Multiple sequence alignment - TraesCS4A01G249100

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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 TraesCS4A01G249100 chr4A 100.000 3524 0 0 1 3524 560312977 560316500 0.000000e+00 6508
1 TraesCS4A01G249100 chr4A 98.788 165 2 0 3325 3489 572704678 572704514 9.570000e-76 294
2 TraesCS4A01G249100 chr4D 92.722 2487 146 13 799 3273 39985207 39982744 0.000000e+00 3557
3 TraesCS4A01G249100 chr4D 82.143 700 98 15 10 686 39986012 39985317 3.050000e-160 575
4 TraesCS4A01G249100 chr4D 78.822 798 128 22 10 790 469197929 469197156 1.890000e-137 499
5 TraesCS4A01G249100 chr4D 77.038 601 113 14 101 680 446748158 446747562 4.390000e-84 322
6 TraesCS4A01G249100 chr4D 78.156 499 88 19 214 703 37053831 37053345 7.400000e-77 298
7 TraesCS4A01G249100 chr4D 98.780 164 2 0 3326 3489 16666762 16666599 3.440000e-75 292
8 TraesCS4A01G249100 chr4B 92.110 2484 142 24 794 3273 58254888 58252455 0.000000e+00 3452
9 TraesCS4A01G249100 chr6D 78.667 825 131 28 10 807 393928336 393927530 1.130000e-139 507
10 TraesCS4A01G249100 chr6D 81.495 562 96 8 1 558 427073751 427074308 4.150000e-124 455
11 TraesCS4A01G249100 chr2D 78.319 821 134 24 1 798 34986629 34987428 1.140000e-134 490
12 TraesCS4A01G249100 chr2D 78.406 690 128 14 1 686 317598438 317599110 2.510000e-116 429
13 TraesCS4A01G249100 chr2D 98.193 166 3 0 3326 3491 18206976 18207141 1.240000e-74 291
14 TraesCS4A01G249100 chr7D 79.846 650 106 13 1 629 567516354 567515709 5.360000e-123 451
15 TraesCS4A01G249100 chr7D 78.035 692 125 18 10 680 227296758 227296073 9.100000e-111 411
16 TraesCS4A01G249100 chr7D 96.067 178 4 3 3316 3491 53269385 53269209 1.600000e-73 287
17 TraesCS4A01G249100 chr5D 77.160 810 155 19 6 791 445728716 445729519 8.980000e-121 444
18 TraesCS4A01G249100 chr5D 98.780 164 2 0 3326 3489 435791601 435791438 3.440000e-75 292
19 TraesCS4A01G249100 chr5D 98.780 164 2 0 3326 3489 537399727 537399564 3.440000e-75 292
20 TraesCS4A01G249100 chr1D 81.139 562 95 9 1 558 313795417 313795971 1.160000e-119 440
21 TraesCS4A01G249100 chr1D 79.129 551 104 8 11 558 24063863 24064405 1.550000e-98 370
22 TraesCS4A01G249100 chr1D 98.780 164 2 0 3326 3489 366677436 366677273 3.440000e-75 292
23 TraesCS4A01G249100 chr1D 74.538 703 136 25 10 686 320388 319703 2.090000e-67 267
24 TraesCS4A01G249100 chr7A 75.892 813 150 31 2 789 642874575 642875366 1.190000e-99 374
25 TraesCS4A01G249100 chr7A 94.475 181 10 0 3310 3490 343855987 343856167 2.680000e-71 279
26 TraesCS4A01G249100 chr3D 75.716 803 162 21 1 791 323487776 323486995 4.300000e-99 372
27 TraesCS4A01G249100 chrUn 97.619 168 4 0 3322 3489 61009440 61009607 4.450000e-74 289


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 TraesCS4A01G249100 chr4A 560312977 560316500 3523 False 6508 6508 100.0000 1 3524 1 chr4A.!!$F1 3523
1 TraesCS4A01G249100 chr4D 39982744 39986012 3268 True 2066 3557 87.4325 10 3273 2 chr4D.!!$R5 3263
2 TraesCS4A01G249100 chr4D 469197156 469197929 773 True 499 499 78.8220 10 790 1 chr4D.!!$R4 780
3 TraesCS4A01G249100 chr4D 446747562 446748158 596 True 322 322 77.0380 101 680 1 chr4D.!!$R3 579
4 TraesCS4A01G249100 chr4B 58252455 58254888 2433 True 3452 3452 92.1100 794 3273 1 chr4B.!!$R1 2479
5 TraesCS4A01G249100 chr6D 393927530 393928336 806 True 507 507 78.6670 10 807 1 chr6D.!!$R1 797
6 TraesCS4A01G249100 chr6D 427073751 427074308 557 False 455 455 81.4950 1 558 1 chr6D.!!$F1 557
7 TraesCS4A01G249100 chr2D 34986629 34987428 799 False 490 490 78.3190 1 798 1 chr2D.!!$F2 797
8 TraesCS4A01G249100 chr2D 317598438 317599110 672 False 429 429 78.4060 1 686 1 chr2D.!!$F3 685
9 TraesCS4A01G249100 chr7D 567515709 567516354 645 True 451 451 79.8460 1 629 1 chr7D.!!$R3 628
10 TraesCS4A01G249100 chr7D 227296073 227296758 685 True 411 411 78.0350 10 680 1 chr7D.!!$R2 670
11 TraesCS4A01G249100 chr5D 445728716 445729519 803 False 444 444 77.1600 6 791 1 chr5D.!!$F1 785
12 TraesCS4A01G249100 chr1D 313795417 313795971 554 False 440 440 81.1390 1 558 1 chr1D.!!$F2 557
13 TraesCS4A01G249100 chr1D 24063863 24064405 542 False 370 370 79.1290 11 558 1 chr1D.!!$F1 547
14 TraesCS4A01G249100 chr1D 319703 320388 685 True 267 267 74.5380 10 686 1 chr1D.!!$R1 676
15 TraesCS4A01G249100 chr7A 642874575 642875366 791 False 374 374 75.8920 2 789 1 chr7A.!!$F2 787
16 TraesCS4A01G249100 chr3D 323486995 323487776 781 True 372 372 75.7160 1 791 1 chr3D.!!$R1 790

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
835 975 0.246635 ACGTTCGGCTGTAGATGCTT 59.753 50.0 0.00 0.00 0.00 3.91 F
942 1083 0.608640 TCGGCCCTCTTGAAGAAGAC 59.391 55.0 0.00 0.00 34.36 3.01 F
1981 2122 0.610174 ACTTCTCAAGGAGATGCGCA 59.390 50.0 14.96 14.96 38.56 6.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2289 2430 0.034089 CCTTCTTGAGCCCCCGATTT 60.034 55.000 0.00 0.0 0.00 2.17 R
