Multiple sequence alignment - TraesCS2B01G624700

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2B01G624700 chr2B 100.000 2585 0 0 564 3148 797749913 797747329 0.000000e+00 4774
1 TraesCS2B01G624700 chr2B 97.882 2597 38 9 564 3148 798009496 798006905 0.000000e+00 4475
2 TraesCS2B01G624700 chr2B 97.749 1866 32 7 564 2419 798043934 798042069 0.000000e+00 3205
3 TraesCS2B01G624700 chr2B 92.350 1085 47 7 597 1666 81554915 81553852 0.000000e+00 1511
4 TraesCS2B01G624700 chr2B 91.990 799 56 4 872 1665 797995098 797994303 0.000000e+00 1114
5 TraesCS2B01G624700 chr2B 86.643 831 73 19 1706 2503 797994103 797993278 0.000000e+00 885
6 TraesCS2B01G624700 chr2B 86.231 719 64 14 1819 2503 81553849 81553132 0.000000e+00 747
7 TraesCS2B01G624700 chr2B 94.850 466 21 3 2510 2973 14422481 14422017 0.000000e+00 725
8 TraesCS2B01G624700 chr2B 100.000 249 0 0 1 249 797750476 797750228 7.960000e-126 460
9 TraesCS2B01G624700 chr2B 99.138 232 2 0 1 232 798010212 798009981 4.860000e-113 418
10 TraesCS2B01G624700 chr2B 91.060 302 20 2 564 862 797995446 797995149 4.890000e-108 401
11 TraesCS2B01G624700 chr2B 95.181 249 12 0 1 249 798044561 798044313 8.180000e-106 394
12 TraesCS2B01G624700 chr2B 88.525 244 16 7 1 242 797995747 797995514 5.140000e-73 285
13 TraesCS2B01G624700 chr2B 88.953 172 18 1 2978 3148 798041918 798041747 8.850000e-51 211
14 TraesCS2B01G624700 chr2B 89.256 121 13 0 2974 3094 81553139 81553019 5.440000e-33 152
15 TraesCS2B01G624700 chr2B 89.256 121 13 0 2974 3094 797993285 797993165 5.440000e-33 152
16 TraesCS2B01G624700 chrUn 92.350 1085 47 7 597 1666 300926049 300924986 0.000000e+00 1511
17 TraesCS2B01G624700 chrUn 100.000 418 0 0 1133 1550 477003724 477003307 0.000000e+00 773
18 TraesCS2B01G624700 chrUn 86.231 719 64 14 1819 2503 300924983 300924266 0.000000e+00 747
19 TraesCS2B01G624700 chrUn 95.946 148 6 0 1 148 426952306 426952453 1.130000e-59 241
20 TraesCS2B01G624700 chrUn 89.256 121 13 0 2974 3094 300924273 300924153 5.440000e-33 152
21 TraesCS2B01G624700 chr2A 92.272 1087 45 9 597 1667 763320384 763321447 0.000000e+00 1506
22 TraesCS2B01G624700 chr2A 92.250 800 52 5 872 1666 764218831 764218037 0.000000e+00 1125
23 TraesCS2B01G624700 chr2A 86.092 719 65 14 1819 2503 764218034 764217317 0.000000e+00 741
24 TraesCS2B01G624700 chr2A 87.411 564 39 9 1869 2421 763321639 763322181 1.240000e-173 619
25 TraesCS2B01G624700 chr2A 84.912 570 57 10 1106 1667 764474796 764474248 1.650000e-152 549
26 TraesCS2B01G624700 chr2A 91.060 302 20 2 564 862 764219179 764218882 4.890000e-108 401
27 TraesCS2B01G624700 chr2A 88.430 121 14 0 2974 3094 764217324 764217204 2.530000e-31 147
28 TraesCS2B01G624700 chr2A 95.588 68 3 0 1815 1882 763321555 763321622 3.320000e-20 110
29 TraesCS2B01G624700 chr6D 95.279 466 20 2 2510 2973 461255514 461255049 0.000000e+00 737
30 TraesCS2B01G624700 chr1B 95.269 465 21 1 2510 2973 588152684 588152220 0.000000e+00 736
31 TraesCS2B01G624700 chr6B 95.054 465 22 1 2510 2973 30418914 30418450 0.000000e+00 730
32 TraesCS2B01G624700 chr4A 94.839 465 23 1 2510 2973 689221809 689222273 0.000000e+00 725
33 TraesCS2B01G624700 chr3B 94.839 465 23 1 2510 2973 39530212 39530676 0.000000e+00 725
34 TraesCS2B01G624700 chr3B 94.828 464 23 1 2511 2973 755285613 755285150 0.000000e+00 723
35 TraesCS2B01G624700 chr4B 93.542 480 29 2 2509 2986 608827942 608827463 0.000000e+00 713


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G624700 chr2B 797747329 797750476 3147 True 2617.000000 4774 100.0000 1 3148 2 chr2B.!!$R3 3147
1 TraesCS2B01G624700 chr2B 798006905 798010212 3307 True 2446.500000 4475 98.5100 1 3148 2 chr2B.!!$R5 3147
2 TraesCS2B01G624700 chr2B 798041747 798044561 2814 True 1270.000000 3205 93.9610 1 3148 3 chr2B.!!$R6 3147
3 TraesCS2B01G624700 chr2B 81553019 81554915 1896 True 803.333333 1511 89.2790 597 3094 3 chr2B.!!$R2 2497
4 TraesCS2B01G624700 chr2B 797993165 797995747 2582 True 567.400000 1114 89.4948 1 3094 5 chr2B.!!$R4 3093
5 TraesCS2B01G624700 chrUn 300924153 300926049 1896 True 803.333333 1511 89.2790 597 3094 3 chrUn.!!$R2 2497
6 TraesCS2B01G624700 chr2A 763320384 763322181 1797 False 745.000000 1506 91.7570 597 2421 3 chr2A.!!$F1 1824
7 TraesCS2B01G624700 chr2A 764217204 764219179 1975 True 603.500000 1125 89.4580 564 3094 4 chr2A.!!$R2 2530
8 TraesCS2B01G624700 chr2A 764474248 764474796 548 True 549.000000 549 84.9120 1106 1667 1 chr2A.!!$R1 561

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
621 1114 3.362986 CGTAGCTTGTACTTGCACAACAG 60.363 47.826 11.89 0.0 34.75 3.16 F
1764 2474 1.608283 GCTGTCTACCACTTCACCCAC 60.608 57.143 0.00 0.0 0.00 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2024 2853 0.167251 CGGTTGTACGTCCAAATGGC 59.833 55.000 0.0 0.0 34.44 4.40 R
2911 3821 1.888512 TCTTCAGCCCTTCAACATTGC 59.111 47.619 0.0 0.0 0.00 3.56 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
621 1114 3.362986 CGTAGCTTGTACTTGCACAACAG 60.363 47.826 11.89 0.00 34.75 3.16
1057 1595 9.444600 GATACTTAAAAGTCCAATTACACAGGA 57.555 33.333 0.00 0.00 40.37 3.86
1550 2097 2.147958 GCAATTACGTTGACCTGTCCA 58.852 47.619 0.00 0.00 40.37 4.02
1764 2474 1.608283 GCTGTCTACCACTTCACCCAC 60.608 57.143 0.00 0.00 0.00 4.61
