Multiple sequence alignment - TraesCS3B01G145900

Loading Multiple Alignment...

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 TraesCS3B01G145900 chr3B 100.000 7389 0 0 1 7389 135386663 135394051 0.000000e+00 13646.0
1 TraesCS3B01G145900 chr3B 99.371 6672 28 3 720 7389 134601258 134594599 0.000000e+00 12076.0
2 TraesCS3B01G145900 chr3B 97.987 447 9 0 1 447 134601701 134601255 0.000000e+00 776.0
3 TraesCS3B01G145900 chr3B 83.127 403 64 4 6179 6581 131047899 131047501 1.520000e-96 364.0
4 TraesCS3B01G145900 chr5B 99.004 1807 16 2 1670 3474 476173293 476171487 0.000000e+00 3236.0
5 TraesCS3B01G145900 chr5B 97.909 287 5 1 444 730 669691255 669690970 5.150000e-136 496.0
6 TraesCS3B01G145900 chr2B 95.022 1828 62 11 1670 3471 49594039 49595863 0.000000e+00 2844.0
7 TraesCS3B01G145900 chr2B 94.150 1846 64 12 1667 3471 677978661 677976819 0.000000e+00 2771.0
8 TraesCS3B01G145900 chr2B 98.587 283 4 0 444 726 481660140 481659858 1.110000e-137 501.0
9 TraesCS3B01G145900 chr6B 93.315 1840 79 13 1671 3471 229145569 229143735 0.000000e+00 2676.0
10 TraesCS3B01G145900 chr6B 86.957 138 14 3 3 137 293966297 293966161 1.280000e-32 152.0
11 TraesCS3B01G145900 chrUn 99.447 1447 7 1 1528 2973 399077327 399075881 0.000000e+00 2627.0
12 TraesCS3B01G145900 chrUn 94.413 1611 64 7 1671 3256 263441595 263443204 0.000000e+00 2453.0
13 TraesCS3B01G145900 chrUn 98.577 281 4 0 445 725 220163716 220163436 1.430000e-136 497.0
14 TraesCS3B01G145900 chr6D 92.625 1844 91 13 1670 3472 76065445 76067284 0.000000e+00 2610.0
15 TraesCS3B01G145900 chr6D 89.600 125 11 2 10 133 17055121 17054998 2.760000e-34 158.0
16 TraesCS3B01G145900 chr6D 87.591 137 15 2 1686 1821 60510308 60510173 2.760000e-34 158.0
17 TraesCS3B01G145900 chr6D 87.407 135 11 5 3 134 178852193 178852324 4.620000e-32 150.0
18 TraesCS3B01G145900 chr1B 92.633 1846 84 22 1674 3472 631823900 631822060 0.000000e+00 2608.0
19 TraesCS3B01G145900 chr1B 92.170 1839 74 24 1671 3472 408109642 408111447 0.000000e+00 2534.0
20 TraesCS3B01G145900 chr7B 92.299 1844 81 28 1671 3473 25660536 25662359 0.000000e+00 2562.0
21 TraesCS3B01G145900 chr7B 92.391 1840 72 18 1671 3471 470292792 470294602 0.000000e+00 2560.0
22 TraesCS3B01G145900 chr7B 91.957 1840 77 25 1671 3471 470241808 470243615 0.000000e+00 2512.0
23 TraesCS3B01G145900 chr7B 98.582 282 4 0 445 726 491171087 491171368 3.980000e-137 499.0
24 TraesCS3B01G145900 chr7B 76.471 136 19 7 3863 3994 15002443 15002317 2.230000e-05 62.1
25 TraesCS3B01G145900 chr5D 91.820 1846 80 24 1670 3472 481152618 481150801 0.000000e+00 2507.0
26 TraesCS3B01G145900 chr5D 89.231 130 10 4 2 128 2138703 2138575 7.670000e-35 159.0
27 TraesCS3B01G145900 chr5D 85.906 149 15 6 7 151 118840447 118840593 3.570000e-33 154.0
28 TraesCS3B01G145900 chr2D 92.976 1680 87 13 1671 3322 521869085 521870761 0.000000e+00 2420.0
29 TraesCS3B01G145900 chr7A 98.929 280 3 0 444 723 654106678 654106399 1.110000e-137 501.0
30 TraesCS3B01G145900 chr3A 98.929 280 3 0 444 723 502279891 502279612 1.110000e-137 501.0
31 TraesCS3B01G145900 chr4A 98.577 281 4 0 445 725 692756928 692757208 1.430000e-136 497.0
32 TraesCS3B01G145900 chr1A 98.239 284 5 0 441 724 355319694 355319411 1.430000e-136 497.0
33 TraesCS3B01G145900 chr6A 98.233 283 5 0 445 727 133803115 133802833 5.150000e-136 496.0
34 TraesCS3B01G145900 chr4D 92.982 114 7 1 15 127 51798062 51798175 1.650000e-36 165.0
35 TraesCS3B01G145900 chr7D 87.879 132 14 2 4 134 301329747 301329617 3.570000e-33 154.0
36 TraesCS3B01G145900 chr4B 88.889 126 13 1 10 134 392367905 392368030 3.570000e-33 154.0


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 TraesCS3B01G145900 chr3B 135386663 135394051 7388 False 13646 13646 100.000 1 7389 1 chr3B.!!$F1 7388
1 TraesCS3B01G145900 chr3B 134594599 134601701 7102 True 6426 12076 98.679 1 7389 2 chr3B.!!$R2 7388
2 TraesCS3B01G145900 chr5B 476171487 476173293 1806 True 3236 3236 99.004 1670 3474 1 chr5B.!!$R1 1804
3 TraesCS3B01G145900 chr2B 49594039 49595863 1824 False 2844 2844 95.022 1670 3471 1 chr2B.!!$F1 1801
4 TraesCS3B01G145900 chr2B 677976819 677978661 1842 True 2771 2771 94.150 1667 3471 1 chr2B.!!$R2 1804
