| 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 5 I | 8 6 4 | 9 6 I | 10 7 5 | 11 7 I | 12 8 | 13 7 I | 14 7 6 | 15 6 I | 16 6 7 | 17 3 I | 18 3 8 | 19 2 I | 20 2 9 | 21 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_23774.1_Instance_1 IL_23774.1,IL_4V9F_094,G2754_C2728 | G | G | U | A | G | U | G | U | A | C | ||||||||||||||||
| IL_23774.1_Sequence_1 IL_23774.14V9F_G_2754_C_2728 | G | G | U | A | G | * | U | G | U | A | C | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_23774.1_Instance_2 IL_23774.1,IL_9DFE_059,A1469_U1523 | A | G | A | A | G | U | G | G | U | |||||||||||||||||
| IL_23774.1_Sequence_2 IL_23774.19DFE_A_1469_U_1523 | A | G | A | A | G | * | U | G | G | U | true | 97 | 0 | 0 | 0.29 | |||||||||||
| IL_23774.1_Instance_3 IL_23774.1,IL_5J7L_303,U1542_G1529 | U | G | A | A | G | C | G | A | G | |||||||||||||||||
| IL_23774.1_Sequence_3 IL_23774.15J7L_U_1542_G_1529 | U | G | A | A | G | * | C | G | A | G | true | 85 | 0 | 0 | 1.47 | |||||||||||
| IL_23774.1_Instance_4 IL_23774.1,IL_8XZL_001,U6_G48 | U | G | U | A | C | G | G | A | G | |||||||||||||||||
| IL_23774.1_Sequence_4 IL_23774.18XZL_U6_G48 | U | G | U | A | C | * | G | G | A | G | true | 93 | 0 | 0 | 0.71 | |||||||||||
| IL_23774.1_Instance_5 IL_23774.1,IL_8P9A_251,U741_G728 | U | G | C | A | C | G | G | G | G | |||||||||||||||||
| IL_23774.1_Sequence_5 IL_23774.18P9A_U741_G728 | U | G | C | A | C | * | G | G | G | G | true | 86 | 0 | 0 | 1.28 | |||||||||||
| IL_23774.1_Instance_6 IL_23774.1,IL_8CRE_025,U737_G726 | U | G | C | A | C | G | G | G | G | |||||||||||||||||
| IL_23774.1_Sequence_6 IL_23774.18CRE_U737_G726 | U | G | C | A | C | * | G | G | G | G | true | 86 | 0 | 0 | 1.28 | |||||||||||
| IL_23774.1_Instance_7 IL_23774.1,IL_2R8S_006,C216_G257 | C | C | A | A | G | U | G | C | A | G | ||||||||||||||||
| IL_23774.1_Sequence_7 IL_23774.12R8S_C216_G257 | C | C | A | A | G | * | U | G | C | A | G | true | 73 | 0 | 0 | 2.55 | ||||||||||
| IL_23774.1_Instance_8 IL_23774.1,IL_5J7L_348,G2718_C2691 | G | G | U | A | G | U | G | U | U | C | ||||||||||||||||
| IL_23774.1_Sequence_8 IL_23774.15J7L_G_2718_C_2691 | G | G | U | A | G | * | U | G | U | U | C | true | 95 | 0 | 0 | 0.47 | ||||||||||
| IL_23774.1_Instance_9 IL_23774.1,IL_9DFE_104,G2718_C2691 | G | G | U | A | G | U | U | U | C | C | ||||||||||||||||
| IL_23774.1_Sequence_9 IL_23774.19DFE_G_2718_C_2691 | G | G | U | A | G | * | U | U | U | C | C | true | 73 | 0 | 0 | 2.53 | ||||||||||
| IL_23774.1_Instance_10 IL_23774.1,IL_4WF9_102,G2745_C2718 | G | G | U | A | G | U | G | U | A | C | ||||||||||||||||
| IL_23774.1_Sequence_10 IL_23774.14WF9_G_2745_C_2718 | G | G | U | A | G | * | U | G | U | A | C | true | 100 | 0 | 0 | 0.00 | ||||||||||
| IL_23774.1_Instance_11 IL_23774.1,IL_7A0S_096,G2698_C2670 | G | G | U | A | G | U | C | U | C | C | ||||||||||||||||
| IL_23774.1_Sequence_11 IL_23774.17A0S_G_2698_C_2670 | G | G | U | A | G | * | U | C | U | C | C | true | 73 | 0 | 0 | 2.52 |