1946 2775 4.635765 CGGGAGATTTTGAAAGCAGTATCA 59.364 41.667 0.00 0.00 0.00 2.15
2009 2838 5.647658 TGAGTCACTGAAGTTTGTCACAAAT 59.352 36.000 6.17 0.00 0.00 2.32
2024 2853 4.006989 TCACAAATGAAGGAACGTATGGG 58.993 43.478 0.00 0.00 0.00 4.00
2389 3229 2.881074 CAGTCCTCGTCGATGTTTCAT 58.119 47.619 4.21 0.00 0.00 2.57
2499 3409 2.424956 GCTTGAGGCTGAATAAACCTGG 59.575 50.000 0.00 0.00 38.06 4.45
2500 3410 3.873801 GCTTGAGGCTGAATAAACCTGGA 60.874 47.826 0.00 0.00 38.06 3.86
2501 3411 4.335416 CTTGAGGCTGAATAAACCTGGAA 58.665 43.478 0.00 0.00 32.67 3.53
2502 3412 4.380843 TGAGGCTGAATAAACCTGGAAA 57.619 40.909 0.00 0.00 32.67 3.13
2503 3413 4.335416 TGAGGCTGAATAAACCTGGAAAG 58.665 43.478 0.00 0.00 32.67 2.62
2504 3414 3.696548 GAGGCTGAATAAACCTGGAAAGG 59.303 47.826 0.00 0.00 32.67 3.11
2505 3415 3.333680 AGGCTGAATAAACCTGGAAAGGA 59.666 43.478 0.00 0.00 30.82 3.36
2506 3416 4.086457 GGCTGAATAAACCTGGAAAGGAA 58.914 43.478 0.00 0.00 0.00 3.36
2507 3417 4.158579 GGCTGAATAAACCTGGAAAGGAAG 59.841 45.833 0.00 0.00 0.00 3.46
2508 3418 4.158579 GCTGAATAAACCTGGAAAGGAAGG 59.841 45.833 0.00 0.00 39.65 3.46
2509 3419 4.672899 TGAATAAACCTGGAAAGGAAGGG 58.327 43.478 0.00 0.00 37.94 3.95
2510 3420 4.355588 TGAATAAACCTGGAAAGGAAGGGA 59.644 41.667 0.00 0.00 37.94 4.20
2511 3421 2.980246 AAACCTGGAAAGGAAGGGAG 57.020 50.000 0.00 0.00 37.94 4.30
2512 3422 1.834540 AACCTGGAAAGGAAGGGAGT 58.165 50.000 0.00 0.00 37.94 3.85
2513 3423 1.068121 ACCTGGAAAGGAAGGGAGTG 58.932 55.000 0.00 0.00 37.94 3.51
2514 3424 1.068121 CCTGGAAAGGAAGGGAGTGT 58.932 55.000 0.00 0.00 0.00 3.55
2515 3425 1.271597 CCTGGAAAGGAAGGGAGTGTG 60.272 57.143 0.00 0.00 0.00 3.82
2516 3426 0.771127 TGGAAAGGAAGGGAGTGTGG 59.229 55.000 0.00 0.00 0.00 4.17
2517 3427 0.771755 GGAAAGGAAGGGAGTGTGGT 59.228 55.000 0.00 0.00 0.00 4.16
2518 3428 1.145119 GGAAAGGAAGGGAGTGTGGTT 59.855 52.381 0.00 0.00 0.00 3.67
2519 3429 2.424379 GGAAAGGAAGGGAGTGTGGTTT 60.424 50.000 0.00 0.00 0.00 3.27
2520 3430 3.296854 GAAAGGAAGGGAGTGTGGTTTT 58.703 45.455 0.00 0.00 0.00 2.43
2521 3431 2.364972 AGGAAGGGAGTGTGGTTTTG 57.635 50.000 0.00 0.00 0.00 2.44
2522 3432 1.569072 AGGAAGGGAGTGTGGTTTTGT 59.431 47.619 0.00 0.00 0.00 2.83
2523 3433 2.024369 AGGAAGGGAGTGTGGTTTTGTT 60.024 45.455 0.00 0.00 0.00 2.83
2524 3434 2.764010 GGAAGGGAGTGTGGTTTTGTTT 59.236 45.455 0.00 0.00 0.00 2.83
2525 3435 3.955551 GGAAGGGAGTGTGGTTTTGTTTA 59.044 43.478 0.00 0.00 0.00 2.01
2526 3436 4.037565 GGAAGGGAGTGTGGTTTTGTTTAG 59.962 45.833 0.00 0.00 0.00 1.85
2527 3437 2.956333 AGGGAGTGTGGTTTTGTTTAGC 59.044 45.455 0.00 0.00 0.00 3.09
2528 3438 2.956333 GGGAGTGTGGTTTTGTTTAGCT 59.044 45.455 0.00 0.00 0.00 3.32
2529 3439 3.383505 GGGAGTGTGGTTTTGTTTAGCTT 59.616 43.478 0.00 0.00 0.00 3.74
2530 3440 4.359706 GGAGTGTGGTTTTGTTTAGCTTG 58.640 43.478 0.00 0.00 0.00 4.01
2531 3441 4.097286 GGAGTGTGGTTTTGTTTAGCTTGA 59.903 41.667 0.00 0.00 0.00 3.02
2532 3442 5.248870 AGTGTGGTTTTGTTTAGCTTGAG 57.751 39.130 0.00 0.00 0.00 3.02
2533 3443 3.796717 GTGTGGTTTTGTTTAGCTTGAGC 59.203 43.478 0.00 0.00 42.49 4.26
2545 3455 1.854227 GCTTGAGCTACACGATACCC 58.146 55.000 0.00 0.00 38.21 3.69
2546 3456 1.538419 GCTTGAGCTACACGATACCCC 60.538 57.143 0.00 0.00 38.21 4.95
2547 3457 2.032620 CTTGAGCTACACGATACCCCT 58.967 52.381 0.00 0.00 0.00 4.79
2548 3458 2.154567 TGAGCTACACGATACCCCTT 57.845 50.000 0.00 0.00 0.00 3.95
2549 3459 3.301794 TGAGCTACACGATACCCCTTA 57.698 47.619 0.00 0.00 0.00 2.69
2550 3460 3.840991 TGAGCTACACGATACCCCTTAT 58.159 45.455 0.00 0.00 0.00 1.73
2551 3461 3.825014 TGAGCTACACGATACCCCTTATC 59.175 47.826 0.00 0.00 34.21 1.75
2552 3462 4.080687 GAGCTACACGATACCCCTTATCT 58.919 47.826 0.00 0.00 35.28 1.98
2553 3463 4.481072 AGCTACACGATACCCCTTATCTT 58.519 43.478 0.00 0.00 35.28 2.40
2554 3464 5.638133 AGCTACACGATACCCCTTATCTTA 58.362 41.667 0.00 0.00 35.28 2.10
2555 3465 5.711036 AGCTACACGATACCCCTTATCTTAG 59.289 44.000 0.00 0.00 35.28 2.18
2556 3466 4.868314 ACACGATACCCCTTATCTTAGC 57.132 45.455 0.00 0.00 35.28 3.09
2557 3467 3.577415 ACACGATACCCCTTATCTTAGCC 59.423 47.826 0.00 0.00 35.28 3.93
2558 3468 3.576982 CACGATACCCCTTATCTTAGCCA 59.423 47.826 0.00 0.00 35.28 4.75
2559 3469 4.223032 CACGATACCCCTTATCTTAGCCAT 59.777 45.833 0.00 0.00 35.28 4.40
2560 3470 4.466726 ACGATACCCCTTATCTTAGCCATC 59.533 45.833 0.00 0.00 35.28 3.51
2561 3471 4.141914 CGATACCCCTTATCTTAGCCATCC 60.142 50.000 0.00 0.00 35.28 3.51
2562 3472 3.074857 ACCCCTTATCTTAGCCATCCA 57.925 47.619 0.00 0.00 0.00 3.41
2563 3473 3.613559 ACCCCTTATCTTAGCCATCCAT 58.386 45.455 0.00 0.00 0.00 3.41
2564 3474 3.990245 ACCCCTTATCTTAGCCATCCATT 59.010 43.478 0.00 0.00 0.00 3.16
2565 3475 4.420214 ACCCCTTATCTTAGCCATCCATTT 59.580 41.667 0.00 0.00 0.00 2.32
2566 3476 5.103086 ACCCCTTATCTTAGCCATCCATTTT 60.103 40.000 0.00 0.00 0.00 1.82
2567 3477 5.244626 CCCCTTATCTTAGCCATCCATTTTG 59.755 44.000 0.00 0.00 0.00 2.44
2568 3478 5.244626 CCCTTATCTTAGCCATCCATTTTGG 59.755 44.000 0.00 0.00 39.43 3.28
2577 3487 4.682778 CCATCCATTTTGGCATCAAGAT 57.317 40.909 0.00 0.00 37.47 2.40
2578 3488 4.628074 CCATCCATTTTGGCATCAAGATC 58.372 43.478 0.00 0.00 37.47 2.75
2579 3489 4.502604 CCATCCATTTTGGCATCAAGATCC 60.503 45.833 0.00 0.00 37.47 3.36
2580 3490 2.689471 TCCATTTTGGCATCAAGATCCG 59.311 45.455 0.00 0.00 37.47 4.18