5 TraesCS3B01G145900 chr6B 229143735 229145569 1834 True 2676 2676 93.315 1671 3471 1 chr6B.!!$R1 1800
6 TraesCS3B01G145900 chrUn 399075881 399077327 1446 True 2627 2627 99.447 1528 2973 1 chrUn.!!$R2 1445
7 TraesCS3B01G145900 chrUn 263441595 263443204 1609 False 2453 2453 94.413 1671 3256 1 chrUn.!!$F1 1585
8 TraesCS3B01G145900 chr6D 76065445 76067284 1839 False 2610 2610 92.625 1670 3472 1 chr6D.!!$F1 1802
9 TraesCS3B01G145900 chr1B 631822060 631823900 1840 True 2608 2608 92.633 1674 3472 1 chr1B.!!$R1 1798
10 TraesCS3B01G145900 chr1B 408109642 408111447 1805 False 2534 2534 92.170 1671 3472 1 chr1B.!!$F1 1801
11 TraesCS3B01G145900 chr7B 25660536 25662359 1823 False 2562 2562 92.299 1671 3473 1 chr7B.!!$F1 1802
12 TraesCS3B01G145900 chr7B 470292792 470294602 1810 False 2560 2560 92.391 1671 3471 1 chr7B.!!$F3 1800
13 TraesCS3B01G145900 chr7B 470241808 470243615 1807 False 2512 2512 91.957 1671 3471 1 chr7B.!!$F2 1800
14 TraesCS3B01G145900 chr5D 481150801 481152618 1817 True 2507 2507 91.820 1670 3472 1 chr5D.!!$R2 1802
15 TraesCS3B01G145900 chr2D 521869085 521870761 1676 False 2420 2420 92.976 1671 3322 1 chr2D.!!$F1 1651

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
465 466 0.043334 AGGCTGGTCATAGTGGGAGT 59.957 55.000 0.00 0.0 0.00 3.85 F
864 865 0.754472 ATAGCATGCATTTGTGCCCC 59.246 50.000 21.98 0.0 42.20 5.80 F
1237 1238 1.745489 GTCGACATGGACTTGGGCC 60.745 63.158 11.55 0.0 34.09 5.80 F
1722 1725 1.386533 CGCTGCTTGATCCATCCTTT 58.613 50.000 0.00 0.0 0.00 3.11 F
3392 3449 2.787473 ATACATATGGATGGGCCGTG 57.213 50.000 1.02 0.0 40.66 4.94 F
3435 3492 1.026718 GTGAAGGGTGGATTCGGCTG 61.027 60.000 0.00 0.0 0.00 4.85 F
3500 3564 1.271379 CCCCTTCCAACAGTGAACGAT 60.271 52.381 0.00 0.0 0.00 3.73 F
4864 4928 2.874701 CTGCATTCTCAGGGGTTAATCG 59.125 50.000 0.00 0.0 0.00 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1643 1646 3.748021 GCTACGTTGCCAAGAACAC 57.252 52.632 11.09 0.00 0.00 3.32 R
1722 1725 4.083855 GCACTGATCTTGATGAAAACGACA 60.084 41.667 0.00 0.00 0.00 4.35 R
2125 2155 9.725019 TCTATGTTTGTGTGAGTTTCATATTCT 57.275 29.630 0.00 0.00 0.00 2.40 R
3435 3492 2.109181 GGAGGCGGGATGTACAGC 59.891 66.667 1.50 1.50 0.00 4.40 R
4864 4928 1.867698 GCATAGAGAGAAGACGCCAGC 60.868 57.143 0.00 0.00 0.00 4.85 R
5514 5578 2.002586 CTGCCAGGTACGTCAATGAAG 58.997 52.381 0.00 0.00 0.00 3.02 R
5591 5655 2.856222 ACTGCTGATTATAGCCAAGGC 58.144 47.619 2.02 2.02 43.02 4.35 R
6874 6938 7.231317 ACCAGAGAAATTAGAAATTCAGCAACA 59.769 33.333 0.00 0.00 0.00 3.33 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
25 26 2.812836 TACATACACCCTCTGTCCGA 57.187 50.000 0.00 0.0 33.91 4.55
59 60 6.699575 ACCTCAAATGGATGTATTTAGCAC 57.300 37.500 0.00 0.0 0.00 4.40
88 89 8.768955 GTTAGTGCTAGATACATCCATTTGAAG 58.231 37.037 0.00 0.0 0.00 3.02
445 446 2.279073 CCAGCCTCCTCCCGTCTA 59.721 66.667 0.00 0.0 0.00 2.59
446 447 1.381327 CCAGCCTCCTCCCGTCTAA 60.381 63.158 0.00 0.0 0.00 2.10
447 448 1.395826 CCAGCCTCCTCCCGTCTAAG 61.396 65.000 0.00 0.0 0.00 2.18
448 449 1.075896 AGCCTCCTCCCGTCTAAGG 60.076 63.158 0.00 0.0 0.00 2.69
449 450 2.798364 GCCTCCTCCCGTCTAAGGC 61.798 68.421 0.00 0.0 45.11 4.35
450 451 1.075896 CCTCCTCCCGTCTAAGGCT 60.076 63.158 0.00 0.0 32.37 4.58
451 452 1.395826 CCTCCTCCCGTCTAAGGCTG 61.396 65.000 0.00 0.0 32.37 4.85
452 453 1.381327 TCCTCCCGTCTAAGGCTGG 60.381 63.158 0.00 0.0 32.37 4.85
453 454 1.686110 CCTCCCGTCTAAGGCTGGT 60.686 63.158 0.00 0.0 0.00 4.00
454 455 1.677637 CCTCCCGTCTAAGGCTGGTC 61.678 65.000 0.00 0.0 0.00 4.02
455 456 0.970937 CTCCCGTCTAAGGCTGGTCA 60.971 60.000 0.00 0.0 0.00 4.02
456 457 0.325296 TCCCGTCTAAGGCTGGTCAT 60.325 55.000 0.00 0.0 0.00 3.06
457 458 1.063492 TCCCGTCTAAGGCTGGTCATA 60.063 52.381 0.00 0.0 0.00 2.15
458 459 1.341531 CCCGTCTAAGGCTGGTCATAG 59.658 57.143 0.00 0.0 0.00 2.23
459 460 2.032620 CCGTCTAAGGCTGGTCATAGT 58.967 52.381 0.00 0.0 0.00 2.12
460 461 2.223829 CCGTCTAAGGCTGGTCATAGTG 60.224 54.545 0.00 0.0 0.00 2.74
461 462 2.223829 CGTCTAAGGCTGGTCATAGTGG 60.224 54.545 0.00 0.0 0.00 4.00
462 463 2.103263 GTCTAAGGCTGGTCATAGTGGG 59.897 54.545 0.00 0.0 0.00 4.61
463 464 2.023404 TCTAAGGCTGGTCATAGTGGGA 60.023 50.000 0.00 0.0 0.00 4.37
464 465 1.207791 AAGGCTGGTCATAGTGGGAG 58.792 55.000 0.00 0.0 0.00 4.30
