Multiple sequence alignment - TraesCS5B01G040600

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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 TraesCS5B01G040600 chr5B 100.000 3479 0 0 1 3479 45034056 45037534 0.000000e+00 6425.0
1 TraesCS5B01G040600 chr5B 82.301 113 12 7 688 797 466971425 466971318 1.330000e-14 91.6
2 TraesCS5B01G040600 chr5D 93.129 1761 81 14 901 2630 45139203 45140954 0.000000e+00 2545.0
3 TraesCS5B01G040600 chr5D 90.502 558 36 3 1 543 45132043 45132598 0.000000e+00 721.0
4 TraesCS5B01G040600 chr5D 92.837 363 23 2 3117 3476 45141362 45141724 1.110000e-144 523.0
5 TraesCS5B01G040600 chr5D 82.353 357 51 8 2665 3017 45141017 45141365 2.030000e-77 300.0
6 TraesCS5B01G040600 chr5D 98.718 78 1 0 814 891 45132595 45132672 4.680000e-29 139.0
7 TraesCS5B01G040600 chr5D 100.000 28 0 0 883 910 45139155 45139182 6.000000e-03 52.8
8 TraesCS5B01G040600 chr5A 89.888 1958 113 37 858 2742 35803851 35805796 0.000000e+00 2440.0
9 TraesCS5B01G040600 chr5A 91.453 702 41 8 2786 3479 35805809 35806499 0.000000e+00 946.0
10 TraesCS5B01G040600 chr5A 81.203 266 38 8 541 796 317106179 317106442 1.640000e-48 204.0
11 TraesCS5B01G040600 chr5A 86.792 53 6 1 476 528 255608683 255608632 1.350000e-04 58.4
12 TraesCS5B01G040600 chr3A 84.232 482 58 10 2 477 32398986 32398517 1.470000e-123 453.0
13 TraesCS5B01G040600 chr3A 81.174 409 53 14 88 477 550436711 550437114 1.210000e-79 307.0
14 TraesCS5B01G040600 chr3A 80.078 256 44 5 544 797 741841671 741841421 2.130000e-42 183.0
15 TraesCS5B01G040600 chr2D 83.266 496 61 7 4 482 626279448 626279938 1.480000e-118 436.0
16 TraesCS5B01G040600 chr2D 82.729 469 63 13 16 477 473102294 473102751 5.410000e-108 401.0
17 TraesCS5B01G040600 chr2D 86.792 53 6 1 476 528 79056210 79056261 1.350000e-04 58.4
18 TraesCS5B01G040600 chr2A 82.062 485 67 13 16 485 757027070 757026591 2.520000e-106 396.0
19 TraesCS5B01G040600 chr2A 80.082 487 62 20 12 481 724742544 724742076 2.590000e-86 329.0
20 TraesCS5B01G040600 chr3B 80.738 488 64 17 12 477 157234349 157233870 1.540000e-93 353.0
21 TraesCS5B01G040600 chr3B 84.030 263 31 8 542 795 457573981 457574241 3.470000e-60 243.0
22 TraesCS5B01G040600 chr7B 74.255 470 87 24 34 477 604795303 604795764 2.150000e-37 167.0
23 TraesCS5B01G040600 chr7B 76.727 275 41 14 542 796 721533569 721533840 7.840000e-27 132.0
24 TraesCS5B01G040600 chr7B 76.364 275 43 14 542 796 721613637 721613909 1.010000e-25 128.0
25 TraesCS5B01G040600 chr6B 79.668 241 40 6 543 781 32470773 32470540 7.730000e-37 165.0
26 TraesCS5B01G040600 chr6B 78.279 244 45 6 234 477 227831565 227831800 2.160000e-32 150.0
27 TraesCS5B01G040600 chr4A 75.746 268 43 14 541 799 708426679 708426425 7.890000e-22 115.0
28 TraesCS5B01G040600 chrUn 87.500 96 11 1 386 480 19232955 19232860 3.670000e-20 110.0
29 TraesCS5B01G040600 chr1A 85.185 108 13 3 376 482 319082327 319082222 1.320000e-19 108.0
30 TraesCS5B01G040600 chr7D 83.333 114 17 2 686 798 176472029 176471917 1.710000e-18 104.0
31 TraesCS5B01G040600 chr6A 86.316 95 11 2 384 477 168008209 168008302 6.140000e-18 102.0
32 TraesCS5B01G040600 chr6D 83.486 109 15 2 541 648 409583437 409583331 7.950000e-17 99.0
33 TraesCS5B01G040600 chr1B 81.416 113 19 1 685 797 217723643 217723533 1.330000e-14 91.6
34 TraesCS5B01G040600 chr2B 82.022 89 16 0 535 623 603411153 603411241 3.720000e-10 76.8
35 TraesCS5B01G040600 chr3D 89.130 46 5 0 483 528 452982606 452982561 1.350000e-04 58.4


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 TraesCS5B01G040600 chr5B 45034056 45037534 3478 False 6425.0 6425 100.00000 1 3479 1 chr5B.!!$F1 3478
1 TraesCS5B01G040600 chr5D 45139155 45141724 2569 False 855.2 2545 92.07975 883 3476 4 chr5D.!!$F2 2593
2 TraesCS5B01G040600 chr5D 45132043 45132672 629 False 430.0 721 94.61000 1 891 2 chr5D.!!$F1 890
3 TraesCS5B01G040600 chr5A 35803851 35806499 2648 False 1693.0 2440 90.67050 858 3479 2 chr5A.!!$F2 2621

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
438 454 0.823460 GGTTATTGGCCCCACATGTG 59.177 55.0 19.31 19.31 0.0 3.21 F
