| 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 3 I | 10 3 5 | 11 2 I | 12 2 6 | 13 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_41778.1_Instance_1 HL_41778.1_HL_5HR6_001_U12_G22 | U | A | G | AGGC | C | C | A | G | ||||||||||
| HL_41778.1_Sequence_1 HL_41778.1_HL_5HR6_001_U12_G22 | U | A | G | AGGC | C | C | A | G | true | 100 | 0 | 0 | 0.00 | |||||
| HL_41778.1_Instance_2 HL_41778.1_HL_5HR7_004_U13_G22 | U | A | G | AGGC | C | C | A | G | ||||||||||
| HL_41778.1_Sequence_2 HL_41778.1_HL_5HR7_004_U13_G22 | U | A | G | AGGC | C | C | A | G | true | 100 | 0 | 0 | 0.00 | |||||
| HL_41778.1_Instance_3 HL_41778.1_HL_2DER_004_U13_G22 | U | A | G | AGGC | C | C | A | G | ||||||||||
| HL_41778.1_Sequence_3 HL_41778.1_HL_2DER_004_U13_G22 | U | A | G | AGGC | C | C | A | G | true | 100 | 0 | 0 | 0.00 | |||||
| HL_41778.1_Instance_4 HL_41778.1_HL_1N78_001_U513_G522 | U | A | G | CGG | U | U | A | G | ||||||||||
| HL_41778.1_Sequence_4 HL_41778.1_HL_1N78_001_U513_G522 | U | A | G | CGG | U | U | A | G | true | 84 | 0 | 0 | 3.06 |
1 6 cWW 2 3 s35 2 4 s35 2 5 cWS 2 6 s55 3 4 tSWJAR3D SCFG/MRF model for HL_41778.1:
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 [6] // Initial node U12 - G22 from junction BasepairNode | Deletion Probability [0.0000239574126029] | Pair Probability [[0.011029875,0.013715048,0.014003029,0.036557775,0.000000000],[0.296720111,0.027413229,0.041539613,0.015725784,0.000000000],[0.014309587,0.036411341,0.003242568,0.014389856,0.000000000],[0.084535262,0.014396858,0.362718331,0.013291732,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.995990040,0.003999960,0.000010000] | Right Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Left Index [1] | Right Index [6] // Basepair U12 - G22 cWW BasepairNode | Deletion Probability [0.0000001215781528] | Pair Probability [[0.254133940,0.198381175,0.209646504,0.202644016,0.000000000],[0.015850611,0.012928015,0.002156724,0.013120197,0.000000000],[0.021432680,0.002156724,0.027469723,0.010259045,0.000000000],[0.007699601,0.008122110,0.006427520,0.007571415,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.995990040,0.003999960,0.000010000] | Left Letter Distribution [0.250000000,0.250000000,0.250000000,0.250000000,0.000000000] | Right Length Distribution [0.012187690,0.975015235,0.012187690,0.000609385] | Right Letter Distribution [0.083333333,0.583333333,0.083333333,0.250000000,0.000000000] | Left Index [2] | Right Index [5] // Basepair A13 - A21 cWS HairpinNode | Num Bases [2] | Left Index [3] | Right Index [4] | Norm Constant [1.000000000000000] // Hairpin node G14:C19 Interaction | Interacting Bases [1,2] | Pair Probability [[0.007031815,0.007031815,0.007031815,0.007031815,0.000000000],[0.007031815,0.007031815,0.128894223,0.007031815,0.000000000],[0.007031815,0.732027618,0.007031815,0.047664569,0.000000000],[0.007031815,0.007031815,0.007031815,0.007031815,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin Interaction G14 - C19 tSW Insertion | Location [1] | Length Distribution [0.000000000,0.000000000,0.003046923,0.252894576,0.734308349,0.009293114,0.000457038] | Letter Distribution [0.205882353,0.264705882,0.500000000,0.029411765,0.000000000]// Insertion in Hairpin after nucleotide 3, position 1Sequences of instances from HL_41778.1:
> HL_41778.1 HL_5HR6_001 U 12 G 22 UAGAGGCCCAG > HL_41778.1 HL_5HR7_004 U 13 G 22 UAGAGGCCCAG > HL_41778.1 HL_2DER_004 U 13 G 22 UAGAGGCCCAG > HL_41778.1 HL_1N78_001 U 513 G 522 UAGCGGUUAG