| 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 6 I | 10 7 5 | 11 7 I | 12 8 | 13 7 I | 14 7 6 | 15 6 I | 16 6 7 | 17 3 I | 18 3 8 | 19 2 I | 20 2 9 | 21 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_38507.2_Instance_1 IL_38507.2,IL_5J7L_277,C998_G1157 | C | U | A | A | G | C | G | A | A | G | ||||||||||||||||
| IL_38507.2_Sequence_1 IL_38507.25J7L_C998_G_1157 | C | U | A | A | G | * | C | G | A | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_38507.2_Instance_2 IL_38507.2,IL_4WF9_036,C1042_G1201 | C | U | A | A | G | C | G | A | A | G | ||||||||||||||||
| IL_38507.2_Sequence_2 IL_38507.24WF9_C_1042_G_1201 | C | U | A | A | G | * | C | G | A | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_38507.2_Instance_3 IL_38507.2,IL_9DFE_035,C998_G1157 | C | U | A | A | G | C | G | A | A | G | ||||||||||||||||
| IL_38507.2_Sequence_3 IL_38507.29DFE_C998_G_1157 | C | U | A | A | G | * | C | G | A | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_38507.2_Instance_4 IL_38507.2,IL_7A0S_033,C1009_G1168 | C | U | A | A | G | C | G | A | A | G | ||||||||||||||||
| IL_38507.2_Sequence_4 IL_38507.27A0S_C_1009_G_1168 | C | U | A | A | G | * | C | G | A | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_38507.2_Instance_5 IL_38507.2,IL_4V9F_037,U1095_A1261 | U | U | A | A | G | C | G | A | G | A | ||||||||||||||||
| IL_38507.2_Sequence_5 IL_38507.24V9F_U_1095_A_1261 | U | U | A | A | G | * | C | G | A | G | A | true | 80 | 0 | 0 | 2.42 | ||||||||||
| IL_38507.2_Instance_6 IL_38507.2,IL_8P9A_348,A3103_U3131 | A | U | U | A | U | A | G | A | A | U | ||||||||||||||||
| IL_38507.2_Sequence_6 IL_38507.28P9A_A_3103_U_3131 | A | U | U | A | U | * | A | G | A | A | U | true | 80 | 0 | 0 | 2.40 | ||||||||||
| IL_38507.2_Instance_7 IL_38507.2,IL_8CRE_129,A3075_U3103 | A | U | U | A | U | A | G | A | A | U | ||||||||||||||||
| IL_38507.2_Sequence_7 IL_38507.28CRE_A_3075_U_3103 | A | U | U | A | U | * | A | G | A | A | U | true | 80 | 0 | 0 | 2.40 | ||||||||||
| IL_38507.2_Instance_8 IL_38507.2,IL_5J7L_295,C1577_G1421 | C | U | A | A | G | C | G | A | A | G | ||||||||||||||||
| IL_38507.2_Sequence_8 IL_38507.25J7L_C_1577_G_1421 | C | U | A | A | G | * | C | G | A | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_38507.2_Instance_9 IL_38507.2,IL_8CRE_051,U1163_A1328 | U | U | A | A | A | U | U | A | U | A | ||||||||||||||||
| IL_38507.2_Sequence_9 IL_38507.28CRE_U_1163_A_1328 | U | U | A | A | A | * | U | U | A | U | A | true | 72 | 0 | 0 | 3.47 | ||||||||||
| IL_38507.2_Instance_10 IL_38507.2,IL_9DFE_054,C1577_G1421 | C | U | A | A | G | C | G | A | U | G | ||||||||||||||||
| IL_38507.2_Sequence_10 IL_38507.29DFE_C_1577_G_1421 | C | U | A | A | G | * | C | G | A | U | G | true | 92 | 0 | 0 | 1.02 | ||||||||||
| IL_38507.2_Instance_11 IL_38507.2,IL_9DFE_051,C1351_G1380 | C | U | A | A | G | C | G | A | A | G | ||||||||||||||||
| IL_38507.2_Sequence_11 IL_38507.29DFE_C_1351_G_1380 | C | U | A | A | G | * | C | G | A | A | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_38507.2_Instance_12 IL_38507.2,IL_8P9A_276,U1167_A1332 | U | U | A | A | G | C | U | A | U | A | ||||||||||||||||
| IL_38507.2_Sequence_12 IL_38507.28P9A_U_1167_A_1332 | U | U | A | A | G | * | C | U | A | U | A | true | 75 | 0 | 0 | 3.12 | ||||||||||
| IL_38507.2_Instance_13 IL_38507.2,IL_8CRE_067,C1528_G1586 | C | U | A | A | G | C | G | A | AA | G | ||||||||||||||||
| IL_38507.2_Sequence_13 IL_38507.28CRE_C_1528_G_1586 | C | U | A | A | G | * | C | G | A | AA | G | true | 82 | 0 | 0 | 2.27 | ||||||||||
| IL_38507.2_Instance_14 IL_38507.2,IL_8P9A_291,C1532_G1590 | C | U | A | A | G | C | G | A | AA | G | ||||||||||||||||
