| 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 4 I | 8 5 4 | 9 5 I | 10 6 | 11 5 I | 12 5 5 | 13 4 I | 14 4 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_77658.1_Instance_1 IL_77658.1,IL_8ID2_001,A5_U20 | A | C | U | G | C | U | U | U | ||||||||||||||||
| IL_77658.1_Sequence_1 IL_77658.18ID2_A5_U20 | A | C | U | G | * | C | U | U | U | true | 83 | 0 | 0 | 1.72 | ||||||||||
| IL_77658.1_Instance_2 IL_77658.1,IL_8P9A_355,C3235_G3252 | C | U | U | G | C | U | U | G | ||||||||||||||||
| IL_77658.1_Sequence_2 IL_77658.18P9A_C_3235_G_3252 | C | U | U | G | * | C | U | U | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_77658.1_Instance_3 IL_77658.1,IL_3R2D_002,C6_G9 | C | U | U | G | C | U | U | G | ||||||||||||||||
| IL_77658.1_Sequence_3 IL_77658.13R2D_C6_G9 | C | U | U | G | * | C | U | U | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_77658.1_Instance_4 IL_77658.1,IL_8CRE_060,A1339_U1357 | A | U | U | G | C | U | U | U | ||||||||||||||||
| IL_77658.1_Sequence_4 IL_77658.18CRE_A_1339_U_1357 | A | U | U | G | * | C | U | U | U | true | 96 | 0 | 0 | 0.44 | ||||||||||
| IL_77658.1_Instance_5 IL_77658.1,IL_6MWN_005,A643_U664 | A | U | U | G | C | U | U | U | ||||||||||||||||
| IL_77658.1_Sequence_5 IL_77658.16MWN_A643_U664 | A | U | U | G | * | C | U | U | U | true | 96 | 0 | 0 | 0.44 | ||||||||||
| IL_77658.1_Instance_6 IL_77658.1,IL_8CRE_475,G1710_C1665 | G | C | U | G | C | U | C | C | ||||||||||||||||
| IL_77658.1_Sequence_6 IL_77658.18CRE_G_1710_C_1665 | G | C | U | G | * | C | U | C | C | true | 70 | 0 | 0 | 2.98 | ||||||||||
| IL_77658.1_Instance_7 IL_77658.1,IL_4UYK_003,G81_C120 | G | U | U | C | G | U | U | C | ||||||||||||||||
| IL_77658.1_Sequence_7 IL_77658.14UYK_G81_C120 | G | U | U | C | * | G | U | U | C | true | 92 | 0 | 0 | 0.79 | ||||||||||
| IL_77658.1_Instance_8 IL_77658.1,IL_8CRE_134,U3214_A3203 | U | U | U | G | C | U | U | A | ||||||||||||||||
| IL_77658.1_Sequence_8 IL_77658.18CRE_U_3214_A_3203 | U | U | U | G | * | C | U | U | A | true | 96 | 0 | 0 | 0.38 | ||||||||||
| IL_77658.1_Instance_9 IL_77658.1,IL_280D_001,C17_G8 | C | U | U | G | C | U | U | G | ||||||||||||||||
| IL_77658.1_Sequence_9 IL_77658.1280D_C17_G8 | C | U | U | G | * | C | U | U | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_77658.1_Instance_10 IL_77658.1,IL_8P9A_356,U3300_A3314 | U | U | U | G | C | U | U | A | ||||||||||||||||
| IL_77658.1_Sequence_10 IL_77658.18P9A_U_3300_A_3314 | U | U | U | G | * | C | U | U | A | true | 96 | 0 | 0 | 0.38 | ||||||||||
| IL_77658.1_Instance_11 IL_77658.1,IL_4EYA_003,C6_G9 | C | U | U | G | C | U | U | G | ||||||||||||||||
| IL_77658.1_Sequence_11 IL_77658.14EYA_C6_G9 | C | U | U | G | * | C | U | U | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_77658.1_Instance_12 IL_77658.1,IL_7A0S_040,A1175_U1199 | A | U | U | C | G | U | C | U | ||||||||||||||||