2144 2229 0.971959 GATGGCATGCTGGTTGGGAA 60.972 55.0 18.92 0.00 0.0 3.97 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2330 2415 0.257039 ATCACCCACCTCATTCCAGC 59.743 55.0 0.0 0.0 0.0 4.85 R
2953 3094 0.529378 CATCCTGCCAAACCAAGCTC 59.471 55.0 0.0 0.0 0.0 4.09 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
123 124 1.069090 GACTGCACAAGGTCGTGGA 59.931 57.895 0.00 0.00 37.37 4.02
148 149 8.590100 ACCAGATAGGAGGACAAGATCCATCA 62.590 46.154 0.00 0.00 45.78 3.07
223 224 9.455847 CTGAAATTACTTGGTTGAGAAGAAAAG 57.544 33.333 0.00 0.00 0.00 2.27
244 245 9.410556 GAAAAGTTGAAAAGCAAGAGCATTATA 57.589 29.630 0.00 0.00 45.49 0.98
287 288 7.167924 TCTGCATTTGTTAATTATGCCTTCA 57.832 32.000 13.45 0.02 43.01 3.02
304 305 4.497507 GCCTTCAGTAAGTGTTGGTTTCAC 60.498 45.833 0.00 0.00 36.22 3.18
316 317 7.202526 AGTGTTGGTTTCACATGAAAATAGTG 58.797 34.615 8.58 0.00 44.58 2.74
317 318 6.420604 GTGTTGGTTTCACATGAAAATAGTGG 59.579 38.462 8.58 0.00 44.58 4.00
325 326 7.459795 TCACATGAAAATAGTGGTGCATTTA 57.540 32.000 0.00 0.00 34.17 1.40
337 338 9.801873 ATAGTGGTGCATTTATTTATTTGTGTC 57.198 29.630 0.00 0.00 0.00 3.67
343 344 7.275560 GTGCATTTATTTATTTGTGTCAGGTCC 59.724 37.037 0.00 0.00 0.00 4.46
346 347 6.827586 TTATTTATTTGTGTCAGGTCCCAC 57.172 37.500 0.00 0.00 0.00 4.61
356 357 2.301870 GTCAGGTCCCACATGTGAGTAA 59.698 50.000 27.46 6.38 30.95 2.24
367 368 9.521841 TCCCACATGTGAGTAAAAATACATTTA 57.478 29.630 27.46 0.00 31.84 1.40
428 444 7.954788 TTGTTTATTTGTGAAGGTTATTGGC 57.045 32.000 0.00 0.00 0.00 4.52
438 454 0.823460 GGTTATTGGCCCCACATGTG 59.177 55.000 19.31 19.31 0.00 3.21
467 483 8.737168 TCATCATCAACTCCAACCTTTATAAG 57.263 34.615 0.00 0.00 0.00 1.73
476 492 8.445361 ACTCCAACCTTTATAAGTAGGAAAGA 57.555 34.615 9.74 3.19 35.45 2.52
533 549 1.542472 TCAGTCATTTCAGTCGGCGTA 59.458 47.619 6.85 0.00 0.00 4.42
535 551 3.379057 TCAGTCATTTCAGTCGGCGTATA 59.621 43.478 6.85 0.00 0.00 1.47
539 555 4.565564 GTCATTTCAGTCGGCGTATAGTTT 59.434 41.667 6.85 0.00 0.00 2.66
540 556 5.745294 GTCATTTCAGTCGGCGTATAGTTTA 59.255 40.000 6.85 0.00 0.00 2.01
541 557 6.420008 GTCATTTCAGTCGGCGTATAGTTTAT 59.580 38.462 6.85 0.00 0.00 1.40
542 558 7.592533 GTCATTTCAGTCGGCGTATAGTTTATA 59.407 37.037 6.85 0.00 0.00 0.98
543 559 7.592533 TCATTTCAGTCGGCGTATAGTTTATAC 59.407 37.037 6.85 0.00 38.09 1.47
544 560 6.624352 TTCAGTCGGCGTATAGTTTATACT 57.376 37.500 6.85 0.00 39.05 2.12
545 561 6.233430 TCAGTCGGCGTATAGTTTATACTC 57.767 41.667 6.85 0.00 39.05 2.59
546 562 5.180117 TCAGTCGGCGTATAGTTTATACTCC 59.820 44.000 6.85 5.56 41.11 3.85
547 563 4.457257 AGTCGGCGTATAGTTTATACTCCC 59.543 45.833 6.85 6.34 41.34 4.30
548 564 4.457257 GTCGGCGTATAGTTTATACTCCCT 59.543 45.833 6.85 0.00 41.34 4.20
549 565 4.697352 TCGGCGTATAGTTTATACTCCCTC 59.303 45.833 6.85 0.00 41.34 4.30
550 566 4.142513 CGGCGTATAGTTTATACTCCCTCC 60.143 50.000 0.00 1.70 41.34 4.30
551 567 4.142513 GGCGTATAGTTTATACTCCCTCCG 60.143 50.000 4.61 0.00 39.48 4.63
552 568 4.457257 GCGTATAGTTTATACTCCCTCCGT 59.543 45.833 5.11 0.00 39.05 4.69
553 569 5.048434 GCGTATAGTTTATACTCCCTCCGTT 60.048 44.000 5.11 0.00 39.05 4.44
554 570 6.515696 GCGTATAGTTTATACTCCCTCCGTTT 60.516 42.308 5.11 0.00 39.05 3.60
555 571 7.080724 CGTATAGTTTATACTCCCTCCGTTTC 58.919 42.308 5.11 0.00 39.05 2.78
556 572 7.255242 CGTATAGTTTATACTCCCTCCGTTTCA 60.255 40.741 5.11 0.00 39.05 2.69
557 573 5.952347 AGTTTATACTCCCTCCGTTTCAT 57.048 39.130 0.00 0.00 0.00 2.57
558 574 8.716674 ATAGTTTATACTCCCTCCGTTTCATA 57.283 34.615 0.00 0.00 35.78 2.15
559 575 7.427989 AGTTTATACTCCCTCCGTTTCATAA 57.572 36.000 0.00 0.00 0.00 1.90
560 576 8.030913 AGTTTATACTCCCTCCGTTTCATAAT 57.969 34.615 0.00 0.00 0.00 1.28
561 577 7.931948 AGTTTATACTCCCTCCGTTTCATAATG 59.068 37.037 0.00 0.00 0.00 1.90
562 578 5.888982 ATACTCCCTCCGTTTCATAATGT 57.111 39.130 0.00 0.00 0.00 2.71
563 579 3.873910 ACTCCCTCCGTTTCATAATGTG 58.126 45.455 0.00 0.00 0.00 3.21
564 580 3.206150 CTCCCTCCGTTTCATAATGTGG 58.794 50.000 0.00 0.00 0.00 4.17
565 581 2.574369 TCCCTCCGTTTCATAATGTGGT 59.426 45.455 0.00 0.00 0.00 4.16
566 582 2.682856 CCCTCCGTTTCATAATGTGGTG 59.317 50.000 0.00 0.00 0.00 4.17
567 583 2.097466 CCTCCGTTTCATAATGTGGTGC 59.903 50.000 0.00 0.00 0.00 5.01
