Multiple sequence alignment - TraesCS7D01G336600

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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 TraesCS7D01G336600 chr7D 100.000 4224 0 0 1 4224 429476770 429480993 0.000000e+00 7801
1 TraesCS7D01G336600 chr7B 93.270 2749 156 13 856 3588 446992027 446994762 0.000000e+00 4024
2 TraesCS7D01G336600 chr7B 97.134 314 9 0 1 314 446991164 446991477 8.040000e-147 531
3 TraesCS7D01G336600 chr7B 93.429 350 23 0 3875 4224 446996040 446996389 1.740000e-143 520
4 TraesCS7D01G336600 chr7B 96.026 151 5 1 3678 3827 446994789 446994939 1.170000e-60 244
5 TraesCS7D01G336600 chr7B 94.366 142 8 0 432 573 446991621 446991762 7.110000e-53 219
6 TraesCS7D01G336600 chr7B 90.000 90 4 1 315 399 446991537 446991626 1.240000e-20 111
7 TraesCS7D01G336600 chr7A 89.899 3069 191 50 867 3875 502754896 502751887 0.000000e+00 3840
8 TraesCS7D01G336600 chr7A 95.971 273 11 0 1 273 502756803 502756531 1.080000e-120 444
9 TraesCS7D01G336600 chr7A 87.938 257 23 4 315 571 502756451 502756203 3.190000e-76 296
10 TraesCS7D01G336600 chr7A 87.097 248 24 4 3970 4213 502751561 502751318 1.500000e-69 274
11 TraesCS7D01G336600 chr7A 91.964 112 8 1 572 683 538102528 538102638 5.650000e-34 156
12 TraesCS7D01G336600 chr1A 91.525 118 10 0 567 684 427816468 427816351 3.380000e-36 163
13 TraesCS7D01G336600 chr1A 89.431 123 11 2 563 684 531881181 531881060 2.030000e-33 154
14 TraesCS7D01G336600 chr5A 90.164 122 10 2 564 684 537119669 537119789 1.570000e-34 158
15 TraesCS7D01G336600 chr5A 88.710 124 11 3 565 688 438417867 438417747 9.460000e-32 148
16 TraesCS7D01G336600 chr1D 91.379 116 8 2 565 679 3303492 3303378 1.570000e-34 158
17 TraesCS7D01G336600 chr1D 90.678 118 11 0 567 684 330548110 330547993 1.570000e-34 158
18 TraesCS7D01G336600 chr3A 92.593 108 8 0 572 679 482063236 482063129 5.650000e-34 156
19 TraesCS7D01G336600 chr1B 89.831 118 12 0 567 684 445432051 445431934 7.310000e-33 152


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 TraesCS7D01G336600 chr7D 429476770 429480993 4223 False 7801.0 7801 100.00000 1 4224 1 chr7D.!!$F1 4223
1 TraesCS7D01G336600 chr7B 446991164 446996389 5225 False 941.5 4024 94.03750 1 4224 6 chr7B.!!$F1 4223
2 TraesCS7D01G336600 chr7A 502751318 502756803 5485 True 1213.5 3840 90.22625 1 4213 4 chr7A.!!$R1 4212

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
432 497 0.035317 AGTCGCCACTTCTGAATGCA 59.965 50.0 0.00 0.0 0.00 3.96 F
1271 2478 0.677842 CCCTTTGCTTGCTTGCTTCT 59.322 50.0 3.47 0.0 0.00 2.85 F
1629 2849 0.038310 AGGTAAACCTTGCTCAGCCC 59.962 55.0 0.00 0.0 46.09 5.19 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1376 2596 0.533032 GAGCCCCGGATAGATACAGC 59.467 60.000 0.73 0.0 0.0 4.40 R
2815 4056 1.004044 CTCAGATGTGGGAGGTTGCTT 59.996 52.381 0.00 0.0 0.0 3.91 R
3446 4691 1.059913 AACAAGACACTGGAGGAGGG 58.940 55.000 0.00 0.0 0.0 4.30 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 0.251077 CAAAGAGGGCCAGTGCTTCT 60.251 55.000 6.18 0.00 37.74 2.85
106 107 1.789576 AAGTCCCGGCATCAAAGGGT 61.790 55.000 0.00 0.00 45.27 4.34