| IL_77658.1_Sequence_12 IL_77658.17A0S_A_1175_U_1199 | A | U | U | C | * | G | U | C | U | true | 78 | 0 | 0 | 2.16 | ||||||||||
| IL_77658.1_Instance_13 IL_77658.1,IL_5C5W_001,C15_G5 | C | U | A | G | C | C | U | G | ||||||||||||||||
| IL_77658.1_Sequence_13 IL_77658.15C5W_C15_G5 | C | U | A | G | * | C | C | U | G | true | 92 | 0 | 0 | 0.76 | ||||||||||
| IL_77658.1_Instance_14 IL_77658.1,IL_8UIW_002,G112_C103 | G | U | C | G | C | U | U | C | ||||||||||||||||
| IL_77658.1_Sequence_14 IL_77658.18UIW_G112_C103 | G | U | C | G | * | C | U | U | C | true | 83 | 0 | 0 | 1.72 | ||||||||||
| IL_77658.1_Instance_15 IL_77658.1,IL_3TZR_003,C62_G105 | C | U | U | C | G | U | C | G | ||||||||||||||||
| IL_77658.1_Sequence_15 IL_77658.13TZR_C62_G105 | C | U | U | C | * | G | U | C | G | true | 83 | 0 | 0 | 1.72 | ||||||||||
| IL_77658.1_Instance_16 IL_77658.1,IL_6JDV_001,C32_G69 | C | U | C | C | G | U | U | G | ||||||||||||||||
| IL_77658.1_Sequence_16 IL_77658.16JDV_C32_G69 | C | U | C | C | * | G | U | U | G | true | 85 | 0 | 0 | 1.47 | ||||||||||
| IL_77658.1_Instance_17 IL_77658.1,IL_8P9A_462,C1675_G1726 | C | U | C | A | U | U | U | G | ||||||||||||||||
| IL_77658.1_Sequence_17 IL_77658.18P9A_C_1675_G_1726 | C | U | C | A | * | U | U | U | G | true | 82 | 0 | 0 | 1.79 | ||||||||||
| IL_77658.1_Instance_18 IL_77658.1,IL_2PN3_004,C62_G105 | C | U | U | C | G | U | C | G | ||||||||||||||||
| IL_77658.1_Sequence_18 IL_77658.12PN3_C62_G105 | C | U | U | C | * | G | U | C | G | true | 83 | 0 | 0 | 1.72 | ||||||||||
| IL_77658.1_Instance_19 IL_77658.1,IL_8HNT_001,C32_G57 | C | U | C | C | G | U | U | G | ||||||||||||||||
| IL_77658.1_Sequence_19 IL_77658.18HNT_C32_G57 | C | U | C | C | * | G | U | U | G | true | 85 | 0 | 0 | 1.47 | ||||||||||
| IL_77658.1_Instance_20 IL_77658.1,IL_8P9A_269,U1041_A1009 | U | U | C | U | A | U | U | A | ||||||||||||||||
| IL_77658.1_Sequence_20 IL_77658.18P9A_U_1041_A_1009 | U | U | C | U | * | A | U | U | A | true | 78 | 0 | 0 | 2.18 | ||||||||||
| IL_77658.1_Instance_21 IL_77658.1,IL_8CRE_397,U300_A112 | U | U | U | C | G | U | U | A | ||||||||||||||||
| IL_77658.1_Sequence_21 IL_77658.18CRE_U300_A112 | U | U | U | C | * | G | U | U | A | true | 93 | 0 | 0 | 0.65 | ||||||||||
| IL_77658.1_Instance_22 IL_77658.1,IL_8CRE_135,C3276_G3268 | C | U | U | A | U | U | U | G | ||||||||||||||||
| IL_77658.1_Sequence_22 IL_77658.18CRE_C_3276_G_3268 | C | U | U | A | * | U | U | U | G | true | 94 | 0 | 0 | 0.59 | ||||||||||
| IL_77658.1_Instance_23 IL_77658.1,IL_8P9A_380,U302_A112 | U | U | U | C | G | U | U | A | ||||||||||||||||
| IL_77658.1_Sequence_23 IL_77658.18P9A_U302_A112 | U | U | U | C | * | G | U | U | A | true | 93 | 0 | 0 | 0.65 | ||||||||||
| IL_77658.1_Instance_24 IL_77658.1,IL_8CRE_044,U1037_A1005 | U | U | C | U | A | U | U | A | ||||||||||||||||