568 584 2.746904 CTCCGTTTCATAATGTGGTGCA 59.253 45.455 0.00 0.00 0.00 4.57
569 585 3.351740 TCCGTTTCATAATGTGGTGCAT 58.648 40.909 0.00 0.00 40.03 3.96
570 586 4.518249 TCCGTTTCATAATGTGGTGCATA 58.482 39.130 0.00 0.00 36.67 3.14
571 587 5.129634 TCCGTTTCATAATGTGGTGCATAT 58.870 37.500 0.00 0.00 36.67 1.78
572 588 5.008514 TCCGTTTCATAATGTGGTGCATATG 59.991 40.000 0.00 0.00 36.67 1.78
573 589 5.008514 CCGTTTCATAATGTGGTGCATATGA 59.991 40.000 6.97 2.08 36.67 2.15
574 590 6.459435 CCGTTTCATAATGTGGTGCATATGAA 60.459 38.462 6.97 12.11 36.67 2.57
575 591 7.140705 CGTTTCATAATGTGGTGCATATGAAT 58.859 34.615 15.39 0.00 37.39 2.57
576 592 7.648908 CGTTTCATAATGTGGTGCATATGAATT 59.351 33.333 15.39 4.96 37.39 2.17
577 593 9.316730 GTTTCATAATGTGGTGCATATGAATTT 57.683 29.630 15.39 0.00 37.39 1.82
578 594 9.887629 TTTCATAATGTGGTGCATATGAATTTT 57.112 25.926 15.39 0.00 37.39 1.82
579 595 9.887629 TTCATAATGTGGTGCATATGAATTTTT 57.112 25.926 6.97 0.00 36.67 1.94
611 627 7.593875 TCAAACTTCACAAATTTTGACCAAG 57.406 32.000 15.81 14.22 38.42 3.61
612 628 7.158021 TCAAACTTCACAAATTTTGACCAAGT 58.842 30.769 15.81 14.74 38.42 3.16
613 629 7.659390 TCAAACTTCACAAATTTTGACCAAGTT 59.341 29.630 15.81 18.56 38.42 2.66
614 630 7.977789 AACTTCACAAATTTTGACCAAGTTT 57.022 28.000 15.81 8.06 35.67 2.66
615 631 7.977789 ACTTCACAAATTTTGACCAAGTTTT 57.022 28.000 15.81 0.00 29.51 2.43
616 632 8.389779 ACTTCACAAATTTTGACCAAGTTTTT 57.610 26.923 15.81 0.00 29.51 1.94
643 659 8.677300 TGAGAAAACCATTTACATCTAGAATGC 58.323 33.333 0.00 0.00 31.16 3.56
644 660 8.000780 AGAAAACCATTTACATCTAGAATGCC 57.999 34.615 0.00 0.00 31.16 4.40
645 661 7.615365 AGAAAACCATTTACATCTAGAATGCCA 59.385 33.333 0.00 0.00 31.16 4.92
646 662 7.716799 AAACCATTTACATCTAGAATGCCAA 57.283 32.000 0.00 0.00 31.16 4.52
647 663 7.716799 AACCATTTACATCTAGAATGCCAAA 57.283 32.000 0.00 1.74 31.16 3.28
648 664 7.716799 ACCATTTACATCTAGAATGCCAAAA 57.283 32.000 0.00 0.00 31.16 2.44
649 665 7.775120 ACCATTTACATCTAGAATGCCAAAAG 58.225 34.615 0.00 0.00 31.16 2.27
650 666 7.397192 ACCATTTACATCTAGAATGCCAAAAGT 59.603 33.333 0.00 1.65 31.16 2.66
651 667 8.902806 CCATTTACATCTAGAATGCCAAAAGTA 58.097 33.333 0.00 0.00 31.16 2.24
727 743 9.939802 ATAAATAGTTTTCTCTACAAACTCGGT 57.060 29.630 1.40 0.00 42.33 4.69
728 744 7.886405 AATAGTTTTCTCTACAAACTCGGTC 57.114 36.000 1.40 0.00 42.33 4.79
729 745 5.272283 AGTTTTCTCTACAAACTCGGTCA 57.728 39.130 0.00 0.00 39.79 4.02
730 746 5.667466 AGTTTTCTCTACAAACTCGGTCAA 58.333 37.500 0.00 0.00 39.79 3.18
731 747 6.110707 AGTTTTCTCTACAAACTCGGTCAAA 58.889 36.000 0.00 0.00 39.79 2.69
732 748 6.596497 AGTTTTCTCTACAAACTCGGTCAAAA 59.404 34.615 0.00 0.00 39.79 2.44
733 749 7.282450 AGTTTTCTCTACAAACTCGGTCAAAAT 59.718 33.333 0.00 0.00 39.79 1.82
734 750 7.562454 TTTCTCTACAAACTCGGTCAAAATT 57.438 32.000 0.00 0.00 0.00 1.82
735 751 7.562454 TTCTCTACAAACTCGGTCAAAATTT 57.438 32.000 0.00 0.00 0.00 1.82
736 752 8.665643 TTCTCTACAAACTCGGTCAAAATTTA 57.334 30.769 0.00 0.00 0.00 1.40
737 753 8.306680 TCTCTACAAACTCGGTCAAAATTTAG 57.693 34.615 0.00 0.00 0.00 1.85
738 754 8.145767 TCTCTACAAACTCGGTCAAAATTTAGA 58.854 33.333 0.00 0.00 0.00 2.10
739 755 8.665643 TCTACAAACTCGGTCAAAATTTAGAA 57.334 30.769 0.00 0.00 0.00 2.10
740 756 9.111613 TCTACAAACTCGGTCAAAATTTAGAAA 57.888 29.630 0.00 0.00 0.00 2.52
741 757 9.382244 CTACAAACTCGGTCAAAATTTAGAAAG 57.618 33.333 0.00 0.00 0.00 2.62
742 758 7.768240 ACAAACTCGGTCAAAATTTAGAAAGT 58.232 30.769 0.00 0.00 0.00 2.66
743 759 8.248253 ACAAACTCGGTCAAAATTTAGAAAGTT 58.752 29.630 0.00 0.00 0.00 2.66
744 760 9.083080 CAAACTCGGTCAAAATTTAGAAAGTTT 57.917 29.630 0.00 1.53 36.73 2.66
786 802 9.416284 TCTATACGCACTATATTATGGAATGGA 57.584 33.333 0.00 0.00 0.00 3.41
787 803 9.684448 CTATACGCACTATATTATGGAATGGAG 57.316 37.037 0.00 0.00 0.00 3.86
788 804 5.734720 ACGCACTATATTATGGAATGGAGG 58.265 41.667 0.00 0.00 0.00 4.30
789 805 5.118990 CGCACTATATTATGGAATGGAGGG 58.881 45.833 0.00 0.00 0.00 4.30
790 806 5.104941 CGCACTATATTATGGAATGGAGGGA 60.105 44.000 0.00 0.00 0.00 4.20
791 807 6.352516 GCACTATATTATGGAATGGAGGGAG 58.647 44.000 0.00 0.00 0.00 4.30
792 808 6.069963 GCACTATATTATGGAATGGAGGGAGT 60.070 42.308 0.00 0.00 0.00 3.85