2332 2473 0.038709 GAGCTTAGCTCGCCATCGAT 60.039 55.000 18.89 0.0 45.85 3.59 R
3474 3637 1.403323 CGTAAGTACTCCCTCCGTTCC 59.597 57.143 0.00 0.0 0.00 3.62 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
21 22 1.375523 GTCGTTGCCGTCTCCCATT 60.376 57.895 0.00 0.00 35.01 3.16
81 82 2.617308 GTCGGTGGACTTCAGATCGATA 59.383 50.000 0.00 0.00 40.15 2.92
121 124 2.230940 CCGACGACATCCATCACGC 61.231 63.158 0.00 0.00 0.00 5.34
126 129 4.141965 ACATCCATCACGCCGCGA 62.142 61.111 21.79 0.00 0.00 5.87
303 342 2.671963 GTGCCAACGGAGGGGTTC 60.672 66.667 0.00 0.00 0.00 3.62
371 410 1.595382 GAGGCAGCAACGACACACT 60.595 57.895 0.00 0.00 0.00 3.55
405 444 0.888736 TGCACCATTTGGACAGACGG 60.889 55.000 3.01 0.00 38.94 4.79
444 485 1.276421 GGAGTCTAAGTGCTGCCTCAA 59.724 52.381 0.00 0.00 0.00 3.02
494 541 0.598680 GCCGAATGGTCATCTCCTCG 60.599 60.000 0.00 0.00 37.67 4.63
497 544 1.405463 CGAATGGTCATCTCCTCGTCA 59.595 52.381 0.00 0.00 0.00 4.35
546 601 2.233922 GACGAATCTGGAGGTGAAGGAA 59.766 50.000 0.00 0.00 0.00 3.36
564 619 2.609737 GGAATCGAATCCGCTATCCGTT 60.610 50.000 3.20 0.00 35.37 4.44
578 633 1.568504 TCCGTTATGCTGGAGAAGGT 58.431 50.000 0.00 0.00 0.00 3.50
608 664 4.748144 GGCAGGAGCTTGGGTGGG 62.748 72.222 0.00 0.00 41.70 4.61
613 671 3.732849 GAGCTTGGGTGGGGGAGG 61.733 72.222 0.00 0.00 0.00 4.30
652 713 5.437060 GAATGAAGTGGCTAGGGTTTGATA 58.563 41.667 0.00 0.00 0.00 2.15
663 724 1.427819 GTTTGATACGGCAAGCGGG 59.572 57.895 4.64 0.00 0.00 6.13
685 746 4.398319 GTGGGGAGAAATATATGTGTGGG 58.602 47.826 0.00 0.00 0.00 4.61
687 748 3.421844 GGGAGAAATATATGTGTGGGCC 58.578 50.000 0.00 0.00 0.00 5.80
688 749 3.181434 GGGAGAAATATATGTGTGGGCCA 60.181 47.826 0.00 0.00 0.00 5.36
692 753 3.951563 AATATATGTGTGGGCCAGTGT 57.048 42.857 6.40 0.00 0.00 3.55
738 818 2.425592 CCGGGCGCTTCATATCCA 59.574 61.111 7.64 0.00 0.00 3.41
756 836 8.163408 TCATATCCACTTCATATTTAGGTTGGG 58.837 37.037 0.00 0.00 0.00 4.12
762 842 9.635404 CCACTTCATATTTAGGTTGGGTATAAA 57.365 33.333 0.00 0.00 0.00 1.40
792 872 2.029964 GGTCGGACGTTTGAGGCA 59.970 61.111 1.43 0.00 0.00 4.75
835 975 0.246635 ACGTTCGGCTGTAGATGCTT 59.753 50.000 0.00 0.00 0.00 3.91
852 992 9.405587 GTAGATGCTTTAATTAAACTTTGCACA 57.594 29.630 19.09 9.24 29.46 4.57
862 1003 6.942886 TTAAACTTTGCACAGTTTGACTTG 57.057 33.333 31.57 0.00 44.92 3.16
900 1041 8.171164 ACAAGGTTCTCTTTTTCAAAGATAGG 57.829 34.615 0.00 0.00 32.41 2.57
910 1051 7.406151 TCTTTTTCAAAGATAGGGAGGGAGTAT 59.594 37.037 0.00 0.00 0.00 2.12
940 1081 0.610687 ACTCGGCCCTCTTGAAGAAG 59.389 55.000 0.00 0.00 0.00 2.85
942 1083 0.608640 TCGGCCCTCTTGAAGAAGAC 59.391 55.000 0.00 0.00 34.36 3.01
1608 1749 2.183300 GTGCTCACGACGGCCATA 59.817 61.111 2.24 0.00 0.00 2.74
1791 1932 1.077787 AATGCCCGAGCGGAATGAA 60.078 52.632 11.05 0.00 44.31 2.57
1981 2122 0.610174 ACTTCTCAAGGAGATGCGCA 59.390 50.000 14.96 14.96 38.56 6.09
2097 2238 1.077787 GACAATGCCGATGACCCCA 60.078 57.895 0.00 0.00 0.00 4.96
2181 2322 2.282745 GTGGCAGCCAAGGAGCTT 60.283 61.111 18.28 0.00 42.61 3.74
2241 2382 4.095483 GTCCAGCTGTCCAACATTTATCTG 59.905 45.833 13.81 0.00 0.00 2.90
2316 2457 3.068881 CTCAAGAAGGTCCCGGCA 58.931 61.111 0.00 0.00 0.00 5.69
2328 2469 2.809601 CCGGCATATAGCGCGGTC 60.810 66.667 16.92 0.00 45.82 4.79
2332 2473 1.209383 GCATATAGCGCGGTCGAGA 59.791 57.895 16.92 0.00 38.10 4.04
2454 2598 2.124693 GCCAGACGAGGAGGAGGAG 61.125 68.421 0.00 0.00 0.00 3.69
2472 2616 4.867086 AGGAGGAAGAAACAACCTTTTCA 58.133 39.130 0.00 0.00 37.86 2.69
2477 2621 5.104982 AGGAAGAAACAACCTTTTCATTGCA 60.105 36.000 0.00 0.00 37.86 4.08
2537 2683 6.604735 AACAGACTAACAAGTTAAGCAGTG 57.395 37.500 0.00 0.00 0.00 3.66
2538 2684 5.914033 ACAGACTAACAAGTTAAGCAGTGA 58.086 37.500 0.00 0.00 0.00 3.41
2539 2685 5.986135 ACAGACTAACAAGTTAAGCAGTGAG 59.014 40.000 0.00 0.00 0.00 3.51
2540 2686 4.991687 AGACTAACAAGTTAAGCAGTGAGC 59.008 41.667 0.00 0.00 46.19 4.26
2598 2754 6.429385 GCCAAGGAATATGATACTCAGGAAAG 59.571 42.308 0.00 0.00 0.00 2.62
2605 2761 9.474920 GAATATGATACTCAGGAAAGAACAGAG 57.525 37.037 0.00 0.00 0.00 3.35
2637 2793 4.570369 AGCACCAAACACAAAGTATTTTGC 59.430 37.500 10.35 0.00 46.05 3.68
2643 2802 6.254589 CCAAACACAAAGTATTTTGCTTCGAA 59.745 34.615 10.35 0.00 46.05 3.71
2687 2847 3.574284 TGCTCAAATTTGATTGGGTCG 57.426 42.857 20.76 8.87 36.46 4.79
2724 2884 2.980233 GGTTCGCCAGCACTGCTT 60.980 61.111 0.00 0.00 36.40 3.91
2742 2902 4.763073 TGCTTGACCTCTTGATCATACTG 58.237 43.478 0.00 0.00 0.00 2.74
2755 2915 9.300681 TCTTGATCATACTGAAGTTTCCATTTT 57.699 29.630 0.00 0.00 0.00 1.82
2843 3004 4.303086 CCTAATCAAATGCAAGGCTCAG 57.697 45.455 0.00 0.00 0.00 3.35
2848 3009 2.813754 TCAAATGCAAGGCTCAGTGTAC 59.186 45.455 0.00 0.00 0.00 2.90
2849 3010 1.826385 AATGCAAGGCTCAGTGTACC 58.174 50.000 0.00 0.00 0.00 3.34
