| 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 6 I | 10 7 5 | 11 7 I | 12 8 6 | 13 8 I | 14 9 | 15 8 I | 16 8 7 | 17 7 I | 18 7 8 | 19 4 I | 20 4 9 | 21 3 I | 22 3 10 | 23 2 I | 24 2 11 | 25 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_49767.8_Instance_1 IL_49767.8,IL_7A0S_098,G2717_C2747 | G | A | U | A | A | C | G | G | A | A | G | C | ||||||||||||||||||
| IL_49767.8_Sequence_1 IL_49767.87A0S_G_2717_C_2747 | G | A | U | A | A | C | * | G | G | A | A | G | C | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_49767.8_Instance_2 IL_49767.8,IL_9DFE_106,G2737_C2767 | G | A | U | A | A | C | G | G | A | A | G | C | ||||||||||||||||||
| IL_49767.8_Sequence_2 IL_49767.89DFE_G_2737_C_2767 | G | A | U | A | A | C | * | G | G | A | A | G | C | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_49767.8_Instance_3 IL_49767.8,IL_4V9F_096,G2772_C2802 | G | G | U | A | A | G | C | G | A | A | A | C | ||||||||||||||||||
| IL_49767.8_Sequence_3 IL_49767.84V9F_G_2772_C_2802 | G | G | U | A | A | G | * | C | G | A | A | A | C | true | 99 | 0 | 0 | 0.09 | ||||||||||||
| IL_49767.8_Instance_4 IL_49767.8,IL_4WF9_104,G2764_C2794 | G | A | U | A | A | G | U | G | A | A | G | C | ||||||||||||||||||
| IL_49767.8_Sequence_4 IL_49767.84WF9_G_2764_C_2794 | G | A | U | A | A | G | * | U | G | A | A | G | C | true | 95 | 0 | 0 | 0.78 | ||||||||||||
| IL_49767.8_Instance_5 IL_49767.8,IL_5J7L_350,G2737_C2767 | G | A | U | A | A | G | C | G | A | A | A | C | ||||||||||||||||||
| IL_49767.8_Sequence_5 IL_49767.85J7L_G_2737_C_2767 | G | A | U | A | A | G | * | C | G | A | A | A | C | true | 95 | 0 | 0 | 0.76 | ||||||||||||
| IL_49767.8_Instance_6 IL_49767.8,IL_7A0S_108,U1592_G1436 | U | C | U | A | A | A | U | G | A | U | G | G | ||||||||||||||||||
| IL_49767.8_Sequence_6 IL_49767.87A0S_U_1592_G_1436 | U | C | U | A | A | A | * | U | G | A | U | G | G | true | 76 | 0 | 0 | 3.82 |
1 2 s35 1 11 cWW 2 3 s35 2 10 cWW 3 8 s33 3 9 tWH 4 5 s35 4 9 s55 5 6 s35 5 8 tHS 6 7 cWW 6 8 s55 7 8 s35 9 10 s35 10 11 s35 8 4 6BPh 5 8 6BRJAR3D SCFG/MRF model for IL_49767.8:
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 [11] // Initial node BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009608946,0.018498398,0.011177979,0.167414454,0.000000000],[0.062230525,0.012136566,0.169597020,0.013223777,0.000000000],[0.011129400,0.220660488,0.002205597,0.023815697,0.000000000],[0.173193752,0.013410226,0.081270055,0.010427122,0.000000000],[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 [11] // Basepair G2717 - C2747 cWW BasepairNode | Deletion Probability [0.0000001231336240] | Pair Probability [[0.124502328,0.016502751,0.266861980,0.047448978,0.000000000],[0.015435019,0.009512959,0.059470576,0.034067488,0.000000000],[0.241640867,0.049248809,0.003602166,0.018574203,0.000000000],[0.047728662,0.035286070,0.017581112,0.012536033,0.000000000],[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 [0.008193363,0.983203605,0.008193363,0.000409668] | Right Letter Distribution [0.687500000,0.062500000,0.062500000,0.187500000,0.000000000] | Left Index [2] | Right Index [10] // Basepair A2718 - G2746 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.017712837,0.003919879,0.018397680,0.003919879,0.000000000],[0.039419550,0.315867349,0.003919879,0.003919879,0.000000000],[0.003919879,0.009396209,0.029810350,0.017434273,0.000000000],[0.467089651,0.003919879,0.022742669,0.038610158,0.000000000],[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 [3] | Right Index [9] // Basepair U2719 - A2744 tWH FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.812500000,0.062500000,0.062500000,0.062500000,0.000000000] | Position [1] | Left Index [4] | Right Index [8] // Fixed node on left for 7A0S|1|X|A|2720 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 [5] | Right Index [8] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.041224524,0.041530793,0.421512788,0.046017578,0.000000000],[0.043641714,0.043540658,0.003464110,0.043305596,0.000000000],[0.000494873,0.000494873,0.016934936,0.000494873,0.000000000],[0.002332338,0.000494873,0.294020601,0.000494873,0.000000000],[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 [5] | Right Index [8] // Basepair A2721 - G2743 tHS BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.010210151,0.063131561,0.010958119,0.184071784,0.000000000],[0.016998190,0.009764550,0.188002203,0.012655871,0.000000000],[0.010905840,0.189228391,0.002188127,0.086112889,0.000000000],[0.165641478,0.012976428,0.022111999,0.015042420,0.000000000],[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 C2722 - G2742 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_49767.8:
> IL_49767.8 7A0S G 2717 C 2747 GAUAAC*GGAAGC > IL_49767.8 9DFE G 2737 C 2767 GAUAAC*GGAAGC > IL_49767.8 4V9F G 2772 C 2802 GGUAAG*CGAAAC > IL_49767.8 4WF9 G 2764 C 2794 GAUAAG*UGAAGC > IL_49767.8 5J7L G 2737 C 2767 GAUAAG*CGAAAC > IL_49767.8 7A0S U 1592 G 1436 UCUAAA*UGAUGG