| 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 3 I | 16 3 8 | 17 3 I | 18 3 9 | 19 3 I | 20 3 10 | 21 4 I | 22 5 | 23 4 I | 24 3 11 | 25 3 I | 26 3 12 | 27 3 I | 28 3 13 | 29 2 I | 30 2 14 | 31 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_44624.1_Instance_1 IL_44624.1,IL_7TZS_009,C38_G21 | C | U | G | A | G | A | A | A | U | A | C | G | G | U | G | |||||||||||||||||||||
| IL_44624.1_Sequence_1 IL_44624.17TZS_C38_G21 | C | U | G | A | G | A | A | A | U | A | C | * | G | G | U | G | true | 100 | 0 | 0 | 0.00 | |||||||||||||||
| IL_44624.1_Instance_2 IL_44624.1,IL_8F4O_009,C38_G21 | C | U | G | A | G | A | A | A | U | A | C | G | G | U | G | |||||||||||||||||||||
| IL_44624.1_Sequence_2 IL_44624.18F4O_C38_G21 | C | U | G | A | G | A | A | A | U | A | C | * | G | G | U | G | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 14 cWW 2 3 s35 2 6 tWH 2 14 s55 3 5 s33 3 6 s55 4 5 s35 4 10 cSS 5 12 tSS 6 14 s35 7 13 s53 8 9 s35 8 13 cWW 9 10 s35 9 12 cWW 10 11 cWW 11 12 s35 12 13 s35 3 6 6BPh 9 5 2BR 12 5 6BRJAR3D SCFG/MRF model for IL_44624.1:
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 [14] // Initial node BasepairNode | Deletion Probability [0.0000229437914523] | Pair Probability [[0.009536579,0.017101376,0.010963471,0.198789353,0.000000000],[0.020276398,0.009712729,0.228583296,0.013790641,0.000000000],[0.011086594,0.203072729,0.002089755,0.023466206,0.000000000],[0.201366458,0.013287017,0.026771249,0.010106148,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.991950402,0.007999600,0.000049998] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.991950402,0.007999600,0.000049998] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [14] // Basepair C38 - G21 cWW ClusterNode | Deletion Probability [0.000000000000000000000000000001205418709556771524403256147503] | Num Left Bases [9] | Num Right Bases [3] | Left Index [2] | Right Index [13] | Norm Constant [0.119082120126475] // Cluster node 7TZS|1|X|U|39:7TZS|1|X|C|48 and 7TZS|1|X|G|18:7TZS|1|X|U|20 Interaction | Interacting Bases [9,10] | Pair Probability [[0.009536579,0.017101376,0.010963471,0.198789353,0.000000000],[0.020276398,0.009712729,0.228583296,0.013790641,0.000000000],[0.011086594,0.203072729,0.002089755,0.023466206,0.000000000],[0.201366458,0.013287017,0.026771249,0.010106148,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 7TZS|1|X|C|48 - 7TZS|1|X|G|18 cWW Interaction | Interacting Bases [4,11] | Pair Probability [[0.020814325,0.017422103,0.019901827,0.012513985,0.000000000],[0.002436905,0.002436905,0.214331865,0.002436905,0.000000000],[0.236896108,0.002436905,0.263298345,0.195326202,0.000000000],[0.002436905,0.002436905,0.002436905,0.002436905,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 7TZS|1|X|G|42 - 7TZS|1|X|G|19 tSS Interaction | Interacting Bases [8,11] | Pair Probability [[0.014581319,0.007142534,0.900123518,0.008553754,0.000000000],[0.001394965,0.000950067,0.009238892,0.004152123,0.000000000],[0.033838546,0.001868529,0.001761031,0.001554301,0.000000000],[0.001707421,0.004387058,0.007605013,0.001140929,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 7TZS|1|X|A|47 - 7TZS|1|X|G|19 cWW Interaction | Interacting Bases [7,12] | Pair Probability [[0.009282926,0.022010543,0.009914366,0.223723012,0.000000000],[0.017518170,0.009580259,0.194165974,0.010358839,0.000000000],[0.009895067,0.196683142,0.002041152,0.053213779,0.000000000],[0.196023621,0.011028161,0.023012614,0.011548375,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 7TZS|1|X|A|45 - 7TZS|1|X|U|20 cWW Interaction | Interacting Bases [1,5] | Pair Probability [[0.018775607,0.004155072,0.019501541,0.004155072,0.000000000],[0.041784723,0.334819390,0.004155072,0.004155072,0.000000000],[0.004155072,0.009959982,0.031598971,0.018480329,0.000000000],[0.435115030,0.004155072,0.024107229,0.040926768,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 7TZS|1|X|U|39 - 7TZS|1|X|A|43 tWH Interaction | Interacting Bases [3,9] | Pair Probability [[0.080791748,0.104086035,0.081202799,0.080044060,0.000000000],[0.075160146,0.082258421,0.003424452,0.074358593,0.000000000],[0.077373217,0.003360263,0.007732479,0.076533923,0.000000000],[0.071118259,0.041391910,0.061967263,0.079196431,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction 7TZS|1|X|A|41 - 7TZS|1|X|C|48 cSS Interaction | Interacting Bases [2,2] | Pair Probability [[0.031250000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.031250000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.906250000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.031250000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Left strand conserved insertion 7TZS|1|X|G|40 Interaction | Interacting Bases [6,6] | Pair Probability [[0.625000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.125000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.125000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.125000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Left strand conserved insertion 7TZS|1|X|A|44 Insertion | Location [7] | Length Distribution [0.023781213,0.951248514,0.023781213,0.001189061] | Letter Distribution [0.125000000,0.125000000,0.125000000,0.625000000,0.000000000]// Insertion after nucleotide 8, position 7 in cluster node InitialNode | Left Length Distribution [0.952380952,0.047619048] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.952380952,0.047619048] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [11] | Right Index [10] // New Initial node after Cluster HairpinNode | Num Bases [1] | Left Index [11] | Right Index [11] | 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_44624.1:
> IL_44624.1 7TZS C 38 G 21 CUGAGAAAUAC*GGUG > IL_44624.1 8F4O C 38 G 21 CUGAGAAAUAC*GGUG