| 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 4 3 | 7 5 I | 8 6 4 | 9 7 I | 10 8 5 | 11 8 I | 12 9 | 13 8 I | 14 8 6 | 15 3 I | 16 3 7 | 17 2 I | 18 2 8 | 19 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_61476.2_Instance_1 IL_61476.2,IL_4V9F_080,C2351_G2333 | C | G | A | A | G | C | A | G | ||||||||||||||||
| IL_61476.2_Sequence_1 IL_61476.24V9F_C_2351_G_2333 | C | G | A | A | G | * | C | A | G | true | 90 | 0 | 0 | 1.10 | ||||||||||
| IL_61476.2_Instance_2 IL_61476.2,IL_9DFE_088,C2317_G2299 | C | G | G | A | G | C | A | G | ||||||||||||||||
| IL_61476.2_Sequence_2 IL_61476.29DFE_C_2317_G_2299 | C | G | G | A | G | * | C | A | G | true | 95 | 0 | 0 | 0.59 | ||||||||||
| IL_61476.2_Instance_3 IL_61476.2,IL_4WF9_086,C2344_G2326 | C | A | U | A | G | C | A | G | ||||||||||||||||
| IL_61476.2_Sequence_3 IL_61476.24WF9_C_2344_G_2326 | C | A | U | A | G | * | C | A | G | true | 91 | 0 | 0 | 0.95 | ||||||||||
| IL_61476.2_Instance_4 IL_61476.2,IL_8P9A_326,A2686_U2668 | A | G | U | A | G | C | A | U | ||||||||||||||||
| IL_61476.2_Sequence_4 IL_61476.28P9A_A_2686_U_2668 | A | G | U | A | G | * | C | A | U | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_61476.2_Instance_5 IL_61476.2,IL_8CRE_108,A2658_U2640 | A | G | U | A | G | C | A | U | ||||||||||||||||
| IL_61476.2_Sequence_5 IL_61476.28CRE_A_2658_U_2640 | A | G | U | A | G | * | C | A | U | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_61476.2_Instance_6 IL_61476.2,IL_7A0S_080,U2296_A2278 | U | G | U | A | G | C | A | A | ||||||||||||||||
| IL_61476.2_Sequence_6 IL_61476.27A0S_U_2296_A_2278 | U | G | U | A | G | * | C | A | A | true | 99 | 0 | 0 | 0.09 | ||||||||||
| IL_61476.2_Instance_7 IL_61476.2,IL_5J7L_332,A2317_U2299 | A | G | G | U | U | A | A | U | ||||||||||||||||
| IL_61476.2_Sequence_7 IL_61476.25J7L_A_2317_U_2299 | A | G | G | U | U | * | A | A | U | true | 79 | 0 | 0 | 2.29 |
1 2 s35 1 8 cWW 2 6 s33 2 7 tSH 2 8 s55 3 4 s53 4 5 perp 4 6 perp 5 6 cWW 5 7 s55 6 7 s35 7 8 s35 2 6 6BPh 7 2 6BRJAR3D SCFG/MRF model for IL_61476.2:
Character Definition | A,C,G,U,* // Identity and order of characters in matrices InitialNode | Left Length Distribution [0.999900000,0.000100000] | Left Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Right Length Distribution [0.999900000,0.000100000] | Right Letter Distribution [0.000000000,0.000000000,0.000000000,0.000000000,0.000000000] | Left Index [1] | Right Index [8] // Initial node BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.008918919,0.018368242,0.009879101,0.219377226,0.000000000],[0.018442752,0.009220942,0.219563963,0.011370254,0.000000000],[0.009924150,0.189800117,0.001966049,0.034465854,0.000000000],[0.199536333,0.011346662,0.027596671,0.010222764,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | 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 C2351 - G2333 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.128230049,0.056363036,0.001279254,0.007050886,0.000000000],[0.055662690,0.051828732,0.000646888,0.000646888,0.000000000],[0.333312243,0.002789972,0.014039583,0.230157116,0.000000000],[0.059843181,0.056855704,0.000646888,0.000646888,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.997990020,0.001999980,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [7] // Basepair G2352 - A2332 tSH FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.166666667,0.055555556,0.277777778,0.500000000,0.000000000] | Position [1] | Left Index [3] | Right Index [6] // Fixed node on left for 4V9F|1|0|G|2333 InitialNode | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [4] | Right Index [6] // New Initial node after Fixed node FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.722222222,0.055555556,0.055555556,0.166666667,0.000000000] | Position [1] | Left Index [4] | Right Index [6] // Fixed node on left for 4V9F|1|0|C|2351 InitialNode | Left Length Distribution [0.997990020,0.001999980,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [5] | Right Index [6] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009183607,0.018953144,0.010406254,0.191232389,0.000000000],[0.016972163,0.009137900,0.192716200,0.012358329,0.000000000],[0.010308307,0.253269613,0.001985518,0.025008191,0.000000000],[0.199576529,0.012678454,0.026427373,0.009786031,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | 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 [5] | Right Index [6] // Basepair G2355 - C2331 cWW HairpinNode | Num Bases [1] | Left Index [6] | Right Index [6] | Norm Constant [1.000000000000000] // Hairpin node type * Interaction | Interacting Bases [1,1] | Pair Probability [[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,1.000000000]] // Hairpin for truncationSequences of instances from IL_61476.2:
> IL_61476.2 4V9F C 2351 G 2333 CGAAG*CAG > IL_61476.2 9DFE C 2317 G 2299 CGGAG*CAG > IL_61476.2 4WF9 C 2344 G 2326 CAUAG*CAG > IL_61476.2 8P9A A 2686 U 2668 AGUAG*CAU > IL_61476.2 8CRE A 2658 U 2640 AGUAG*CAU > IL_61476.2 7A0S U 2296 A 2278 UGUAG*CAA > IL_61476.2 5J7L A 2317 U 2299 AGGUU*AAU