2581 3491 2.428171 CCATTTTGGCATCAAGATCCGT 59.572 45.455 0.00 0.00 33.98 4.69
2582 3492 3.631686 CCATTTTGGCATCAAGATCCGTA 59.368 43.478 0.00 0.00 33.98 4.02
2583 3493 4.498009 CCATTTTGGCATCAAGATCCGTAC 60.498 45.833 0.00 0.00 33.98 3.67
2584 3494 3.342377 TTTGGCATCAAGATCCGTACA 57.658 42.857 0.00 0.00 33.98 2.90
2585 3495 2.602257 TGGCATCAAGATCCGTACAG 57.398 50.000 0.00 0.00 0.00 2.74
2586 3496 2.107366 TGGCATCAAGATCCGTACAGA 58.893 47.619 0.00 0.00 0.00 3.41
2587 3497 2.159099 TGGCATCAAGATCCGTACAGAC 60.159 50.000 0.00 0.00 0.00 3.51
2588 3498 2.159099 GGCATCAAGATCCGTACAGACA 60.159 50.000 0.00 0.00 0.00 3.41
2589 3499 2.860735 GCATCAAGATCCGTACAGACAC 59.139 50.000 0.00 0.00 0.00 3.67
2590 3500 3.676049 GCATCAAGATCCGTACAGACACA 60.676 47.826 0.00 0.00 0.00 3.72
2591 3501 4.686972 CATCAAGATCCGTACAGACACAT 58.313 43.478 0.00 0.00 0.00 3.21
2592 3502 4.801330 TCAAGATCCGTACAGACACATT 57.199 40.909 0.00 0.00 0.00 2.71
2593 3503 5.147330 TCAAGATCCGTACAGACACATTT 57.853 39.130 0.00 0.00 0.00 2.32
2594 3504 4.929211 TCAAGATCCGTACAGACACATTTG 59.071 41.667 0.00 0.00 0.00 2.32
2595 3505 4.537135 AGATCCGTACAGACACATTTGT 57.463 40.909 0.00 0.00 39.32 2.83
2611 3521 8.411318 ACACATTTGTCATTTTTGTTTCTCTC 57.589 30.769 0.00 0.00 0.00 3.20
2612 3522 8.034215 ACACATTTGTCATTTTTGTTTCTCTCA 58.966 29.630 0.00 0.00 0.00 3.27
2613 3523 8.871862 CACATTTGTCATTTTTGTTTCTCTCAA 58.128 29.630 0.00 0.00 0.00 3.02
2614 3524 9.434420 ACATTTGTCATTTTTGTTTCTCTCAAA 57.566 25.926 0.00 0.00 33.76 2.69
2615 3525 9.693157 CATTTGTCATTTTTGTTTCTCTCAAAC 57.307 29.630 0.00 0.00 35.05 2.93
2616 3526 7.504922 TTGTCATTTTTGTTTCTCTCAAACG 57.495 32.000 0.00 0.00 35.05 3.60
2617 3527 6.847400 TGTCATTTTTGTTTCTCTCAAACGA 58.153 32.000 0.00 0.00 35.05 3.85
2618 3528 7.309177 TGTCATTTTTGTTTCTCTCAAACGAA 58.691 30.769 0.00 0.00 35.05 3.85
2619 3529 7.810282 TGTCATTTTTGTTTCTCTCAAACGAAA 59.190 29.630 8.06 8.06 40.07 3.46
2620 3530 8.102112 GTCATTTTTGTTTCTCTCAAACGAAAC 58.898 33.333 10.74 7.68 45.59 2.78
2625 3535 4.644954 GTTTCTCTCAAACGAAACAACGT 58.355 39.130 9.30 0.00 45.05 3.99
2626 3536 5.788467 GTTTCTCTCAAACGAAACAACGTA 58.212 37.500 9.30 0.00 45.05 3.57
2627 3537 6.416514 GTTTCTCTCAAACGAAACAACGTAT 58.583 36.000 9.30 0.00 45.05 3.06
2628 3538 7.558137 GTTTCTCTCAAACGAAACAACGTATA 58.442 34.615 9.30 0.00 45.05 1.47
2629 3539 7.697352 TTCTCTCAAACGAAACAACGTATAA 57.303 32.000 0.00 0.00 45.83 0.98
2630 3540 7.697352 TCTCTCAAACGAAACAACGTATAAA 57.303 32.000 0.00 0.00 45.83 1.40
2631 3541 7.558137 TCTCTCAAACGAAACAACGTATAAAC 58.442 34.615 0.00 0.00 45.83 2.01
2632 3542 7.436080 TCTCTCAAACGAAACAACGTATAAACT 59.564 33.333 0.00 0.00 45.83 2.66
2633 3543 7.908230 TCTCAAACGAAACAACGTATAAACTT 58.092 30.769 0.00 0.00 45.83 2.66
2634 3544 8.057742 TCTCAAACGAAACAACGTATAAACTTC 58.942 33.333 0.00 0.00 45.83 3.01
2635 3545 7.682824 TCAAACGAAACAACGTATAAACTTCA 58.317 30.769 0.00 0.00 45.83 3.02
2636 3546 8.173775 TCAAACGAAACAACGTATAAACTTCAA 58.826 29.630 0.00 0.00 45.83 2.69
2637 3547 8.786955 CAAACGAAACAACGTATAAACTTCAAA 58.213 29.630 0.00 0.00 45.83 2.69
2638 3548 7.881516 ACGAAACAACGTATAAACTTCAAAC 57.118 32.000 0.00 0.00 44.72 2.93
2639 3549 7.687445 ACGAAACAACGTATAAACTTCAAACT 58.313 30.769 0.00 0.00 44.72 2.66
2640 3550 8.177013 ACGAAACAACGTATAAACTTCAAACTT 58.823 29.630 0.00 0.00 44.72 2.66
2641 3551 9.002080 CGAAACAACGTATAAACTTCAAACTTT 57.998 29.630 0.00 0.00 0.00 2.66
2645 3555 9.925268 ACAACGTATAAACTTCAAACTTTACAG 57.075 29.630 0.00 0.00 0.00 2.74
2646 3556 9.377383 CAACGTATAAACTTCAAACTTTACAGG 57.623 33.333 0.00 0.00 0.00 4.00
2647 3557 8.891671 ACGTATAAACTTCAAACTTTACAGGA 57.108 30.769 0.00 0.00 0.00 3.86
2648 3558 8.768019 ACGTATAAACTTCAAACTTTACAGGAC 58.232 33.333 0.00 0.00 0.00 3.85
2649 3559 8.767085 CGTATAAACTTCAAACTTTACAGGACA 58.233 33.333 0.00 0.00 0.00 4.02
2652 3562 6.827586 AACTTCAAACTTTACAGGACAACA 57.172 33.333 0.00 0.00 0.00 3.33
2653 3563 6.827586 ACTTCAAACTTTACAGGACAACAA 57.172 33.333 0.00 0.00 0.00 2.83
2654 3564 7.222000 ACTTCAAACTTTACAGGACAACAAA 57.778 32.000 0.00 0.00 0.00 2.83
2655 3565 7.662897 ACTTCAAACTTTACAGGACAACAAAA 58.337 30.769 0.00 0.00 0.00 2.44
2656 3566 7.597369 ACTTCAAACTTTACAGGACAACAAAAC 59.403 33.333 0.00 0.00 0.00 2.43
2657 3567 6.982852 TCAAACTTTACAGGACAACAAAACA 58.017 32.000 0.00 0.00 0.00 2.83
2658 3568 7.607250 TCAAACTTTACAGGACAACAAAACAT 58.393 30.769 0.00 0.00 0.00 2.71
2659 3569 8.091449 TCAAACTTTACAGGACAACAAAACATT 58.909 29.630 0.00 0.00 0.00 2.71
2660 3570 9.360093 CAAACTTTACAGGACAACAAAACATTA 57.640 29.630 0.00 0.00 0.00 1.90
2807 3717 9.482627 TTTTTCACACATTGAAGTTGTAAAGTT 57.517 25.926 0.00 0.00 45.22 2.66
2808 3718 9.482627 TTTTCACACATTGAAGTTGTAAAGTTT 57.517 25.926 0.00 0.00 45.22 2.66
2809 3719 8.459521 TTCACACATTGAAGTTGTAAAGTTTG 57.540 30.769 0.00 0.00 40.14 2.93
2810 3720 7.598278 TCACACATTGAAGTTGTAAAGTTTGT 58.402 30.769 0.00 0.00 40.14 2.83
2811 3721 8.085296 TCACACATTGAAGTTGTAAAGTTTGTT 58.915 29.630 0.00 0.00 40.14 2.83
2812 3722 8.707839 CACACATTGAAGTTGTAAAGTTTGTTT 58.292 29.630 0.00 0.00 40.14 2.83
2813 3723 8.707839 ACACATTGAAGTTGTAAAGTTTGTTTG 58.292 29.630 0.00 0.00 40.14 2.93
2814 3724 8.920665 CACATTGAAGTTGTAAAGTTTGTTTGA 58.079 29.630 0.00 0.00 40.14 2.69
2815 3725 9.651913 ACATTGAAGTTGTAAAGTTTGTTTGAT 57.348 25.926 0.00 0.00 40.14 2.57