793 809 7.125811 GCACTATATTATGGAATGGAGGGAGTA 59.874 40.741 0.00 0.00 0.00 2.59
794 810 9.218525 CACTATATTATGGAATGGAGGGAGTAT 57.781 37.037 0.00 0.00 0.00 2.12
795 811 9.805204 ACTATATTATGGAATGGAGGGAGTATT 57.195 33.333 0.00 0.00 0.00 1.89
804 820 9.807921 TGGAATGGAGGGAGTATTAAATTATTC 57.192 33.333 0.00 0.00 0.00 1.75
805 821 8.947115 GGAATGGAGGGAGTATTAAATTATTCG 58.053 37.037 0.00 0.00 0.00 3.34
806 822 9.720769 GAATGGAGGGAGTATTAAATTATTCGA 57.279 33.333 0.00 0.00 0.00 3.71
809 825 9.333724 TGGAGGGAGTATTAAATTATTCGAAAC 57.666 33.333 0.00 0.00 0.00 2.78
810 826 9.333724 GGAGGGAGTATTAAATTATTCGAAACA 57.666 33.333 0.00 0.00 0.00 2.83
994 1061 3.474798 TTCTACCACTCATCCACTCCT 57.525 47.619 0.00 0.00 0.00 3.69
995 1062 3.474798 TCTACCACTCATCCACTCCTT 57.525 47.619 0.00 0.00 0.00 3.36
1533 1618 1.760086 CCGCCTCCTCCTCATGACT 60.760 63.158 0.00 0.00 0.00 3.41
2067 2152 2.743752 CGTCAGCATCAAGGGCGTG 61.744 63.158 0.00 0.00 36.08 5.34
2070 2155 4.704833 AGCATCAAGGGCGTGCGT 62.705 61.111 0.00 0.00 43.37 5.24
2144 2229 0.971959 GATGGCATGCTGGTTGGGAA 60.972 55.000 18.92 0.00 0.00 3.97
2250 2335 4.967442 AGTGATGAGGATGATGAGGAAGAA 59.033 41.667 0.00 0.00 0.00 2.52
2270 2355 5.574188 AGAAGATAATGTTGCAGAGGGTTT 58.426 37.500 0.00 0.00 0.00 3.27
2330 2415 2.046892 CAGTGTCGCTGGGGAAGG 60.047 66.667 5.43 0.00 41.42 3.46
2351 2436 1.561076 CTGGAATGAGGTGGGTGATGA 59.439 52.381 0.00 0.00 0.00 2.92
2396 2481 4.439426 CGACGAAGAAGATGATCCTGAAGT 60.439 45.833 0.00 0.00 0.00 3.01
2433 2518 0.106268 TTTGGGTGAAGAAGGCTGCA 60.106 50.000 0.50 0.00 0.00 4.41
2435 2520 2.338785 GGGTGAAGAAGGCTGCAGC 61.339 63.158 30.88 30.88 45.62 5.25
2436 2521 1.601759 GGTGAAGAAGGCTGCAGCA 60.602 57.895 37.63 14.88 45.64 4.41
2485 2586 3.429822 GCATGATGTTTGGTGAGGGATTG 60.430 47.826 0.00 0.00 0.00 2.67
2501 2602 2.765699 GGATTGTTGCCCATGGTGTTAT 59.234 45.455 11.73 0.00 0.00 1.89
2502 2603 3.197549 GGATTGTTGCCCATGGTGTTATT 59.802 43.478 11.73 0.00 0.00 1.40
2530 2631 3.061563 CCACGAATTGCTCAAATGCATTG 59.938 43.478 13.82 7.57 42.96 2.82
2539 2640 3.367087 GCTCAAATGCATTGTTCTCAGCT 60.367 43.478 13.82 0.00 40.11 4.24
2544 2645 7.049754 TCAAATGCATTGTTCTCAGCTATCTA 58.950 34.615 13.82 0.00 40.11 1.98
2545 2646 7.718314 TCAAATGCATTGTTCTCAGCTATCTAT 59.282 33.333 13.82 0.00 40.11 1.98
2546 2647 7.436430 AATGCATTGTTCTCAGCTATCTATG 57.564 36.000 12.09 0.00 0.00 2.23
2560 2661 6.209589 CAGCTATCTATGGTAGCCAGAAGTAA 59.790 42.308 6.26 0.00 44.35 2.24
2561 2662 6.209788 AGCTATCTATGGTAGCCAGAAGTAAC 59.790 42.308 6.26 0.00 44.35 2.50
2563 2664 7.310113 GCTATCTATGGTAGCCAGAAGTAACAT 60.310 40.741 0.00 0.00 38.85 2.71
2564 2665 9.244292 CTATCTATGGTAGCCAGAAGTAACATA 57.756 37.037 0.00 0.00 36.75 2.29
2565 2666 7.286215 TCTATGGTAGCCAGAAGTAACATAC 57.714 40.000 0.00 0.00 36.75 2.39
2577 2678 9.362539 CCAGAAGTAACATACGTACATAACTTT 57.637 33.333 13.33 5.06 0.00 2.66
2583 2684 5.114081 ACATACGTACATAACTTTGGAGCC 58.886 41.667 0.00 0.00 0.00 4.70
2588 2689 3.356529 ACATAACTTTGGAGCCTGGAG 57.643 47.619 0.00 0.00 0.00 3.86
2590 2691 3.054802 ACATAACTTTGGAGCCTGGAGAG 60.055 47.826 0.00 0.00 0.00 3.20
2600 2701 0.687354 GCCTGGAGAGTGAAGGTGAA 59.313 55.000 0.00 0.00 33.34 3.18
2604 2705 2.370189 CTGGAGAGTGAAGGTGAAGGTT 59.630 50.000 0.00 0.00 0.00 3.50
2607 2708 4.597507 TGGAGAGTGAAGGTGAAGGTTAAT 59.402 41.667 0.00 0.00 0.00 1.40
2619 2720 6.884836 AGGTGAAGGTTAATGGTATGTTCTTC 59.115 38.462 0.00 0.00 0.00 2.87
2631 2732 9.520515 AATGGTATGTTCTTCTTACTTGTGAAT 57.479 29.630 0.00 0.00 0.00 2.57
2632 2733 8.918202 TGGTATGTTCTTCTTACTTGTGAATT 57.082 30.769 0.00 0.00 0.00 2.17
2633 2734 8.783093 TGGTATGTTCTTCTTACTTGTGAATTG 58.217 33.333 0.00 0.00 0.00 2.32
2635 2736 9.599322 GTATGTTCTTCTTACTTGTGAATTGTG 57.401 33.333 0.00 0.00 0.00 3.33
2636 2737 7.857734 TGTTCTTCTTACTTGTGAATTGTGA 57.142 32.000 0.00 0.00 0.00 3.58
2637 2738 8.450578 TGTTCTTCTTACTTGTGAATTGTGAT 57.549 30.769 0.00 0.00 0.00 3.06
2658 2759 5.941733 GATGCTCACACATCAAATTGTACA 58.058 37.500 0.00 0.00 44.81 2.90
2660 2761 6.330004 TGCTCACACATCAAATTGTACATT 57.670 33.333 0.00 0.00 0.00 2.71
2661 2762 6.747125 TGCTCACACATCAAATTGTACATTT 58.253 32.000 0.00 0.00 0.00 2.32