465 466 0.043334 AGGCTGGTCATAGTGGGAGT 59.957 55.000 0.00 0.0 0.00 3.85
466 467 1.291033 AGGCTGGTCATAGTGGGAGTA 59.709 52.381 0.00 0.0 0.00 2.59
467 468 2.116238 GGCTGGTCATAGTGGGAGTAA 58.884 52.381 0.00 0.0 0.00 2.24
468 469 2.158943 GGCTGGTCATAGTGGGAGTAAC 60.159 54.545 0.00 0.0 0.00 2.50
469 470 2.500098 GCTGGTCATAGTGGGAGTAACA 59.500 50.000 0.00 0.0 0.00 2.41
470 471 3.134804 GCTGGTCATAGTGGGAGTAACAT 59.865 47.826 0.00 0.0 0.00 2.71
471 472 4.344102 GCTGGTCATAGTGGGAGTAACATA 59.656 45.833 0.00 0.0 0.00 2.29
472 473 5.509840 GCTGGTCATAGTGGGAGTAACATAG 60.510 48.000 0.00 0.0 0.00 2.23
473 474 4.899457 TGGTCATAGTGGGAGTAACATAGG 59.101 45.833 0.00 0.0 0.00 2.57
474 475 4.900054 GGTCATAGTGGGAGTAACATAGGT 59.100 45.833 0.00 0.0 0.00 3.08
475 476 6.073314 GGTCATAGTGGGAGTAACATAGGTA 58.927 44.000 0.00 0.0 0.00 3.08
476 477 6.208994 GGTCATAGTGGGAGTAACATAGGTAG 59.791 46.154 0.00 0.0 0.00 3.18
477 478 6.776603 GTCATAGTGGGAGTAACATAGGTAGT 59.223 42.308 0.00 0.0 0.00 2.73
478 479 7.941238 GTCATAGTGGGAGTAACATAGGTAGTA 59.059 40.741 0.00 0.0 0.00 1.82
479 480 8.505246 TCATAGTGGGAGTAACATAGGTAGTAA 58.495 37.037 0.00 0.0 0.00 2.24
480 481 8.574737 CATAGTGGGAGTAACATAGGTAGTAAC 58.425 40.741 0.00 0.0 0.00 2.50
481 482 6.496743 AGTGGGAGTAACATAGGTAGTAACA 58.503 40.000 0.00 0.0 0.00 2.41
482 483 7.130775 AGTGGGAGTAACATAGGTAGTAACAT 58.869 38.462 0.00 0.0 0.00 2.71
483 484 8.284435 AGTGGGAGTAACATAGGTAGTAACATA 58.716 37.037 0.00 0.0 0.00 2.29
484 485 8.574737 GTGGGAGTAACATAGGTAGTAACATAG 58.425 40.741 0.00 0.0 0.00 2.23
485 486 8.505246 TGGGAGTAACATAGGTAGTAACATAGA 58.495 37.037 0.00 0.0 0.00 1.98
486 487 9.531158 GGGAGTAACATAGGTAGTAACATAGAT 57.469 37.037 0.00 0.0 0.00 1.98
492 493 8.762481 ACATAGGTAGTAACATAGATGTCACA 57.238 34.615 0.00 0.0 40.80 3.58
493 494 9.368416 ACATAGGTAGTAACATAGATGTCACAT 57.632 33.333 0.00 0.0 40.80 3.21
497 498 8.361139 AGGTAGTAACATAGATGTCACATAAGC 58.639 37.037 0.00 0.0 40.80 3.09
498 499 8.141909 GGTAGTAACATAGATGTCACATAAGCA 58.858 37.037 0.00 0.0 40.80 3.91
499 500 9.529325 GTAGTAACATAGATGTCACATAAGCAA 57.471 33.333 0.00 0.0 40.80 3.91
501 502 9.448438 AGTAACATAGATGTCACATAAGCAAAA 57.552 29.630 0.00 0.0 40.80 2.44
512 513 9.356433 TGTCACATAAGCAAAAATAATGATGTG 57.644 29.630 0.00 0.0 42.63 3.21
513 514 8.810427 GTCACATAAGCAAAAATAATGATGTGG 58.190 33.333 10.73 0.0 41.93 4.17
514 515 7.492020 TCACATAAGCAAAAATAATGATGTGGC 59.508 33.333 10.73 0.0 41.93 5.01
515 516 7.278203 CACATAAGCAAAAATAATGATGTGGCA 59.722 33.333 0.00 0.0 39.34 4.92
516 517 7.823310 ACATAAGCAAAAATAATGATGTGGCAA 59.177 29.630 0.00 0.0 0.00 4.52
517 518 6.730960 AAGCAAAAATAATGATGTGGCAAG 57.269 33.333 0.00 0.0 0.00 4.01
518 519 5.797051 AGCAAAAATAATGATGTGGCAAGT 58.203 33.333 0.00 0.0 0.00 3.16
519 520 6.934056 AGCAAAAATAATGATGTGGCAAGTA 58.066 32.000 0.00 0.0 0.00 2.24
520 521 7.037438 AGCAAAAATAATGATGTGGCAAGTAG 58.963 34.615 0.00 0.0 0.00 2.57
521 522 6.813152 GCAAAAATAATGATGTGGCAAGTAGT 59.187 34.615 0.00 0.0 0.00 2.73
522 523 7.331687 GCAAAAATAATGATGTGGCAAGTAGTT 59.668 33.333 0.00 0.0 0.00 2.24
523 524 9.853555 CAAAAATAATGATGTGGCAAGTAGTTA 57.146 29.630 0.00 0.0 0.00 2.24
527 528 8.978874 ATAATGATGTGGCAAGTAGTTAATGA 57.021 30.769 0.00 0.0 0.00 2.57
528 529 6.932356 ATGATGTGGCAAGTAGTTAATGAG 57.068 37.500 0.00 0.0 0.00 2.90
529 530 5.185454 TGATGTGGCAAGTAGTTAATGAGG 58.815 41.667 0.00 0.0 0.00 3.86
530 531 4.901197 TGTGGCAAGTAGTTAATGAGGA 57.099 40.909 0.00 0.0 0.00 3.71
531 532 4.832248 TGTGGCAAGTAGTTAATGAGGAG 58.168 43.478 0.00 0.0 0.00 3.69
532 533 4.530553 TGTGGCAAGTAGTTAATGAGGAGA 59.469 41.667 0.00 0.0 0.00 3.71
533 534 5.112686 GTGGCAAGTAGTTAATGAGGAGAG 58.887 45.833 0.00 0.0 0.00 3.20
534 535 5.023452 TGGCAAGTAGTTAATGAGGAGAGA 58.977 41.667 0.00 0.0 0.00 3.10
535 536 5.127845 TGGCAAGTAGTTAATGAGGAGAGAG 59.872 44.000 0.00 0.0 0.00 3.20
536 537 5.452636 GGCAAGTAGTTAATGAGGAGAGAGG 60.453 48.000 0.00 0.0 0.00 3.69
537 538 5.596845 CAAGTAGTTAATGAGGAGAGAGGC 58.403 45.833 0.00 0.0 0.00 4.70
538 539 4.873010 AGTAGTTAATGAGGAGAGAGGCA 58.127 43.478 0.00 0.0 0.00 4.75
539 540 5.273208 AGTAGTTAATGAGGAGAGAGGCAA 58.727 41.667 0.00 0.0 0.00 4.52
540 541 5.721960 AGTAGTTAATGAGGAGAGAGGCAAA 59.278 40.000 0.00 0.0 0.00 3.68
541 542 5.707066 AGTTAATGAGGAGAGAGGCAAAT 57.293 39.130 0.00 0.0 0.00 2.32