2880 3041 5.473504 TCTTTTGTAGGATTGTTCTTCTGGC 59.526 40.000 0.00 0.00 0.00 4.85
3059 3220 8.209917 GTAACCCAATTACCTGTCATTTCTAG 57.790 38.462 0.00 0.00 37.76 2.43
3074 3235 9.391006 TGTCATTTCTAGTTCCATTATGGTTAC 57.609 33.333 11.39 10.50 39.03 2.50
3097 3258 7.826918 ACTTACCTGTCAGTAGAATCTATCC 57.173 40.000 0.00 0.00 0.00 2.59
3132 3293 2.941720 GCTTGGATGCTTAGTTCAGAGG 59.058 50.000 0.00 0.00 0.00 3.69
3148 3309 5.378230 TCAGAGGCATCCATTTCTAATGT 57.622 39.130 0.00 0.00 0.00 2.71
3149 3310 5.371526 TCAGAGGCATCCATTTCTAATGTC 58.628 41.667 0.00 0.00 0.00 3.06
3192 3353 3.976793 GTGTGCAATCCATACCATCAG 57.023 47.619 0.00 0.00 30.10 2.90
3197 3358 2.553904 GCAATCCATACCATCAGGAGGG 60.554 54.545 0.00 0.00 38.69 4.30
3269 3432 8.747538 AATGGTTAGTATGGTATGAACCTTTC 57.252 34.615 3.95 0.00 46.91 2.62
3279 3442 2.708216 TGAACCTTTCAGACAGTGCA 57.292 45.000 0.00 0.00 34.08 4.57
3280 3443 2.564771 TGAACCTTTCAGACAGTGCAG 58.435 47.619 0.00 0.00 34.08 4.41
3281 3444 2.170397 TGAACCTTTCAGACAGTGCAGA 59.830 45.455 0.00 0.00 34.08 4.26
3282 3445 3.206150 GAACCTTTCAGACAGTGCAGAA 58.794 45.455 0.00 0.00 0.00 3.02
3283 3446 2.843701 ACCTTTCAGACAGTGCAGAAG 58.156 47.619 0.00 0.00 0.00 2.85
3284 3447 2.149578 CCTTTCAGACAGTGCAGAAGG 58.850 52.381 0.00 0.00 0.00 3.46
3285 3448 2.224378 CCTTTCAGACAGTGCAGAAGGA 60.224 50.000 0.00 0.00 34.70 3.36
3286 3449 3.470709 CTTTCAGACAGTGCAGAAGGAA 58.529 45.455 0.00 0.00 0.00 3.36
3287 3450 3.777106 TTCAGACAGTGCAGAAGGAAT 57.223 42.857 0.00 0.00 0.00 3.01
3288 3451 3.777106 TCAGACAGTGCAGAAGGAATT 57.223 42.857 0.00 0.00 0.00 2.17
3289 3452 4.890158 TCAGACAGTGCAGAAGGAATTA 57.110 40.909 0.00 0.00 0.00 1.40
3290 3453 5.426689 TCAGACAGTGCAGAAGGAATTAT 57.573 39.130 0.00 0.00 0.00 1.28
3291 3454 5.809001 TCAGACAGTGCAGAAGGAATTATT 58.191 37.500 0.00 0.00 0.00 1.40
3292 3455 5.877012 TCAGACAGTGCAGAAGGAATTATTC 59.123 40.000 0.00 0.00 0.00 1.75
3293 3456 5.645067 CAGACAGTGCAGAAGGAATTATTCA 59.355 40.000 7.29 0.00 0.00 2.57
3294 3457 6.149973 CAGACAGTGCAGAAGGAATTATTCAA 59.850 38.462 7.29 0.00 0.00 2.69
3295 3458 6.716628 AGACAGTGCAGAAGGAATTATTCAAA 59.283 34.615 7.29 0.00 0.00 2.69
3296 3459 7.395489 AGACAGTGCAGAAGGAATTATTCAAAT 59.605 33.333 7.29 0.00 0.00 2.32
3297 3460 7.542025 ACAGTGCAGAAGGAATTATTCAAATC 58.458 34.615 7.29 2.18 0.00 2.17
3298 3461 6.976925 CAGTGCAGAAGGAATTATTCAAATCC 59.023 38.462 7.29 0.00 34.36 3.01
3299 3462 6.894103 AGTGCAGAAGGAATTATTCAAATCCT 59.106 34.615 7.29 0.00 44.54 3.24
3334 3497 8.768501 AAAGGAATTATTCAAATACTCCCTCC 57.231 34.615 7.29 0.00 0.00 4.30
3335 3498 6.534634 AGGAATTATTCAAATACTCCCTCCG 58.465 40.000 7.29 0.00 0.00 4.63
3336 3499 6.101296 AGGAATTATTCAAATACTCCCTCCGT 59.899 38.462 7.29 0.00 0.00 4.69
3337 3500 6.771267 GGAATTATTCAAATACTCCCTCCGTT 59.229 38.462 7.29 0.00 0.00 4.44
3338 3501 7.041303 GGAATTATTCAAATACTCCCTCCGTTC 60.041 40.741 7.29 0.00 0.00 3.95
3339 3502 3.622166 TTCAAATACTCCCTCCGTTCC 57.378 47.619 0.00 0.00 0.00 3.62
3340 3503 2.829023 TCAAATACTCCCTCCGTTCCT 58.171 47.619 0.00 0.00 0.00 3.36
3341 3504 3.985127 TCAAATACTCCCTCCGTTCCTA 58.015 45.455 0.00 0.00 0.00 2.94
3342 3505 4.355549 TCAAATACTCCCTCCGTTCCTAA 58.644 43.478 0.00 0.00 0.00 2.69
3343 3506 4.778958 TCAAATACTCCCTCCGTTCCTAAA 59.221 41.667 0.00 0.00 0.00 1.85
3344 3507 5.427481 TCAAATACTCCCTCCGTTCCTAAAT 59.573 40.000 0.00 0.00 0.00 1.40
3345 3508 6.612456 TCAAATACTCCCTCCGTTCCTAAATA 59.388 38.462 0.00 0.00 0.00 1.40
3346 3509 7.291651 TCAAATACTCCCTCCGTTCCTAAATAT 59.708 37.037 0.00 0.00 0.00 1.28
3347 3510 7.628501 AATACTCCCTCCGTTCCTAAATATT 57.371 36.000 0.00 0.00 0.00 1.28
3348 3511 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
3349 3512 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
3350 3513 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
3351 3514 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
3352 3515 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
3353 3516 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
3354 3517 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
3355 3518 7.122204 CCCTCCGTTCCTAAATATTTGTCTTTT 59.878 37.037 11.05 0.00 0.00 2.27
3356 3519 8.520351 CCTCCGTTCCTAAATATTTGTCTTTTT 58.480 33.333 11.05 0.00 0.00 1.94
3371 3534 8.940768 TTTGTCTTTTTAGAGGTTTCAAATGG 57.059 30.769 0.00 0.00 0.00 3.16
3372 3535 7.654022 TGTCTTTTTAGAGGTTTCAAATGGT 57.346 32.000 0.00 0.00 0.00 3.55
3373 3536 7.488322 TGTCTTTTTAGAGGTTTCAAATGGTG 58.512 34.615 0.00 0.00 0.00 4.17
3374 3537 7.340743 TGTCTTTTTAGAGGTTTCAAATGGTGA 59.659 33.333 0.00 0.00 0.00 4.02
3375 3538 7.648112 GTCTTTTTAGAGGTTTCAAATGGTGAC 59.352 37.037 0.00 0.00 35.39 3.67
3376 3539 7.559897 TCTTTTTAGAGGTTTCAAATGGTGACT 59.440 33.333 0.00 0.00 35.39 3.41
3377 3540 8.754991 TTTTTAGAGGTTTCAAATGGTGACTA 57.245 30.769 0.00 0.00 35.39 2.59
