| 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 | 9 4 I | 10 4 4 | 11 3 I | 12 3 5 | 13 2 I | 14 2 6 | 15 1 I | In acceptance region | Cutoff score | Full edit distance | Interior edit distance | Alignment score deficit |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| IL_07785.1_Instance_1 IL_07785.1,IL_8P9A_245,U429_A630 | U | U | U | A | U | A | ||||||||||||||
| IL_07785.1_Sequence_1 IL_07785.18P9A_U429_A630 | U | U | U | * | A | U | A | true | 97 | 0 | 0 | 0.31 | ||||||||
| IL_07785.1_Instance_2 IL_07785.1,IL_4Y1M_005,A103_U6 | A | U | A | U | U | U | ||||||||||||||
| IL_07785.1_Sequence_2 IL_07785.14Y1M_A103_U6 | A | U | A | * | U | U | U | true | 98 | 0 | 0 | 0.22 | ||||||||
| IL_07785.1_Instance_3 IL_07785.1,IL_8CRE_473,U1652_G1723 | U | U | A | U | U | G | ||||||||||||||
| IL_07785.1_Sequence_3 IL_07785.18CRE_U_1652_G_1723 | U | U | A | * | U | U | G | true | 97 | 0 | 0 | 0.29 | ||||||||
| IL_07785.1_Instance_4 IL_07785.1,IL_7A0S_011,A584_U575 | A | U | G | C | C | U | ||||||||||||||
| IL_07785.1_Sequence_4 IL_07785.17A0S_A584_U575 | A | U | G | * | C | C | U | true | 92 | 0 | 0 | 0.76 | ||||||||
| IL_07785.1_Instance_5 IL_07785.1,IL_7A0S_107,U82_G99 | U | C | G | C | C | G | ||||||||||||||
| IL_07785.1_Sequence_5 IL_07785.17A0S_U82_G99 | U | C | G | * | C | C | G | true | 79 | 0 | 0 | 2.04 | ||||||||
| IL_07785.1_Instance_6 IL_07785.1,IL_8CRE_464,U1483_G1498 | U | U | G | C | U | G | ||||||||||||||
| IL_07785.1_Sequence_6 IL_07785.18CRE_U_1483_G_1498 | U | U | G | * | C | U | G | true | 99 | 0 | 0 | 0.08 | ||||||||
| IL_07785.1_Instance_7 IL_07785.1,IL_4KYY_002,U8_G10 | U | U | G | U | U | G | ||||||||||||||
| IL_07785.1_Sequence_7 IL_07785.14KYY_U8_G10 | U | U | G | * | U | U | G | true | 83 | 0 | 0 | 1.58 | ||||||||
| IL_07785.1_Instance_8 IL_07785.1,IL_7QQP_007,A12_U9 | A | C | U | A | C | U | ||||||||||||||
| IL_07785.1_Sequence_8 IL_07785.17QQP_A12_U9 | A | C | U | * | A | C | U | true | 76 | 0 | 0 | 2.24 | ||||||||
| IL_07785.1_Instance_9 IL_07785.1,IL_9DFE_013,A575_U566 | A | U | G | C | C | U | ||||||||||||||
| IL_07785.1_Sequence_9 IL_07785.19DFE_A575_U566 | A | U | G | * | C | C | U | true | 92 | 0 | 0 | 0.76 | ||||||||
| IL_07785.1_Instance_10 IL_07785.1,IL_4WF9_018,U705_G640 | U | U | G | U | U | G | ||||||||||||||
| IL_07785.1_Sequence_10 IL_07785.14WF9_U705_G640 | U | U | G | * | U | U | G | true | 83 | 0 | 0 | 1.58 | ||||||||
| IL_07785.1_Instance_11 IL_07785.1,IL_5J7L_257,A575_U566 | A | U | G | C | C | U | ||||||||||||||
| IL_07785.1_Sequence_11 IL_07785.15J7L_A575_U566 | A | U | G | * | C | C | U | true | 92 | 0 | 0 | 0.76 | ||||||||
| IL_07785.1_Instance_12 IL_07785.1,IL_4WF9_017,A618_U609 | A | U | G | C | C | U | ||||||||||||||