2818 3728 8.909708 TGAAGTTGTAAAGTTTGTTTGATCTG 57.090 30.769 0.00 0.00 40.14 2.90
2819 3729 7.487829 TGAAGTTGTAAAGTTTGTTTGATCTGC 59.512 33.333 0.00 0.00 40.14 4.26
2820 3730 6.862209 AGTTGTAAAGTTTGTTTGATCTGCA 58.138 32.000 0.00 0.00 0.00 4.41
2821 3731 7.319646 AGTTGTAAAGTTTGTTTGATCTGCAA 58.680 30.769 0.00 0.00 33.88 4.08
2822 3732 7.816995 AGTTGTAAAGTTTGTTTGATCTGCAAA 59.183 29.630 0.00 0.34 43.89 3.68
2823 3733 7.754069 TGTAAAGTTTGTTTGATCTGCAAAG 57.246 32.000 0.00 0.00 46.48 2.77
2824 3734 7.319646 TGTAAAGTTTGTTTGATCTGCAAAGT 58.680 30.769 0.00 9.53 46.48 2.66
2825 3735 7.816995 TGTAAAGTTTGTTTGATCTGCAAAGTT 59.183 29.630 16.81 16.81 46.48 2.66
2826 3736 7.671495 AAAGTTTGTTTGATCTGCAAAGTTT 57.329 28.000 22.34 22.34 46.48 2.66
2827 3737 6.651755 AGTTTGTTTGATCTGCAAAGTTTG 57.348 33.333 11.41 11.41 46.48 2.93
2828 3738 6.397272 AGTTTGTTTGATCTGCAAAGTTTGA 58.603 32.000 19.82 3.95 46.48 2.69
2829 3739 6.873076 AGTTTGTTTGATCTGCAAAGTTTGAA 59.127 30.769 19.82 8.06 46.48 2.69
2830 3740 6.890663 TTGTTTGATCTGCAAAGTTTGAAG 57.109 33.333 19.82 18.11 46.48 3.02
2831 3741 5.964758 TGTTTGATCTGCAAAGTTTGAAGT 58.035 33.333 20.86 10.18 46.48 3.01
2832 3742 6.035843 TGTTTGATCTGCAAAGTTTGAAGTC 58.964 36.000 20.86 17.22 46.48 3.01
2833 3743 4.836125 TGATCTGCAAAGTTTGAAGTCC 57.164 40.909 20.86 14.55 37.59 3.85
2834 3744 4.206375 TGATCTGCAAAGTTTGAAGTCCA 58.794 39.130 20.86 16.53 37.59 4.02
2835 3745 4.828939 TGATCTGCAAAGTTTGAAGTCCAT 59.171 37.500 20.86 9.29 37.59 3.41
2836 3746 6.003326 TGATCTGCAAAGTTTGAAGTCCATA 58.997 36.000 20.86 4.19 37.59 2.74
2837 3747 6.660521 TGATCTGCAAAGTTTGAAGTCCATAT 59.339 34.615 20.86 8.62 37.59 1.78
2838 3748 7.828717 TGATCTGCAAAGTTTGAAGTCCATATA 59.171 33.333 20.86 2.84 37.59 0.86
2839 3749 8.757982 ATCTGCAAAGTTTGAAGTCCATATAT 57.242 30.769 20.86 4.95 37.59 0.86
2840 3750 8.579850 TCTGCAAAGTTTGAAGTCCATATATT 57.420 30.769 20.86 0.00 37.59 1.28
2841 3751 8.677300 TCTGCAAAGTTTGAAGTCCATATATTC 58.323 33.333 20.86 0.00 37.59 1.75
2842 3752 8.579850 TGCAAAGTTTGAAGTCCATATATTCT 57.420 30.769 19.82 0.00 0.00 2.40
2843 3753 9.023962 TGCAAAGTTTGAAGTCCATATATTCTT 57.976 29.630 19.82 0.00 0.00 2.52
2844 3754 9.860898 GCAAAGTTTGAAGTCCATATATTCTTT 57.139 29.630 19.82 0.00 0.00 2.52
2896 3806 4.920376 GCTTGTTGCAAGTTAGTTGAAGA 58.080 39.130 0.00 0.00 42.31 2.87
2897 3807 4.972440 GCTTGTTGCAAGTTAGTTGAAGAG 59.028 41.667 0.00 0.00 42.31 2.85
2898 3808 5.449177 GCTTGTTGCAAGTTAGTTGAAGAGT 60.449 40.000 0.00 0.00 42.31 3.24
2899 3809 6.238374 GCTTGTTGCAAGTTAGTTGAAGAGTA 60.238 38.462 0.00 0.00 42.31 2.59
2900 3810 6.598753 TGTTGCAAGTTAGTTGAAGAGTAC 57.401 37.500 0.00 0.00 38.60 2.73
2901 3811 5.233476 TGTTGCAAGTTAGTTGAAGAGTACG 59.767 40.000 0.00 0.00 38.60 3.67
2902 3812 4.304110 TGCAAGTTAGTTGAAGAGTACGG 58.696 43.478 3.69 0.00 38.60 4.02
2903 3813 4.038282 TGCAAGTTAGTTGAAGAGTACGGA 59.962 41.667 3.69 0.00 38.60 4.69
2904 3814 5.169295 GCAAGTTAGTTGAAGAGTACGGAT 58.831 41.667 3.69 0.00 38.60 4.18
2905 3815 5.288952 GCAAGTTAGTTGAAGAGTACGGATC 59.711 44.000 3.69 0.00 38.60 3.36
2906 3816 6.622549 CAAGTTAGTTGAAGAGTACGGATCT 58.377 40.000 0.00 0.00 38.60 2.75
2907 3817 6.439675 AGTTAGTTGAAGAGTACGGATCTC 57.560 41.667 0.00 0.00 0.00 2.75
2908 3818 5.944599 AGTTAGTTGAAGAGTACGGATCTCA 59.055 40.000 0.00 0.00 34.73 3.27
2909 3819 6.433404 AGTTAGTTGAAGAGTACGGATCTCAA 59.567 38.462 0.00 0.00 34.73 3.02
2910 3820 5.723672 AGTTGAAGAGTACGGATCTCAAA 57.276 39.130 0.00 0.00 34.73 2.69
2911 3821 5.715070 AGTTGAAGAGTACGGATCTCAAAG 58.285 41.667 0.00 0.00 34.73 2.77
2912 3822 4.111375 TGAAGAGTACGGATCTCAAAGC 57.889 45.455 0.00 0.00 34.73 3.51
2913 3823 3.509967 TGAAGAGTACGGATCTCAAAGCA 59.490 43.478 0.00 0.00 34.73 3.91
2914 3824 4.021456 TGAAGAGTACGGATCTCAAAGCAA 60.021 41.667 0.00 0.00 34.73 3.91
2915 3825 4.744795 AGAGTACGGATCTCAAAGCAAT 57.255 40.909 0.00 0.00 34.73 3.56
2916 3826 4.437239 AGAGTACGGATCTCAAAGCAATG 58.563 43.478 0.00 0.00 34.73 2.82
2917 3827 4.081420 AGAGTACGGATCTCAAAGCAATGT 60.081 41.667 0.00 0.00 34.73 2.71
2918 3828 4.579869 AGTACGGATCTCAAAGCAATGTT 58.420 39.130 0.00 0.00 0.00 2.71
2919 3829 3.837213 ACGGATCTCAAAGCAATGTTG 57.163 42.857 0.00 0.00 0.00 3.33
2920 3830 3.411446 ACGGATCTCAAAGCAATGTTGA 58.589 40.909 0.00 0.00 33.97 3.18
2921 3831 3.820467 ACGGATCTCAAAGCAATGTTGAA 59.180 39.130 0.00 0.00 34.68 2.69
2922 3832 4.083110 ACGGATCTCAAAGCAATGTTGAAG 60.083 41.667 0.00 0.00 34.68 3.02
2923 3833 4.673580 CGGATCTCAAAGCAATGTTGAAGG 60.674 45.833 0.00 0.00 34.68 3.46
2924 3834 4.381292 GGATCTCAAAGCAATGTTGAAGGG 60.381 45.833 0.00 0.00 34.68 3.95
2925 3835 2.297033 TCTCAAAGCAATGTTGAAGGGC 59.703 45.455 0.00 0.00 34.68 5.19
2926 3836 2.298163 CTCAAAGCAATGTTGAAGGGCT 59.702 45.455 0.00 0.00 34.68 5.19
2927 3837 2.036217 TCAAAGCAATGTTGAAGGGCTG 59.964 45.455 0.00 0.00 34.56 4.85
2928 3838 1.999648 AAGCAATGTTGAAGGGCTGA 58.000 45.000 0.00 0.00 34.56 4.26
2929 3839 1.999648 AGCAATGTTGAAGGGCTGAA 58.000 45.000 0.00 0.00 32.76 3.02
2930 3840 1.891150 AGCAATGTTGAAGGGCTGAAG 59.109 47.619 0.00 0.00 32.76 3.02
2931 3841 1.888512 GCAATGTTGAAGGGCTGAAGA 59.111 47.619 0.00 0.00 0.00 2.87
2932 3842 2.494870 GCAATGTTGAAGGGCTGAAGAT 59.505 45.455 0.00 0.00 0.00 2.40