2662 2763 7.208777 TGCTCACACATCAAATTGTACATTTT 58.791 30.769 9.40 9.40 0.00 1.82
2663 2764 7.710044 TGCTCACACATCAAATTGTACATTTTT 59.290 29.630 11.97 5.88 0.00 1.94
2683 2819 0.902531 GCCTAGCTTGTACTGACCCA 59.097 55.000 0.00 0.00 0.00 4.51
2684 2820 1.134670 GCCTAGCTTGTACTGACCCAG 60.135 57.143 0.00 0.00 37.52 4.45
2742 2878 7.288852 AGACTGGTCTATATCACTACAAGCATT 59.711 37.037 0.95 0.00 38.35 3.56
2758 2894 7.755582 ACAAGCATTTCAGTTTCTTGTTAAC 57.244 32.000 0.00 0.00 43.09 2.01
2773 2909 9.589111 TTTCTTGTTAACATTTACTTCCCAAAC 57.411 29.630 9.56 0.00 0.00 2.93
2775 2911 8.973182 TCTTGTTAACATTTACTTCCCAAACTT 58.027 29.630 9.56 0.00 0.00 2.66
2782 2918 7.466804 ACATTTACTTCCCAAACTTAGATCCA 58.533 34.615 0.00 0.00 0.00 3.41
2792 2928 6.096705 CCCAAACTTAGATCCATGCATTGTTA 59.903 38.462 0.00 0.00 0.00 2.41
2841 2977 6.378280 CCTTGTTCTTATAAGCCATGTTTCCT 59.622 38.462 7.67 0.00 0.00 3.36
2902 3043 9.289782 GATATCCAAATGGCTAAGTTCATAGTT 57.710 33.333 0.00 0.00 34.44 2.24
2934 3075 6.705381 CAGGAATGAAACATGCCTTGTAAAAA 59.295 34.615 8.41 0.00 37.68 1.94
2948 3089 7.066766 TGCCTTGTAAAAATTGCAACAAAGAAT 59.933 29.630 0.00 0.00 31.90 2.40
2950 3091 9.786105 CCTTGTAAAAATTGCAACAAAGAATTT 57.214 25.926 0.00 0.00 32.84 1.82
2953 3094 9.907576 TGTAAAAATTGCAACAAAGAATTTACG 57.092 25.926 0.00 0.00 35.03 3.18
2956 3097 6.452244 AATTGCAACAAAGAATTTACGAGC 57.548 33.333 0.00 0.00 35.03 5.03
2957 3098 4.829064 TGCAACAAAGAATTTACGAGCT 57.171 36.364 0.00 0.00 35.03 4.09
2959 3100 4.975502 TGCAACAAAGAATTTACGAGCTTG 59.024 37.500 0.00 0.00 35.03 4.01
3060 3202 6.017400 TGAAAATTTCAAGCTCATGAGACC 57.983 37.500 27.04 9.56 36.59 3.85
3083 3225 2.795117 GAGGAATCCTCGAACGTGTAC 58.205 52.381 14.22 0.00 41.08 2.90
3084 3226 2.422832 GAGGAATCCTCGAACGTGTACT 59.577 50.000 14.22 0.00 41.08 2.73
3085 3227 2.824341 AGGAATCCTCGAACGTGTACTT 59.176 45.455 0.00 0.00 0.00 2.24
3086 3228 3.257624 AGGAATCCTCGAACGTGTACTTT 59.742 43.478 0.00 0.00 0.00 2.66
3087 3229 3.611549 GGAATCCTCGAACGTGTACTTTC 59.388 47.826 0.00 0.00 0.00 2.62
3088 3230 2.712057 TCCTCGAACGTGTACTTTCC 57.288 50.000 0.00 0.00 0.00 3.13
3089 3231 1.955778 TCCTCGAACGTGTACTTTCCA 59.044 47.619 0.00 0.00 0.00 3.53
3147 3290 7.133483 AGTAGTCTATTAATTGTGTCCTCCCT 58.867 38.462 0.00 0.00 0.00 4.20
3208 3351 6.463995 TTTTGTTACTTGCAATCTTCACCT 57.536 33.333 0.00 0.00 0.00 4.00
3270 3413 7.546358 TGCATATTTTCAGGTGGTTCAAATAG 58.454 34.615 0.00 0.00 0.00 1.73
3313 3458 3.593442 TTTCCACTTTCCTGTCCATGT 57.407 42.857 0.00 0.00 0.00 3.21
3320 3465 3.010584 ACTTTCCTGTCCATGTAGGCATT 59.989 43.478 3.65 0.00 37.29 3.56
3395 3540 1.139947 GGACGCTGTAGAGTCTGCC 59.860 63.158 13.98 0.00 43.10 4.85
3432 3577 6.406692 AGCTACGACATACAGAATATGGTT 57.593 37.500 0.00 0.00 0.00 3.67
3465 3611 2.265367 TCCTTGCACCTCTGGATTACA 58.735 47.619 0.00 0.00 0.00 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
100 101 1.411246 ACGACCTTGTGCAGTCACTTA 59.589 47.619 4.88 0.00 43.49 2.24
103 104 1.498865 CCACGACCTTGTGCAGTCAC 61.499 60.000 4.88 0.00 43.40 3.67
123 124 3.582164 GGATCTTGTCCTCCTATCTGGT 58.418 50.000 0.00 0.00 44.16 4.00
214 215 6.038985 GCTCTTGCTTTTCAACTTTTCTTCT 58.961 36.000 0.00 0.00 36.03 2.85
244 245 5.769662 TGCAGAAATGTGACTCCAACTTAAT 59.230 36.000 0.00 0.00 0.00 1.40
265 266 6.934056 ACTGAAGGCATAATTAACAAATGCA 58.066 32.000 16.13 0.00 46.18 3.96
287 288 6.767524 TTTCATGTGAAACCAACACTTACT 57.232 33.333 4.16 0.00 38.94 2.24
316 317 7.096551 ACCTGACACAAATAAATAAATGCACC 58.903 34.615 0.00 0.00 0.00 5.01
317 318 7.275560 GGACCTGACACAAATAAATAAATGCAC 59.724 37.037 0.00 0.00 0.00 4.57
325 326 4.735369 TGTGGGACCTGACACAAATAAAT 58.265 39.130 0.05 0.00 43.91 1.40
337 338 3.417069 TTTACTCACATGTGGGACCTG 57.583 47.619 32.18 13.82 34.49 4.00
367 368 9.857345 ATCCACATTGGGGGAATATAAATAAAT 57.143 29.630 4.80 0.00 38.32 1.40
381 382 2.509548 TGAACCTCTATCCACATTGGGG 59.490 50.000 0.00 0.00 38.32 4.96
382 383 3.931907 TGAACCTCTATCCACATTGGG 57.068 47.619 0.00 0.00 38.32 4.12
428 444 3.955551 TGATGATGAATTCACATGTGGGG 59.044 43.478 25.16 0.11 37.11 4.96
438 454 6.521151 AAGGTTGGAGTTGATGATGAATTC 57.479 37.500 0.00 0.00 0.00 2.17
