| 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 4 I | 8 5 | 9 4 I | 10 3 4 | 11 2 I | 12 2 5 | 13 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_46648.6_Instance_1 IL_46648.6_IL_3V2F_096_C2540_G2523 | C | A | A | G | U | G | ||||||||||||
| IL_46648.6_Sequence_1 IL_46648.6_IL_3V2F_096_C_2540_G_2523 | C | A | A | G | * | U | G | true | 100 | 0 | 0 | 0.00 | ||||||
| IL_46648.6_Instance_2 IL_46648.6_IL_2QBG_098_C2540_G2523 | C | A | A | G | U | G | ||||||||||||
| IL_46648.6_Sequence_2 IL_46648.6_IL_2QBG_098_C_2540_G_2523 | C | A | A | G | * | U | G | true | 100 | 0 | 0 | 0.00 | ||||||
| IL_46648.6_Instance_3 IL_46648.6_IL_4IOA_093_C2519_G2502 | C | A | A | G | U | G | ||||||||||||
| IL_46648.6_Sequence_3 IL_46648.6_IL_4IOA_093_C_2519_G_2502 | C | A | A | G | * | U | G | true | 100 | 0 | 0 | 0.00 | ||||||
| IL_46648.6_Instance_4 IL_46648.6_IL_1S72_087_C2575_G2558 | C | A | A | G | U | G | ||||||||||||
| IL_46648.6_Sequence_4 IL_46648.6_IL_1S72_087_C_2575_G_2558 | C | A | A | G | * | U | G | true | 100 | 0 | 0 | 0.00 | ||||||
| IL_46648.6_Instance_5 IL_46648.6_IL_3U5H_117_U2909_A2892 | U | A | A | G | U | A | ||||||||||||
| IL_46648.6_Sequence_5 IL_46648.6_IL_3U5H_117_U_2909_A_2892 | U | A | A | G | * | U | A | true | 97 | 0 | 0 | 0.25 | ||||||
| IL_46648.6_Instance_6 IL_46648.6_IL_4A1B_114_A2897_U2880 | A | A | C | G | U | U | ||||||||||||
| IL_46648.6_Sequence_6 IL_46648.6_IL_4A1B_114_A_2897_U_2880 | A | A | C | G | * | U | U | true | 82 | 0 | 0 | 1.67 | ||||||
| IL_46648.6_Instance_7 IL_46648.6_IL_4KQY_004_C73_G50 | C | A | A | G | C | G | ||||||||||||
| IL_46648.6_Sequence_7 IL_46648.6_IL_4KQY_004_C73_G50 | C | A | A | G | * | C | G | true | 72 | 0 | 0 | 2.69 | ||||||
| IL_46648.6_Instance_8 IL_46648.6_IL_4LCK_003_G28_C78 | G | A | U | U | A | C | ||||||||||||
| IL_46648.6_Sequence_8 IL_46648.6_IL_4LCK_003_G28_C78 | G | A | U | U | * | A | C | true | 56 | 0 | 0 | 4.16 | ||||||
| IL_46648.6_Instance_9 IL_46648.6_IL_3U5H_078_G1776_C1671 | G | U | G | C | C | |||||||||||||
| IL_46648.6_Sequence_9 IL_46648.6_IL_3U5H_078_G_1776_C_1671 | G | U | G | * | C | C | true | 75 | 0 | 0 | 2.33 | |||||||
| IL_46648.6_Instance_10 IL_46648.6_IL_4C7O_002_A36_U9 | A | U | G | C | U | |||||||||||||
| IL_46648.6_Sequence_10 IL_46648.6_IL_4C7O_002_A36_U9 | A | U | G | * | C | U | true | 74 | 0 | 0 | 2.46 | |||||||
| IL_46648.6_Instance_11 IL_46648.6_IL_4A1B_069_G1643_C1850 | G | A | C | G | C | |||||||||||||
| IL_46648.6_Sequence_11 IL_46648.6_IL_4A1B_069_G_1643_C_1850 | G | A | C | * | G | C | true | 65 | 0 | 0 | 3.35 | |||||||
| IL_46648.6_Instance_12 IL_46648.6_IL_2QWY_005_C43_G22 | C | U | A | U | G | |||||||||||||
| IL_46648.6_Sequence_12 IL_46648.6_IL_2QWY_005_C43_G22 | C | U | A | * | U | G | true | 73 | 0 | 0 | 2.56 | |||||||
