| 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 2 I | 6 2 3 | 7 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HL_48778.2_Instance_1 HL_48778.2,HL_8P9A_151,C1792_G1796 | C | CG | U | G | ||||||||
| HL_48778.2_Sequence_1 HL_48778.28P9A_C_1792_G_1796 | C | C | G | U | G | true | 55 | 0 | 0 | 4.30 | ||
| HL_48778.2_Instance_2 HL_48778.2,HL_7QR8_002,C55_G58 | C | U | A | G | ||||||||
| HL_48778.2_Sequence_2 HL_48778.27QR8_C55_G58 | C | U | A | G | true | 100 | 0 | 0 | 0.00 | |||
| HL_48778.2_Instance_3 HL_48778.2,HL_6LTU_001,U12_A16 | U | UU | C | A | ||||||||
| HL_48778.2_Sequence_3 HL_48778.26LTU_U12_A16 | U | UU | C | A | true | 71 | 0 | 0 | 2.76 | |||
| HL_48778.2_Instance_4 HL_48778.2,HL_2F8K_001,U6_A9 | U | U | G | A | ||||||||
| HL_48778.2_Sequence_4 HL_48778.22F8K_U6_A9 | U | U | G | A | true | 79 | 0 | 0 | 2.04 | |||
| HL_48778.2_Instance_5 HL_48778.2,HL_7QQP_002,C55_G58 | C | U | A | G | ||||||||
| HL_48778.2_Sequence_5 HL_48778.27QQP_C55_G58 | C | U | A | G | true | 100 | 0 | 0 | 0.00 | |||
| HL_48778.2_Instance_6 HL_48778.2,HL_5B2T_002,C55_G58 | C | U | A | G | ||||||||
| HL_48778.2_Sequence_6 HL_48778.25B2T_C55_G58 | C | U | A | G | true | 100 | 0 | 0 | 0.00 | |||
| HL_48778.2_Instance_7 HL_48778.2,HL_7QQX_002,C55_G58 | C | U | A | G | ||||||||
| HL_48778.2_Sequence_7 HL_48778.27QQX_C55_G58 | C | U | A | G | true | 100 | 0 | 0 | 0.00 | |||
| HL_48778.2_Instance_8 HL_48778.2,HL_7QR0_002,C55_G58 | C | U | A | G | ||||||||
| HL_48778.2_Sequence_8 HL_48778.27QR0_C55_G58 | C | U | A | G | true | 100 | 0 | 0 | 0.00 | |||
| HL_48778.2_Instance_9 HL_48778.2,HL_7D3J_001,C12_G16 | C | AU | C | G | ||||||||
| HL_48778.2_Sequence_9 HL_48778.27D3J_C12_G16 | C | AU | C | G | true | 68 | 0 | 0 | 3.00 | |||
| HL_48778.2_Instance_10 HL_48778.2,HL_8CRE_039,C1788_G1792 | C | CU | U | G | ||||||||
| HL_48778.2_Sequence_10 HL_48778.28CRE_C_1788_G_1792 | C | C | U | U | G | true | 67 | 0 | 0 | 3.13 | ||
| HL_48778.2_Instance_11 HL_48778.2,HL_6MSF_001,G6_C10 | G | U | C | A | C | |||||||
| HL_48778.2_Sequence_11 HL_48778.26MSF_G6_C10 | G | U | C | A | C | true | 66 | 0 | 0 | 3.24 | ||
| HL_48778.2_Instance_12 HL_48778.2,HL_8VMA_002,C37_G40 | C | A | C | G | ||||||||
| HL_48778.2_Sequence_12 HL_48778.28VMA_C37_G40 | C | A | C | G | true | 88 | 0 | 0 | 1.19 | |||
| HL_48778.2_Instance_13 HL_48778.2,HL_5U30_001,U4_A7 | U | A | G | A | ||||||||
| HL_48778.2_Sequence_13 HL_48778.25U30_U4_A7 | U | A | G | A | true | 67 | 0 | 0 | 3.09 | |||
| HL_48778.2_Instance_14 HL_48778.2,HL_4V9F_041,C1651_G1655 | C | CA | U | G | ||||||||
| HL_48778.2_Sequence_14 HL_48778.24V9F_C_1651_G_1655 | C | C | A | U | G | true | 68 | 0 | 0 | 3.06 | ||
| HL_48778.2_Instance_15 HL_48778.2,HL_5FQ5_002,C55_G58 | C | U | A | G | ||||||||
| HL_48778.2_Sequence_15 HL_48778.25FQ5_C55_G58 | C | U | A | G | true | 100 | 0 | 0 | 0.00 | |||
| HL_48778.2_Instance_16 HL_48778.2,HL_5VW1_002,C55_G58 | C | U | A | G | ||||||||
