| 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 3 3 | 7 3 I | 8 3 4 | 9 3 I | 10 3 5 | 11 3 I | 12 3 6 | 13 3 I | 14 3 7 | 15 3 I | 16 3 8 | 17 3 I | 18 3 9 | 19 2 I | 20 2 10 | 21 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_33074.4_Instance_1 HL_33074.4,HL_4C4W_002,C11_G22 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_1 HL_33074.44C4W_C11_G22 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_2 HL_33074.4,HL_8JY0_001,C13_G24 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_2 HL_33074.48JY0_C13_G24 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_3 HL_33074.4,HL_2NZ4_005,C17A_G17L | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_3 HL_33074.42NZ4_C17A_G17L | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_4 HL_33074.4,HL_5FJ4_002,C11_G22 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_4 HL_33074.45FJ4_C11_G22 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_5 HL_33074.4,HL_1M5K_002,C35_G46 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_5 HL_33074.41M5K_C35_G46 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_6 HL_33074.4,HL_5DDP_002,C34_G45 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_6 HL_33074.45DDP_C34_G45 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_7 HL_33074.4,HL_6F4H_001,C6_G17 | C | A | U | U | G | C | A | C | C | U | C | G | ||||||||||||||
| HL_33074.4_Sequence_7 HL_33074.46F4H_C6_G17 | C | A | U | U | G | C | A | C | C | U | C | G | true | 79 | 0 | 0 | 4.21 | |||||||||
| HL_33074.4_Instance_8 HL_33074.4,HL_7DLZ_001,C18_G29 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_8 HL_33074.47DLZ_C18_G29 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_9 HL_33074.4,HL_7QR4_002,C43_G54 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_9 HL_33074.47QR4_C43_G54 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_10 HL_33074.4,HL_6F4H_002,C6_G17 | C | A | U | U | G | C | A | C | C | U | C | G | ||||||||||||||
| HL_33074.4_Sequence_10 HL_33074.46F4H_C6_G17 | C | A | U | U | G | C | A | C | C | U | C | G | true | 79 | 0 | 0 | 4.21 | |||||||||
| HL_33074.4_Instance_11 HL_33074.4,HL_8GXB_002,C23_G34 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_11 HL_33074.48GXB_C23_G34 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_12 HL_33074.4,HL_4PKD_001,C64_G75 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_12 HL_33074.44PKD_C64_G75 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_13 HL_33074.4,HL_1U6B_003,C1002_G1013 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_13 HL_33074.41U6B_C_1002_G_1013 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_14 HL_33074.4,HL_8GXB_001,C23_G34 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_14 HL_33074.48GXB_C23_G34 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_15 HL_33074.4,HL_3CUL_002,C29_G40 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_15 HL_33074.43CUL_C29_G40 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_16 HL_33074.4,HL_3HHN_008,C1004_G1015 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_16 HL_33074.43HHN_C_1004_G_1015 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_17 HL_33074.4,HL_7QR3_002,C43_G54 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_17 HL_33074.47QR3_C43_G54 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_18 HL_33074.4,HL_7D7V_001,C27_G38 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_18 HL_33074.47D7V_C27_G38 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_19 HL_33074.4,HL_5DDO_002,C34_G45 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_19 HL_33074.45DDO_C34_G45 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_20 HL_33074.4,HL_3MXH_002,C65_G75 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_20 HL_33074.43MXH_C65_G75 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_21 HL_33074.4,HL_5DDO_004,C34_G45 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_21 HL_33074.45DDO_C34_G45 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 | |||||||||
| HL_33074.4_Instance_22 HL_33074.4,HL_6LAX_001,C15_G26 | C | A | U | U | G | C | A | C | U | C | C | G | ||||||||||||||
| HL_33074.4_Sequence_22 HL_33074.46LAX_C15_G26 | C | A | U | U | G | C | A | C | U | C | C | G | true | 100 | 0 | 0 | 0.00 |
1 2 s35 1 10 cWW 2 3 s35 2 10 s55 4 5 s55 6 7 s35 8 9 s35JAR3D SCFG/MRF model for HL_33074.4:
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 [10] // Initial node BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.007973205,0.014297872,0.009166181,0.166200935,0.000000000],[0.016952398,0.008120479,0.355045051,0.011529880,0.000000000],[0.009269120,0.169782118,0.001747172,0.019619287,0.000000000],[0.168355563,0.011108817,0.022382520,0.008449403,0.000000000],[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 [10] // Basepair C11 - G22 cWW HairpinNode | Num Bases [8] | Left Index [2] | Right Index [9] | Norm Constant [1.000000000000000] // Hairpin node A12:C21 Interaction | Interacting Bases [1,1] | Pair Probability [[0.937500000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.020833333,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.020833333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.020833333,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A12 Interaction | Interacting Bases [2,2] | Pair Probability [[0.020833333,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.020833333,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.020833333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.937500000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position U13 Interaction | Interacting Bases [3,3] | Pair Probability [[0.020833333,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.020833333,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.020833333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.937500000,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position U14 Interaction | Interacting Bases [4,4] | Pair Probability [[0.020833333,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.020833333,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.937500000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.020833333,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position G15 Interaction | Interacting Bases [5,5] | Pair Probability [[0.937500000,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.020833333,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.020833333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.020833333,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position A17 Interaction | Interacting Bases [6,6] | Pair Probability [[0.020833333,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.937500000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.020833333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.020833333,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position C18 Interaction | Interacting Bases [7,7] | Pair Probability [[0.020833333,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.854166667,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.020833333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.104166667,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position C20 Interaction | Interacting Bases [8,8] | Pair Probability [[0.020833333,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.937500000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.020833333,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.020833333,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position C21 Insertion | Location [4] | Length Distribution [0.002262188,0.995362516,0.002262188,0.000113109] | Letter Distribution [0.020833333,0.937500000,0.020833333,0.020833333,0.000000000]// Insertion in Hairpin after nucleotide 5, position 4 Insertion | Location [6] | Length Distribution [0.002262188,0.995362516,0.002262188,0.000113109] | Letter Distribution [0.020833333,0.104166667,0.020833333,0.854166667,0.000000000]// Insertion in Hairpin after nucleotide 7, position 6Sequences of instances from HL_33074.4:
> HL_33074.4 4C4W C 11 G 22 CAUUGCACUCCG > HL_33074.4 8JY0 C 13 G 24 CAUUGCACUCCG > HL_33074.4 2NZ4 C 17A G 17L CAUUGCACUCCG > HL_33074.4 5FJ4 C 11 G 22 CAUUGCACUCCG > HL_33074.4 1M5K C 35 G 46 CAUUGCACUCCG > HL_33074.4 5DDP C 34 G 45 CAUUGCACUCCG > HL_33074.4 6F4H C 6 G 17 CAUUGCACCUCG > HL_33074.4 7DLZ C 18 G 29 CAUUGCACUCCG > HL_33074.4 7QR4 C 43 G 54 CAUUGCACUCCG > HL_33074.4 6F4H C 6 G 17 CAUUGCACCUCG > HL_33074.4 8GXB C 23 G 34 CAUUGCACUCCG > HL_33074.4 4PKD C 64 G 75 CAUUGCACUCCG > HL_33074.4 1U6B C 1002 G 1013 CAUUGCACUCCG > HL_33074.4 8GXB C 23 G 34 CAUUGCACUCCG > HL_33074.4 3CUL C 29 G 40 CAUUGCACUCCG > HL_33074.4 3HHN C 1004 G 1015 CAUUGCACUCCG > HL_33074.4 7QR3 C 43 G 54 CAUUGCACUCCG > HL_33074.4 7D7V C 27 G 38 CAUUGCACUCCG > HL_33074.4 5DDO C 34 G 45 CAUUGCACUCCG > HL_33074.4 3MXH C 65 G 75 CAUUGCACUCCG > HL_33074.4 5DDO C 34 G 45 CAUUGCACUCCG > HL_33074.4 6LAX C 15 G 26 CAUUGCACUCCG