2933 3843 3.696051 GCAATGTTGAAGGGCTGAAGATA 59.304 43.478 0.00 0.00 0.00 1.98
2934 3844 4.158394 GCAATGTTGAAGGGCTGAAGATAA 59.842 41.667 0.00 0.00 0.00 1.75
2935 3845 5.678107 GCAATGTTGAAGGGCTGAAGATAAG 60.678 44.000 0.00 0.00 0.00 1.73
2936 3846 4.908601 TGTTGAAGGGCTGAAGATAAGA 57.091 40.909 0.00 0.00 0.00 2.10
2937 3847 4.836825 TGTTGAAGGGCTGAAGATAAGAG 58.163 43.478 0.00 0.00 0.00 2.85
2938 3848 4.195416 GTTGAAGGGCTGAAGATAAGAGG 58.805 47.826 0.00 0.00 0.00 3.69
2939 3849 3.454858 TGAAGGGCTGAAGATAAGAGGT 58.545 45.455 0.00 0.00 0.00 3.85
2940 3850 3.846588 TGAAGGGCTGAAGATAAGAGGTT 59.153 43.478 0.00 0.00 0.00 3.50
2941 3851 4.080863 TGAAGGGCTGAAGATAAGAGGTTC 60.081 45.833 0.00 0.00 0.00 3.62
2942 3852 2.774809 AGGGCTGAAGATAAGAGGTTCC 59.225 50.000 0.00 0.00 0.00 3.62
2943 3853 2.505819 GGGCTGAAGATAAGAGGTTCCA 59.494 50.000 0.00 0.00 0.00 3.53
2944 3854 3.137360 GGGCTGAAGATAAGAGGTTCCAT 59.863 47.826 0.00 0.00 0.00 3.41
2945 3855 4.133078 GGCTGAAGATAAGAGGTTCCATG 58.867 47.826 0.00 0.00 0.00 3.66
2946 3856 4.384647 GGCTGAAGATAAGAGGTTCCATGT 60.385 45.833 0.00 0.00 0.00 3.21
2947 3857 5.189180 GCTGAAGATAAGAGGTTCCATGTT 58.811 41.667 0.00 0.00 0.00 2.71
2948 3858 5.065731 GCTGAAGATAAGAGGTTCCATGTTG 59.934 44.000 0.00 0.00 0.00 3.33
2949 3859 5.500234 TGAAGATAAGAGGTTCCATGTTGG 58.500 41.667 0.00 0.00 39.43 3.77
2950 3860 5.250543 TGAAGATAAGAGGTTCCATGTTGGA 59.749 40.000 0.00 0.00 46.61 3.53
2961 3871 4.545208 TCCATGTTGGACGAGATACAAA 57.455 40.909 0.00 0.00 42.67 2.83
2962 3872 4.503910 TCCATGTTGGACGAGATACAAAG 58.496 43.478 0.00 0.00 42.67 2.77
2963 3873 4.221924 TCCATGTTGGACGAGATACAAAGA 59.778 41.667 0.00 0.00 42.67 2.52
2964 3874 4.935205 CCATGTTGGACGAGATACAAAGAA 59.065 41.667 0.00 0.00 40.96 2.52
2965 3875 5.411361 CCATGTTGGACGAGATACAAAGAAA 59.589 40.000 0.00 0.00 40.96 2.52
2966 3876 5.917541 TGTTGGACGAGATACAAAGAAAC 57.082 39.130 0.00 0.00 30.83 2.78
2967 3877 5.607477 TGTTGGACGAGATACAAAGAAACT 58.393 37.500 0.00 0.00 30.83 2.66
2968 3878 6.053005 TGTTGGACGAGATACAAAGAAACTT 58.947 36.000 0.00 0.00 30.83 2.66
2969 3879 6.540914 TGTTGGACGAGATACAAAGAAACTTT 59.459 34.615 0.00 0.00 30.83 2.66
2970 3880 6.539649 TGGACGAGATACAAAGAAACTTTG 57.460 37.500 18.57 18.57 35.64 2.77
2971 3881 6.053005 TGGACGAGATACAAAGAAACTTTGT 58.947 36.000 25.53 25.53 44.03 2.83
2972 3882 6.018262 TGGACGAGATACAAAGAAACTTTGTG 60.018 38.462 28.42 18.50 42.05 3.33
2973 3883 5.748592 ACGAGATACAAAGAAACTTTGTGC 58.251 37.500 28.42 22.02 42.05 4.57
2974 3884 5.147162 CGAGATACAAAGAAACTTTGTGCC 58.853 41.667 28.42 21.53 42.05 5.01
2975 3885 5.049405 CGAGATACAAAGAAACTTTGTGCCT 60.049 40.000 28.42 24.35 42.05 4.75
2976 3886 6.147164 CGAGATACAAAGAAACTTTGTGCCTA 59.853 38.462 28.42 15.85 42.05 3.93
3068 4457 0.333993 ATTTCACAGCAGGGGCATCT 59.666 50.000 0.00 0.00 44.61 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
621 1114 2.358322 TGGGTTTGGTCCAGAAGAAC 57.642 50.000 0.00 0.00 0.00 3.01
733 1229 2.251642 GGCACGACCGACAAGCTTT 61.252 57.895 0.00 0.00 0.00 3.51
1764 2474 5.233902 CCATCGAAGTAATGAGAAGCTCTTG 59.766 44.000 0.00 0.00 0.00 3.02
1946 2775 5.045578 ACTGTTAAGGCTGATATGTGTTCCT 60.046 40.000 0.00 0.00 0.00 3.36
2009 2838 0.916086 ATGGCCCATACGTTCCTTCA 59.084 50.000 0.00 0.00 0.00 3.02
2024 2853 0.167251 CGGTTGTACGTCCAAATGGC 59.833 55.000 0.00 0.00 34.44 4.40
2116 2955 9.849166 ATAATTCAAACCGTGTAAATACCAAAG 57.151 29.630 0.00 0.00 0.00 2.77
2389 3229 8.849168 TGAGCTGAAGAAAACAGATAAATTCAA 58.151 29.630 0.00 0.00 37.54 2.69
2499 3409 2.658807 AACCACACTCCCTTCCTTTC 57.341 50.000 0.00 0.00 0.00 2.62
2500 3410 3.031013 CAAAACCACACTCCCTTCCTTT 58.969 45.455 0.00 0.00 0.00 3.11
2501 3411 2.024369 ACAAAACCACACTCCCTTCCTT 60.024 45.455 0.00 0.00 0.00 3.36
2502 3412 1.569072 ACAAAACCACACTCCCTTCCT 59.431 47.619 0.00 0.00 0.00 3.36
2503 3413 2.067365 ACAAAACCACACTCCCTTCC 57.933 50.000 0.00 0.00 0.00 3.46
2504 3414 4.499188 GCTAAACAAAACCACACTCCCTTC 60.499 45.833 0.00 0.00 0.00 3.46
2505 3415 3.383505 GCTAAACAAAACCACACTCCCTT 59.616 43.478 0.00 0.00 0.00 3.95
2506 3416 2.956333 GCTAAACAAAACCACACTCCCT 59.044 45.455 0.00 0.00 0.00 4.20
2507 3417 2.956333 AGCTAAACAAAACCACACTCCC 59.044 45.455 0.00 0.00 0.00 4.30
2508 3418 4.097286 TCAAGCTAAACAAAACCACACTCC 59.903 41.667 0.00 0.00 0.00 3.85
2509 3419 5.243426 TCAAGCTAAACAAAACCACACTC 57.757 39.130 0.00 0.00 0.00 3.51
2510 3420 4.440112 GCTCAAGCTAAACAAAACCACACT 60.440 41.667 0.00 0.00 38.21 3.55
2511 3421 3.796717 GCTCAAGCTAAACAAAACCACAC 59.203 43.478 0.00 0.00 38.21 3.82
2512 3422 4.040445 GCTCAAGCTAAACAAAACCACA 57.960 40.909 0.00 0.00 38.21 4.17
2526 3436 1.538419 GGGGTATCGTGTAGCTCAAGC 60.538 57.143 0.00 0.00 42.49 4.01
2527 3437 2.032620 AGGGGTATCGTGTAGCTCAAG 58.967 52.381 0.00 0.00 0.00 3.02
2528 3438 2.154567 AGGGGTATCGTGTAGCTCAA 57.845 50.000 0.00 0.00 0.00 3.02
2529 3439 2.154567 AAGGGGTATCGTGTAGCTCA 57.845 50.000 0.00 0.00 0.00 4.26
2530 3440 4.080687 AGATAAGGGGTATCGTGTAGCTC 58.919 47.826 0.00 0.00 43.12 4.09
2531 3441 4.115398 AGATAAGGGGTATCGTGTAGCT 57.885 45.455 0.00 0.00 43.12 3.32
2532 3442 4.868314 AAGATAAGGGGTATCGTGTAGC 57.132 45.455 0.00 0.00 43.12 3.58
2533 3443 5.105837 GGCTAAGATAAGGGGTATCGTGTAG 60.106 48.000 0.00 0.00 43.12 2.74
2534 3444 4.768968 GGCTAAGATAAGGGGTATCGTGTA 59.231 45.833 0.00 0.00 43.12 2.90