| IL_77658.1_Sequence_24 IL_77658.18CRE_U_1037_A_1005 | U | U | C | U | * | A | U | U | A | true | 78 | 0 | 0 | 2.18 | ||||||||||
| IL_77658.1_Instance_25 IL_77658.1,IL_205D_001,U5_G20 | U | U | U | G | U | U | U | G | ||||||||||||||||
| IL_77658.1_Sequence_25 IL_77658.1205D_U5_G20 | U | U | U | G | * | U | U | U | G | true | 61 | 0 | 0 | 3.83 | ||||||||||
| IL_77658.1_Instance_26 IL_77658.1,IL_4XW1_002,C2_G5 | C | C | U | G | C | C | U | G | ||||||||||||||||
| IL_77658.1_Sequence_26 IL_77658.14XW1_C2_G5 | C | C | U | G | * | C | C | U | G | true | 72 | 0 | 0 | 2.80 | ||||||||||
| IL_77658.1_Instance_27 IL_77658.1,IL_8X5V_001,U28_G43 | U | U | C | C | G | U | U | G | ||||||||||||||||
| IL_77658.1_Sequence_27 IL_77658.18X5V_U28_G43 | U | U | C | C | * | G | U | U | G | true | 68 | 0 | 0 | 3.17 | ||||||||||
| IL_77658.1_Instance_28 IL_77658.1,IL_8P9A_411,C726_G712 | C | U | U | G | C | U | U | G | ||||||||||||||||
| IL_77658.1_Sequence_28 IL_77658.18P9A_C726_G712 | C | U | U | G | * | C | U | U | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_77658.1_Instance_29 IL_77658.1,IL_4XW0_002,C2_G5 | C | C | U | G | C | C | U | G | ||||||||||||||||
| IL_77658.1_Sequence_29 IL_77658.14XW0_C2_G5 | C | C | U | G | * | C | C | U | G | true | 72 | 0 | 0 | 2.80 | ||||||||||
| IL_77658.1_Instance_30 IL_77658.1,IL_402D_001,C103_G114 | C | C | A | G | C | C | A | G | ||||||||||||||||
| IL_77658.1_Sequence_30 IL_77658.1402D_C103_G114 | C | C | A | G | * | C | C | A | G | true | 66 | 0 | 0 | 3.38 | ||||||||||
| IL_77658.1_Instance_31 IL_77658.1,IL_7LYF_001,A90_U42 | A | G | U | U | C | G | U | C | U | |||||||||||||||
| IL_77658.1_Sequence_31 IL_77658.17LYF_A90_U42 | A | G | U | U | C | * | G | U | C | U | true | 24 | 0 | 0 | 7.57 | |||||||||
| IL_77658.1_Instance_32 IL_77658.1,IL_4K27_003,C41_G15 | C | C | U | G | C | C | U | G | ||||||||||||||||
| IL_77658.1_Sequence_32 IL_77658.14K27_C41_G15 | C | C | U | G | * | C | C | U | G | true | 72 | 0 | 0 | 2.80 | ||||||||||
| IL_77658.1_Instance_33 IL_77658.1,IL_8P9A_450,C1495_G1512 | C | U | U | G | C | U | U | G | ||||||||||||||||
| IL_77658.1_Sequence_33 IL_77658.18P9A_C_1495_G_1512 | C | U | U | G | * | C | U | U | G | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_77658.1_Instance_34 IL_77658.1,IL_4K27_002,C45_G11 | C | C | U | G | C | C | U | G | ||||||||||||||||
| IL_77658.1_Sequence_34 IL_77658.14K27_C45_G11 | C | C | U | G | * | C | C | U | G | true | 72 | 0 | 0 | 2.80 |
1 2 s35 1 8 cWW 2 3 s35 2 7 cWW 2 8 s55 3 4 s35 3 6 cWW 3 7 s55 4 5 cWW 4 6 s55 5 6 s35 6 7 s35 7 8 s35JAR3D SCFG/MRF model for IL_77658.1:
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 [[0.007253114,0.013699912,0.008242886,0.181833342,0.000000000],[0.027788027,0.008199773,0.282270141,0.009810792,0.000000000],[0.008298667,0.168056500,0.001633589,0.020963852,0.000000000],[0.192534686,0.009565865,0.051828173,0.008020681,0.000000000],[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 A5 - U20 cWW BasepairNode | Deletion Probability [0.0000209846238635] | Pair Probability [[0.011823422,0.153399812,0.016237784,0.017637607,0.000000000],[0.029224834,0.034050334,0.016775124,0.110855086,0.000000000],[0.016222751,0.026518020,0.003153692,0.032769014,0.000000000],[0.016282726,0.093918790,0.021146531,0.399984472,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.969093178,0.030790225,0.000114438,0.000002159] | Left Letter Distribution [0.166666667,0.166666667,0.166666667,0.500000000,0.000000000] | 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 C6 - U19 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.011725351,0.189011212,0.014540024,0.017716441,0.000000000],[0.012140299,0.012411945,0.015918332,0.122357310,0.000000000],[0.014161748,0.016451909,0.003012255,0.047253660,0.000000000],[0.015584383,0.089202364,0.012585451,0.405927317,0.000000000],[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 [3] | Right Index [6] // Basepair U7 - U18 cWW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.007429037,0.020970865,0.008350474,0.164338391,0.000000000],[0.013875484,0.007371580,0.225553960,0.009985920,0.000000000],[0.008320782,0.296175947,0.001607931,0.034906996,0.000000000],[0.162761128,0.010109058,0.019708730,0.008533718,0.000000000],[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 [4] | Right Index [5] // Basepair G8 - C17 cWW HairpinNode | Num Bases [1] | Left Index [5] | Right Index [5] | 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_77658.1:
> IL_77658.1 8ID2 A 5 U 20 ACUG*CUUU > IL_77658.1 8P9A C 3235 G 3252 CUUG*CUUG > IL_77658.1 3R2D C 6 G 9 CUUG*CUUG > IL_77658.1 8CRE A 1339 U 1357 AUUG*CUUU > IL_77658.1 6MWN A 643 U 664 AUUG*CUUU > IL_77658.1 8CRE G 1710 C 1665 GCUG*CUCC > IL_77658.1 4UYK G 81 C 120 GUUC*GUUC > IL_77658.1 8CRE U 3214 A 3203 UUUG*CUUA > IL_77658.1 280D C 17 G 8 CUUG*CUUG > IL_77658.1 8P9A U 3300 A 3314 UUUG*CUUA > IL_77658.1 4EYA C 6 G 9 CUUG*CUUG > IL_77658.1 7A0S A 1175 U 1199 AUUC*GUCU > IL_77658.1 5C5W C 15 G 5 CUAG*CCUG > IL_77658.1 8UIW G 112 C 103 GUCG*CUUC > IL_77658.1 3TZR C 62 G 105 CUUC*GUCG > IL_77658.1 6JDV C 32 G 69 CUCC*GUUG > IL_77658.1 8P9A C 1675 G 1726 CUCA*UUUG > IL_77658.1 2PN3 C 62 G 105 CUUC*GUCG > IL_77658.1 8HNT C 32 G 57 CUCC*GUUG > IL_77658.1 8P9A U 1041 A 1009 UUCU*AUUA > IL_77658.1 8CRE U 300 A 112 UUUC*GUUA > IL_77658.1 8CRE C 3276 G 3268 CUUA*UUUG > IL_77658.1 8P9A U 302 A 112 UUUC*GUUA > IL_77658.1 8CRE U 1037 A 1005 UUCU*AUUA > IL_77658.1 205D U 5 G 20 UUUG*UUUG > IL_77658.1 4XW1 C 2 G 5 CCUG*CCUG > IL_77658.1 8X5V U 28 G 43 UUCC*GUUG > IL_77658.1 8P9A C 726 G 712 CUUG*CUUG > IL_77658.1 4XW0 C 2 G 5 CCUG*CCUG > IL_77658.1 402D C 103 G 114 CCAG*CCAG > IL_77658.1 7LYF A 90 U 42 AGUUC*GUCU > IL_77658.1 4K27 C 41 G 15 CCUG*CCUG > IL_77658.1 8P9A C 1495 G 1512 CUUG*CUUG > IL_77658.1 4K27 C 45 G 11 CCUG*CCUG