500 516 7.120579 ACTGAAATGACTGAACAAACACACTAA 59.879 33.333 0.00 0.00 0.00 2.24
501 517 6.597672 ACTGAAATGACTGAACAAACACACTA 59.402 34.615 0.00 0.00 0.00 2.74
533 549 7.613551 ATGAAACGGAGGGAGTATAAACTAT 57.386 36.000 0.00 0.00 35.56 2.12
535 551 5.952347 ATGAAACGGAGGGAGTATAAACT 57.048 39.130 0.00 0.00 39.21 2.66
539 555 6.239487 CCACATTATGAAACGGAGGGAGTATA 60.239 42.308 0.00 0.00 0.00 1.47
540 556 5.454755 CCACATTATGAAACGGAGGGAGTAT 60.455 44.000 0.00 0.00 0.00 2.12
541 557 4.141801 CCACATTATGAAACGGAGGGAGTA 60.142 45.833 0.00 0.00 0.00 2.59
542 558 3.370527 CCACATTATGAAACGGAGGGAGT 60.371 47.826 0.00 0.00 0.00 3.85
543 559 3.206150 CCACATTATGAAACGGAGGGAG 58.794 50.000 0.00 0.00 0.00 4.30
544 560 2.574369 ACCACATTATGAAACGGAGGGA 59.426 45.455 0.00 0.00 0.00 4.20
545 561 2.682856 CACCACATTATGAAACGGAGGG 59.317 50.000 0.00 0.00 0.00 4.30
546 562 2.097466 GCACCACATTATGAAACGGAGG 59.903 50.000 0.00 0.00 0.00 4.30
547 563 2.746904 TGCACCACATTATGAAACGGAG 59.253 45.455 0.00 0.00 0.00 4.63
548 564 2.784347 TGCACCACATTATGAAACGGA 58.216 42.857 0.00 0.00 0.00 4.69
549 565 3.781079 ATGCACCACATTATGAAACGG 57.219 42.857 0.00 0.00 34.40 4.44
550 566 6.058827 TCATATGCACCACATTATGAAACG 57.941 37.500 0.00 0.00 40.38 3.60
551 567 8.876275 AATTCATATGCACCACATTATGAAAC 57.124 30.769 17.55 0.00 39.47 2.78
552 568 9.887629 AAAATTCATATGCACCACATTATGAAA 57.112 25.926 17.55 6.31 39.47 2.69
553 569 9.887629 AAAAATTCATATGCACCACATTATGAA 57.112 25.926 16.47 16.47 39.84 2.57
588 604 7.363205 ACTTGGTCAAAATTTGTGAAGTTTG 57.637 32.000 5.56 5.90 46.59 2.93
589 605 7.977789 AACTTGGTCAAAATTTGTGAAGTTT 57.022 28.000 17.86 9.22 34.22 2.66
590 606 7.977789 AAACTTGGTCAAAATTTGTGAAGTT 57.022 28.000 17.86 17.86 36.71 2.66
591 607 7.977789 AAAACTTGGTCAAAATTTGTGAAGT 57.022 28.000 5.56 9.10 0.00 3.01
617 633 8.677300 GCATTCTAGATGTAAATGGTTTTCTCA 58.323 33.333 0.00 0.00 32.31 3.27
618 634 8.131731 GGCATTCTAGATGTAAATGGTTTTCTC 58.868 37.037 0.00 0.00 32.31 2.87
619 635 7.615365 TGGCATTCTAGATGTAAATGGTTTTCT 59.385 33.333 0.00 0.00 32.31 2.52
620 636 7.771183 TGGCATTCTAGATGTAAATGGTTTTC 58.229 34.615 0.00 0.00 32.31 2.29
621 637 7.716799 TGGCATTCTAGATGTAAATGGTTTT 57.283 32.000 0.00 0.00 32.31 2.43
622 638 7.716799 TTGGCATTCTAGATGTAAATGGTTT 57.283 32.000 0.00 0.00 32.31 3.27
623 639 7.716799 TTTGGCATTCTAGATGTAAATGGTT 57.283 32.000 0.00 0.00 32.31 3.67
624 640 7.397192 ACTTTTGGCATTCTAGATGTAAATGGT 59.603 33.333 0.00 2.33 32.31 3.55
625 641 7.775120 ACTTTTGGCATTCTAGATGTAAATGG 58.225 34.615 0.00 1.88 32.31 3.16
701 717 9.939802 ACCGAGTTTGTAGAGAAAACTATTTAT 57.060 29.630 1.78 0.00 45.50 1.40
702 718 9.415544 GACCGAGTTTGTAGAGAAAACTATTTA 57.584 33.333 1.78 0.00 45.50 1.40
703 719 7.929785 TGACCGAGTTTGTAGAGAAAACTATTT 59.070 33.333 1.78 0.00 45.50 1.40
704 720 7.439381 TGACCGAGTTTGTAGAGAAAACTATT 58.561 34.615 1.78 0.00 45.50 1.73
705 721 6.989659 TGACCGAGTTTGTAGAGAAAACTAT 58.010 36.000 1.78 0.00 45.50 2.12
706 722 6.395426 TGACCGAGTTTGTAGAGAAAACTA 57.605 37.500 1.78 0.00 45.50 2.24
708 724 5.978934 TTGACCGAGTTTGTAGAGAAAAC 57.021 39.130 0.00 0.00 37.71 2.43
709 725 6.988622 TTTTGACCGAGTTTGTAGAGAAAA 57.011 33.333 0.00 0.00 0.00 2.29
710 726 7.562454 AATTTTGACCGAGTTTGTAGAGAAA 57.438 32.000 0.00 0.00 0.00 2.52
711 727 7.562454 AAATTTTGACCGAGTTTGTAGAGAA 57.438 32.000 0.00 0.00 0.00 2.87
712 728 8.145767 TCTAAATTTTGACCGAGTTTGTAGAGA 58.854 33.333 0.00 0.00 0.00 3.10
713 729 8.306680 TCTAAATTTTGACCGAGTTTGTAGAG 57.693 34.615 0.00 0.00 0.00 2.43
714 730 8.665643 TTCTAAATTTTGACCGAGTTTGTAGA 57.334 30.769 1.61 0.00 0.00 2.59
715 731 9.382244 CTTTCTAAATTTTGACCGAGTTTGTAG 57.618 33.333 1.61 0.00 0.00 2.74
716 732 8.895737 ACTTTCTAAATTTTGACCGAGTTTGTA 58.104 29.630 1.61 0.00 0.00 2.41
717 733 7.768240 ACTTTCTAAATTTTGACCGAGTTTGT 58.232 30.769 1.61 0.00 0.00 2.83
718 734 8.628882 AACTTTCTAAATTTTGACCGAGTTTG 57.371 30.769 14.00 1.03 0.00 2.93
719 735 9.083080 CAAACTTTCTAAATTTTGACCGAGTTT 57.917 29.630 19.87 19.87 39.48 2.66
720 736 8.463607 TCAAACTTTCTAAATTTTGACCGAGTT 58.536 29.630 13.70 14.00 40.39 3.01
721 737 7.992008 TCAAACTTTCTAAATTTTGACCGAGT 58.008 30.769 13.70 4.72 40.39 4.18