3378 3541 7.739498 TTTAGAGGTTTCAAATGGTGACTAC 57.261 36.000 0.00 0.00 35.39 2.73
3379 3542 5.304686 AGAGGTTTCAAATGGTGACTACA 57.695 39.130 0.00 0.00 35.39 2.74
3380 3543 5.880901 AGAGGTTTCAAATGGTGACTACAT 58.119 37.500 0.00 0.00 35.39 2.29
3381 3544 7.016153 AGAGGTTTCAAATGGTGACTACATA 57.984 36.000 0.00 0.00 35.39 2.29
3382 3545 6.879458 AGAGGTTTCAAATGGTGACTACATAC 59.121 38.462 0.00 0.00 35.39 2.39
3383 3546 5.642063 AGGTTTCAAATGGTGACTACATACG 59.358 40.000 0.00 0.00 35.39 3.06
3384 3547 5.163794 GGTTTCAAATGGTGACTACATACGG 60.164 44.000 0.00 0.00 35.39 4.02
3385 3548 5.408880 TTCAAATGGTGACTACATACGGA 57.591 39.130 0.00 0.00 35.39 4.69
3386 3549 5.006153 TCAAATGGTGACTACATACGGAG 57.994 43.478 0.00 0.00 0.00 4.63
3387 3550 3.454371 AATGGTGACTACATACGGAGC 57.546 47.619 0.00 0.00 0.00 4.70
3388 3551 1.842052 TGGTGACTACATACGGAGCA 58.158 50.000 0.00 0.00 0.00 4.26
3389 3552 2.172679 TGGTGACTACATACGGAGCAA 58.827 47.619 0.00 0.00 0.00 3.91
3390 3553 2.563620 TGGTGACTACATACGGAGCAAA 59.436 45.455 0.00 0.00 0.00 3.68
3391 3554 3.007074 TGGTGACTACATACGGAGCAAAA 59.993 43.478 0.00 0.00 0.00 2.44
3392 3555 4.189231 GGTGACTACATACGGAGCAAAAT 58.811 43.478 0.00 0.00 0.00 1.82
3393 3556 4.034048 GGTGACTACATACGGAGCAAAATG 59.966 45.833 0.00 0.00 0.00 2.32
3394 3557 4.868171 GTGACTACATACGGAGCAAAATGA 59.132 41.667 0.00 0.00 0.00 2.57
3395 3558 5.005779 GTGACTACATACGGAGCAAAATGAG 59.994 44.000 0.00 0.00 0.00 2.90
3396 3559 5.086104 ACTACATACGGAGCAAAATGAGT 57.914 39.130 0.00 0.00 0.00 3.41
3397 3560 4.870426 ACTACATACGGAGCAAAATGAGTG 59.130 41.667 0.00 0.00 0.00 3.51
3398 3561 3.937814 ACATACGGAGCAAAATGAGTGA 58.062 40.909 0.00 0.00 0.00 3.41
3399 3562 4.323417 ACATACGGAGCAAAATGAGTGAA 58.677 39.130 0.00 0.00 0.00 3.18
3400 3563 4.943705 ACATACGGAGCAAAATGAGTGAAT 59.056 37.500 0.00 0.00 0.00 2.57
3401 3564 5.065218 ACATACGGAGCAAAATGAGTGAATC 59.935 40.000 0.00 0.00 0.00 2.52
3402 3565 3.679389 ACGGAGCAAAATGAGTGAATCT 58.321 40.909 0.00 0.00 0.00 2.40
3403 3566 4.832248 ACGGAGCAAAATGAGTGAATCTA 58.168 39.130 0.00 0.00 0.00 1.98
3404 3567 5.431765 ACGGAGCAAAATGAGTGAATCTAT 58.568 37.500 0.00 0.00 0.00 1.98
3405 3568 6.582636 ACGGAGCAAAATGAGTGAATCTATA 58.417 36.000 0.00 0.00 0.00 1.31
3406 3569 6.480320 ACGGAGCAAAATGAGTGAATCTATAC 59.520 38.462 0.00 0.00 0.00 1.47
3407 3570 6.703607 CGGAGCAAAATGAGTGAATCTATACT 59.296 38.462 0.00 0.00 0.00 2.12
3408 3571 7.095857 CGGAGCAAAATGAGTGAATCTATACTC 60.096 40.741 0.00 0.00 42.77 2.59
3409 3572 7.930865 GGAGCAAAATGAGTGAATCTATACTCT 59.069 37.037 0.00 0.00 42.86 3.24
3410 3573 9.973450 GAGCAAAATGAGTGAATCTATACTCTA 57.027 33.333 0.00 0.00 42.86 2.43
3439 3602 7.956328 ATGTCTATATACATCCGTATGTGGT 57.044 36.000 3.56 0.00 45.99 4.16
3440 3603 7.153217 TGTCTATATACATCCGTATGTGGTG 57.847 40.000 3.56 0.00 45.99 4.17
3441 3604 6.943718 TGTCTATATACATCCGTATGTGGTGA 59.056 38.462 3.56 0.00 45.99 4.02
3442 3605 7.094506 TGTCTATATACATCCGTATGTGGTGAC 60.095 40.741 3.56 5.93 45.99 3.67
3443 3606 3.746045 ATACATCCGTATGTGGTGACC 57.254 47.619 3.56 0.00 45.99 4.02
3444 3607 1.271856 ACATCCGTATGTGGTGACCA 58.728 50.000 0.00 0.00 44.79 4.02
3445 3608 1.837439 ACATCCGTATGTGGTGACCAT 59.163 47.619 7.94 0.00 44.79 3.55
3446 3609 2.238646 ACATCCGTATGTGGTGACCATT 59.761 45.455 7.94 0.86 44.79 3.16
3447 3610 3.278574 CATCCGTATGTGGTGACCATTT 58.721 45.455 7.94 0.45 35.28 2.32
3448 3611 2.705730 TCCGTATGTGGTGACCATTTG 58.294 47.619 7.94 0.00 35.28 2.32
3449 3612 2.303311 TCCGTATGTGGTGACCATTTGA 59.697 45.455 7.94 0.00 35.28 2.69
3450 3613 3.078097 CCGTATGTGGTGACCATTTGAA 58.922 45.455 7.94 0.00 35.28 2.69
3451 3614 3.504134 CCGTATGTGGTGACCATTTGAAA 59.496 43.478 7.94 0.00 35.28 2.69
3452 3615 4.157656 CCGTATGTGGTGACCATTTGAAAT 59.842 41.667 7.94 0.00 35.28 2.17
3453 3616 5.331902 CGTATGTGGTGACCATTTGAAATC 58.668 41.667 7.94 0.00 35.28 2.17
3454 3617 5.123820 CGTATGTGGTGACCATTTGAAATCT 59.876 40.000 7.94 0.00 35.28 2.40
3455 3618 5.649782 ATGTGGTGACCATTTGAAATCTC 57.350 39.130 7.94 0.00 35.28 2.75
3456 3619 4.728772 TGTGGTGACCATTTGAAATCTCT 58.271 39.130 7.94 0.00 35.28 3.10
3457 3620 5.875224 TGTGGTGACCATTTGAAATCTCTA 58.125 37.500 7.94 0.00 35.28 2.43
3458 3621 5.939883 TGTGGTGACCATTTGAAATCTCTAG 59.060 40.000 7.94 0.00 35.28 2.43
3459 3622 6.173339 GTGGTGACCATTTGAAATCTCTAGA 58.827 40.000 7.94 0.00 35.28 2.43
3460 3623 6.655003 GTGGTGACCATTTGAAATCTCTAGAA 59.345 38.462 7.94 0.00 35.28 2.10
3461 3624 7.174946 GTGGTGACCATTTGAAATCTCTAGAAA 59.825 37.037 7.94 0.00 35.28 2.52
3462 3625 7.391554 TGGTGACCATTTGAAATCTCTAGAAAG 59.608 37.037 0.00 0.00 0.00 2.62
3463 3626 7.607991 GGTGACCATTTGAAATCTCTAGAAAGA 59.392 37.037 0.00 0.00 0.00 2.52
3464 3627 8.447053 GTGACCATTTGAAATCTCTAGAAAGAC 58.553 37.037 0.00 0.00 0.00 3.01
3465 3628 8.156820 TGACCATTTGAAATCTCTAGAAAGACA 58.843 33.333 0.00 0.00 0.00 3.41
