENC_001_G5_C14 | G | AU | G | A | G | G | C | C | C | |||||||||||||
| HL_46142.7_Sequence_20 HL_46142.7_HL_4ENC_001_G5_C14 | G | AU | G | A | G | G | C | C | C | true | 17 | 0 | 0 | 7.89 |
1 8 cWW 2 3 s35 3 4 s35 4 5 s35 5 6 s35 6 7 s35 7 8 s35JAR3D SCFG/MRF model for HL_46142.7:
Character Definition | A,C,G,U,* // Define characters here InitialNode | Left Length Distribution [0.999900000,0.000100000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.999900000,0.000100000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [8] // Initial node U44 - A51 from junction BasepairNode | Deletion Probability [0.0000022482900247] | Pair Probability [[0.008459146,0.015372483,0.009888841,0.142484388,0.000000000],[0.063943524,0.011289994,0.187932192,0.011771422,0.000000000],[0.009916647,0.229856576,0.001980943,0.019835530,0.000000000],[0.158930846,0.011619557,0.107462627,0.009255284,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.648355755,0.250996512,0.100355007,0.000280269,0.000012456] | Left Letter Distribution [0.227272727,0.136363636,0.318181818,0.318181818,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [8] // Basepair U44 - A51 cWW HairpinNode | Num Bases [6] | Left Index [2] | Right Index [7] | Norm Constant [1.000000000000000] // Hairpin node U45:G50 Interaction | Interacting Bases [1,1] | Pair Probability [[0.204545455,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.159090909,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.340909091,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.295454545,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position U45 Interaction | Interacting Bases [2,2] | Pair Probability [[0.295454545,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.386363636,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.022727273,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.295454545,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A46 Interaction | Interacting Bases [3,3] | Pair Probability [[0.477272727,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.204545455,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.159090909,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.159090909,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position C47 Interaction | Interacting Bases [4,4] | Pair Probability [[0.340909091,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.159090909,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.250000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.250000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position U48 Interaction | Interacting Bases [5,5] | Pair Probability [[0.159090909,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.250000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.340909091,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.250000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position U49 Interaction | Interacting Bases [6,6] | Pair Probability [[0.204545455,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.113636364,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.568181818,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.113636364,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position G50Sequences of instances from HL_46142.7:
> HL_46142.7 HL_4FRN_006 U 44 A 51 UUACUUGA > HL_46142.7 HL_6R47_001 G 6 C 13 GUUCGGGC > HL_46142.7 HL_5K7D_001 G 5 C 12 GUUAGGGC > HL_46142.7 HL_6UFJ_003 G 5 C 12 GUUUGAGC > HL_46142.7 HL_2JLT_002 C 5 G 12 CCUGGGAG > HL_46142.7 HL_7A0S_055 C 2303 G 2310 CGCAAAGG > HL_46142.7 HL_4Y4O_159 C 2324 G 2331 CGCAAGGG > HL_46142.7 HL_5TBW_057 C 2693 G 2700 CAAAAGGG > HL_46142.7 HL_5TBW_060 C 2776 G 2784 CGGAAUUUG > HL_46142.7 HL_4V9F_014 G 416 C 424 GGCAUCGAC > HL_46142.7 HL_3SKI_002 G 53 C 60 GACCCCGC > HL_46142.7 HL_4WF9_052 U 2351 G 2358 UGUAAAGG > HL_46142.7 HL_3G9C_007 G 71 C 79 GUUCAUCAC > HL_46142.7 HL_4V9F_061 G 2442 C 2450 GCUUGAUGC > HL_46142.7 HL_5J7L_189 U 2324 G 2331 UGCAAUGG > HL_46142.7 HL_3SKL_005 G 52 C 59 GACCCCGC > HL_46142.7 HL_4V9F_058 U 2358 G 2365 UGCAAGAG > HL_46142.7 HL_6N5P_003 U 76 G 84 UACCUUCUG > HL_46142.7 HL_5TBW_009 G 303 C 312 GGUAAAUUCC > HL_46142.7 HL_4ENC_001 G 5 C 14 GAUGAGGCCC