722 738 9.463443 AATCAAACTTTCTAAATTTTGACCGAG 57.537 29.630 17.76 4.18 44.65 4.63
723 739 9.810545 AAATCAAACTTTCTAAATTTTGACCGA 57.189 25.926 17.76 2.98 44.65 4.69
760 776 9.416284 TCCATTCCATAATATAGTGCGTATAGA 57.584 33.333 0.00 0.00 0.00 1.98
761 777 9.684448 CTCCATTCCATAATATAGTGCGTATAG 57.316 37.037 0.00 0.00 0.00 1.31
762 778 8.638873 CCTCCATTCCATAATATAGTGCGTATA 58.361 37.037 0.00 0.00 0.00 1.47
763 779 7.419057 CCCTCCATTCCATAATATAGTGCGTAT 60.419 40.741 0.00 0.00 0.00 3.06
764 780 6.127168 CCCTCCATTCCATAATATAGTGCGTA 60.127 42.308 0.00 0.00 0.00 4.42
765 781 5.338381 CCCTCCATTCCATAATATAGTGCGT 60.338 44.000 0.00 0.00 0.00 5.24
766 782 5.104941 TCCCTCCATTCCATAATATAGTGCG 60.105 44.000 0.00 0.00 0.00 5.34
767 783 6.069963 ACTCCCTCCATTCCATAATATAGTGC 60.070 42.308 0.00 0.00 0.00 4.40
768 784 7.502060 ACTCCCTCCATTCCATAATATAGTG 57.498 40.000 0.00 0.00 0.00 2.74
769 785 9.805204 AATACTCCCTCCATTCCATAATATAGT 57.195 33.333 0.00 0.00 0.00 2.12
778 794 9.807921 GAATAATTTAATACTCCCTCCATTCCA 57.192 33.333 0.00 0.00 0.00 3.53
779 795 8.947115 CGAATAATTTAATACTCCCTCCATTCC 58.053 37.037 0.00 0.00 0.00 3.01
780 796 9.720769 TCGAATAATTTAATACTCCCTCCATTC 57.279 33.333 0.00 0.00 0.00 2.67
783 799 9.333724 GTTTCGAATAATTTAATACTCCCTCCA 57.666 33.333 0.00 0.00 0.00 3.86
784 800 9.333724 TGTTTCGAATAATTTAATACTCCCTCC 57.666 33.333 0.00 0.00 0.00 4.30
801 817 8.070171 CCTTTCGCAAATATAGATGTTTCGAAT 58.930 33.333 0.00 0.00 34.37 3.34
802 818 7.279090 TCCTTTCGCAAATATAGATGTTTCGAA 59.721 33.333 0.00 0.00 33.56 3.71
803 819 6.759356 TCCTTTCGCAAATATAGATGTTTCGA 59.241 34.615 0.00 0.00 0.00 3.71
804 820 6.943981 TCCTTTCGCAAATATAGATGTTTCG 58.056 36.000 0.00 0.00 0.00 3.46
805 821 7.355778 CCTCCTTTCGCAAATATAGATGTTTC 58.644 38.462 0.00 0.00 0.00 2.78
806 822 6.263168 CCCTCCTTTCGCAAATATAGATGTTT 59.737 38.462 0.00 0.00 0.00 2.83
807 823 5.765182 CCCTCCTTTCGCAAATATAGATGTT 59.235 40.000 0.00 0.00 0.00 2.71
808 824 5.071788 TCCCTCCTTTCGCAAATATAGATGT 59.928 40.000 0.00 0.00 0.00 3.06
809 825 5.551233 TCCCTCCTTTCGCAAATATAGATG 58.449 41.667 0.00 0.00 0.00 2.90
810 826 5.308237 ACTCCCTCCTTTCGCAAATATAGAT 59.692 40.000 0.00 0.00 0.00 1.98
811 827 4.654262 ACTCCCTCCTTTCGCAAATATAGA 59.346 41.667 0.00 0.00 0.00 1.98
812 828 4.962155 ACTCCCTCCTTTCGCAAATATAG 58.038 43.478 0.00 0.00 0.00 1.31
825 841 1.007721 ACATGACAGCTACTCCCTCCT 59.992 52.381 0.00 0.00 0.00 3.69
934 996 2.743195 GCGATGGGATGCGAGATAC 58.257 57.895 0.00 0.00 0.00 2.24
1395 1480 2.520741 GAGAGGGAGGGCGAGAGG 60.521 72.222 0.00 0.00 0.00 3.69
1506 1591 2.606519 AGGAGGCGGTGCACCTTA 60.607 61.111 32.28 0.00 37.77 2.69
1633 1718 1.880027 GGTGTTTGCGAAGGTGAAGAT 59.120 47.619 0.00 0.00 0.00 2.40
2067 2152 2.813908 AGGAACGCCGAATGACGC 60.814 61.111 0.00 0.00 41.07 5.19
2070 2155 1.375396 CACCAGGAACGCCGAATGA 60.375 57.895 0.00 0.00 39.96 2.57
2250 2335 4.666512 ACAAACCCTCTGCAACATTATCT 58.333 39.130 0.00 0.00 0.00 1.98
2270 2355 1.728323 TTCACCATCCACCTCTGACA 58.272 50.000 0.00 0.00 0.00 3.58
2330 2415 0.257039 ATCACCCACCTCATTCCAGC 59.743 55.000 0.00 0.00 0.00 4.85
2351 2436 3.480133 CCCCCTCGATTCCGCCTT 61.480 66.667 0.00 0.00 35.37 4.35
2379 2464 4.444591 GCATCCACTTCAGGATCATCTTCT 60.445 45.833 0.00 0.00 45.16 2.85
2396 2481 1.002069 AAACTCCTCCATGGCATCCA 58.998 50.000 6.96 0.00 38.19 3.41
2433 2518 2.530151 TCAACCAGCCCCTCTGCT 60.530 61.111 0.00 0.00 44.00 4.24
2435 2520 1.002868 CTGTCAACCAGCCCCTCTG 60.003 63.158 0.00 0.00 42.49 3.35
2436 2521 1.462238 ACTGTCAACCAGCCCCTCT 60.462 57.895 0.00 0.00 45.68 3.69
2485 2586 2.166254 CCTCAATAACACCATGGGCAAC 59.834 50.000 18.09 0.00 0.00 4.17
2495 2596 4.671766 GCAATTCGTGGTCCTCAATAACAC 60.672 45.833 0.00 0.00 0.00 3.32
2530 2631 4.524714 TGGCTACCATAGATAGCTGAGAAC 59.475 45.833 0.00 0.00 43.83 3.01
2539 2640 9.021807 GTATGTTACTTCTGGCTACCATAGATA 57.978 37.037 3.67 0.00 30.82 1.98
2544 2645 4.404715 ACGTATGTTACTTCTGGCTACCAT 59.595 41.667 0.00 0.00 30.82 3.55
2545 2646 3.765511 ACGTATGTTACTTCTGGCTACCA 59.234 43.478 0.00 0.00 0.00 3.25
2546 2647 4.382345 ACGTATGTTACTTCTGGCTACC 57.618 45.455 0.00 0.00 0.00 3.18
2560 2661 5.105064 AGGCTCCAAAGTTATGTACGTATGT 60.105 40.000 0.00 0.00 0.00 2.29