166 167 0.746563 GGGACGGCAATTCGGATTCA 60.747 55.000 0.00 0.00 0.00 2.57
378 443 2.158559 TGTATGTCCATGTGTTGGTGC 58.841 47.619 0.00 0.00 46.52 5.01
382 447 1.902918 TCCATGTGTTGGTGCAGGC 60.903 57.895 0.00 0.00 46.52 4.85
421 486 1.786579 GAAACATTTGCAAGTCGCCAC 59.213 47.619 0.00 0.00 41.33 5.01
430 495 1.135859 GCAAGTCGCCACTTCTGAATG 60.136 52.381 0.00 0.00 41.24 2.67
431 496 1.135859 CAAGTCGCCACTTCTGAATGC 60.136 52.381 0.00 0.00 41.24 3.56
432 497 0.035317 AGTCGCCACTTCTGAATGCA 59.965 50.000 0.00 0.00 0.00 3.96
433 498 1.089920 GTCGCCACTTCTGAATGCAT 58.910 50.000 0.00 0.00 0.00 3.96
576 641 9.941664 CATTTTGTGATGAATCTTATGTACTCC 57.058 33.333 0.00 0.00 0.00 3.85
577 642 8.506168 TTTTGTGATGAATCTTATGTACTCCC 57.494 34.615 0.00 0.00 0.00 4.30
578 643 7.437713 TTGTGATGAATCTTATGTACTCCCT 57.562 36.000 0.00 0.00 0.00 4.20
579 644 7.055667 TGTGATGAATCTTATGTACTCCCTC 57.944 40.000 0.00 0.00 0.00 4.30
580 645 6.841229 TGTGATGAATCTTATGTACTCCCTCT 59.159 38.462 0.00 0.00 0.00 3.69
581 646 8.004801 TGTGATGAATCTTATGTACTCCCTCTA 58.995 37.037 0.00 0.00 0.00 2.43
582 647 9.030452 GTGATGAATCTTATGTACTCCCTCTAT 57.970 37.037 0.00 0.00 0.00 1.98
583 648 9.607333 TGATGAATCTTATGTACTCCCTCTATT 57.393 33.333 0.00 0.00 0.00 1.73
585 650 9.607333 ATGAATCTTATGTACTCCCTCTATTCA 57.393 33.333 0.00 0.00 35.01 2.57
586 651 8.861086 TGAATCTTATGTACTCCCTCTATTCAC 58.139 37.037 0.00 0.00 0.00 3.18
587 652 9.084533 GAATCTTATGTACTCCCTCTATTCACT 57.915 37.037 0.00 0.00 0.00 3.41
588 653 9.440761 AATCTTATGTACTCCCTCTATTCACTT 57.559 33.333 0.00 0.00 0.00 3.16
589 654 8.840200 TCTTATGTACTCCCTCTATTCACTTT 57.160 34.615 0.00 0.00 0.00 2.66
590 655 9.268282 TCTTATGTACTCCCTCTATTCACTTTT 57.732 33.333 0.00 0.00 0.00 2.27
591 656 9.319143 CTTATGTACTCCCTCTATTCACTTTTG 57.681 37.037 0.00 0.00 0.00 2.44
592 657 6.681729 TGTACTCCCTCTATTCACTTTTGT 57.318 37.500 0.00 0.00 0.00 2.83
593 658 7.786046 TGTACTCCCTCTATTCACTTTTGTA 57.214 36.000 0.00 0.00 0.00 2.41
594 659 8.197592 TGTACTCCCTCTATTCACTTTTGTAA 57.802 34.615 0.00 0.00 0.00 2.41
595 660 8.311836 TGTACTCCCTCTATTCACTTTTGTAAG 58.688 37.037 0.00 0.00 37.40 2.34
596 661 7.554959 ACTCCCTCTATTCACTTTTGTAAGA 57.445 36.000 0.00 0.00 35.30 2.10
597 662 7.387643 ACTCCCTCTATTCACTTTTGTAAGAC 58.612 38.462 0.00 0.00 35.30 3.01
598 663 6.395629 TCCCTCTATTCACTTTTGTAAGACG 58.604 40.000 0.00 0.00 35.30 4.18
599 664 6.014840 TCCCTCTATTCACTTTTGTAAGACGT 60.015 38.462 0.00 0.00 35.30 4.34
600 665 6.649557 CCCTCTATTCACTTTTGTAAGACGTT 59.350 38.462 0.00 0.00 35.30 3.99
601 666 7.172703 CCCTCTATTCACTTTTGTAAGACGTTT 59.827 37.037 0.00 0.00 35.30 3.60
602 667 8.557029 CCTCTATTCACTTTTGTAAGACGTTTT 58.443 33.333 0.00 0.00 35.30 2.43
607 672 7.830940 TCACTTTTGTAAGACGTTTTAGACA 57.169 32.000 0.00 0.00 35.30 3.41
608 673 8.428186 TCACTTTTGTAAGACGTTTTAGACAT 57.572 30.769 0.00 0.00 35.30 3.06
609 674 8.885722 TCACTTTTGTAAGACGTTTTAGACATT 58.114 29.630 0.00 0.00 35.30 2.71
610 675 9.498307 CACTTTTGTAAGACGTTTTAGACATTT 57.502 29.630 0.00 0.00 35.30 2.32
616 681 9.531942 TGTAAGACGTTTTAGACATTTAAGACA 57.468 29.630 0.00 0.00 0.00 3.41