542 543 6.814954 AGTTAATGAGGAGAGAGGCAAATA 57.185 37.500 0.00 0.0 0.00 1.40
543 544 6.825610 AGTTAATGAGGAGAGAGGCAAATAG 58.174 40.000 0.00 0.0 0.00 1.73
544 545 6.613271 AGTTAATGAGGAGAGAGGCAAATAGA 59.387 38.462 0.00 0.0 0.00 1.98
545 546 5.549742 AATGAGGAGAGAGGCAAATAGAG 57.450 43.478 0.00 0.0 0.00 2.43
546 547 3.987745 TGAGGAGAGAGGCAAATAGAGT 58.012 45.455 0.00 0.0 0.00 3.24
547 548 5.130705 TGAGGAGAGAGGCAAATAGAGTA 57.869 43.478 0.00 0.0 0.00 2.59
548 549 5.519808 TGAGGAGAGAGGCAAATAGAGTAA 58.480 41.667 0.00 0.0 0.00 2.24
549 550 5.361285 TGAGGAGAGAGGCAAATAGAGTAAC 59.639 44.000 0.00 0.0 0.00 2.50
550 551 5.273208 AGGAGAGAGGCAAATAGAGTAACA 58.727 41.667 0.00 0.0 0.00 2.41
551 552 5.902431 AGGAGAGAGGCAAATAGAGTAACAT 59.098 40.000 0.00 0.0 0.00 2.71
552 553 7.069986 AGGAGAGAGGCAAATAGAGTAACATA 58.930 38.462 0.00 0.0 0.00 2.29
553 554 7.565398 AGGAGAGAGGCAAATAGAGTAACATAA 59.435 37.037 0.00 0.0 0.00 1.90
554 555 8.371699 GGAGAGAGGCAAATAGAGTAACATAAT 58.628 37.037 0.00 0.0 0.00 1.28
574 575 9.440773 ACATAATATGTTACCATCACATAGCAG 57.559 33.333 0.00 0.0 41.63 4.24
575 576 9.440773 CATAATATGTTACCATCACATAGCAGT 57.559 33.333 0.00 0.0 39.83 4.40
577 578 8.752005 AATATGTTACCATCACATAGCAGTTT 57.248 30.769 0.00 0.0 39.83 2.66
578 579 6.683974 ATGTTACCATCACATAGCAGTTTC 57.316 37.500 0.00 0.0 32.88 2.78
579 580 4.941263 TGTTACCATCACATAGCAGTTTCC 59.059 41.667 0.00 0.0 0.00 3.13
580 581 3.719268 ACCATCACATAGCAGTTTCCA 57.281 42.857 0.00 0.0 0.00 3.53
581 582 4.032960 ACCATCACATAGCAGTTTCCAA 57.967 40.909 0.00 0.0 0.00 3.53
582 583 4.603131 ACCATCACATAGCAGTTTCCAAT 58.397 39.130 0.00 0.0 0.00 3.16
583 584 4.400251 ACCATCACATAGCAGTTTCCAATG 59.600 41.667 0.00 0.0 0.00 2.82
584 585 4.357142 CATCACATAGCAGTTTCCAATGC 58.643 43.478 0.00 0.0 42.87 3.56
585 586 3.419943 TCACATAGCAGTTTCCAATGCA 58.580 40.909 0.00 0.0 45.01 3.96
586 587 4.018490 TCACATAGCAGTTTCCAATGCAT 58.982 39.130 0.00 0.0 45.01 3.96
587 588 5.192176 TCACATAGCAGTTTCCAATGCATA 58.808 37.500 0.00 0.0 45.01 3.14
588 589 5.651576 TCACATAGCAGTTTCCAATGCATAA 59.348 36.000 0.00 0.0 45.01 1.90
589 590 6.321945 TCACATAGCAGTTTCCAATGCATAAT 59.678 34.615 0.00 0.0 45.01 1.28
590 591 6.419710 CACATAGCAGTTTCCAATGCATAATG 59.580 38.462 0.00 0.0 45.01 1.90
591 592 6.321945 ACATAGCAGTTTCCAATGCATAATGA 59.678 34.615 0.00 0.0 45.01 2.57
592 593 5.258456 AGCAGTTTCCAATGCATAATGAG 57.742 39.130 0.00 0.0 45.01 2.90
593 594 4.708421 AGCAGTTTCCAATGCATAATGAGT 59.292 37.500 0.00 0.0 45.01 3.41
594 595 5.039333 GCAGTTTCCAATGCATAATGAGTC 58.961 41.667 0.00 0.0 42.11 3.36
595 596 5.163581 GCAGTTTCCAATGCATAATGAGTCT 60.164 40.000 0.00 0.0 42.11 3.24
596 597 6.038603 GCAGTTTCCAATGCATAATGAGTCTA 59.961 38.462 0.00 0.0 42.11 2.59
597 598 7.255381 GCAGTTTCCAATGCATAATGAGTCTAT 60.255 37.037 0.00 0.0 42.11 1.98
598 599 9.276590 CAGTTTCCAATGCATAATGAGTCTATA 57.723 33.333 0.00 0.0 0.00 1.31
599 600 9.851686 AGTTTCCAATGCATAATGAGTCTATAA 57.148 29.630 0.00 0.0 0.00 0.98
602 603 9.851686 TTCCAATGCATAATGAGTCTATAAAGT 57.148 29.630 0.00 0.0 0.00 2.66
633 634 3.067684 GGCAACTATGTTACCACACCT 57.932 47.619 0.00 0.0 35.03 4.00
634 635 4.210724 GGCAACTATGTTACCACACCTA 57.789 45.455 0.00 0.0 35.03 3.08
635 636 4.777463 GGCAACTATGTTACCACACCTAT 58.223 43.478 0.00 0.0 35.03 2.57
636 637 4.574828 GGCAACTATGTTACCACACCTATG 59.425 45.833 0.00 0.0 35.03 2.23
637 638 5.424757 GCAACTATGTTACCACACCTATGA 58.575 41.667 0.00 0.0 35.03 2.15
638 639 5.293569 GCAACTATGTTACCACACCTATGAC 59.706 44.000 0.00 0.0 35.03 3.06
639 640 6.403049 CAACTATGTTACCACACCTATGACA 58.597 40.000 0.00 0.0 35.03 3.58
640 641 5.974108 ACTATGTTACCACACCTATGACAC 58.026 41.667 0.00 0.0 35.03 3.67
641 642 5.720041 ACTATGTTACCACACCTATGACACT 59.280 40.000 0.00 0.0 35.03 3.55
642 643 6.893554 ACTATGTTACCACACCTATGACACTA 59.106 38.462 0.00 0.0 35.03 2.74
643 644 5.395682 TGTTACCACACCTATGACACTAC 57.604 43.478 0.00 0.0 0.00 2.73
644 645 4.221262 TGTTACCACACCTATGACACTACC 59.779 45.833 0.00 0.0 0.00 3.18
645 646 2.185387 ACCACACCTATGACACTACCC 58.815 52.381 0.00 0.0 0.00 3.69
646 647 2.184533 CCACACCTATGACACTACCCA 58.815 52.381 0.00 0.0 0.00 4.51
647 648 2.093658 CCACACCTATGACACTACCCAC 60.094 54.545 0.00 0.0 0.00 4.61