1 2 s35 1 9 cWW 2 7 s33 2 8 tSH 2 9 s55 3 4 s35 3 7 s33 3 8 s55 4 5 s35 4 7 tHS 5 6 cWW 5 7 s55 6 7 s35 8 9 s35 7 3 6BPh 4 7 6BRJAR3D SCFG/MRF model for IL_23774.1:
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 [9] // Initial node BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009395742,0.016407446,0.011144700,0.139212023,0.000000000],[0.111392575,0.014938303,0.141641678,0.012923844,0.000000000],[0.011206404,0.178112619,0.002322517,0.022487942,0.000000000],[0.145012298,0.012695226,0.160469966,0.010636717,0.000000000],[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 [9] // Basepair G2754 - C2728 cWW BasepairNode | Deletion Probability [0.0000013485027022] | Pair Probability [[0.075507066,0.053552974,0.002212523,0.138529665,0.000000000],[0.082854027,0.065729327,0.002212523,0.002212523,0.000000000],[0.123693303,0.044579214,0.180646658,0.077380375,0.000000000],[0.075249967,0.071214808,0.002212523,0.002212523,0.000000000],[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 [0.453734282,0.543578593,0.002564050,0.000123074] | Right Letter Distribution [0.062500000,0.187500000,0.062500000,0.687500000,0.000000000] | Left Index [2] | Right Index [8] // Basepair G2755 - A2727 tSH FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.269230769,0.192307692,0.038461538,0.500000000,0.000000000] | Position [1] | Left Index [3] | Right Index [7] // Fixed node on left for 4V9F|1|0|U|2726 InitialNode | 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 [1.000000000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [4] | Right Index [7] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.041675690,0.081666289,0.365438636,0.080464028,0.000000000],[0.038965625,0.063318609,0.002854789,0.067060476,0.000000000],[0.000488445,0.000794123,0.014116299,0.000747096,0.000000000],[0.002324203,0.000794123,0.238544473,0.000747096,0.000000000],[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 [4] | Right Index [7] // Basepair A2757 - G2725 tHS BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.012465738,0.179588890,0.012046018,0.116098588,0.000000000],[0.014534458,0.010710321,0.117663818,0.012989386,0.000000000],[0.011887226,0.101660012,0.002595468,0.260901100,0.000000000],[0.088457803,0.013682782,0.017088572,0.027629820,0.000000000],[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 [5] | Right Index [6] // Basepair G2758 - U2724 cWW 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_23774.1:
> IL_23774.1 4V9F G 2754 C 2728 GGUAG*UGUAC > IL_23774.1 9DFE A 1469 U 1523 AGAAG*UGGU > IL_23774.1 5J7L U 1542 G 1529 UGAAG*CGAG > IL_23774.1 8XZL U 6 G 48 UGUAC*GGAG > IL_23774.1 8P9A U 741 G 728 UGCAC*GGGG > IL_23774.1 8CRE U 737 G 726 UGCAC*GGGG > IL_23774.1 2R8S C 216 G 257 CCAAG*UGCAG > IL_23774.1 5J7L G 2718 C 2691 GGUAG*UGUUC > IL_23774.1 9DFE G 2718 C 2691 GGUAG*UUUCC > IL_23774.1 4WF9 G 2745 C 2718 GGUAG*UGUAC > IL_23774.1 7A0S G 2698 C 2670 GGUAG*UCUCC