2535 3445 3.577415 GGCTAAGATAAGGGGTATCGTGT 59.423 47.826 0.00 0.00 43.12 4.49
2536 3446 3.576982 TGGCTAAGATAAGGGGTATCGTG 59.423 47.826 0.00 0.00 43.12 4.35
2537 3447 3.853207 TGGCTAAGATAAGGGGTATCGT 58.147 45.455 0.00 0.00 43.12 3.73
2538 3448 4.141914 GGATGGCTAAGATAAGGGGTATCG 60.142 50.000 0.00 0.00 43.12 2.92
2539 3449 4.783227 TGGATGGCTAAGATAAGGGGTATC 59.217 45.833 0.00 0.00 39.24 2.24
2540 3450 4.774779 TGGATGGCTAAGATAAGGGGTAT 58.225 43.478 0.00 0.00 0.00 2.73
2541 3451 4.222333 TGGATGGCTAAGATAAGGGGTA 57.778 45.455 0.00 0.00 0.00 3.69
2542 3452 3.074857 TGGATGGCTAAGATAAGGGGT 57.925 47.619 0.00 0.00 0.00 4.95
2543 3453 4.664688 AATGGATGGCTAAGATAAGGGG 57.335 45.455 0.00 0.00 0.00 4.79
2544 3454 5.244626 CCAAAATGGATGGCTAAGATAAGGG 59.755 44.000 0.00 0.00 40.96 3.95
2545 3455 6.336842 CCAAAATGGATGGCTAAGATAAGG 57.663 41.667 0.00 0.00 40.96 2.69
2556 3466 4.502604 GGATCTTGATGCCAAAATGGATGG 60.503 45.833 0.00 0.00 40.96 3.51
2557 3467 4.628074 GGATCTTGATGCCAAAATGGATG 58.372 43.478 0.00 0.00 40.96 3.51
2558 3468 3.319972 CGGATCTTGATGCCAAAATGGAT 59.680 43.478 0.00 0.00 40.96 3.41
2559 3469 2.689471 CGGATCTTGATGCCAAAATGGA 59.311 45.455 0.00 0.00 40.96 3.41
2560 3470 2.428171 ACGGATCTTGATGCCAAAATGG 59.572 45.455 0.00 0.00 41.55 3.16
2561 3471 3.788333 ACGGATCTTGATGCCAAAATG 57.212 42.857 0.00 0.00 0.00 2.32
2562 3472 4.269183 TGTACGGATCTTGATGCCAAAAT 58.731 39.130 0.00 0.00 0.00 1.82
2563 3473 3.680490 TGTACGGATCTTGATGCCAAAA 58.320 40.909 0.00 0.00 0.00 2.44
2564 3474 3.055458 TCTGTACGGATCTTGATGCCAAA 60.055 43.478 0.00 0.00 0.00 3.28
2565 3475 2.499693 TCTGTACGGATCTTGATGCCAA 59.500 45.455 0.00 0.00 0.00 4.52
2566 3476 2.107366 TCTGTACGGATCTTGATGCCA 58.893 47.619 0.00 0.00 0.00 4.92
2567 3477 2.159099 TGTCTGTACGGATCTTGATGCC 60.159 50.000 7.85 0.00 0.00 4.40
2568 3478 2.860735 GTGTCTGTACGGATCTTGATGC 59.139 50.000 7.85 0.00 0.00 3.91
2569 3479 4.110036 TGTGTCTGTACGGATCTTGATG 57.890 45.455 7.85 0.00 0.00 3.07
2570 3480 5.344743 AATGTGTCTGTACGGATCTTGAT 57.655 39.130 7.85 0.00 0.00 2.57
2571 3481 4.801330 AATGTGTCTGTACGGATCTTGA 57.199 40.909 7.85 0.00 0.00 3.02
2572 3482 4.690748 ACAAATGTGTCTGTACGGATCTTG 59.309 41.667 7.85 9.45 29.49 3.02
2573 3483 4.894784 ACAAATGTGTCTGTACGGATCTT 58.105 39.130 7.85 0.69 29.49 2.40
2574 3484 4.537135 ACAAATGTGTCTGTACGGATCT 57.463 40.909 7.85 0.00 29.49 2.75
2586 3496 8.034215 TGAGAGAAACAAAAATGACAAATGTGT 58.966 29.630 0.00 0.00 42.10 3.72
2587 3497 8.410030 TGAGAGAAACAAAAATGACAAATGTG 57.590 30.769 0.00 0.00 0.00 3.21
2588 3498 9.434420 TTTGAGAGAAACAAAAATGACAAATGT 57.566 25.926 0.00 0.00 34.89 2.71
2589 3499 9.693157 GTTTGAGAGAAACAAAAATGACAAATG 57.307 29.630 0.00 0.00 38.63 2.32
2590 3500 8.594687 CGTTTGAGAGAAACAAAAATGACAAAT 58.405 29.630 0.00 0.00 38.63 2.32
2591 3501 7.810282 TCGTTTGAGAGAAACAAAAATGACAAA 59.190 29.630 0.00 0.00 38.63 2.83
2592 3502 7.309177 TCGTTTGAGAGAAACAAAAATGACAA 58.691 30.769 0.00 0.00 38.63 3.18
2593 3503 6.847400 TCGTTTGAGAGAAACAAAAATGACA 58.153 32.000 0.00 0.00 38.63 3.58
2594 3504 7.734538 TTCGTTTGAGAGAAACAAAAATGAC 57.265 32.000 0.00 0.00 38.63 3.06
2604 3514 4.932268 ACGTTGTTTCGTTTGAGAGAAA 57.068 36.364 0.00 0.00 41.37 2.52
2605 3515 7.697352 TTATACGTTGTTTCGTTTGAGAGAA 57.303 32.000 0.00 0.00 43.80 2.87
2606 3516 7.436080 AGTTTATACGTTGTTTCGTTTGAGAGA 59.564 33.333 0.00 0.00 43.80 3.10
2607 3517 7.561556 AGTTTATACGTTGTTTCGTTTGAGAG 58.438 34.615 0.00 0.00 43.80 3.20
2608 3518 7.467557 AGTTTATACGTTGTTTCGTTTGAGA 57.532 32.000 0.00 0.00 43.80 3.27
2609 3519 7.847078 TGAAGTTTATACGTTGTTTCGTTTGAG 59.153 33.333 0.00 0.00 43.80 3.02
2610 3520 7.682824 TGAAGTTTATACGTTGTTTCGTTTGA 58.317 30.769 0.00 0.00 43.80 2.69
2611 3521 7.879962 TGAAGTTTATACGTTGTTTCGTTTG 57.120 32.000 0.00 0.00 43.80 2.93
2612 3522 8.787884 GTTTGAAGTTTATACGTTGTTTCGTTT 58.212 29.630 0.00 0.00 43.80 3.60
2613 3523 8.177013 AGTTTGAAGTTTATACGTTGTTTCGTT 58.823 29.630 0.00 0.00 43.80 3.85
2614 3524 7.687445 AGTTTGAAGTTTATACGTTGTTTCGT 58.313 30.769 0.00 0.00 45.97 3.85
2615 3525 8.537729 AAGTTTGAAGTTTATACGTTGTTTCG 57.462 30.769 0.00 0.00 0.00 3.46
2619 3529 9.925268 CTGTAAAGTTTGAAGTTTATACGTTGT 57.075 29.630 0.00 0.00 36.51 3.32
2620 3530 9.377383 CCTGTAAAGTTTGAAGTTTATACGTTG 57.623 33.333 0.00 0.00 36.51 4.10
2621 3531 9.328845 TCCTGTAAAGTTTGAAGTTTATACGTT 57.671 29.630 0.00 0.00 36.51 3.99
2622 3532 8.768019 GTCCTGTAAAGTTTGAAGTTTATACGT 58.232 33.333 0.00 0.00 36.51 3.57
2623 3533 8.767085 TGTCCTGTAAAGTTTGAAGTTTATACG 58.233 33.333 0.00 0.00 36.51 3.06
2626 3536 8.962679 TGTTGTCCTGTAAAGTTTGAAGTTTAT 58.037 29.630 0.00 0.00 36.51 1.40
2627 3537 8.338072 TGTTGTCCTGTAAAGTTTGAAGTTTA 57.662 30.769 0.00 0.76 33.79 2.01
2628 3538 7.222000 TGTTGTCCTGTAAAGTTTGAAGTTT 57.778 32.000 0.00 2.48 35.78 2.66
2629 3539 6.827586 TGTTGTCCTGTAAAGTTTGAAGTT 57.172 33.333 0.00 0.00 0.00 2.66
2630 3540 6.827586 TTGTTGTCCTGTAAAGTTTGAAGT 57.172 33.333 0.00 0.00 0.00 3.01
2631 3541 7.596995 TGTTTTGTTGTCCTGTAAAGTTTGAAG 59.403 33.333 0.00 0.00 0.00 3.02
2632 3542 7.434492 TGTTTTGTTGTCCTGTAAAGTTTGAA 58.566 30.769 0.00 0.00 0.00 2.69
2633 3543 6.982852 TGTTTTGTTGTCCTGTAAAGTTTGA 58.017 32.000 0.00 0.00 0.00 2.69
2634 3544 7.826260 ATGTTTTGTTGTCCTGTAAAGTTTG 57.174 32.000 0.00 0.00 0.00 2.93