3466 3629 8.924511 ACCATTTGAAATCTCTAGAAAGACAA 57.075 30.769 0.00 0.00 0.00 3.18
3467 3630 9.354673 ACCATTTGAAATCTCTAGAAAGACAAA 57.645 29.630 0.00 4.41 0.00 2.83
3480 3643 9.595823 TCTAGAAAGACAAATATTTAGGAACGG 57.404 33.333 0.00 0.00 0.00 4.44
3481 3644 9.595823 CTAGAAAGACAAATATTTAGGAACGGA 57.404 33.333 0.00 0.00 0.00 4.69
3482 3645 8.494016 AGAAAGACAAATATTTAGGAACGGAG 57.506 34.615 0.00 0.00 0.00 4.63
3483 3646 7.553044 AGAAAGACAAATATTTAGGAACGGAGG 59.447 37.037 0.00 0.00 0.00 4.30
3484 3647 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
3485 3648 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
3486 3649 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
3487 3650 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
3488 3651 6.384886 ACAAATATTTAGGAACGGAGGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
3489 3652 6.416631 AATATTTAGGAACGGAGGGAGTAC 57.583 41.667 0.00 0.00 0.00 2.73
3490 3653 3.463048 TTTAGGAACGGAGGGAGTACT 57.537 47.619 0.00 0.00 0.00 2.73
3491 3654 3.463048 TTAGGAACGGAGGGAGTACTT 57.537 47.619 0.00 0.00 0.00 2.24
3492 3655 4.591321 TTAGGAACGGAGGGAGTACTTA 57.409 45.455 0.00 0.00 0.00 2.24
3493 3656 2.732763 AGGAACGGAGGGAGTACTTAC 58.267 52.381 0.00 0.00 0.00 2.34
3494 3657 1.403323 GGAACGGAGGGAGTACTTACG 59.597 57.143 0.00 0.00 0.00 3.18
3495 3658 2.359900 GAACGGAGGGAGTACTTACGA 58.640 52.381 4.69 0.00 0.00 3.43
3496 3659 2.496899 ACGGAGGGAGTACTTACGAA 57.503 50.000 4.69 0.00 0.00 3.85
3497 3660 3.010200 ACGGAGGGAGTACTTACGAAT 57.990 47.619 4.69 0.00 0.00 3.34
3498 3661 2.948315 ACGGAGGGAGTACTTACGAATC 59.052 50.000 4.69 0.00 0.00 2.52
3499 3662 2.947652 CGGAGGGAGTACTTACGAATCA 59.052 50.000 0.00 0.00 0.00 2.57
3500 3663 3.568853 CGGAGGGAGTACTTACGAATCAT 59.431 47.826 0.00 0.00 0.00 2.45
3501 3664 4.556898 CGGAGGGAGTACTTACGAATCATG 60.557 50.000 0.00 0.00 0.00 3.07
3502 3665 4.583489 GGAGGGAGTACTTACGAATCATGA 59.417 45.833 0.00 0.00 0.00 3.07
3503 3666 5.278561 GGAGGGAGTACTTACGAATCATGAG 60.279 48.000 0.09 0.00 0.00 2.90
3504 3667 5.202004 AGGGAGTACTTACGAATCATGAGT 58.798 41.667 0.09 0.00 0.00 3.41
3505 3668 5.657302 AGGGAGTACTTACGAATCATGAGTT 59.343 40.000 0.09 0.00 0.00 3.01
3506 3669 5.978322 GGGAGTACTTACGAATCATGAGTTC 59.022 44.000 0.09 4.86 0.00 3.01
3507 3670 6.183360 GGGAGTACTTACGAATCATGAGTTCT 60.183 42.308 0.09 0.00 0.00 3.01
3508 3671 7.013083 GGGAGTACTTACGAATCATGAGTTCTA 59.987 40.741 0.09 0.00 0.00 2.10
3509 3672 8.404000 GGAGTACTTACGAATCATGAGTTCTAA 58.596 37.037 0.09 0.00 0.00 2.10
3510 3673 9.953697 GAGTACTTACGAATCATGAGTTCTAAT 57.046 33.333 0.09 0.00 0.00 1.73
3516 3679 7.470289 ACGAATCATGAGTTCTAATAACAGC 57.530 36.000 0.09 0.00 0.00 4.40
3517 3680 6.480320 ACGAATCATGAGTTCTAATAACAGCC 59.520 38.462 0.09 0.00 0.00 4.85
3518 3681 6.703607 CGAATCATGAGTTCTAATAACAGCCT 59.296 38.462 0.09 0.00 0.00 4.58
3519 3682 7.867909 CGAATCATGAGTTCTAATAACAGCCTA 59.132 37.037 0.09 0.00 0.00 3.93
3520 3683 9.717942 GAATCATGAGTTCTAATAACAGCCTAT 57.282 33.333 0.09 0.00 0.00 2.57
3523 3686 9.547753 TCATGAGTTCTAATAACAGCCTATTTC 57.452 33.333 0.00 0.00 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 0.107312 CCGACGAGGAAGAGTAGGGA 60.107 60.000 0.00 0.00 45.00 4.20
81 82 2.105477 CTCGTCCCAAGATGGATCCATT 59.895 50.000 27.93 11.80 40.96 3.16
121 124 3.803082 CAGGCACCACAATCGCGG 61.803 66.667 6.13 0.00 0.00 6.46
126 129 1.075482 CCAGTCCAGGCACCACAAT 59.925 57.895 0.00 0.00 0.00 2.71
371 410 1.134521 GGTGCATGGATCCGACACTAA 60.135 52.381 23.17 0.46 0.00 2.24
517 564 1.141881 CCAGATTCGTCGACCCCAG 59.858 63.158 10.58 0.00 0.00 4.45
546 601 3.770666 CATAACGGATAGCGGATTCGAT 58.229 45.455 9.07 0.00 39.07 3.59
564 619 1.403814 CTCCGACCTTCTCCAGCATA 58.596 55.000 0.00 0.00 0.00 3.14
608 664 1.075151 CTCCCTACACTCCCCTCCC 60.075 68.421 0.00 0.00 0.00 4.30
613 671 1.486726 CATTCCACTCCCTACACTCCC 59.513 57.143 0.00 0.00 0.00 4.30
663 724 4.398319 CCCACACATATATTTCTCCCCAC 58.602 47.826 0.00 0.00 0.00 4.61
687 748 2.978010 GGACACCGGCCAACACTG 60.978 66.667 0.00 0.00 0.00 3.66
688 749 4.619227 CGGACACCGGCCAACACT 62.619 66.667 0.00 0.00 44.15 3.55
718 786 1.961277 GATATGAAGCGCCCGGGTG 60.961 63.158 30.35 30.35 0.00 4.61
719 787 2.426023 GATATGAAGCGCCCGGGT 59.574 61.111 24.63 0.09 0.00 5.28
729 809 9.573166 CCAACCTAAATATGAAGTGGATATGAA 57.427 33.333 0.00 0.00 0.00 2.57
730 810 8.163408 CCCAACCTAAATATGAAGTGGATATGA 58.837 37.037 0.00 0.00 0.00 2.15
738 818 9.862149 CCTTTATACCCAACCTAAATATGAAGT 57.138 33.333 0.00 0.00 0.00 3.01
756 836 1.474498 CCTGACCGGCACCCTTTATAC 60.474 57.143 0.00 0.00 0.00 1.47
792 872 1.032014 AACTTGCCTCAAACACGCAT 58.968 45.000 0.00 0.00 31.44 4.73
808 948 0.104304 ACAGCCGAACGTCTCAAACT 59.896 50.000 0.00 0.00 0.00 2.66
835 975 9.646427 AAGTCAAACTGTGCAAAGTTTAATTAA 57.354 25.926 29.97 13.51 46.19 1.40