| IL_46648.6_Instance_13 IL_46648.6_IL_3WBM_004_G2_C24 | G | U | A | U | C | |||||||||||||
| IL_46648.6_Sequence_13 IL_46648.6_IL_3WBM_004_G2_C24 | G | U | A | * | U | C | true | 72 | 0 | 0 | 2.64 |
1 2 s35 1 5 cWW 2 4 tSH 3 4 cWW 4 5 s35JAR3D SCFG/MRF model for IL_46648.6:
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 [5] // Initial node C2540 - G2523 from junction BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.008928161,0.017727990,0.010179535,0.195813486,0.000000000],[0.017922262,0.007857997,0.240697863,0.011633022,0.000000000],[0.010199025,0.222163351,0.001940544,0.023068404,0.000000000],[0.186561134,0.011546440,0.023304029,0.010456756,0.000000000],[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 [5] // Basepair C2540 - G2523 cWW ClusterNode | Deletion Probability [0.0000000047265970] | Num Left Bases [2] | Num Right Bases [1] | Left Index [2] | Right Index [4] | Norm Constant [0.272916602183047] // Cluster node A2541:G2543 and U2522:U2522 Interaction | Interacting Bases [1,3] | Pair Probability [[0.047861494,0.037204399,0.025318111,0.379123165,0.000000000],[0.020754977,0.013941450,0.003260258,0.003260258,0.000000000],[0.015524934,0.003260258,0.304157596,0.019139174,0.000000000],[0.016587056,0.059970649,0.003260258,0.047375963,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction A2541 - U2522 tSH Interaction | Interacting Bases [2,3] | Pair Probability [[0.011612063,0.139581923,0.011799549,0.134195131,0.000000000],[0.015546252,0.009111562,0.123260216,0.012306578,0.000000000],[0.011634189,0.144484349,0.002483712,0.209875301,0.000000000],[0.121820287,0.013096746,0.018395376,0.020796766,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Cluster Interaction G2543 - U2522 cWW Insertion | Location [1] | Length Distribution [0.384519277,0.612937839,0.002425294,0.000117590] | Letter Distribution [0.650000000,0.150000000,0.050000000,0.150000000,0.000000000]// Insertion after nucleotide 2, position 1 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 [4] | Right Index [3] // New Initial node after Cluster HairpinNode | Num Bases [1] | Left Index [4] | Right Index [4] | 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_46648.6:
> IL_46648.6 IL_3V2F_096 C 2540 G 2523 CAAG*UG > IL_46648.6 IL_2QBG_098 C 2540 G 2523 CAAG*UG > IL_46648.6 IL_4IOA_093 C 2519 G 2502 CAAG*UG > IL_46648.6 IL_1S72_087 C 2575 G 2558 CAAG*UG > IL_46648.6 IL_3U5H_117 U 2909 A 2892 UAAG*UA > IL_46648.6 IL_4A1B_114 A 2897 U 2880 AACG*UU > IL_46648.6 IL_4KQY_004 C 73 G 50 CAAG*CG > IL_46648.6 IL_4LCK_003 G 28 C 78 GAUU*AC > IL_46648.6 IL_3U5H_078 G 1776 C 1671 GUG*CC > IL_46648.6 IL_4C7O_002 A 36 U 9 AUG*CU > IL_46648.6 IL_4A1B_069 G 1643 C 1850 GAC*GC > IL_46648.6 IL_2QWY_005 C 43 G 22 CUA*UG > IL_46648.6 IL_3WBM_004 G 2 C 24 GUA*UC