| 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 4 I | 12 5 | 13 4 I | 14 3 6 | 15 3 I | 16 3 7 | 17 3 I | 18 3 8 | 19 3 I | 20 3 9 | 21 3 I | 22 3 10 | 23 3 I | 24 3 11 | 25 2 I | 26 2 12 | 27 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_21254.1_Instance_1 IL_21254.1_IL_1FJG_011_C242_G284 | C | A | U | C | A | G | C | G | A | C | G | A | C | G | ||||||||||||||||||
| IL_21254.1_Sequence_1 IL_21254.1_IL_1FJG_011_C242_G284 | C | A | U | C | A | G | * | C | G | A | C | G | A | C | G | true | 100 | 0 | 0 | 0.00 |
1 3 s35 1 12 cWW 2 3 s53 2 4 s35 2 9 s33 2 10 tWH 2 11 s55 3 11 cWW 3 12 s55 4 8 s35 4 9 tHS 4 10 s55 5 6 cWW 5 7 s55 5 10 tSS 6 10 cSS 10 11 s35 11 12 s35 11 10 7BPh 2 4 2BR 10 4 6BR 4 7 6BRJAR3D SCFG/MRF model for IL_21254.1:
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 [12] // Initial node C242 - G284 from junction BasepairNode | Deletion Probability [0.0000224390099112] | Pair Probability [[0.010130121,0.017375838,0.011773595,0.194301502,0.000000000],[0.020979332,0.008652269,0.227023763,0.014063448,0.000000000],[0.011923689,0.210487931,0.002171228,0.024023321,0.000000000],[0.195430021,0.013397471,0.027849658,0.010416811,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.989901010,0.009999000,0.000099990] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.989901010,0.009999000,0.000099990] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [12] // Basepair C242 - G284 cWW ClusterNode | Deletion Probability [0.000000000000000000000000000232685345145757480000000000000000] | Num Left Bases [4] | Num Right Bases [6] | Left Index [2] | Right Index [11] | Norm Constant [0.028977363705361] // Cluster node A243:G247 and C277:C283 Interaction | Interacting Bases [4,5] | Pair Probability [[0.010296034,0.020975088,0.011921277,0.195390483,0.000000000],[0.017372323,0.008489812,0.210445347,0.013394761,0.000000000],[0.011771213,0.226979836,0.002170788,0.027844024,0.000000000],[0.194262192,0.014060602,0.024018461,0.010607760,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction G247 - C277 cWW Interaction | Interacting Bases [3,8] | Pair Probability [[0.190666382,0.192362741,0.239629664,0.207247608,0.000000000],[0.044449215,0.040324841,0.000459457,0.039931327,0.000000000],[0.000459457,0.000459457,0.002225974,0.000459457,0.000000000],[0.002187877,0.000459457,0.038217626,0.000459457,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction A246 - G281 tHS Interaction | Interacting Bases [1,9] | Pair Probability [[0.821017114,0.001622232,0.139108884,0.001622232,0.000000000],[0.012807291,0.001191887,0.001857199,0.000324446,0.000000000],[0.001622232,0.000324446,0.004018911,0.002894936,0.000000000],[0.007735101,0.000324446,0.001920742,0.001607897,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction A243 - A282 tWH Interaction | Interacting Bases [4,9] | Pair Probability [[0.027712781,0.006212429,0.007326944,0.006291967,0.000000000],[0.006675544,0.001335109,0.001335109,0.001335109,0.000000000],[0.677455366,0.118763300,0.120038767,0.014836705,0.000000000],[0.006675544,0.001335109,0.001335109,0.001335109,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction G247 - A282 tSS Interaction | Interacting Bases [2,10] | Pair Probability [[0.001230782,0.029830503,0.001880084,0.005330434,0.000000000],[0.006116993,0.871448255,0.004904624,0.003243165,0.000000000],[0.002001172,0.033694550,0.001230782,0.004115946,0.000000000],[0.005447712,0.018814483,0.005603215,0.005107300,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction C245 - C283 cWW Interaction | Interacting Bases [5,9] | Pair Probability [[0.152585019,0.031075256,0.030154202,0.030666816,0.000000000],[0.184000410,0.031248979,0.003826899,0.028728496,0.000000000],[0.162621226,0.033023087,0.029991440,0.033218374,0.000000000],[0.157692540,0.030743306,0.029504872,0.030919078,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction C277 - A282 cSS Interaction | Interacting Bases [6,6] | Pair Probability [[0.166666667,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.166666667,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.500000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.166666667,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Right strand conserved insertion G278 Interaction | Interacting Bases [7,7] | Pair Probability [[0.500000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.166666667,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.166666667,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.166666667,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Right strand conserved insertion A279 Insertion | Location [1] | Length Distribution [0.045351474,0.907029478,0.045351474,0.002267574] | Letter Distribution [0.166666667,0.166666667,0.166666667,0.500000000,0.000000000]// Insertion after nucleotide 2, position 1 in cluster node Insertion | Location [7] | Length Distribution [0.045351474,0.907029478,0.045351474,0.002267574] | Letter Distribution [0.166666667,0.500000000,0.166666667,0.166666667,0.000000000]// Insertion after nucleotide 8, position 7 in cluster node 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 [6] | Right Index [5] // New Initial node after Cluster 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_21254.1:
> IL_21254.1 IL_1FJG_011 C 242 G 284 CAUCAG*CGACGACG