852 992 9.495572 TTGTAAATTTTGGTTTCAAGTCAAACT 57.504 25.926 0.00 0.00 36.62 2.66
862 1003 8.942338 AAGAGAACCTTGTAAATTTTGGTTTC 57.058 30.769 14.38 13.26 40.60 2.78
897 1038 1.090833 GGCCCTATACTCCCTCCCTA 58.909 60.000 0.00 0.00 0.00 3.53
900 1041 1.195442 GCTGGCCCTATACTCCCTCC 61.195 65.000 0.00 0.00 0.00 4.30
910 1051 4.096003 GCCGAGTTGCTGGCCCTA 62.096 66.667 0.00 0.00 45.73 3.53
940 1081 1.760029 GGAATGGGAGAGACCTCTGTC 59.240 57.143 3.99 0.00 40.61 3.51
942 1083 1.127343 GGGAATGGGAGAGACCTCTG 58.873 60.000 3.99 0.00 40.61 3.35
1005 1146 2.516225 GCCTTGGGGATGTACGGC 60.516 66.667 0.00 0.00 33.58 5.68
1366 1507 0.391793 GGGAAGAGGGCGTTCTTGAG 60.392 60.000 7.50 0.00 37.53 3.02
1779 1920 1.781429 CAGACGTATTCATTCCGCTCG 59.219 52.381 0.00 0.00 0.00 5.03
1791 1932 1.526887 CATGGTGCCCCAGACGTAT 59.473 57.895 0.00 0.00 46.15 3.06
2015 2156 2.931068 ATGTCGACCGTGCAGCTGA 61.931 57.895 20.43 0.00 0.00 4.26
2097 2238 4.082523 CCCCACACCGATGCGAGT 62.083 66.667 0.00 0.00 0.00 4.18
2148 2289 1.367471 CACCTCTGCCAACTCGACA 59.633 57.895 0.00 0.00 0.00 4.35
2181 2322 1.528824 GCCCATGCCTAGCTTCTCA 59.471 57.895 0.00 0.00 0.00 3.27
2289 2430 0.034089 CCTTCTTGAGCCCCCGATTT 60.034 55.000 0.00 0.00 0.00 2.17
2291 2432 1.616628 ACCTTCTTGAGCCCCCGAT 60.617 57.895 0.00 0.00 0.00 4.18
2292 2433 2.203938 ACCTTCTTGAGCCCCCGA 60.204 61.111 0.00 0.00 0.00 5.14
2316 2457 0.374063 CGATCTCGACCGCGCTATAT 59.626 55.000 5.56 0.00 43.02 0.86
2328 2469 0.238553 TTAGCTCGCCATCGATCTCG 59.761 55.000 0.00 1.85 44.56 4.04
2332 2473 0.038709 GAGCTTAGCTCGCCATCGAT 60.039 55.000 18.89 0.00 45.85 3.59
2380 2521 0.827925 TCCCATATCTCGAAGCGCCT 60.828 55.000 2.29 0.00 0.00 5.52
2432 2573 1.671901 CTCCTCCTCGTCTGGCTTCC 61.672 65.000 0.00 0.00 0.00 3.46
2437 2578 1.454847 CCTCCTCCTCCTCGTCTGG 60.455 68.421 0.00 0.00 0.00 3.86
2454 2598 5.115480 TGCAATGAAAAGGTTGTTTCTTCC 58.885 37.500 0.00 0.00 38.17 3.46
2472 2616 7.271511 TGTTTTTCTTGTTACAAGGATGCAAT 58.728 30.769 22.82 0.00 0.00 3.56
2537 2683 4.451652 GTTTGCTGCTCCGCGCTC 62.452 66.667 5.56 0.00 40.11 5.03
2540 2686 1.490693 ATATCGTTTGCTGCTCCGCG 61.491 55.000 0.00 0.00 0.00 6.46
2541 2687 0.657840 AATATCGTTTGCTGCTCCGC 59.342 50.000 0.00 0.00 0.00 5.54
2542 2688 4.732285 ATAAATATCGTTTGCTGCTCCG 57.268 40.909 0.00 0.39 0.00 4.63
2543 2689 6.060028 TCAATAAATATCGTTTGCTGCTCC 57.940 37.500 0.00 0.00 0.00 4.70
2661 2820 6.825610 ACCCAATCAAATTTGAGCAAAACTA 58.174 32.000 24.17 0.21 41.08 2.24
2669 2828 5.048782 TCAAGACGACCCAATCAAATTTGAG 60.049 40.000 24.17 13.90 41.08 3.02
2680 2839 5.542251 TCCATCATATATCAAGACGACCCAA 59.458 40.000 0.00 0.00 0.00 4.12
2681 2840 5.083821 TCCATCATATATCAAGACGACCCA 58.916 41.667 0.00 0.00 0.00 4.51
2687 2847 7.413438 GCGAACCATTCCATCATATATCAAGAC 60.413 40.741 0.00 0.00 0.00 3.01
2742 2902 9.237187 AGAATCTCTTAGGAAAATGGAAACTTC 57.763 33.333 0.00 0.00 0.00 3.01
2880 3041 8.915057 ATGATACCAGAAGAACAATCCTAATG 57.085 34.615 0.00 0.00 0.00 1.90
3074 3235 7.721842 TGAGGATAGATTCTACTGACAGGTAAG 59.278 40.741 7.51 1.59 0.00 2.34
3132 3293 8.790718 ACATATTCTGACATTAGAAATGGATGC 58.209 33.333 4.78 0.00 39.87 3.91
3148 3309 7.119699 CACCTTAAAGTCTGCAACATATTCTGA 59.880 37.037 0.00 0.00 0.00 3.27
3149 3310 7.094634 ACACCTTAAAGTCTGCAACATATTCTG 60.095 37.037 0.00 0.00 0.00 3.02
3192 3353 3.134985 GTCTCCTGGTATCTTTTCCCTCC 59.865 52.174 0.00 0.00 0.00 4.30
3197 3358 6.043854 ACAGAAGTCTCCTGGTATCTTTTC 57.956 41.667 0.00 0.00 36.03 2.29
3240 3403 8.154649 GGTTCATACCATACTAACCATTTCAG 57.845 38.462 0.00 0.00 44.36 3.02
3269 3432 5.645067 TGAATAATTCCTTCTGCACTGTCTG 59.355 40.000 0.00 0.00 0.00 3.51
3273 3436 6.976925 GGATTTGAATAATTCCTTCTGCACTG 59.023 38.462 0.00 0.00 34.81 3.66
3274 3437 6.894103 AGGATTTGAATAATTCCTTCTGCACT 59.106 34.615 0.00 0.00 41.56 4.40
3275 3438 7.105241 AGGATTTGAATAATTCCTTCTGCAC 57.895 36.000 0.00 0.00 41.56 4.57
3276 3439 7.722949 AAGGATTTGAATAATTCCTTCTGCA 57.277 32.000 9.30 0.00 46.22 4.41
3308 3471 9.201989 GGAGGGAGTATTTGAATAATTCCTTTT 57.798 33.333 11.27 0.00 43.22 2.27
3309 3472 7.502561 CGGAGGGAGTATTTGAATAATTCCTTT 59.497 37.037 11.27 3.97 43.22 3.11
3310 3473 6.998673 CGGAGGGAGTATTTGAATAATTCCTT 59.001 38.462 11.27 6.30 43.22 3.36
3311 3474 6.101296 ACGGAGGGAGTATTTGAATAATTCCT 59.899 38.462 10.08 10.08 45.22 3.36
3312 3475 6.296803 ACGGAGGGAGTATTTGAATAATTCC 58.703 40.000 1.15 1.15 35.35 3.01
3313 3476 7.041303 GGAACGGAGGGAGTATTTGAATAATTC 60.041 40.741 0.00 0.00 0.00 2.17
3314 3477 6.771267 GGAACGGAGGGAGTATTTGAATAATT 59.229 38.462 0.00 0.00 0.00 1.40
3315 3478 6.101296 AGGAACGGAGGGAGTATTTGAATAAT 59.899 38.462 0.00 0.00 0.00 1.28
3316 3479 5.427481 AGGAACGGAGGGAGTATTTGAATAA 59.573 40.000 0.00 0.00 0.00 1.40
3317 3480 4.966805 AGGAACGGAGGGAGTATTTGAATA 59.033 41.667 0.00 0.00 0.00 1.75