2561 2662 5.234329 CAGGCTCCAAAGTTATGTACGTATG 59.766 44.000 0.00 0.00 0.00 2.39
2563 2664 4.382254 CCAGGCTCCAAAGTTATGTACGTA 60.382 45.833 0.00 0.00 0.00 3.57
2564 2665 3.596214 CAGGCTCCAAAGTTATGTACGT 58.404 45.455 0.00 0.00 0.00 3.57
2565 2666 2.936498 CCAGGCTCCAAAGTTATGTACG 59.064 50.000 0.00 0.00 0.00 3.67
2577 2678 0.906756 CCTTCACTCTCCAGGCTCCA 60.907 60.000 0.00 0.00 0.00 3.86
2583 2684 1.974236 ACCTTCACCTTCACTCTCCAG 59.026 52.381 0.00 0.00 0.00 3.86
2588 2689 4.652822 ACCATTAACCTTCACCTTCACTC 58.347 43.478 0.00 0.00 0.00 3.51
2590 2691 5.944007 ACATACCATTAACCTTCACCTTCAC 59.056 40.000 0.00 0.00 0.00 3.18
2600 2701 9.449719 CAAGTAAGAAGAACATACCATTAACCT 57.550 33.333 0.00 0.00 0.00 3.50
2607 2708 8.783093 CAATTCACAAGTAAGAAGAACATACCA 58.217 33.333 0.00 0.00 0.00 3.25
2619 2720 6.245115 TGAGCATCACAATTCACAAGTAAG 57.755 37.500 0.00 0.00 42.56 2.34
2635 2736 5.941733 TGTACAATTTGATGTGTGAGCATC 58.058 37.500 2.79 0.00 43.97 3.91
2636 2737 5.963176 TGTACAATTTGATGTGTGAGCAT 57.037 34.783 2.79 0.00 34.75 3.79
2637 2738 5.963176 ATGTACAATTTGATGTGTGAGCA 57.037 34.783 0.00 0.00 34.75 4.26
2652 2753 5.782893 ACAAGCTAGGCAAAAATGTACAA 57.217 34.783 0.00 0.00 0.00 2.41
2658 2759 4.459337 GGTCAGTACAAGCTAGGCAAAAAT 59.541 41.667 0.00 0.00 0.00 1.82
2660 2761 3.408634 GGTCAGTACAAGCTAGGCAAAA 58.591 45.455 0.00 0.00 0.00 2.44
2661 2762 2.290071 GGGTCAGTACAAGCTAGGCAAA 60.290 50.000 0.00 0.00 0.00 3.68
2662 2763 1.278127 GGGTCAGTACAAGCTAGGCAA 59.722 52.381 0.00 0.00 0.00 4.52
2663 2764 0.902531 GGGTCAGTACAAGCTAGGCA 59.097 55.000 0.00 0.00 0.00 4.75
2716 2852 6.129874 TGCTTGTAGTGATATAGACCAGTCT 58.870 40.000 5.50 5.50 43.40 3.24
2758 2894 7.938140 TGGATCTAAGTTTGGGAAGTAAATG 57.062 36.000 0.00 0.00 0.00 2.32
2764 2900 4.272489 TGCATGGATCTAAGTTTGGGAAG 58.728 43.478 0.00 0.00 0.00 3.46
2773 2909 7.119407 CAGAGGATAACAATGCATGGATCTAAG 59.881 40.741 8.45 0.00 0.00 2.18
2775 2911 6.470278 CAGAGGATAACAATGCATGGATCTA 58.530 40.000 8.45 0.00 0.00 1.98
2782 2918 7.293073 AGAATTACCAGAGGATAACAATGCAT 58.707 34.615 0.00 0.00 0.00 3.96
2792 2928 6.097412 GGAAAATGCAAGAATTACCAGAGGAT 59.903 38.462 0.00 0.00 0.00 3.24
2878 3015 9.474313 AAAACTATGAACTTAGCCATTTGGATA 57.526 29.630 0.00 0.00 37.39 2.59
2879 3016 7.961326 AAACTATGAACTTAGCCATTTGGAT 57.039 32.000 0.00 0.00 37.39 3.41
2882 3019 7.384660 TGCAAAAACTATGAACTTAGCCATTTG 59.615 33.333 0.00 0.00 0.00 2.32
2883 3020 7.384932 GTGCAAAAACTATGAACTTAGCCATTT 59.615 33.333 0.00 0.00 0.00 2.32
2886 3027 5.300539 TGTGCAAAAACTATGAACTTAGCCA 59.699 36.000 0.00 0.00 0.00 4.75
2887 3028 5.768317 TGTGCAAAAACTATGAACTTAGCC 58.232 37.500 0.00 0.00 0.00 3.93
2902 3043 3.808726 GCATGTTTCATTCCTGTGCAAAA 59.191 39.130 0.00 0.00 0.00 2.44
2934 3075 5.772521 AGCTCGTAAATTCTTTGTTGCAAT 58.227 33.333 0.59 0.00 0.00 3.56
2948 3089 1.606668 CTGCCAAACCAAGCTCGTAAA 59.393 47.619 0.00 0.00 0.00 2.01
2950 3091 0.605319 CCTGCCAAACCAAGCTCGTA 60.605 55.000 0.00 0.00 0.00 3.43
2951 3092 1.898574 CCTGCCAAACCAAGCTCGT 60.899 57.895 0.00 0.00 0.00 4.18
2952 3093 0.962356 ATCCTGCCAAACCAAGCTCG 60.962 55.000 0.00 0.00 0.00 5.03
2953 3094 0.529378 CATCCTGCCAAACCAAGCTC 59.471 55.000 0.00 0.00 0.00 4.09
2954 3095 1.538687 GCATCCTGCCAAACCAAGCT 61.539 55.000 0.00 0.00 37.42 3.74
2956 3097 0.680618 TTGCATCCTGCCAAACCAAG 59.319 50.000 0.00 0.00 44.23 3.61
2957 3098 1.126488 TTTGCATCCTGCCAAACCAA 58.874 45.000 0.00 0.00 44.23 3.67
2959 3100 0.681175 AGTTTGCATCCTGCCAAACC 59.319 50.000 16.33 6.28 44.23 3.27
2981 3123 3.934068 TCTAGGGTTTACTTTTCAGCGG 58.066 45.455 0.00 0.00 0.00 5.52
3012 3154 9.480053 CATATGTTTGAAACAGGAAAAGTTGAT 57.520 29.630 16.43 0.00 45.95 2.57
3147 3290 6.098982 ACCAATATCAAAAAGACCCAAACACA 59.901 34.615 0.00 0.00 0.00 3.72
3208 3351 3.339253 AGCACAGCACACAATCTGATA 57.661 42.857 0.00 0.00 34.57 2.15
3292 3435 4.118168 ACATGGACAGGAAAGTGGAAAT 57.882 40.909 0.00 0.00 0.00 2.17
3313 3458 3.398318 TGTCCTAGAGGTGAATGCCTA 57.602 47.619 0.00 0.00 39.34 3.93
3320 3465 4.537135 GACATTGTTGTCCTAGAGGTGA 57.463 45.455 0.00 0.00 45.45 4.02
3395 3540 1.740380 CGTAGCTTGGGAGTGGTCATG 60.740 57.143 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.