| IL_07785.1_Sequence_12 IL_07785.14WF9_A618_U609 | A | U | G | * | C | C | U | true | 92 | 0 | 0 | 0.76 | ||||||||
| IL_07785.1_Instance_13 IL_07785.1,IL_8P9A_459,U1665_G1736 | U | U | A | U | U | G | ||||||||||||||
| IL_07785.1_Sequence_13 IL_07785.18P9A_U_1665_G_1736 | U | U | A | * | U | U | G | true | 97 | 0 | 0 | 0.29 | ||||||||
| IL_07785.1_Instance_14 IL_07785.1,IL_4V83_235,G6173_C6155 | G | U | G | C | U | C | ||||||||||||||
| IL_07785.1_Sequence_14 IL_07785.14V83_G_6173_C_6155 | G | U | G | * | C | U | C | true | 100 | 0 | 0 | 0.00 | ||||||||
| IL_07785.1_Instance_15 IL_07785.1,IL_8P9A_415,G819_C852 | G | U | U | U | A | U | C | |||||||||||||
| IL_07785.1_Sequence_15 IL_07785.18P9A_G819_C852 | G | U | U | U | * | A | U | C | true | 69 | 0 | 0 | 2.97 | |||||||
| IL_07785.1_Instance_16 IL_07785.1,IL_4V9F_097,G2855_C2903 | G | A | C | G | C | A | C | |||||||||||||
| IL_07785.1_Sequence_16 IL_07785.14V9F_G_2855_C_2903 | G | A | C | * | G | C | A | C | true | 77 | 0 | 0 | 2.14 | |||||||
| IL_07785.1_Instance_17 IL_07785.1,IL_8P9A_471,U1369_G1354 | U | UA | U | C | G | U | G | |||||||||||||
| IL_07785.1_Sequence_17 IL_07785.18P9A_U_1369_G_1354 | U | UA | U | C | * | G | U | G | true | 43 | 0 | 0 | 5.42 | |||||||
| IL_07785.1_Instance_18 IL_07785.1,IL_4WF9_095,C2537_G2605 | C | U | C | G | C | GA | G | |||||||||||||
| IL_07785.1_Sequence_18 IL_07785.14WF9_C_2537_G_2605 | C | U | C | * | G | C | GA | G | true | 67 | 0 | 0 | 3.12 | |||||||
| IL_07785.1_Instance_19 IL_07785.1,IL_9DFE_097,C2510_G2578 | C | U | C | G | C | GA | G | |||||||||||||
| IL_07785.1_Sequence_19 IL_07785.19DFE_C_2510_G_2578 | C | U | C | * | G | C | GA | G | true | 67 | 0 | 0 | 3.12 | |||||||
| IL_07785.1_Instance_20 IL_07785.1,IL_8CRE_116,C2851_G2919 | C | U | C | G | U | GA | G | |||||||||||||
| IL_07785.1_Sequence_20 IL_07785.18CRE_C_2851_G_2919 | C | U | C | * | G | U | GA | G | true | 75 | 0 | 0 | 2.36 | |||||||
| IL_07785.1_Instance_21 IL_07785.1,IL_7DLZ_003,G12_C36 | G | A | G | C | C | A | C | |||||||||||||
| IL_07785.1_Sequence_21 IL_07785.17DLZ_G12_C36 | G | A | G | * | C | C | A | C | true | 78 | 0 | 0 | 2.14 | |||||||
| IL_07785.1_Instance_22 IL_07785.1,IL_5B2P_002,G28_C46 | G | U | U | G | C | U | C | |||||||||||||
| IL_07785.1_Sequence_22 IL_07785.15B2P_G28_C46 | G | U | U | G | * | C | U | C | true | 72 | 0 | 0 | 2.70 | |||||||
| IL_07785.1_Instance_23 IL_07785.1,IL_4PKD_001,G106_C89 | G | U | U | A | U | A | C | |||||||||||||
| IL_07785.1_Sequence_23 IL_07785.14PKD_G106_C89 | G | U | U | * | A | U | A | C | true | 79 | 0 | 0 | 1.99 | |||||||
| IL_07785.1_Instance_24 IL_07785.1,IL_8P9A_335,C2879_G2947 | C | U | C | G | U | GA | G | |||||||||||||
