| 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 4 4 | 9 4 I | 10 4 5 | 11 3 I | 12 3 6 | 13 2 I | 14 2 7 | 15 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_61092.1_Instance_1 HL_61092.1_HL_5AXM_004_C13_G22 | C | A | G | UUG | G | G | A | G | ||||||||||||
| HL_61092.1_Sequence_1 HL_61092.1_HL_5AXM_004_C13_G22 | C | A | G | UUG | G | G | A | G | true | 90 | 0 | 0 | 1.70 | |||||||
| HL_61092.1_Instance_2 HL_61092.1_HL_5AXM_001_C13_G22 | C | A | G | UUG | G | G | A | G | ||||||||||||
| HL_61092.1_Sequence_2 HL_61092.1_HL_5AXM_001_C13_G22 | C | A | G | UUG | G | G | A | G | true | 90 | 0 | 0 | 1.70 | |||||||
| HL_61092.1_Instance_3 HL_61092.1_HL_4WJ4_004_C13_G22 | C | A | G | UCG | G | U | A | G | ||||||||||||
| HL_61092.1_Sequence_3 HL_61092.1_HL_4WJ4_004_C13_G22 | C | A | G | UCG | G | U | A | G | true | 87 | 0 | 0 | 2.17 | |||||||
| HL_61092.1_Instance_4 HL_61092.1_HL_4WJ4_001_C13_G22 | C | A | G | UCG | G | U | A | G | ||||||||||||
| HL_61092.1_Sequence_4 HL_61092.1_HL_4WJ4_001_C13_G22 | C | A | G | UCG | G | U | A | G | true | 87 | 0 | 0 | 2.17 | |||||||
| HL_61092.1_Instance_5 HL_61092.1_HL_6CU1_003_C58_G66 | C | A | A | UG | G | U | A | G | ||||||||||||
| HL_61092.1_Sequence_5 HL_61092.1_HL_6CU1_003_C58_G66 | C | A | A | UG | G | U | A | G | true | 97 | 0 | 0 | 0.45 | |||||||
| HL_61092.1_Instance_6 HL_61092.1_HL_2AZX_007_C513_G522 | C | A | A | UG | G | U | A | G | ||||||||||||
| HL_61092.1_Sequence_6 HL_61092.1_HL_2AZX_007_C513_G522 | C | A | A | UG | G | U | A | G | true | 97 | 0 | 0 | 0.45 | |||||||
| HL_61092.1_Instance_7 HL_61092.1_HL_2AZX_004_C513_G522 | C | A | A | UG | G | U | A | G | ||||||||||||
| HL_61092.1_Sequence_7 HL_61092.1_HL_2AZX_004_C513_G522 | C | A | A | UG | G | U | A | G | true | 97 | 0 | 0 | 0.45 | |||||||
| HL_61092.1_Instance_8 HL_61092.1_HL_4MGN_002_C13_G21 | C | A | G | UG | G | U | A | G | ||||||||||||
| HL_61092.1_Sequence_8 HL_61092.1_HL_4MGN_002_C13_G21 | C | A | G | UG | G | U | A | G | true | 100 | 0 | 0 | 0.00 |
1 7 cWW 2 3 s35 2 6 cWS 2 7 s55JAR3D SCFG/MRF model for HL_61092.1:
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 [7] // Initial node C13 - G22 from junction BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.009006769,0.016151300,0.010354389,0.187745500,0.000000000],[0.019149932,0.009173133,0.271439780,0.013024494,0.000000000],[0.010470672,0.191790911,0.001973657,0.022162527,0.000000000],[0.190179433,0.012548849,0.025283958,0.009544696,0.000000000],[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 [7] // Basepair C13 - G22 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.281758609,0.191033724,0.201881819,0.195138682,0.000000000],[0.015263551,0.012449200,0.002076845,0.012634263,0.000000000],[0.020638877,0.002076845,0.026452326,0.009879081,0.000000000],[0.007414430,0.007821291,0.006189464,0.007290993,0.000000000],[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 [6] // Basepair A14 - A21 cWS HairpinNode | Num Bases [3] | Left Index [3] | Right Index [5] | Norm Constant [1.000000000000000] // Hairpin node G15:G20 Interaction | Interacting Bases [1,1] | Pair Probability [[0.350000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.050000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.550000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.050000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position G15 Interaction | Interacting Bases [2,2] | Pair Probability [[0.050000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.050000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.850000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.050000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position G19 Interaction | Interacting Bases [3,3] | Pair Probability [[0.050000000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.050000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.250000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.650000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position G20 Insertion | Location [1] | Length Distribution [0.000000000,0.003085467,0.496760259,0.496760259,0.003239741,0.000154273] | Letter Distribution [0.022727273,0.113636364,0.386363636,0.477272727,0.000000000]// Insertion in Hairpin after nucleotide 3, position 1Sequences of instances from HL_61092.1:
> HL_61092.1 HL_5AXM_004 C 13 G 22 CAGUUGGGAG > HL_61092.1 HL_5AXM_001 C 13 G 22 CAGUUGGGAG > HL_61092.1 HL_4WJ4_004 C 13 G 22 CAGUCGGUAG > HL_61092.1 HL_4WJ4_001 C 13 G 22 CAGUCGGUAG > HL_61092.1 HL_6CU1_003 C 58 G 66 CAAUGGUAG > HL_61092.1 HL_2AZX_007 C 513 G 522 CAAUGGUAG > HL_61092.1 HL_2AZX_004 C 513 G 522 CAAUGGUAG > HL_61092.1 HL_4MGN_002 C 13 G 21 CAGUGGUAG