3318 3481 3.780850 AGGAACGGAGGGAGTATTTGAAT 59.219 43.478 0.00 0.00 0.00 2.57
3319 3482 3.178865 AGGAACGGAGGGAGTATTTGAA 58.821 45.455 0.00 0.00 0.00 2.69
3320 3483 2.829023 AGGAACGGAGGGAGTATTTGA 58.171 47.619 0.00 0.00 0.00 2.69
3321 3484 4.748277 TTAGGAACGGAGGGAGTATTTG 57.252 45.455 0.00 0.00 0.00 2.32
3322 3485 5.970501 ATTTAGGAACGGAGGGAGTATTT 57.029 39.130 0.00 0.00 0.00 1.40
3323 3486 7.628501 AATATTTAGGAACGGAGGGAGTATT 57.371 36.000 0.00 0.00 0.00 1.89
3324 3487 7.072076 ACAAATATTTAGGAACGGAGGGAGTAT 59.928 37.037 0.00 0.00 0.00 2.12
3325 3488 6.384886 ACAAATATTTAGGAACGGAGGGAGTA 59.615 38.462 0.00 0.00 0.00 2.59
3326 3489 5.191124 ACAAATATTTAGGAACGGAGGGAGT 59.809 40.000 0.00 0.00 0.00 3.85
3327 3490 5.681639 ACAAATATTTAGGAACGGAGGGAG 58.318 41.667 0.00 0.00 0.00 4.30
3328 3491 5.427481 AGACAAATATTTAGGAACGGAGGGA 59.573 40.000 0.00 0.00 0.00 4.20
3329 3492 5.681639 AGACAAATATTTAGGAACGGAGGG 58.318 41.667 0.00 0.00 0.00 4.30
3330 3493 7.625828 AAAGACAAATATTTAGGAACGGAGG 57.374 36.000 0.00 0.00 0.00 4.30
3345 3508 9.546428 CCATTTGAAACCTCTAAAAAGACAAAT 57.454 29.630 0.00 0.00 36.38 2.32
3346 3509 8.536175 ACCATTTGAAACCTCTAAAAAGACAAA 58.464 29.630 0.00 0.00 0.00 2.83
3347 3510 7.978975 CACCATTTGAAACCTCTAAAAAGACAA 59.021 33.333 0.00 0.00 0.00 3.18
3348 3511 7.340743 TCACCATTTGAAACCTCTAAAAAGACA 59.659 33.333 0.00 0.00 0.00 3.41
3349 3512 7.648112 GTCACCATTTGAAACCTCTAAAAAGAC 59.352 37.037 0.00 0.00 35.39 3.01
3350 3513 7.559897 AGTCACCATTTGAAACCTCTAAAAAGA 59.440 33.333 0.00 0.00 35.39 2.52
3351 3514 7.716612 AGTCACCATTTGAAACCTCTAAAAAG 58.283 34.615 0.00 0.00 35.39 2.27
3352 3515 7.654022 AGTCACCATTTGAAACCTCTAAAAA 57.346 32.000 0.00 0.00 35.39 1.94
3353 3516 7.776030 TGTAGTCACCATTTGAAACCTCTAAAA 59.224 33.333 0.00 0.00 35.39 1.52
3354 3517 7.284074 TGTAGTCACCATTTGAAACCTCTAAA 58.716 34.615 0.00 0.00 35.39 1.85
3355 3518 6.833041 TGTAGTCACCATTTGAAACCTCTAA 58.167 36.000 0.00 0.00 35.39 2.10
3356 3519 6.428083 TGTAGTCACCATTTGAAACCTCTA 57.572 37.500 0.00 0.00 35.39 2.43
3357 3520 5.304686 TGTAGTCACCATTTGAAACCTCT 57.695 39.130 0.00 0.00 35.39 3.69
3358 3521 6.183360 CGTATGTAGTCACCATTTGAAACCTC 60.183 42.308 0.00 0.00 35.39 3.85
3359 3522 5.642063 CGTATGTAGTCACCATTTGAAACCT 59.358 40.000 0.00 0.00 35.39 3.50
3360 3523 5.163794 CCGTATGTAGTCACCATTTGAAACC 60.164 44.000 0.00 0.00 35.39 3.27
3361 3524 5.640357 TCCGTATGTAGTCACCATTTGAAAC 59.360 40.000 0.00 0.00 35.39 2.78
3362 3525 5.795972 TCCGTATGTAGTCACCATTTGAAA 58.204 37.500 0.00 0.00 35.39 2.69
3363 3526 5.408880 TCCGTATGTAGTCACCATTTGAA 57.591 39.130 0.00 0.00 35.39 2.69
3364 3527 4.679639 GCTCCGTATGTAGTCACCATTTGA 60.680 45.833 0.00 0.00 0.00 2.69
3365 3528 3.555956 GCTCCGTATGTAGTCACCATTTG 59.444 47.826 0.00 0.00 0.00 2.32
3366 3529 3.196901 TGCTCCGTATGTAGTCACCATTT 59.803 43.478 0.00 0.00 0.00 2.32
3367 3530 2.764010 TGCTCCGTATGTAGTCACCATT 59.236 45.455 0.00 0.00 0.00 3.16
3368 3531 2.384828 TGCTCCGTATGTAGTCACCAT 58.615 47.619 0.00 0.00 0.00 3.55
3369 3532 1.842052 TGCTCCGTATGTAGTCACCA 58.158 50.000 0.00 0.00 0.00 4.17
3370 3533 2.953466 TTGCTCCGTATGTAGTCACC 57.047 50.000 0.00 0.00 0.00 4.02
3371 3534 4.868171 TCATTTTGCTCCGTATGTAGTCAC 59.132 41.667 0.00 0.00 0.00 3.67
3372 3535 5.079689 TCATTTTGCTCCGTATGTAGTCA 57.920 39.130 0.00 0.00 0.00 3.41
3373 3536 5.005779 CACTCATTTTGCTCCGTATGTAGTC 59.994 44.000 0.00 0.00 0.00 2.59
3374 3537 4.870426 CACTCATTTTGCTCCGTATGTAGT 59.130 41.667 0.00 0.00 0.00 2.73
3375 3538 5.109210 TCACTCATTTTGCTCCGTATGTAG 58.891 41.667 0.00 0.00 0.00 2.74
3376 3539 5.079689 TCACTCATTTTGCTCCGTATGTA 57.920 39.130 0.00 0.00 0.00 2.29
3377 3540 3.937814 TCACTCATTTTGCTCCGTATGT 58.062 40.909 0.00 0.00 0.00 2.29
3378 3541 4.944962 TTCACTCATTTTGCTCCGTATG 57.055 40.909 0.00 0.00 0.00 2.39
3379 3542 5.431765 AGATTCACTCATTTTGCTCCGTAT 58.568 37.500 0.00 0.00 0.00 3.06
3380 3543 4.832248 AGATTCACTCATTTTGCTCCGTA 58.168 39.130 0.00 0.00 0.00 4.02
3381 3544 3.679389 AGATTCACTCATTTTGCTCCGT 58.321 40.909 0.00 0.00 0.00 4.69
3382 3545 5.998454 ATAGATTCACTCATTTTGCTCCG 57.002 39.130 0.00 0.00 0.00 4.63
3383 3546 7.930865 AGAGTATAGATTCACTCATTTTGCTCC 59.069 37.037 4.70 0.00 42.99 4.70
3384 3547 8.885494 AGAGTATAGATTCACTCATTTTGCTC 57.115 34.615 4.70 0.00 42.99 4.26
3413 3576 9.642343 ACCACATACGGATGTATATAGACATAT 57.358 33.333 14.23 5.08 44.82 1.78
3414 3577 8.899771 CACCACATACGGATGTATATAGACATA 58.100 37.037 14.23 0.00 44.82 2.29
3415 3578 7.614192 TCACCACATACGGATGTATATAGACAT 59.386 37.037 14.23 12.70 44.82 3.06
3416 3579 6.943718 TCACCACATACGGATGTATATAGACA 59.056 38.462 14.23 2.07 44.82 3.41
3417 3580 7.249147 GTCACCACATACGGATGTATATAGAC 58.751 42.308 14.23 12.97 44.82 2.59
3418 3581 6.376299 GGTCACCACATACGGATGTATATAGA 59.624 42.308 14.23 4.80 44.82 1.98
3419 3582 6.152154 TGGTCACCACATACGGATGTATATAG 59.848 42.308 14.23 0.00 44.82 1.31