| HL_48778.2_Sequence_16 HL_48778.25VW1_C55_G58 | C | U | A | G | true | 100 | 0 | 0 | 0.00 | |||
| HL_48778.2_Instance_17 HL_48778.2,HL_7ZO1_002,C55_G58 | C | U | A | G | ||||||||
| HL_48778.2_Sequence_17 HL_48778.27ZO1_C55_G58 | C | U | A | G | true | 100 | 0 | 0 | 0.00 | |||
| HL_48778.2_Instance_18 HL_48778.2,HL_8P9A_182,C3350_G3353 | C | U | U | G | ||||||||
| HL_48778.2_Sequence_18 HL_48778.28P9A_C_3350_G_3353 | C | U | U | G | true | 99 | 0 | 0 | 0.07 | |||
| HL_48778.2_Instance_19 HL_48778.2,HL_8KAJ_001,C55_G58 | C | U | A | G | ||||||||
| HL_48778.2_Sequence_19 HL_48778.28KAJ_C55_G58 | C | U | A | G | true | 100 | 0 | 0 | 0.00 | |||
| HL_48778.2_Instance_20 HL_48778.2,HL_7EU9_001,C12_G16 | C | AU | C | G | ||||||||
| HL_48778.2_Sequence_20 HL_48778.27EU9_C12_G16 | C | AU | C | G | true | 68 | 0 | 0 | 3.00 | |||
| HL_48778.2_Instance_21 HL_48778.2,HL_8DP3_002,C39_G43 | C | A | U | U | G | |||||||
| HL_48778.2_Sequence_21 HL_48778.28DP3_C39_G43 | C | A | U | U | G | true | 77 | 0 | 0 | 2.23 | ||
| HL_48778.2_Instance_22 HL_48778.2,HL_6MSF_002,G6_C10 | G | U | C | A | C | |||||||
| HL_48778.2_Sequence_22 HL_48778.26MSF_G6_C10 | G | U | C | A | C | true | 66 | 0 | 0 | 3.24 | ||
| HL_48778.2_Instance_23 HL_48778.2,HL_8KAL_002,C55_G58 | C | U | A | G | ||||||||
| HL_48778.2_Sequence_23 HL_48778.28KAL_C55_G58 | C | U | A | G | true | 100 | 0 | 0 | 0.00 | |||
| HL_48778.2_Instance_24 HL_48778.2,HL_5J7L_204,G86_C90 | G | U | C | U | C | |||||||
| HL_48778.2_Sequence_24 HL_48778.25J7L_G86_C90 | G | U | C | U | C | true | 78 | 0 | 0 | 2.05 | ||
| HL_48778.2_Instance_25 HL_48778.2,HL_7A0S_017,C553_G558 | C | UUA | U | G | ||||||||
| HL_48778.2_Sequence_25 HL_48778.27A0S_C553_G558 | C | UU | A | U | G | true | 69 | 0 | 0 | 2.93 | ||
| HL_48778.2_Instance_26 HL_48778.2,HL_8VMB_002,C37_G40 | C | A | C | G | ||||||||
| HL_48778.2_Sequence_26 HL_48778.28VMB_C37_G40 | C | A | C | G | true | 88 | 0 | 0 | 1.19 | |||
| HL_48778.2_Instance_27 HL_48778.2,HL_5F9R_002,C73_G76 | C | U | A | G | ||||||||
| HL_48778.2_Sequence_27 HL_48778.25F9R_C73_G76 | C | U | A | G | true | 100 | 0 | 0 | 0.00 | |||
| HL_48778.2_Instance_28 HL_48778.2,HL_9DFE_037,C1565_G1568 | C | A | A | G | ||||||||
| HL_48778.2_Sequence_28 HL_48778.29DFE_C_1565_G_1568 | C | A | A | G | true | 89 | 0 | 0 | 1.05 | |||
| HL_48778.2_Instance_29 HL_48778.2,HL_5SWD_005,U47_A52 | U | UU | C | U | A | |||||||
| HL_48778.2_Sequence_29 HL_48778.25SWD_U47_A52 | U | UU | C | U | A | true | 59 | 0 | 0 | 3.87 | ||
| HL_48778.2_Instance_30 HL_48778.2,HL_5J7L_172,C1565_G1568 | C | A | G | G | ||||||||
| HL_48778.2_Sequence_30 HL_48778.25J7L_C_1565_G_1568 | C | A | G | G | true | 76 | 0 | 0 | 2.28 | |||
| HL_48778.2_Instance_31 HL_48778.2,HL_6JOO_002,C58_G61 | C | U | C | G | ||||||||
| HL_48778.2_Sequence_31 HL_48778.26JOO_C58_G61 | C | U | C | G | true | 99 | 0 | 0 | 0.14 | |||