648 649 2.832129 CACACCTATGACACTACCCACT 59.168 50.000 0.00 0.0 0.00 4.00
649 650 4.021229 CACACCTATGACACTACCCACTA 58.979 47.826 0.00 0.0 0.00 2.74
650 651 4.649674 CACACCTATGACACTACCCACTAT 59.350 45.833 0.00 0.0 0.00 2.12
651 652 4.649674 ACACCTATGACACTACCCACTATG 59.350 45.833 0.00 0.0 0.00 2.23
652 653 4.893524 CACCTATGACACTACCCACTATGA 59.106 45.833 0.00 0.0 0.00 2.15
653 654 5.362717 CACCTATGACACTACCCACTATGAA 59.637 44.000 0.00 0.0 0.00 2.57
654 655 5.598830 ACCTATGACACTACCCACTATGAAG 59.401 44.000 0.00 0.0 0.00 3.02
655 656 5.011125 CCTATGACACTACCCACTATGAAGG 59.989 48.000 0.00 0.0 0.00 3.46
656 657 3.786553 TGACACTACCCACTATGAAGGT 58.213 45.455 0.00 0.0 37.69 3.50
657 658 4.938028 TGACACTACCCACTATGAAGGTA 58.062 43.478 0.00 0.0 35.02 3.08
664 665 7.598759 CTACCCACTATGAAGGTAGTAACAT 57.401 40.000 7.19 0.0 45.39 2.71
665 666 8.701908 CTACCCACTATGAAGGTAGTAACATA 57.298 38.462 7.19 0.0 45.39 2.29
666 667 7.598759 ACCCACTATGAAGGTAGTAACATAG 57.401 40.000 0.00 0.0 44.14 2.23
667 668 7.359849 ACCCACTATGAAGGTAGTAACATAGA 58.640 38.462 16.37 0.0 42.41 1.98
668 669 7.287235 ACCCACTATGAAGGTAGTAACATAGAC 59.713 40.741 16.37 0.0 42.41 2.59
669 670 7.506261 CCCACTATGAAGGTAGTAACATAGACT 59.494 40.741 16.37 0.0 42.41 3.24
670 671 9.570468 CCACTATGAAGGTAGTAACATAGACTA 57.430 37.037 16.37 0.0 42.41 2.59
676 677 9.964354 TGAAGGTAGTAACATAGACTAGTAACA 57.036 33.333 0.00 0.0 30.08 2.41
705 706 9.401058 TGTATGTTACTAGTCTAAGTTACTCCC 57.599 37.037 0.00 0.0 31.82 4.30
706 707 7.894753 ATGTTACTAGTCTAAGTTACTCCCC 57.105 40.000 0.00 0.0 31.82 4.81
707 708 6.793478 TGTTACTAGTCTAAGTTACTCCCCA 58.207 40.000 0.00 0.0 31.82 4.96
708 709 6.660949 TGTTACTAGTCTAAGTTACTCCCCAC 59.339 42.308 0.00 0.0 31.82 4.61
709 710 5.533333 ACTAGTCTAAGTTACTCCCCACT 57.467 43.478 0.00 0.0 0.00 4.00
710 711 6.649041 ACTAGTCTAAGTTACTCCCCACTA 57.351 41.667 0.00 0.0 0.00 2.74
711 712 7.223472 ACTAGTCTAAGTTACTCCCCACTAT 57.777 40.000 0.00 0.0 0.00 2.12
712 713 7.061688 ACTAGTCTAAGTTACTCCCCACTATG 58.938 42.308 0.00 0.0 0.00 2.23
713 714 6.088541 AGTCTAAGTTACTCCCCACTATGA 57.911 41.667 0.00 0.0 0.00 2.15
714 715 5.892686 AGTCTAAGTTACTCCCCACTATGAC 59.107 44.000 0.00 0.0 0.00 3.06
715 716 5.068855 GTCTAAGTTACTCCCCACTATGACC 59.931 48.000 0.00 0.0 0.00 4.02
716 717 3.484953 AGTTACTCCCCACTATGACCA 57.515 47.619 0.00 0.0 0.00 4.02
717 718 3.375699 AGTTACTCCCCACTATGACCAG 58.624 50.000 0.00 0.0 0.00 4.00
718 719 1.789523 TACTCCCCACTATGACCAGC 58.210 55.000 0.00 0.0 0.00 4.85
864 865 0.754472 ATAGCATGCATTTGTGCCCC 59.246 50.000 21.98 0.0 42.20 5.80
1237 1238 1.745489 GTCGACATGGACTTGGGCC 60.745 63.158 11.55 0.0 34.09 5.80
1643 1646 8.798859 TCTTTGATAAATTTTCTCCCTCTCTG 57.201 34.615 0.00 0.0 0.00 3.35
1722 1725 1.386533 CGCTGCTTGATCCATCCTTT 58.613 50.000 0.00 0.0 0.00 3.11
2125 2155 5.968848 GTGTTTCGCTCATTTTCACAAACTA 59.031 36.000 0.00 0.0 0.00 2.24
3390 3447 5.034852 TGATTATACATATGGATGGGCCG 57.965 43.478 10.95 0.0 40.66 6.13
3392 3449 2.787473 ATACATATGGATGGGCCGTG 57.213 50.000 1.02 0.0 40.66 4.94
3435 3492 1.026718 GTGAAGGGTGGATTCGGCTG 61.027 60.000 0.00 0.0 0.00 4.85
3500 3564 1.271379 CCCCTTCCAACAGTGAACGAT 60.271 52.381 0.00 0.0 0.00 3.73
3853 3917 4.397417 CCTTGGTTTTGATCAGGATGTCTC 59.603 45.833 0.00 0.0 37.40 3.36
4864 4928 2.874701 CTGCATTCTCAGGGGTTAATCG 59.125 50.000 0.00 0.0 0.00 3.34
5514 5578 4.458989 TGTAACCATTGCAGATTCAGGAAC 59.541 41.667 0.00 0.0 0.00 3.62
5591 5655 2.355197 TGGCGATGTACCTTGTCATTG 58.645 47.619 0.00 0.0 0.00 2.82
5743 5807 9.645059 CTATCAAGTAGTTTTTCATCTCTGTGA 57.355 33.333 0.00 0.0 0.00 3.58
5744 5808 8.908786 ATCAAGTAGTTTTTCATCTCTGTGAA 57.091 30.769 0.00 0.0 36.38 3.18
5745 5809 8.731275 TCAAGTAGTTTTTCATCTCTGTGAAA 57.269 30.769 0.00 0.0 44.05 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
36 37 6.186957 TGTGCTAAATACATCCATTTGAGGT 58.813 36.000 0.00 0.00 41.66 3.85
59 60 8.554528 CAAATGGATGTATCTAGCACTAACTTG 58.445 37.037 0.00 0.00 0.00 3.16
88 89 3.118905 AGACTTGTCTCAAGCTTGTCC 57.881 47.619 25.19 14.48 0.00 4.02
385 386 4.754667 GGAGGACGAACCGGGCAC 62.755 72.222 6.32 0.00 44.74 5.01
443 444 2.366916 CTCCCACTATGACCAGCCTTAG 59.633 54.545 0.00 0.00 0.00 2.18
444 445 2.292918 ACTCCCACTATGACCAGCCTTA 60.293 50.000 0.00 0.00 0.00 2.69
