| 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 7 I | 12 8 6 | 13 8 I | 14 9 | 15 8 I | 16 8 7 | 17 5 I | 18 5 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_80926.1_Instance_1 IL_80926.1,IL_3BBM_001,G6_C9 | G | A | G | A | A | G | C | A | G | U | C | C | ||||||||||||||||||
| IL_80926.1_Sequence_1 IL_80926.13BBM_G6_C9 | G | A | G | A | A | G | * | C | A | G | U | C | C | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_80926.1_Instance_2 IL_80926.1,IL_3GS8_001,G6_C9 | G | A | G | A | A | G | C | A | G | U | C | C | ||||||||||||||||||
| IL_80926.1_Sequence_2 IL_80926.13GS8_G6_C9 | G | A | G | A | A | G | * | C | A | G | U | C | C | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_80926.1_Instance_3 IL_80926.1,IL_1ZFT_001,G6_C9 | G | A | G | A | A | G | C | A | G | U | C | C | ||||||||||||||||||
| IL_80926.1_Sequence_3 IL_80926.11ZFT_G6_C9 | G | A | G | A | A | G | * | C | A | G | U | C | C | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_80926.1_Instance_4 IL_80926.1,IL_3GS5_001,G18_C9 | G | A | G | A | A | G | C | A | G | U | C | C | ||||||||||||||||||
| IL_80926.1_Sequence_4 IL_80926.13GS5_G18_C9 | G | A | G | A | A | G | * | C | A | G | U | C | C | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_80926.1_Instance_5 IL_80926.1,IL_2NPY_001,G6_C9 | G | A | G | A | A | G | C | U | G | U | C | C | ||||||||||||||||||
| IL_80926.1_Sequence_5 IL_80926.12NPY_G6_C9 | G | A | G | A | A | G | * | C | U | G | U | C | C | true | 97 | 0 | 0 | 0.48 | ||||||||||||
| IL_80926.1_Instance_6 IL_80926.1,IL_1M5K_001,G6_C16 | G | A | G | A | A | G | C | A | G | U | C | C | ||||||||||||||||||
| IL_80926.1_Sequence_6 IL_80926.11M5K_G6_C16 | G | A | G | A | A | G | * | C | A | G | U | C | C | true | 100 | 0 | 0 | 0.00 | ||||||||||||
| IL_80926.1_Instance_7 IL_80926.1,IL_1X9K_001,G6_C10 | G | A | G | A | A | G | C | A | G | U | C | C | ||||||||||||||||||
| IL_80926.1_Sequence_7 IL_80926.11X9K_G6_C10 | G | A | G | A | A | G | * | C | A | G | U | C | C | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 11 cWW 2 3 s35 2 10 cWW 3 4 s35 3 8 s33 3 9 tSH 4 5 s35 4 8 tHS 4 9 s55 5 6 s35 6 7 cWW 7 8 s35 9 10 s35 10 11 s35 3 8 6BRJAR3D SCFG/MRF model for IL_80926.1:
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 [11] // Initial node BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009278847,0.019324516,0.010566130,0.191913241,0.000000000],[0.016298546,0.009098841,0.193539411,0.012663253,0.000000000],[0.010448787,0.264585590,0.001991650,0.025514464,0.000000000],[0.189457119,0.013143234,0.022364576,0.009811793,0.000000000],[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 G6 - C9 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.013175613,0.348944733,0.011499404,0.030573529,0.000000000],[0.011549315,0.011068704,0.023202024,0.011427413,0.000000000],[0.011229390,0.027509685,0.002835242,0.259446605,0.000000000],[0.024333442,0.012539475,0.011992186,0.188673240,0.000000000],[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 [2] | Right Index [10] // Basepair A7 - C8 cWW BasepairNode | Deletion Probability [0.0000001232089072] | Pair Probability [[0.022153672,0.027967402,0.001015029,0.006160240,0.000000000],[0.012850225,0.012635624,0.001015029,0.001015029,0.000000000],[0.317870686,0.003745109,0.026834263,0.439931454,0.000000000],[0.084266304,0.040509874,0.001015029,0.001015029,0.000000000],[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 [0.007039775,0.985568462,0.007039775,0.000351989] | Right Letter Distribution [0.055555556,0.055555556,0.833333333,0.055555556,0.000000000] | Left Index [3] | Right Index [9] // Basepair G8 - U7 tSH BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.243817538,0.147942956,0.130858381,0.150670257,0.000000000],[0.035298759,0.072373014,0.001542371,0.139222947,0.000000000],[0.001542371,0.001542371,0.012783906,0.001542371,0.000000000],[0.009116382,0.001542371,0.048661638,0.001542371,0.000000000],[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 [8] // Basepair A9 - A5 tHS FixedNode | Deletion Probability [0.0050000000000000] | Letter Distribution [0.833333333,0.055555556,0.055555556,0.055555556,0.000000000] | Position [1] | Left Index [5] | Right Index [7] // Fixed node on left for 3BBM|1|A|C|8 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 [6] | Right Index [7] // New Initial node after Fixed node BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.009278847,0.019324516,0.010566130,0.191913241,0.000000000],[0.016298546,0.009098841,0.193539411,0.012663253,0.000000000],[0.010448787,0.264585590,0.001991650,0.025514464,0.000000000],[0.189457119,0.013143234,0.022364576,0.009811793,0.000000000],[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 G11 - C4 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_80926.1:
> IL_80926.1 3BBM G 6 C 9 GAGAAG*CAGUCC > IL_80926.1 3GS8 G 6 C 9 GAGAAG*CAGUCC > IL_80926.1 1ZFT G 6 C 9 GAGAAG*CAGUCC > IL_80926.1 3GS5 G 18 C 9 GAGAAG*CAGUCC > IL_80926.1 2NPY G 6 C 9 GAGAAG*CUGUCC > IL_80926.1 1M5K G 6 C 16 GAGAAG*CAGUCC > IL_80926.1 1X9K G 6 C 10 GAGAAG*CAGUCC