| HL_48778.2_Instance_32 HL_48778.2,HL_4LFB_018,G838_C848 | G | U | C | U | C | |||||||
| HL_48778.2_Sequence_32 HL_48778.24LFB_G838_C848 | G | U | C | U | C | true | 78 | 0 | 0 | 2.05 | ||
| HL_48778.2_Instance_33 HL_48778.2,HL_7A0S_039,C1581_G1584 | C | A | A | G | ||||||||
| HL_48778.2_Sequence_33 HL_48778.27A0S_C_1581_G_1584 | C | A | A | G | true | 89 | 0 | 0 | 1.05 | |||
| HL_48778.2_Instance_34 HL_48778.2,HL_4L8H_001,C9_G13 | C | U | A | A | G | |||||||
| HL_48778.2_Sequence_34 HL_48778.24L8H_C9_G13 | C | U | A | A | G | true | 76 | 0 | 0 | 2.30 | ||
| HL_48778.2_Instance_35 HL_48778.2,HL_4V9F_021,C712_G716 | C | U | U | U | G | |||||||
| HL_48778.2_Sequence_35 HL_48778.24V9F_C712_G716 | C | U | U | U | G | true | 88 | 0 | 0 | 1.18 | ||
| HL_48778.2_Instance_36 HL_48778.2,HL_2B3J_003,C32_G37 | C | UAC | G | G | ||||||||
| HL_48778.2_Sequence_36 HL_48778.22B3J_C32_G37 | C | UA | C | G | G | true | 24 | 0 | 0 | 7.25 | ||
| HL_48778.2_Instance_37 HL_48778.2,HL_8X5V_003,U91_A96 | U | UU | U | U | A | |||||||
| HL_48778.2_Sequence_37 HL_48778.28X5V_U91_A96 | U | UU | U | U | A | true | 60 | 0 | 0 | 3.80 | ||
| HL_48778.2_Instance_38 HL_48778.2,HL_5AH5_007,C46A_G46E | C | U | C | U | G | |||||||
| HL_48778.2_Sequence_38 HL_48778.25AH5_C46A_G46E | C | U | C | U | G | true | 87 | 0 | 0 | 1.25 | ||
| HL_48778.2_Instance_39 HL_48778.2,HL_8P9A_196,C276_G279 | C | U | U | G | ||||||||
| HL_48778.2_Sequence_39 HL_48778.28P9A_C276_G279 | C | U | U | G | true | 99 | 0 | 0 | 0.07 | |||
| HL_48778.2_Instance_40 HL_48778.2,HL_8CRE_070,C3315_G3318 | C | U | U | G | ||||||||
| HL_48778.2_Sequence_40 HL_48778.28CRE_C_3315_G_3318 | C | U | U | G | true | 99 | 0 | 0 | 0.07 | |||
| HL_48778.2_Instance_41 HL_48778.2,HL_8CRE_004,C131_G135 | C | U | U | U | G | |||||||
| HL_48778.2_Sequence_41 HL_48778.28CRE_C131_G135 | C | U | U | U | G | true | 88 | 0 | 0 | 1.18 | ||
| HL_48778.2_Instance_42 HL_48778.2,HL_4YAZ_004,C56_G60 | C | C | C | U | G | |||||||
| HL_48778.2_Sequence_42 HL_48778.24YAZ_C56_G60 | C | C | C | U | G | true | 66 | 0 | 0 | 3.20 | ||
| HL_48778.2_Instance_43 HL_48778.2,HL_4KR9_001,G10_C15 | G | UG | U | C | C | |||||||
| HL_48778.2_Sequence_43 HL_48778.24KR9_G10_C15 | G | UGU | C | C | true | 25 | 0 | 0 | 7.11 | |||
| HL_48778.2_Instance_44 HL_48778.2,HL_8VM8_002,C39_G43 | C | A | U | U | G | |||||||
| HL_48778.2_Sequence_44 HL_48778.28VM8_C39_G43 | C | A | U | U | G | true | 77 | 0 | 0 | 2.23 | ||
| HL_48778.2_Instance_45 HL_48778.2,HL_4WF9_037,C1612_G1615 | C | G | A | G | ||||||||
| HL_48778.2_Sequence_45 HL_48778.24WF9_C_1612_G_1615 | C | G | A | G | true | 75 | 0 | 0 | 2.40 | |||
| HL_48778.2_Instance_46 HL_48778.2,HL_4LFB_005,C201_G216 | C | U | U | U | G | |||||||
| HL_48778.2_Sequence_46 HL_48778.24LFB_C201_G216 | C | U | U | U | G | true | 88 | 0 | 0 | 1.18 |
1 2 s35 1 3 cWW 2 3 s55JAR3D SCFG/MRF model for HL_48778.2:
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 [3] // Initial node BasepairNode | Deletion Probability [0.0000000049380097] | Pair Probability [[0.006639370,0.012221962,0.007588578,0.138885033,0.000000000],[0.014058528,0.006781890,0.391209367,0.009387578,0.000000000],[0.007648016,0.175909962,0.001456474,0.016612923,0.000000000],[0.174960384,0.009099551,0.020465947,0.007074437,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.000825193,0.759390111,0.196089526,0.043635048,0.000057764,0.000002358] | Left Letter Distribution [0.221311475,0.090163934,0.057377049,0.631147541,0.000000000] | Right Length Distribution [0.673260459,0.326331362,0.000390484,0.000017696] | Right Letter Distribution [0.205882353,0.088235294,0.029411765,0.676470588,0.000000000] | Left Index [1] | Right Index [3] // Basepair C1792 - G1796 cWW HairpinNode | Num Bases [1] | Left Index [2] | Right Index [2] | Norm Constant [1.000000000000000] // Hairpin node U1795:U1795 Interaction | Interacting Bases [1,1] | Pair Probability [[0.322916667,0.000000000,0.000000000,0.000000000,0.000000000],[0.000000000,0.281250000,0.000000000,0.000000000,0.000000000],[0.000000000,0.000000000,0.093750000,0.000000000,0.000000000],[0.000000000,0.000000000,0.000000000,0.302083333,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] // Hairpin conserved non-basepairing position U1795Sequences of instances from HL_48778.2:
> HL_48778.2 8P9A C 1792 G 1796 CCGUG > HL_48778.2 7QR8 C 55 G 58 CUAG > HL_48778.2 6LTU U 12 A 16 UUUCA > HL_48778.2 2F8K U 6 A 9 UUGA > HL_48778.2 7QQP C 55 G 58 CUAG > HL_48778.2 5B2T C 55 G 58 CUAG > HL_48778.2 7QQX C 55 G 58 CUAG > HL_48778.2 7QR0 C 55 G 58 CUAG > HL_48778.2 7D3J C 12 G 16 CAUCG > HL_48778.2 8CRE C 1788 G 1792 CCUUG > HL_48778.2 6MSF G 6 C 10 GUCAC > HL_48778.2 8VMA C 37 G 40 CACG > HL_48778.2 5U30 U 4 A 7 UAGA > HL_48778.2 4V9F C 1651 G 1655 CCAUG > HL_48778.2 5FQ5 C 55 G 58 CUAG > HL_48778.2 5VW1 C 55 G 58 CUAG > HL_48778.2 7ZO1 C 55 G 58 CUAG > HL_48778.2 8P9A C 3350 G 3353 CUUG > HL_48778.2 8KAJ C 55 G 58 CUAG > HL_48778.2 7EU9 C 12 G 16 CAUCG > HL_48778.2 8DP3 C 39 G 43 CAUUG > HL_48778.2 6MSF G 6 C 10 GUCAC > HL_48778.2 8KAL C 55 G 58 CUAG > HL_48778.2 5J7L G 86 C 90 GUCUC > HL_48778.2 7A0S C 553 G 558 CUUAUG > HL_48778.2 8VMB C 37 G 40 CACG > HL_48778.2 5F9R C 73 G 76 CUAG > HL_48778.2 9DFE C 1565 G 1568 CAAG > HL_48778.2 5SWD U 47 A 52 UUUCUA > HL_48778.2 5J7L C 1565 G 1568 CAGG > HL_48778.2 6JOO C 58 G 61 CUCG > HL_48778.2 4LFB G 838 C 848 GUCUC > HL_48778.2 7A0S C 1581 G 1584 CAAG > HL_48778.2 4L8H C 9 G 13 CUAAG > HL_48778.2 4V9F C 712 G 716 CUUUG > HL_48778.2 2B3J C 32 G 37 CUACGG > HL_48778.2 8X5V U 91 A 96 UUUUUA > HL_48778.2 5AH5 C 46A G 46E CUCUG > HL_48778.2 8P9A C 276 G 279 CUUG > HL_48778.2 8CRE C 3315 G 3318 CUUG > HL_48778.2 8CRE C 131 G 135 CUUUG > HL_48778.2 4YAZ C 56 G 60 CCCUG > HL_48778.2 4KR9 G 10 C 15 GUGUCC > HL_48778.2 8VM8 C 39 G 43 CAUUG > HL_48778.2 4WF9 C 1612 G 1615 CGAG > HL_48778.2 4LFB C 201 G 216 CUUUG