2781 3691 9.482627 AACTTTACAACTTCAATGTGTGAAAAA 57.517 25.926 0.00 0.00 45.67 1.94
2782 3692 9.482627 AAACTTTACAACTTCAATGTGTGAAAA 57.517 25.926 0.00 0.00 45.67 2.29
2783 3693 8.920665 CAAACTTTACAACTTCAATGTGTGAAA 58.079 29.630 0.00 0.00 45.67 2.69
2784 3694 8.085296 ACAAACTTTACAACTTCAATGTGTGAA 58.915 29.630 0.00 0.00 44.20 3.18
2785 3695 7.598278 ACAAACTTTACAACTTCAATGTGTGA 58.402 30.769 0.00 0.00 32.27 3.58
2786 3696 7.810766 ACAAACTTTACAACTTCAATGTGTG 57.189 32.000 0.00 0.00 32.27 3.82
2787 3697 8.707839 CAAACAAACTTTACAACTTCAATGTGT 58.292 29.630 0.00 0.00 32.27 3.72
2788 3698 8.920665 TCAAACAAACTTTACAACTTCAATGTG 58.079 29.630 0.00 0.00 32.27 3.21
2789 3699 9.651913 ATCAAACAAACTTTACAACTTCAATGT 57.348 25.926 0.00 0.00 34.81 2.71
2792 3702 9.352784 CAGATCAAACAAACTTTACAACTTCAA 57.647 29.630 0.00 0.00 0.00 2.69
2793 3703 7.487829 GCAGATCAAACAAACTTTACAACTTCA 59.512 33.333 0.00 0.00 0.00 3.02
2794 3704 7.487829 TGCAGATCAAACAAACTTTACAACTTC 59.512 33.333 0.00 0.00 0.00 3.01
2795 3705 7.319646 TGCAGATCAAACAAACTTTACAACTT 58.680 30.769 0.00 0.00 0.00 2.66
2796 3706 6.862209 TGCAGATCAAACAAACTTTACAACT 58.138 32.000 0.00 0.00 0.00 3.16
2797 3707 7.518731 TTGCAGATCAAACAAACTTTACAAC 57.481 32.000 0.00 0.00 0.00 3.32
2798 3708 7.816995 ACTTTGCAGATCAAACAAACTTTACAA 59.183 29.630 0.00 0.00 39.58 2.41
2799 3709 7.319646 ACTTTGCAGATCAAACAAACTTTACA 58.680 30.769 0.00 0.00 39.58 2.41
2800 3710 7.755582 ACTTTGCAGATCAAACAAACTTTAC 57.244 32.000 0.00 0.00 39.58 2.01
2801 3711 8.655092 CAAACTTTGCAGATCAAACAAACTTTA 58.345 29.630 0.00 0.00 39.58 1.85
2802 3712 7.387397 TCAAACTTTGCAGATCAAACAAACTTT 59.613 29.630 0.00 2.13 39.58 2.66
2803 3713 6.873076 TCAAACTTTGCAGATCAAACAAACTT 59.127 30.769 0.00 0.00 39.58 2.66
2804 3714 6.397272 TCAAACTTTGCAGATCAAACAAACT 58.603 32.000 0.00 0.00 39.58 2.66
2805 3715 6.645700 TCAAACTTTGCAGATCAAACAAAC 57.354 33.333 0.00 0.00 39.58 2.93
2806 3716 6.873076 ACTTCAAACTTTGCAGATCAAACAAA 59.127 30.769 8.00 1.70 39.58 2.83
2807 3717 6.397272 ACTTCAAACTTTGCAGATCAAACAA 58.603 32.000 8.00 0.00 39.58 2.83
2808 3718 5.964758 ACTTCAAACTTTGCAGATCAAACA 58.035 33.333 8.00 0.00 39.58 2.83
2809 3719 5.460091 GGACTTCAAACTTTGCAGATCAAAC 59.540 40.000 8.00 0.00 39.58 2.93
2810 3720 5.126869 TGGACTTCAAACTTTGCAGATCAAA 59.873 36.000 8.00 0.00 42.01 2.69
2811 3721 4.644234 TGGACTTCAAACTTTGCAGATCAA 59.356 37.500 8.00 0.00 0.00 2.57
2812 3722 4.206375 TGGACTTCAAACTTTGCAGATCA 58.794 39.130 8.00 3.59 0.00 2.92
2813 3723 4.836125 TGGACTTCAAACTTTGCAGATC 57.164 40.909 8.00 2.89 0.00 2.75
2814 3724 8.757982 ATATATGGACTTCAAACTTTGCAGAT 57.242 30.769 8.00 1.21 0.00 2.90
2815 3725 8.579850 AATATATGGACTTCAAACTTTGCAGA 57.420 30.769 8.00 0.00 0.00 4.26
2816 3726 8.680903 AGAATATATGGACTTCAAACTTTGCAG 58.319 33.333 0.17 0.17 0.00 4.41
2817 3727 8.579850 AGAATATATGGACTTCAAACTTTGCA 57.420 30.769 0.00 0.00 0.00 4.08
2818 3728 9.860898 AAAGAATATATGGACTTCAAACTTTGC 57.139 29.630 0.00 0.00 0.00 3.68
2860 3770 5.723492 GCAACAAGCAGATTTCTGTTTTT 57.277 34.783 6.90 0.00 43.37 1.94
2874 3784 4.920376 TCTTCAACTAACTTGCAACAAGC 58.080 39.130 7.23 0.00 45.96 4.01
2875 3785 6.124088 ACTCTTCAACTAACTTGCAACAAG 57.876 37.500 5.80 5.80 0.00 3.16
2876 3786 6.237996 CGTACTCTTCAACTAACTTGCAACAA 60.238 38.462 0.00 0.00 0.00 2.83
2877 3787 5.233476 CGTACTCTTCAACTAACTTGCAACA 59.767 40.000 0.00 0.00 0.00 3.33
2878 3788 5.333111 CCGTACTCTTCAACTAACTTGCAAC 60.333 44.000 0.00 0.00 0.00 4.17
2879 3789 4.748102 CCGTACTCTTCAACTAACTTGCAA 59.252 41.667 0.00 0.00 0.00 4.08
2880 3790 4.038282 TCCGTACTCTTCAACTAACTTGCA 59.962 41.667 0.00 0.00 0.00 4.08
2881 3791 4.553323 TCCGTACTCTTCAACTAACTTGC 58.447 43.478 0.00 0.00 0.00 4.01
2882 3792 6.622549 AGATCCGTACTCTTCAACTAACTTG 58.377 40.000 0.00 0.00 0.00 3.16
2883 3793 6.433404 TGAGATCCGTACTCTTCAACTAACTT 59.567 38.462 0.00 0.00 35.66 2.66
2884 3794 5.944599 TGAGATCCGTACTCTTCAACTAACT 59.055 40.000 0.00 0.00 35.66 2.24
2885 3795 6.192234 TGAGATCCGTACTCTTCAACTAAC 57.808 41.667 0.00 0.00 35.66 2.34
2886 3796 6.829229 TTGAGATCCGTACTCTTCAACTAA 57.171 37.500 0.00 0.00 35.66 2.24
2887 3797 6.625300 GCTTTGAGATCCGTACTCTTCAACTA 60.625 42.308 0.00 0.00 35.66 2.24
2888 3798 5.715070 CTTTGAGATCCGTACTCTTCAACT 58.285 41.667 0.00 0.00 35.66 3.16
2889 3799 4.327627 GCTTTGAGATCCGTACTCTTCAAC 59.672 45.833 0.00 0.00 35.66 3.18
2890 3800 4.021456 TGCTTTGAGATCCGTACTCTTCAA 60.021 41.667 0.00 0.00 35.66 2.69
2891 3801 3.509967 TGCTTTGAGATCCGTACTCTTCA 59.490 43.478 0.00 0.00 35.66 3.02
2892 3802 4.111375 TGCTTTGAGATCCGTACTCTTC 57.889 45.455 0.00 0.00 35.66 2.87
2893 3803 4.537135 TTGCTTTGAGATCCGTACTCTT 57.463 40.909 0.00 0.00 35.66 2.85
2894 3804 4.081420 ACATTGCTTTGAGATCCGTACTCT 60.081 41.667 0.00 0.00 35.66 3.24
2895 3805 4.184629 ACATTGCTTTGAGATCCGTACTC 58.815 43.478 0.00 0.00 35.26 2.59
2896 3806 4.207891 ACATTGCTTTGAGATCCGTACT 57.792 40.909 0.00 0.00 0.00 2.73
2897 3807 4.391830 TCAACATTGCTTTGAGATCCGTAC 59.608 41.667 0.00 0.00 0.00 3.67
2898 3808 4.574892 TCAACATTGCTTTGAGATCCGTA 58.425 39.130 0.00 0.00 0.00 4.02
2899 3809 3.411446 TCAACATTGCTTTGAGATCCGT 58.589 40.909 0.00 0.00 0.00 4.69
2900 3810 4.409570 CTTCAACATTGCTTTGAGATCCG 58.590 43.478 0.00 0.00 34.50 4.18