445 446 1.207791 CTCCCACTATGACCAGCCTT 58.792 55.000 0.00 0.00 0.00 4.35
446 447 0.043334 ACTCCCACTATGACCAGCCT 59.957 55.000 0.00 0.00 0.00 4.58
447 448 1.789523 TACTCCCACTATGACCAGCC 58.210 55.000 0.00 0.00 0.00 4.85
448 449 2.500098 TGTTACTCCCACTATGACCAGC 59.500 50.000 0.00 0.00 0.00 4.85
449 450 5.011125 CCTATGTTACTCCCACTATGACCAG 59.989 48.000 0.00 0.00 0.00 4.00
450 451 4.899457 CCTATGTTACTCCCACTATGACCA 59.101 45.833 0.00 0.00 0.00 4.02
451 452 4.900054 ACCTATGTTACTCCCACTATGACC 59.100 45.833 0.00 0.00 0.00 4.02
452 453 6.776603 ACTACCTATGTTACTCCCACTATGAC 59.223 42.308 0.00 0.00 0.00 3.06
453 454 6.919158 ACTACCTATGTTACTCCCACTATGA 58.081 40.000 0.00 0.00 0.00 2.15
454 455 8.574737 GTTACTACCTATGTTACTCCCACTATG 58.425 40.741 0.00 0.00 0.00 2.23
455 456 8.284435 TGTTACTACCTATGTTACTCCCACTAT 58.716 37.037 0.00 0.00 0.00 2.12
456 457 7.642186 TGTTACTACCTATGTTACTCCCACTA 58.358 38.462 0.00 0.00 0.00 2.74
457 458 6.496743 TGTTACTACCTATGTTACTCCCACT 58.503 40.000 0.00 0.00 0.00 4.00
458 459 6.780457 TGTTACTACCTATGTTACTCCCAC 57.220 41.667 0.00 0.00 0.00 4.61
459 460 8.505246 TCTATGTTACTACCTATGTTACTCCCA 58.495 37.037 0.00 0.00 0.00 4.37
460 461 8.930846 TCTATGTTACTACCTATGTTACTCCC 57.069 38.462 0.00 0.00 0.00 4.30
466 467 9.197306 TGTGACATCTATGTTACTACCTATGTT 57.803 33.333 16.14 0.00 44.65 2.71
467 468 8.762481 TGTGACATCTATGTTACTACCTATGT 57.238 34.615 16.14 0.00 44.65 2.29
471 472 8.361139 GCTTATGTGACATCTATGTTACTACCT 58.639 37.037 16.14 4.74 44.65 3.08
472 473 8.141909 TGCTTATGTGACATCTATGTTACTACC 58.858 37.037 16.14 4.63 44.65 3.18
473 474 9.529325 TTGCTTATGTGACATCTATGTTACTAC 57.471 33.333 16.14 6.65 44.65 2.73
475 476 9.448438 TTTTGCTTATGTGACATCTATGTTACT 57.552 29.630 16.14 7.15 44.65 2.24
486 487 9.356433 CACATCATTATTTTTGCTTATGTGACA 57.644 29.630 0.00 0.00 43.44 3.58
487 488 8.810427 CCACATCATTATTTTTGCTTATGTGAC 58.190 33.333 12.35 0.00 43.44 3.67
488 489 7.492020 GCCACATCATTATTTTTGCTTATGTGA 59.508 33.333 12.35 0.00 43.44 3.58
489 490 7.278203 TGCCACATCATTATTTTTGCTTATGTG 59.722 33.333 0.00 0.00 41.50 3.21
490 491 7.329499 TGCCACATCATTATTTTTGCTTATGT 58.671 30.769 0.00 0.00 0.00 2.29
491 492 7.773864 TGCCACATCATTATTTTTGCTTATG 57.226 32.000 0.00 0.00 0.00 1.90
492 493 8.042515 ACTTGCCACATCATTATTTTTGCTTAT 58.957 29.630 0.00 0.00 0.00 1.73
493 494 7.385267 ACTTGCCACATCATTATTTTTGCTTA 58.615 30.769 0.00 0.00 0.00 3.09
494 495 6.232692 ACTTGCCACATCATTATTTTTGCTT 58.767 32.000 0.00 0.00 0.00 3.91
495 496 5.797051 ACTTGCCACATCATTATTTTTGCT 58.203 33.333 0.00 0.00 0.00 3.91
496 497 6.813152 ACTACTTGCCACATCATTATTTTTGC 59.187 34.615 0.00 0.00 0.00 3.68
497 498 8.761575 AACTACTTGCCACATCATTATTTTTG 57.238 30.769 0.00 0.00 0.00 2.44
501 502 9.407380 TCATTAACTACTTGCCACATCATTATT 57.593 29.630 0.00 0.00 0.00 1.40
502 503 8.978874 TCATTAACTACTTGCCACATCATTAT 57.021 30.769 0.00 0.00 0.00 1.28
503 504 7.498900 CCTCATTAACTACTTGCCACATCATTA 59.501 37.037 0.00 0.00 0.00 1.90
504 505 6.319658 CCTCATTAACTACTTGCCACATCATT 59.680 38.462 0.00 0.00 0.00 2.57
505 506 5.824624 CCTCATTAACTACTTGCCACATCAT 59.175 40.000 0.00 0.00 0.00 2.45
506 507 5.045942 TCCTCATTAACTACTTGCCACATCA 60.046 40.000 0.00 0.00 0.00 3.07
507 508 5.428253 TCCTCATTAACTACTTGCCACATC 58.572 41.667 0.00 0.00 0.00 3.06
508 509 5.189736 TCTCCTCATTAACTACTTGCCACAT 59.810 40.000 0.00 0.00 0.00 3.21
509 510 4.530553 TCTCCTCATTAACTACTTGCCACA 59.469 41.667 0.00 0.00 0.00 4.17
510 511 5.086104 TCTCCTCATTAACTACTTGCCAC 57.914 43.478 0.00 0.00 0.00 5.01
511 512 5.023452 TCTCTCCTCATTAACTACTTGCCA 58.977 41.667 0.00 0.00 0.00 4.92
512 513 5.452636 CCTCTCTCCTCATTAACTACTTGCC 60.453 48.000 0.00 0.00 0.00 4.52
513 514 5.596845 CCTCTCTCCTCATTAACTACTTGC 58.403 45.833 0.00 0.00 0.00 4.01
514 515 5.127845 TGCCTCTCTCCTCATTAACTACTTG 59.872 44.000 0.00 0.00 0.00 3.16
515 516 5.273208 TGCCTCTCTCCTCATTAACTACTT 58.727 41.667 0.00 0.00 0.00 2.24
516 517 4.873010 TGCCTCTCTCCTCATTAACTACT 58.127 43.478 0.00 0.00 0.00 2.57
517 518 5.599999 TTGCCTCTCTCCTCATTAACTAC 57.400 43.478 0.00 0.00 0.00 2.73
518 519 6.814954 ATTTGCCTCTCTCCTCATTAACTA 57.185 37.500 0.00 0.00 0.00 2.24
519 520 5.707066 ATTTGCCTCTCTCCTCATTAACT 57.293 39.130 0.00 0.00 0.00 2.24
520 521 6.821388 TCTATTTGCCTCTCTCCTCATTAAC 58.179 40.000 0.00 0.00 0.00 2.01
