| 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 5 | 11 6 I | 12 7 6 | 13 7 I | 14 8 | 15 7 I | 16 7 7 | 17 6 I | 18 6 8 | 19 5 I | 20 5 9 | 21 4 I | 22 4 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_79955.2_Instance_1 IL_79955.2_IL_2AW7_037_A673_U717 | A | G | A | A | U | U | A | G | G | A | A | U | ||||||||||||||||||||
| IL_79955.2_Sequence_1 IL_79955.2_IL_2AW7_037_A673_U717 | A | G | A | A | U | U | * | A | G | G | A | A | U | true | 100 | 0 | 0 | 0.08 | ||||||||||||||
| IL_79955.2_Instance_2 IL_79955.2_IL_1FJG_030_G673_C717 | G | G | A | A | U | U | A | G | G | A | A | C | ||||||||||||||||||||
| IL_79955.2_Sequence_2 IL_79955.2_IL_1FJG_030_G673_C717 | G | G | A | A | U | U | * | A | G | G | A | A | C | true | 100 | 0 | 0 | 0.00 | ||||||||||||||
| IL_79955.2_Instance_3 IL_79955.2_IL_4A1B_025_G562_C605 | G | G | AG | U | C | A | C | G | A | A | A | A | C | |||||||||||||||||||
| IL_79955.2_Sequence_3 IL_79955.2_IL_4A1B_025_G562_C605 | G | G | AG | U | C | A | C | * | G | A | A | A | A | C | true | 52 | 0 | 0 | 7.64 |
1 2 s35 1 12 cWW 2 3 s35 2 11 cWW 3 4 s35 3 10 cWW 4 5 s35 4 9 cWW 5 6 s35 5 8 cSW 6 7 cWW 6 8 s55 7 8 s35 8 9 s35 9 10 s35 10 11 s35 11 12 s35JAR3D SCFG/MRF model for IL_79955.2:
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 A673 - U717 from junction BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.009784429,0.021777989,0.011031390,0.208347691,0.000000000],[0.017985926,0.008620950,0.201027673,0.012148861,0.000000000],[0.010927772,0.225150163,0.002128171,0.027374013,0.000000000],[0.195241385,0.012608128,0.023487298,0.012358162,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.993970181,0.005999820,0.000029999] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [12] // Basepair A673 - U717 cWW BasepairNode | Deletion Probability [0.0000006376409404] | Pair Probability [[0.045115996,0.013962508,0.338697479,0.016071795,0.000000000],[0.014298241,0.005731928,0.019359879,0.043268658,0.000000000],[0.381657250,0.019116179,0.003525310,0.015542429,0.000000000],[0.016099227,0.040676227,0.015894192,0.010982702,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.651642683,0.016291067,0.326364377,0.005430356,0.000271518] | Left Letter Distribution [0.375000000,0.125000000,0.375000000,0.125000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [2] | Right Index [11] // Basepair G674 - A716 cWW BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.417333101,0.017239390,0.259255002,0.017136446,0.000000000],[0.013083937,0.003979156,0.018565226,0.019605876,0.000000000],[0.050924196,0.018873109,0.003979156,0.019011132,0.000000000],[0.072782957,0.040416298,0.014682399,0.013132619,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.993970181,0.005999820,0.000029999] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [3] | Right Index [10] // Basepair A675 - A715 cWW BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.183826124,0.011443433,0.301561645,0.012884831,0.000000000],[0.067115556,0.004309900,0.015299415,0.032554752,0.000000000],[0.271072640,0.015494457,0.002821442,0.012720734,0.000000000],[0.012862876,0.034629574,0.012439205,0.008963416,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.993970181,0.005999820,0.000029999] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [4] | Right Index [9] // Basepair A676 - G714 cWW BasepairNode | Deletion Probability [0.0000234451146992] | Pair Probability [[0.073047508,0.015684070,0.041196808,0.013291818,0.000000000],[0.016590084,0.014569073,0.321651087,0.016400656,0.000000000],[0.014443454,0.014128846,0.018083854,0.010409951,0.000000000],[0.018093766,0.015069156,0.385176707,0.012163162,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.993970181,0.005999820,0.000029999] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.993970181,0.005999820,0.000029999] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [5] | Right Index [8] // Basepair U677 - G713 cSW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009329508,0.018973088,0.010330785,0.200366695,0.000000000],[0.023032249,0.009121783,0.208662517,0.011447685,0.000000000],[0.010390909,0.196046055,0.002131601,0.023465306,0.000000000],[0.225487075,0.011181893,0.027495044,0.012537807,0.000000000],[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 [6] | Right Index [7] // Basepair U678 - A712 cWW HairpinNode | Num Bases [1] | Left Index [7] | Right Index [7] | 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_79955.2:
> IL_79955.2 IL_2AW7_037 A 673 U 717 AGAAUU*AGGAAU > IL_79955.2 IL_1FJG_030 G 673 C 717 GGAAUU*AGGAAC > IL_79955.2 IL_4A1B_025 G 562 C 605 GGAGUCAC*GAAAAC