| IL_38507.2_Sequence_14 IL_38507.28P9A_C_1532_G_1590 | C | U | A | A | G | * | C | G | A | AA | G | true | 82 | 0 | 0 | 2.27 | ||||||||||
| IL_38507.2_Instance_15 IL_38507.2,IL_7A0S_051,C1593_G1435 | C | U | A | A | A | U | G | A | U | G | ||||||||||||||||
| IL_38507.2_Sequence_15 IL_38507.27A0S_C_1593_G_1435 | C | U | A | A | A | * | U | G | A | U | G | true | 89 | 0 | 0 | 1.37 | ||||||||||
| IL_38507.2_Instance_16 IL_38507.2,IL_9DFE_025,C846_G931 | C | U | G | A | C | G | G | U | G | |||||||||||||||||
| IL_38507.2_Sequence_16 IL_38507.29DFE_C846_G931 | C | U | G | A | C | * | G | G | U | G | true | 43 | 0 | 0 | 6.99 |
1 2 s35 1 9 cWW 2 7 s33 2 8 tWH 2 9 s55 3 4 s35 3 7 s33 3 8 s55 4 5 s35 4 7 tHS 5 6 cWW 5 7 s55 6 7 s35 8 9 s35 7 3 6BPh 4 7 6BRJAR3D SCFG/MRF model for IL_38507.2:
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 [9] // Initial node BasepairNode | Deletion Probability [0.0000000884732057] | Pair Probability [[0.008274927,0.015650103,0.009351310,0.192217362,0.000000000],[0.017817497,0.008545554,0.274976677,0.011296358,0.000000000],[0.009426807,0.176441776,0.001824698,0.023834721,0.000000000],[0.202842690,0.010954954,0.027500026,0.009044539,0.000000000],[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 [0.064637602,0.808067083,0.126761520,0.000514383,0.000019411] | Right Letter Distribution [0.657894737,0.026315789,0.078947368,0.236842105,0.000000000] | Left Index [1] | Right Index [9] // Basepair C998 - G1157 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.016277056,0.003602139,0.016906387,0.003602139,0.000000000],[0.036224250,0.290263531,0.003602139,0.003602139,0.000000000],[0.003602139,0.008634564,0.027393960,0.016021072,0.000000000],[0.495595109,0.003602139,0.020899176,0.050172064,0.000000000],[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 [8] // Basepair U999 - A1155 tWH FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.750000000,0.027777778,0.083333333,0.138888889,0.000000000] | Position [1] | Left Index [3] | Right Index [7] // Fixed node on left for 5J7L|1|DA|A|1000 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 [7] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.047101768,0.047401697,0.418853588,0.069739221,0.000000000],[0.047827225,0.048182683,0.002935466,0.049142960,0.000000000],[0.000552821,0.000552821,0.014551714,0.000552821,0.000000000],[0.002637555,0.000552821,0.248862017,0.000552821,0.000000000],[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 [4] | Right Index [7] // Basepair A1001 - G1154 tHS BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.008421689,0.017542337,0.009482111,0.193883303,0.000000000],[0.015798629,0.008437537,0.185832708,0.011140979,0.000000000],[0.009414466,0.275282328,0.001826912,0.025852040,0.000000000],[0.192468710,0.011417574,0.024041183,0.009157494,0.000000000],[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 G1002 - C1153 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_38507.2:
> IL_38507.2 5J7L C 998 G 1157 CUAAG*CGAAG > IL_38507.2 4WF9 C 1042 G 1201 CUAAG*CGAAG > IL_38507.2 9DFE C 998 G 1157 CUAAG*CGAAG > IL_38507.2 7A0S C 1009 G 1168 CUAAG*CGAAG > IL_38507.2 4V9F U 1095 A 1261 UUAAG*CGAGA > IL_38507.2 8P9A A 3103 U 3131 AUUAU*AGAAU > IL_38507.2 8CRE A 3075 U 3103 AUUAU*AGAAU > IL_38507.2 5J7L C 1577 G 1421 CUAAG*CGAAG > IL_38507.2 8CRE U 1163 A 1328 UUAAA*UUAUA > IL_38507.2 9DFE C 1577 G 1421 CUAAG*CGAUG > IL_38507.2 9DFE C 1351 G 1380 CUAAG*CGAAG > IL_38507.2 8P9A U 1167 A 1332 UUAAG*CUAUA > IL_38507.2 8CRE C 1528 G 1586 CUAAG*CGAAAG > IL_38507.2 8P9A C 1532 G 1590 CUAAG*CGAAAG > IL_38507.2 7A0S C 1593 G 1435 CUAAA*UGAUG > IL_38507.2 9DFE C 846 G 931 CUGAC*GGUG