521 522 6.613271 ACTCTATTTGCCTCTCTCCTCATTAA 59.387 38.462 0.00 0.00 0.00 1.40
522 523 6.139671 ACTCTATTTGCCTCTCTCCTCATTA 58.860 40.000 0.00 0.00 0.00 1.90
523 524 4.968080 ACTCTATTTGCCTCTCTCCTCATT 59.032 41.667 0.00 0.00 0.00 2.57
524 525 4.555689 ACTCTATTTGCCTCTCTCCTCAT 58.444 43.478 0.00 0.00 0.00 2.90
525 526 3.987745 ACTCTATTTGCCTCTCTCCTCA 58.012 45.455 0.00 0.00 0.00 3.86
526 527 5.361285 TGTTACTCTATTTGCCTCTCTCCTC 59.639 44.000 0.00 0.00 0.00 3.71
527 528 5.273208 TGTTACTCTATTTGCCTCTCTCCT 58.727 41.667 0.00 0.00 0.00 3.69
528 529 5.599999 TGTTACTCTATTTGCCTCTCTCC 57.400 43.478 0.00 0.00 0.00 3.71
557 558 4.941263 TGGAAACTGCTATGTGATGGTAAC 59.059 41.667 0.00 0.00 0.00 2.50
558 559 5.172687 TGGAAACTGCTATGTGATGGTAA 57.827 39.130 0.00 0.00 0.00 2.85
559 560 4.835284 TGGAAACTGCTATGTGATGGTA 57.165 40.909 0.00 0.00 0.00 3.25
560 561 3.719268 TGGAAACTGCTATGTGATGGT 57.281 42.857 0.00 0.00 0.00 3.55
561 562 4.735578 GCATTGGAAACTGCTATGTGATGG 60.736 45.833 0.00 0.00 35.49 3.51
562 563 4.142337 TGCATTGGAAACTGCTATGTGATG 60.142 41.667 0.00 0.00 39.16 3.07
563 564 4.018490 TGCATTGGAAACTGCTATGTGAT 58.982 39.130 0.00 0.00 39.16 3.06
564 565 3.419943 TGCATTGGAAACTGCTATGTGA 58.580 40.909 0.00 0.00 39.16 3.58
565 566 3.853831 TGCATTGGAAACTGCTATGTG 57.146 42.857 0.00 0.00 39.16 3.21
566 567 6.321945 TCATTATGCATTGGAAACTGCTATGT 59.678 34.615 3.54 0.00 39.16 2.29
567 568 6.741109 TCATTATGCATTGGAAACTGCTATG 58.259 36.000 3.54 0.00 39.16 2.23
568 569 6.548622 ACTCATTATGCATTGGAAACTGCTAT 59.451 34.615 3.54 0.00 39.16 2.97
569 570 5.887598 ACTCATTATGCATTGGAAACTGCTA 59.112 36.000 3.54 0.00 39.16 3.49
570 571 4.708421 ACTCATTATGCATTGGAAACTGCT 59.292 37.500 3.54 0.00 39.16 4.24
571 572 5.002464 ACTCATTATGCATTGGAAACTGC 57.998 39.130 3.54 0.00 38.87 4.40
572 573 6.446781 AGACTCATTATGCATTGGAAACTG 57.553 37.500 3.54 0.00 0.00 3.16
573 574 9.851686 TTATAGACTCATTATGCATTGGAAACT 57.148 29.630 3.54 5.41 0.00 2.66
576 577 9.851686 ACTTTATAGACTCATTATGCATTGGAA 57.148 29.630 3.54 0.00 0.00 3.53
601 602 9.946165 GGTAACATAGTTGCCTTCATTTATTAC 57.054 33.333 9.36 0.00 0.00 1.89
602 603 9.688091 TGGTAACATAGTTGCCTTCATTTATTA 57.312 29.630 16.08 0.00 46.17 0.98
603 604 8.588290 TGGTAACATAGTTGCCTTCATTTATT 57.412 30.769 16.08 0.00 46.17 1.40
622 623 4.382362 GGGTAGTGTCATAGGTGTGGTAAC 60.382 50.000 0.00 0.00 0.00 2.50
623 624 3.770933 GGGTAGTGTCATAGGTGTGGTAA 59.229 47.826 0.00 0.00 0.00 2.85
624 625 3.245694 TGGGTAGTGTCATAGGTGTGGTA 60.246 47.826 0.00 0.00 0.00 3.25
625 626 2.185387 GGGTAGTGTCATAGGTGTGGT 58.815 52.381 0.00 0.00 0.00 4.16
626 627 2.093658 GTGGGTAGTGTCATAGGTGTGG 60.094 54.545 0.00 0.00 0.00 4.17
627 628 2.832129 AGTGGGTAGTGTCATAGGTGTG 59.168 50.000 0.00 0.00 0.00 3.82
628 629 3.185880 AGTGGGTAGTGTCATAGGTGT 57.814 47.619 0.00 0.00 0.00 4.16
629 630 4.893524 TCATAGTGGGTAGTGTCATAGGTG 59.106 45.833 0.00 0.00 0.00 4.00
630 631 5.138758 TCATAGTGGGTAGTGTCATAGGT 57.861 43.478 0.00 0.00 0.00 3.08
631 632 5.011125 CCTTCATAGTGGGTAGTGTCATAGG 59.989 48.000 0.00 0.00 0.00 2.57
632 633 5.598830 ACCTTCATAGTGGGTAGTGTCATAG 59.401 44.000 0.00 0.00 0.00 2.23
633 634 5.525484 ACCTTCATAGTGGGTAGTGTCATA 58.475 41.667 0.00 0.00 0.00 2.15
634 635 4.362677 ACCTTCATAGTGGGTAGTGTCAT 58.637 43.478 0.00 0.00 0.00 3.06
635 636 3.786553 ACCTTCATAGTGGGTAGTGTCA 58.213 45.455 0.00 0.00 0.00 3.58
636 637 5.517322 CTACCTTCATAGTGGGTAGTGTC 57.483 47.826 9.46 0.00 44.30 3.67
641 642 8.505246 TCTATGTTACTACCTTCATAGTGGGTA 58.495 37.037 0.00 0.00 40.01 3.69
642 643 7.287235 GTCTATGTTACTACCTTCATAGTGGGT 59.713 40.741 0.00 0.00 40.01 4.51
643 644 7.506261 AGTCTATGTTACTACCTTCATAGTGGG 59.494 40.741 0.00 0.00 40.01 4.61
644 645 8.466617 AGTCTATGTTACTACCTTCATAGTGG 57.533 38.462 0.00 0.00 40.01 4.00
650 651 9.964354 TGTTACTAGTCTATGTTACTACCTTCA 57.036 33.333 0.00 0.00 0.00 3.02
679 680 9.401058 GGGAGTAACTTAGACTAGTAACATACA 57.599 37.037 0.00 0.00 0.00 2.29
680 681 8.845227 GGGGAGTAACTTAGACTAGTAACATAC 58.155 40.741 0.00 0.00 0.00 2.39
681 682 8.560039 TGGGGAGTAACTTAGACTAGTAACATA 58.440 37.037 0.00 0.00 0.00 2.29
682 683 7.341512 GTGGGGAGTAACTTAGACTAGTAACAT 59.658 40.741 0.00 0.00 0.00 2.71
683 684 6.660949 GTGGGGAGTAACTTAGACTAGTAACA 59.339 42.308 0.00 0.00 0.00 2.41