| IL_07785.1_Sequence_24 IL_07785.18P9A_C_2879_G_2947 | C | U | C | * | G | U | GA | G | true | 75 | 0 | 0 | 2.36 | |||||||
| IL_07785.1_Instance_25 IL_07785.1,IL_7A0S_089,C2489_G2557 | C | U | C | G | C | GA | G | |||||||||||||
| IL_07785.1_Sequence_25 IL_07785.17A0S_C_2489_G_2557 | C | U | C | * | G | C | GA | G | true | 67 | 0 | 0 | 3.12 | |||||||
| IL_07785.1_Instance_26 IL_07785.1,IL_5J7L_340,C2510_G2578 | C | U | C | G | C | GA | G | |||||||||||||
| IL_07785.1_Sequence_26 IL_07785.15J7L_C_2510_G_2578 | C | U | C | * | G | C | GA | G | true | 67 | 0 | 0 | 3.12 | |||||||
| IL_07785.1_Instance_27 IL_07785.1,IL_8CRE_064,U1394_G1408 | U | U | U | G | C | U | G | |||||||||||||
| IL_07785.1_Sequence_27 IL_07785.18CRE_U_1394_G_1408 | U | U | U | G | * | C | U | G | true | 71 | 0 | 0 | 2.77 | |||||||
| IL_07785.1_Instance_28 IL_07785.1,IL_5ML7_010,U2181_A2199 | U | A | C | G | C | C | A | |||||||||||||
| IL_07785.1_Sequence_28 IL_07785.15ML7_U_2181_A_2199 | U | A | C | * | G | C | C | A | true | 61 | 0 | 0 | 3.70 | |||||||
| IL_07785.1_Instance_29 IL_07785.1,IL_4V9F_087,U2545_G2613 | U | U | C | G | U | GA | G | |||||||||||||
| IL_07785.1_Sequence_29 IL_07785.14V9F_U_2545_G_2613 | U | U | C | * | G | U | GA | G | true | 73 | 0 | 0 | 2.53 | |||||||
| IL_07785.1_Instance_30 IL_07785.1,IL_7A0S_112,C19_G69 | C | A | C | G | C | A | G | |||||||||||||
| IL_07785.1_Sequence_30 IL_07785.17A0S_C19_G69 | C | A | C | * | G | C | A | G | true | 78 | 0 | 0 | 2.04 | |||||||
| IL_07785.1_Instance_31 IL_07785.1,IL_8CRE_150,U64_A96 | U | A | A | U | C | G | A | |||||||||||||
| IL_07785.1_Sequence_31 IL_07785.18CRE_U64_A96 | U | A | A | * | U | C | G | A | true | 74 | 0 | 0 | 2.48 | |||||||
| IL_07785.1_Instance_32 IL_07785.1,IL_8P9A_371,U64_A96 | U | A | A | U | C | G | A | |||||||||||||
| IL_07785.1_Sequence_32 IL_07785.18P9A_U64_A96 | U | A | A | * | U | C | G | A | true | 74 | 0 | 0 | 2.48 | |||||||
| IL_07785.1_Instance_33 IL_07785.1,IL_7ELQ_002,C15_G36 | C | A | G | C | C | CG | G | |||||||||||||
| IL_07785.1_Sequence_33 IL_07785.17ELQ_C15_G36 | C | A | G | * | C | C | CG | G | true | 55 | 0 | 0 | 4.31 |
1 2 s35 1 6 cWW 2 3 s35 2 5 cWW 2 6 s55 3 4 cWW 3 5 s55 4 5 s35 5 6 s35JAR3D SCFG/MRF model for IL_07785.1:
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 [6] // Initial node BasepairNode | Deletion Probability [0.0000002742290896] | Pair Probability [[0.007616767,0.013631137,0.008873864,0.164651631,0.000000000],[0.073924421,0.011232688,0.181557405,0.010241111,0.000000000],[0.008944073,0.165268252,0.001846015,0.020726326,0.000000000],[0.159590649,0.009965294,0.153232092,0.008698273,0.000000000],[0.000000000,0.000000000,0.000000000,0.000000000,0.000000000]] | Left