3420 3583 6.011481 TGGTCACCACATACGGATGTATATA 58.989 40.000 14.23 0.00 44.82 0.86
3421 3584 4.836175 TGGTCACCACATACGGATGTATAT 59.164 41.667 14.23 0.00 44.82 0.86
3422 3585 4.216708 TGGTCACCACATACGGATGTATA 58.783 43.478 14.23 0.00 44.82 1.47
3423 3586 3.035363 TGGTCACCACATACGGATGTAT 58.965 45.455 14.23 1.38 44.82 2.29
3424 3587 2.458620 TGGTCACCACATACGGATGTA 58.541 47.619 14.23 0.00 44.82 2.29
3426 3589 2.620251 ATGGTCACCACATACGGATG 57.380 50.000 5.94 5.94 35.80 3.51
3427 3590 3.054728 TCAAATGGTCACCACATACGGAT 60.055 43.478 0.00 0.00 35.80 4.18
3428 3591 2.303311 TCAAATGGTCACCACATACGGA 59.697 45.455 0.00 0.00 35.80 4.69
3429 3592 2.705730 TCAAATGGTCACCACATACGG 58.294 47.619 0.00 0.00 35.80 4.02
3430 3593 4.757799 TTTCAAATGGTCACCACATACG 57.242 40.909 0.00 0.00 35.80 3.06
3431 3594 6.375455 AGAGATTTCAAATGGTCACCACATAC 59.625 38.462 0.00 0.00 35.80 2.39
3432 3595 6.484288 AGAGATTTCAAATGGTCACCACATA 58.516 36.000 0.00 0.00 35.80 2.29
3433 3596 5.327732 AGAGATTTCAAATGGTCACCACAT 58.672 37.500 0.00 0.00 35.80 3.21
3434 3597 4.728772 AGAGATTTCAAATGGTCACCACA 58.271 39.130 0.00 0.00 35.80 4.17
3435 3598 6.173339 TCTAGAGATTTCAAATGGTCACCAC 58.827 40.000 0.00 0.00 35.80 4.16
3436 3599 6.373005 TCTAGAGATTTCAAATGGTCACCA 57.627 37.500 0.00 0.00 38.19 4.17
3437 3600 7.607991 TCTTTCTAGAGATTTCAAATGGTCACC 59.392 37.037 0.00 0.00 0.00 4.02
3438 3601 8.447053 GTCTTTCTAGAGATTTCAAATGGTCAC 58.553 37.037 0.00 0.00 0.00 3.67
3439 3602 8.156820 TGTCTTTCTAGAGATTTCAAATGGTCA 58.843 33.333 0.00 0.00 0.00 4.02
3440 3603 8.553459 TGTCTTTCTAGAGATTTCAAATGGTC 57.447 34.615 0.00 0.00 0.00 4.02
3441 3604 8.924511 TTGTCTTTCTAGAGATTTCAAATGGT 57.075 30.769 0.00 0.00 0.00 3.55
3454 3617 9.595823 CCGTTCCTAAATATTTGTCTTTCTAGA 57.404 33.333 11.05 0.00 0.00 2.43
3455 3618 9.595823 TCCGTTCCTAAATATTTGTCTTTCTAG 57.404 33.333 11.05 0.00 0.00 2.43
3456 3619 9.595823 CTCCGTTCCTAAATATTTGTCTTTCTA 57.404 33.333 11.05 0.00 0.00 2.10
3457 3620 7.553044 CCTCCGTTCCTAAATATTTGTCTTTCT 59.447 37.037 11.05 0.00 0.00 2.52
3458 3621 7.201705 CCCTCCGTTCCTAAATATTTGTCTTTC 60.202 40.741 11.05 0.00 0.00 2.62
3459 3622 6.602009 CCCTCCGTTCCTAAATATTTGTCTTT 59.398 38.462 11.05 0.00 0.00 2.52
3460 3623 6.069847 TCCCTCCGTTCCTAAATATTTGTCTT 60.070 38.462 11.05 0.00 0.00 3.01
3461 3624 5.427481 TCCCTCCGTTCCTAAATATTTGTCT 59.573 40.000 11.05 0.00 0.00 3.41
3462 3625 5.677567 TCCCTCCGTTCCTAAATATTTGTC 58.322 41.667 11.05 0.00 0.00 3.18
3463 3626 5.191124 ACTCCCTCCGTTCCTAAATATTTGT 59.809 40.000 11.05 0.00 0.00 2.83
3464 3627 5.681639 ACTCCCTCCGTTCCTAAATATTTG 58.318 41.667 11.05 1.40 0.00 2.32
3465 3628 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
3466 3629 6.141790 AGTACTCCCTCCGTTCCTAAATATT 58.858 40.000 0.00 0.00 0.00 1.28
3467 3630 5.713807 AGTACTCCCTCCGTTCCTAAATAT 58.286 41.667 0.00 0.00 0.00 1.28
3468 3631 5.134725 AGTACTCCCTCCGTTCCTAAATA 57.865 43.478 0.00 0.00 0.00 1.40
3469 3632 3.991683 AGTACTCCCTCCGTTCCTAAAT 58.008 45.455 0.00 0.00 0.00 1.40
3470 3633 3.463048 AGTACTCCCTCCGTTCCTAAA 57.537 47.619 0.00 0.00 0.00 1.85
3471 3634 3.463048 AAGTACTCCCTCCGTTCCTAA 57.537 47.619 0.00 0.00 0.00 2.69
3472 3635 3.682718 CGTAAGTACTCCCTCCGTTCCTA 60.683 52.174 0.00 0.00 0.00 2.94
3473 3636 2.732763 GTAAGTACTCCCTCCGTTCCT 58.267 52.381 0.00 0.00 0.00 3.36
3474 3637 1.403323 CGTAAGTACTCCCTCCGTTCC 59.597 57.143 0.00 0.00 0.00 3.62
3475 3638 2.359900 TCGTAAGTACTCCCTCCGTTC 58.640 52.381 0.00 0.00 39.48 3.95
3476 3639 2.496899 TCGTAAGTACTCCCTCCGTT 57.503 50.000 0.00 0.00 39.48 4.44
3477 3640 2.496899 TTCGTAAGTACTCCCTCCGT 57.503 50.000 0.00 0.00 39.48 4.69
3478 3641 2.947652 TGATTCGTAAGTACTCCCTCCG 59.052 50.000 0.00 0.00 39.48 4.63
3479 3642 4.583489 TCATGATTCGTAAGTACTCCCTCC 59.417 45.833 0.00 0.00 39.48 4.30
3480 3643 5.299782 ACTCATGATTCGTAAGTACTCCCTC 59.700 44.000 0.00 0.00 39.48 4.30
3481 3644 5.202004 ACTCATGATTCGTAAGTACTCCCT 58.798 41.667 0.00 0.00 39.48 4.20
3482 3645 5.517322 ACTCATGATTCGTAAGTACTCCC 57.483 43.478 0.00 0.00 39.48 4.30
3483 3646 6.797454 AGAACTCATGATTCGTAAGTACTCC 58.203 40.000 0.00 0.00 39.48 3.85
3484 3647 9.953697 ATTAGAACTCATGATTCGTAAGTACTC 57.046 33.333 0.00 0.00 39.48 2.59
3490 3653 9.031360 GCTGTTATTAGAACTCATGATTCGTAA 57.969 33.333 0.00 4.69 0.00 3.18
3491 3654 7.652105 GGCTGTTATTAGAACTCATGATTCGTA 59.348 37.037 0.00 0.00 0.00 3.43
3492 3655 6.480320 GGCTGTTATTAGAACTCATGATTCGT 59.520 38.462 0.00 0.00 0.00 3.85
3493 3656 6.703607 AGGCTGTTATTAGAACTCATGATTCG 59.296 38.462 0.00 0.00 0.00 3.34
3494 3657 9.717942 ATAGGCTGTTATTAGAACTCATGATTC 57.282 33.333 0.00 2.95 0.00 2.52
3497 3660 9.547753 GAAATAGGCTGTTATTAGAACTCATGA 57.452 33.333 0.00 0.00 0.00 3.07


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

AutoCloner maintained by Alex Coulton.