684 685 6.889177 AGTGGGGAGTAACTTAGACTAGTAAC 59.111 42.308 0.00 0.00 0.00 2.50
685 686 7.037342 AGTGGGGAGTAACTTAGACTAGTAA 57.963 40.000 0.00 0.00 0.00 2.24
686 687 6.649041 AGTGGGGAGTAACTTAGACTAGTA 57.351 41.667 0.00 0.00 0.00 1.82
687 688 5.533333 AGTGGGGAGTAACTTAGACTAGT 57.467 43.478 0.00 0.00 0.00 2.57
688 689 7.229106 GTCATAGTGGGGAGTAACTTAGACTAG 59.771 44.444 0.00 0.00 31.58 2.57
689 690 7.059156 GTCATAGTGGGGAGTAACTTAGACTA 58.941 42.308 0.00 0.00 31.58 2.59
690 691 5.892686 GTCATAGTGGGGAGTAACTTAGACT 59.107 44.000 0.00 0.00 31.58 3.24
691 692 5.068855 GGTCATAGTGGGGAGTAACTTAGAC 59.931 48.000 0.00 0.00 32.58 2.59
692 693 5.206587 GGTCATAGTGGGGAGTAACTTAGA 58.793 45.833 0.00 0.00 0.00 2.10
693 694 4.960469 TGGTCATAGTGGGGAGTAACTTAG 59.040 45.833 0.00 0.00 0.00 2.18
694 695 4.950361 TGGTCATAGTGGGGAGTAACTTA 58.050 43.478 0.00 0.00 0.00 2.24
695 696 3.775316 CTGGTCATAGTGGGGAGTAACTT 59.225 47.826 0.00 0.00 0.00 2.66
696 697 3.375699 CTGGTCATAGTGGGGAGTAACT 58.624 50.000 0.00 0.00 0.00 2.24
697 698 2.158943 GCTGGTCATAGTGGGGAGTAAC 60.159 54.545 0.00 0.00 0.00 2.50
698 699 2.116238 GCTGGTCATAGTGGGGAGTAA 58.884 52.381 0.00 0.00 0.00 2.24
699 700 1.691482 GGCTGGTCATAGTGGGGAGTA 60.691 57.143 0.00 0.00 0.00 2.59
700 701 0.983378 GGCTGGTCATAGTGGGGAGT 60.983 60.000 0.00 0.00 0.00 3.85
701 702 0.692419 AGGCTGGTCATAGTGGGGAG 60.692 60.000 0.00 0.00 0.00 4.30
702 703 0.639943 TAGGCTGGTCATAGTGGGGA 59.360 55.000 0.00 0.00 0.00 4.81
703 704 1.507140 TTAGGCTGGTCATAGTGGGG 58.493 55.000 0.00 0.00 0.00 4.96
704 705 4.160329 TCTATTAGGCTGGTCATAGTGGG 58.840 47.826 0.00 0.00 0.00 4.61
705 706 5.808366 TTCTATTAGGCTGGTCATAGTGG 57.192 43.478 0.00 0.00 0.00 4.00
706 707 7.178274 AGAGATTCTATTAGGCTGGTCATAGTG 59.822 40.741 0.00 0.00 0.00 2.74
707 708 7.178274 CAGAGATTCTATTAGGCTGGTCATAGT 59.822 40.741 0.00 0.00 0.00 2.12
708 709 7.363705 CCAGAGATTCTATTAGGCTGGTCATAG 60.364 44.444 0.00 0.00 37.30 2.23
709 710 6.438741 CCAGAGATTCTATTAGGCTGGTCATA 59.561 42.308 0.00 0.00 37.30 2.15
710 711 5.248020 CCAGAGATTCTATTAGGCTGGTCAT 59.752 44.000 0.00 0.00 37.30 3.06
711 712 4.590647 CCAGAGATTCTATTAGGCTGGTCA 59.409 45.833 0.00 0.00 37.30 4.02
712 713 4.562552 GCCAGAGATTCTATTAGGCTGGTC 60.563 50.000 14.80 6.94 42.50 4.02
713 714 3.326297 GCCAGAGATTCTATTAGGCTGGT 59.674 47.826 14.80 0.00 42.50 4.00
714 715 3.326006 TGCCAGAGATTCTATTAGGCTGG 59.674 47.826 10.90 10.90 43.19 4.85
715 716 4.040217 ACTGCCAGAGATTCTATTAGGCTG 59.960 45.833 0.00 12.20 42.82 4.85
716 717 4.230455 ACTGCCAGAGATTCTATTAGGCT 58.770 43.478 0.00 0.00 41.12 4.58
717 718 4.615588 ACTGCCAGAGATTCTATTAGGC 57.384 45.455 0.00 3.36 40.93 3.93
718 719 5.512232 GGGAACTGCCAGAGATTCTATTAGG 60.512 48.000 0.00 0.00 38.95 2.69
799 800 1.019278 ACATAAGCACACCCGCGAAG 61.019 55.000 8.23 0.00 36.85 3.79
1015 1016 4.790962 CACTGCAGCCGCCTCCAT 62.791 66.667 15.27 0.00 37.32 3.41
1026 1027 1.525765 ACATTGTCGTGGCACTGCA 60.526 52.632 16.72 11.22 0.00 4.41
1237 1238 4.602259 ACACCACTGCCACGACCG 62.602 66.667 0.00 0.00 0.00 4.79
1258 1259 2.677228 CCTGGGATTTCACGGCCT 59.323 61.111 0.00 0.00 0.00 5.19
1619 1622 8.457261 CACAGAGAGGGAGAAAATTTATCAAAG 58.543 37.037 2.68 0.00 0.00 2.77
1625 1628 7.079451 AGAACACAGAGAGGGAGAAAATTTA 57.921 36.000 0.00 0.00 0.00 1.40
1643 1646 3.748021 GCTACGTTGCCAAGAACAC 57.252 52.632 11.09 0.00 0.00 3.32
1722 1725 4.083855 GCACTGATCTTGATGAAAACGACA 60.084 41.667 0.00 0.00 0.00 4.35
2125 2155 9.725019 TCTATGTTTGTGTGAGTTTCATATTCT 57.275 29.630 0.00 0.00 0.00 2.40
3392 3449 3.879295 TGCTTTATGATCTGTGCCTAAGC 59.121 43.478 0.00 0.00 37.76 3.09
3435 3492 2.109181 GGAGGCGGGATGTACAGC 59.891 66.667 1.50 1.50 0.00 4.40
3500 3564 8.367156 ACGAGTGTACCTGGTAAAAATTACTAA 58.633 33.333 8.40 0.00 29.28 2.24
3853 3917 0.732571 AAAATAGGACATGGCGCACG 59.267 50.000 10.83 0.00 0.00 5.34
4864 4928 1.867698 GCATAGAGAGAAGACGCCAGC 60.868 57.143 0.00 0.00 0.00 4.85
5514 5578 2.002586 CTGCCAGGTACGTCAATGAAG 58.997 52.381 0.00 0.00 0.00 3.02
5591 5655 2.856222 ACTGCTGATTATAGCCAAGGC 58.144 47.619 2.02 2.02 43.02 4.35
6874 6938 7.231317 ACCAGAGAAATTAGAAATTCAGCAACA 59.769 33.333 0.00 0.00 0.00 3.33


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

AutoCloner maintained by Alex Coulton.