2901 3811 4.381292 CCCTTCAACATTGCTTTGAGATCC 60.381 45.833 0.00 0.00 34.50 3.36
2902 3812 4.741342 CCCTTCAACATTGCTTTGAGATC 58.259 43.478 0.00 0.00 34.50 2.75
2903 3813 3.056322 GCCCTTCAACATTGCTTTGAGAT 60.056 43.478 0.00 0.00 34.50 2.75
2904 3814 2.297033 GCCCTTCAACATTGCTTTGAGA 59.703 45.455 0.00 0.00 34.50 3.27
2905 3815 2.298163 AGCCCTTCAACATTGCTTTGAG 59.702 45.455 0.00 0.00 34.50 3.02
2906 3816 2.036217 CAGCCCTTCAACATTGCTTTGA 59.964 45.455 0.00 0.00 0.00 2.69
2907 3817 2.036217 TCAGCCCTTCAACATTGCTTTG 59.964 45.455 0.00 0.00 0.00 2.77
2908 3818 2.318908 TCAGCCCTTCAACATTGCTTT 58.681 42.857 0.00 0.00 0.00 3.51
2909 3819 1.999648 TCAGCCCTTCAACATTGCTT 58.000 45.000 0.00 0.00 0.00 3.91
2910 3820 1.891150 CTTCAGCCCTTCAACATTGCT 59.109 47.619 0.00 0.00 0.00 3.91
2911 3821 1.888512 TCTTCAGCCCTTCAACATTGC 59.111 47.619 0.00 0.00 0.00 3.56
2912 3822 5.649395 TCTTATCTTCAGCCCTTCAACATTG 59.351 40.000 0.00 0.00 0.00 2.82
2913 3823 5.819991 TCTTATCTTCAGCCCTTCAACATT 58.180 37.500 0.00 0.00 0.00 2.71
2914 3824 5.435291 CTCTTATCTTCAGCCCTTCAACAT 58.565 41.667 0.00 0.00 0.00 2.71
2915 3825 4.323792 CCTCTTATCTTCAGCCCTTCAACA 60.324 45.833 0.00 0.00 0.00 3.33
2916 3826 4.195416 CCTCTTATCTTCAGCCCTTCAAC 58.805 47.826 0.00 0.00 0.00 3.18
2917 3827 3.846588 ACCTCTTATCTTCAGCCCTTCAA 59.153 43.478 0.00 0.00 0.00 2.69
2918 3828 3.454858 ACCTCTTATCTTCAGCCCTTCA 58.545 45.455 0.00 0.00 0.00 3.02
2919 3829 4.447290 GAACCTCTTATCTTCAGCCCTTC 58.553 47.826 0.00 0.00 0.00 3.46
2920 3830 3.201045 GGAACCTCTTATCTTCAGCCCTT 59.799 47.826 0.00 0.00 0.00 3.95
2921 3831 2.774809 GGAACCTCTTATCTTCAGCCCT 59.225 50.000 0.00 0.00 0.00 5.19
2922 3832 2.505819 TGGAACCTCTTATCTTCAGCCC 59.494 50.000 0.00 0.00 0.00 5.19
2923 3833 3.914426 TGGAACCTCTTATCTTCAGCC 57.086 47.619 0.00 0.00 0.00 4.85
2924 3834 4.775236 ACATGGAACCTCTTATCTTCAGC 58.225 43.478 0.00 0.00 0.00 4.26
2925 3835 5.587844 CCAACATGGAACCTCTTATCTTCAG 59.412 44.000 0.00 0.00 40.96 3.02
2926 3836 5.250543 TCCAACATGGAACCTCTTATCTTCA 59.749 40.000 0.00 0.00 45.00 3.02
2927 3837 5.745227 TCCAACATGGAACCTCTTATCTTC 58.255 41.667 0.00 0.00 45.00 2.87
2928 3838 5.779241 TCCAACATGGAACCTCTTATCTT 57.221 39.130 0.00 0.00 45.00 2.40
2940 3850 4.221924 TCTTTGTATCTCGTCCAACATGGA 59.778 41.667 0.00 0.00 45.98 3.41
2941 3851 4.503910 TCTTTGTATCTCGTCCAACATGG 58.496 43.478 0.00 0.00 39.43 3.66
2942 3852 6.147821 AGTTTCTTTGTATCTCGTCCAACATG 59.852 38.462 0.00 0.00 0.00 3.21
2943 3853 6.231211 AGTTTCTTTGTATCTCGTCCAACAT 58.769 36.000 0.00 0.00 0.00 2.71
2944 3854 5.607477 AGTTTCTTTGTATCTCGTCCAACA 58.393 37.500 0.00 0.00 0.00 3.33
2945 3855 6.541111 AAGTTTCTTTGTATCTCGTCCAAC 57.459 37.500 0.00 0.00 0.00 3.77
2946 3856 6.540914 ACAAAGTTTCTTTGTATCTCGTCCAA 59.459 34.615 21.23 0.00 40.47 3.53
2947 3857 6.018262 CACAAAGTTTCTTTGTATCTCGTCCA 60.018 38.462 21.83 0.00 40.30 4.02
2948 3858 6.363473 CACAAAGTTTCTTTGTATCTCGTCC 58.637 40.000 21.83 0.00 40.30 4.79
2949 3859 5.846473 GCACAAAGTTTCTTTGTATCTCGTC 59.154 40.000 21.83 7.46 40.30 4.20
2950 3860 5.277828 GGCACAAAGTTTCTTTGTATCTCGT 60.278 40.000 21.83 1.82 40.30 4.18
2951 3861 5.049405 AGGCACAAAGTTTCTTTGTATCTCG 60.049 40.000 21.83 13.34 40.30 4.04
2952 3862 6.319141 AGGCACAAAGTTTCTTTGTATCTC 57.681 37.500 21.83 13.75 40.30 2.75
2953 3863 7.224297 TCTAGGCACAAAGTTTCTTTGTATCT 58.776 34.615 21.83 21.33 40.30 1.98
2954 3864 7.435068 TCTAGGCACAAAGTTTCTTTGTATC 57.565 36.000 21.83 17.25 40.30 2.24
2955 3865 7.817418 TTCTAGGCACAAAGTTTCTTTGTAT 57.183 32.000 21.83 15.18 40.30 2.29
2956 3866 7.633193 TTTCTAGGCACAAAGTTTCTTTGTA 57.367 32.000 21.83 10.10 40.30 2.41
2957 3867 6.524101 TTTCTAGGCACAAAGTTTCTTTGT 57.476 33.333 18.26 18.26 42.75 2.83
2958 3868 7.492344 ACATTTTCTAGGCACAAAGTTTCTTTG 59.508 33.333 17.16 17.16 35.64 2.77
2959 3869 7.492344 CACATTTTCTAGGCACAAAGTTTCTTT 59.508 33.333 0.00 0.00 0.00 2.52
2960 3870 6.980397 CACATTTTCTAGGCACAAAGTTTCTT 59.020 34.615 0.00 0.00 0.00 2.52
2961 3871 6.096846 ACACATTTTCTAGGCACAAAGTTTCT 59.903 34.615 0.00 0.00 0.00 2.52
2962 3872 6.273071 ACACATTTTCTAGGCACAAAGTTTC 58.727 36.000 0.00 0.00 0.00 2.78
2963 3873 6.220726 ACACATTTTCTAGGCACAAAGTTT 57.779 33.333 0.00 0.00 0.00 2.66
2964 3874 5.852282 ACACATTTTCTAGGCACAAAGTT 57.148 34.783 0.00 0.00 0.00 2.66
2965 3875 6.204882 GTCTACACATTTTCTAGGCACAAAGT 59.795 38.462 0.00 0.00 0.00 2.66
2966 3876 6.204688 TGTCTACACATTTTCTAGGCACAAAG 59.795 38.462 0.00 0.00 0.00 2.77
2967 3877 6.058833 TGTCTACACATTTTCTAGGCACAAA 58.941 36.000 0.00 0.00 0.00 2.83
2968 3878 5.616270 TGTCTACACATTTTCTAGGCACAA 58.384 37.500 0.00 0.00 0.00 3.33
2969 3879 5.222079 TGTCTACACATTTTCTAGGCACA 57.778 39.130 0.00 0.00 0.00 4.57
2970 3880 6.743575 ATTGTCTACACATTTTCTAGGCAC 57.256 37.500 0.00 0.00 30.55 5.01
2971 3881 6.150976 CCAATTGTCTACACATTTTCTAGGCA 59.849 38.462 4.43 0.00 30.55 4.75
2972 3882 6.555315 CCAATTGTCTACACATTTTCTAGGC 58.445 40.000 4.43 0.00 30.55 3.93
2973 3883 6.555315 GCCAATTGTCTACACATTTTCTAGG 58.445 40.000 4.43 0.00 30.55 3.02
2974 3884 6.092122 TCGCCAATTGTCTACACATTTTCTAG 59.908 38.462 4.43 0.00 30.55 2.43
2975 3885 5.935206 TCGCCAATTGTCTACACATTTTCTA 59.065 36.000 4.43 0.00 30.55 2.10
2976 3886 4.759693 TCGCCAATTGTCTACACATTTTCT 59.240 37.500 4.43 0.00 30.55 2.52


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.