Length Distribution [0.877368673,0.092123023,0.030453305,0.000052707,0.000002292] | Left Letter Distribution [0.214285714,0.071428571,0.071428571,0.642857143,0.000000000] | Right Length Distribution [0.544534612,0.212829798,0.242234759,0.000382507,0.000018324] | Right Letter Distribution [0.460000000,0.100000000,0.420000000,0.020000000,0.000000000] | Left Index [1] | Right Index [6] // Basepair U429 - A630 cWW BasepairNode | Deletion Probability [0.0000244705618206] | Pair Probability [[0.012026214,0.212886471,0.017547247,0.017721795,0.000000000],[0.013467489,0.045681108,0.016521712,0.078193960,0.000000000],[0.016868910,0.017130199,0.003047856,0.043938483,0.000000000],[0.015753350,0.151456595,0.013513350,0.324245261,0.000000000],[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 [5] // Basepair U430 - U629 cWW BasepairNode | Deletion Probability [0.0000249735224443] | Pair Probability [[0.007580968,0.027541873,0.008374980,0.185777216,0.000000000],[0.014276863,0.007544614,0.230597314,0.009821300,0.000000000],[0.008360285,0.230893610,0.001646337,0.051284487,0.000000000],[0.175840424,0.009898534,0.021138811,0.009422385,0.000000000],[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 [3] | Right Index [4] // Basepair U431 - A628 cWW HairpinNode | Num Bases [1] | Left Index [4] | Right Index [4] | 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_07785.1:
> IL_07785.1 8P9A U 429 A 630 UUU*AUA > IL_07785.1 4Y1M A 103 U 6 AUA*UUU > IL_07785.1 8CRE U 1652 G 1723 UUA*UUG > IL_07785.1 7A0S A 584 U 575 AUG*CCU > IL_07785.1 7A0S U 82 G 99 UCG*CCG > IL_07785.1 8CRE U 1483 G 1498 UUG*CUG > IL_07785.1 4KYY U 8 G 10 UUG*UUG > IL_07785.1 7QQP A 12 U 9 ACU*ACU > IL_07785.1 9DFE A 575 U 566 AUG*CCU > IL_07785.1 4WF9 U 705 G 640 UUG*UUG > IL_07785.1 5J7L A 575 U 566 AUG*CCU > IL_07785.1 4WF9 A 618 U 609 AUG*CCU > IL_07785.1 8P9A U 1665 G 1736 UUA*UUG > IL_07785.1 4V83 G 6173 C 6155 GUG*CUC > IL_07785.1 8P9A G 819 C 852 GUUU*AUC > IL_07785.1 4V9F G 2855 C 2903 GAC*GCAC > IL_07785.1 8P9A U 1369 G 1354 UUAUC*GUG > IL_07785.1 4WF9 C 2537 G 2605 CUC*GCGAG > IL_07785.1 9DFE C 2510 G 2578 CUC*GCGAG > IL_07785.1 8CRE C 2851 G 2919 CUC*GUGAG > IL_07785.1 7DLZ G 12 C 36 GAG*CCAC > IL_07785.1 5B2P G 28 C 46 GUUG*CUC > IL_07785.1 4PKD G 106 C 89 GUU*AUAC > IL_07785.1 8P9A C 2879 G 2947 CUC*GUGAG > IL_07785.1 7A0S C 2489 G 2557 CUC*GCGAG > IL_07785.1 5J7L C 2510 G 2578 CUC*GCGAG > IL_07785.1 8CRE U 1394 G 1408 UUUG*CUG > IL_07785.1 5ML7 U 2181 A 2199 UAC*GCCA > IL_07785.1 4V9F U 2545 G 2613 UUC*GUGAG > IL_07785.1 7A0S C 19 G 69 CAC*GCAG > IL_07785.1 8CRE U 64 A 96 UAA*UCGA > IL_07785.1 8P9A U 64 A 96 UAA*UCGA > IL_07785.1 7ELQ C 15 G 36 CAG*CCCGG