619 684 8.428186 AGACGTTTTAGACATTTAAGACAACA 57.572 30.769 0.00 0.00 0.00 3.33
620 685 8.333186 AGACGTTTTAGACATTTAAGACAACAC 58.667 33.333 0.00 0.00 0.00 3.32
621 686 8.205131 ACGTTTTAGACATTTAAGACAACACT 57.795 30.769 0.00 0.00 0.00 3.55
622 687 8.671028 ACGTTTTAGACATTTAAGACAACACTT 58.329 29.630 0.00 0.00 0.00 3.16
637 702 9.705290 AAGACAACACTTAAAACAGTTCAATTT 57.295 25.926 0.00 0.00 0.00 1.82
638 703 9.353999 AGACAACACTTAAAACAGTTCAATTTC 57.646 29.630 0.00 0.00 0.00 2.17
639 704 9.134734 GACAACACTTAAAACAGTTCAATTTCA 57.865 29.630 0.00 0.00 0.00 2.69
640 705 9.139174 ACAACACTTAAAACAGTTCAATTTCAG 57.861 29.630 0.00 0.00 0.00 3.02
641 706 9.139174 CAACACTTAAAACAGTTCAATTTCAGT 57.861 29.630 0.00 0.00 0.00 3.41
642 707 9.705290 AACACTTAAAACAGTTCAATTTCAGTT 57.295 25.926 0.00 0.00 0.00 3.16
643 708 9.139174 ACACTTAAAACAGTTCAATTTCAGTTG 57.861 29.630 0.00 0.00 0.00 3.16
644 709 9.139174 CACTTAAAACAGTTCAATTTCAGTTGT 57.861 29.630 0.00 0.00 0.00 3.32
645 710 9.353999 ACTTAAAACAGTTCAATTTCAGTTGTC 57.646 29.630 0.00 0.00 0.00 3.18
646 711 9.573133 CTTAAAACAGTTCAATTTCAGTTGTCT 57.427 29.630 0.00 0.00 0.00 3.41
647 712 9.921637 TTAAAACAGTTCAATTTCAGTTGTCTT 57.078 25.926 0.00 0.00 0.00 3.01
649 714 8.911247 AAACAGTTCAATTTCAGTTGTCTTAC 57.089 30.769 0.00 0.00 0.00 2.34
650 715 7.624360 ACAGTTCAATTTCAGTTGTCTTACA 57.376 32.000 0.00 0.00 0.00 2.41
651 716 7.472543 ACAGTTCAATTTCAGTTGTCTTACAC 58.527 34.615 0.00 0.00 0.00 2.90
652 717 6.628856 CAGTTCAATTTCAGTTGTCTTACACG 59.371 38.462 0.00 0.00 0.00 4.49
653 718 6.315393 AGTTCAATTTCAGTTGTCTTACACGT 59.685 34.615 0.00 0.00 0.00 4.49
654 719 7.493320 AGTTCAATTTCAGTTGTCTTACACGTA 59.507 33.333 0.00 0.00 0.00 3.57
655 720 7.956420 TCAATTTCAGTTGTCTTACACGTAT 57.044 32.000 0.00 0.00 0.00 3.06
656 721 8.373048 TCAATTTCAGTTGTCTTACACGTATT 57.627 30.769 0.00 0.00 0.00 1.89
657 722 9.478768 TCAATTTCAGTTGTCTTACACGTATTA 57.521 29.630 0.00 0.00 0.00 0.98
658 723 9.525007 CAATTTCAGTTGTCTTACACGTATTAC 57.475 33.333 0.00 0.00 0.00 1.89
659 724 8.821147 ATTTCAGTTGTCTTACACGTATTACA 57.179 30.769 0.00 0.00 0.00 2.41
660 725 8.645730 TTTCAGTTGTCTTACACGTATTACAA 57.354 30.769 0.00 0.00 0.00 2.41
661 726 8.645730 TTCAGTTGTCTTACACGTATTACAAA 57.354 30.769 0.00 0.00 0.00 2.83
662 727 8.645730 TCAGTTGTCTTACACGTATTACAAAA 57.354 30.769 0.00 0.00 0.00 2.44
663 728 8.757789 TCAGTTGTCTTACACGTATTACAAAAG 58.242 33.333 0.00 4.13 0.00 2.27
664 729 8.545420 CAGTTGTCTTACACGTATTACAAAAGT 58.455 33.333 0.00 0.00 0.00 2.66
665 730 8.545420 AGTTGTCTTACACGTATTACAAAAGTG 58.455 33.333 0.00 0.00 38.63 3.16
666 731 8.542132 GTTGTCTTACACGTATTACAAAAGTGA 58.458 33.333 6.59 0.00 36.71 3.41
667 732 8.645730 TGTCTTACACGTATTACAAAAGTGAA 57.354 30.769 6.59 0.00 36.71 3.18
668 733 8.542132 TGTCTTACACGTATTACAAAAGTGAAC 58.458 33.333 6.59 2.04 36.71 3.18
669 734 8.542132 GTCTTACACGTATTACAAAAGTGAACA 58.458 33.333 6.59 0.00 36.71 3.18
670 735 8.757789 TCTTACACGTATTACAAAAGTGAACAG 58.242 33.333 6.59 1.52 36.71 3.16
671 736 8.645730 TTACACGTATTACAAAAGTGAACAGA 57.354 30.769 6.59 0.00 36.71 3.41
672 737 7.173863 ACACGTATTACAAAAGTGAACAGAG 57.826 36.000 6.59 0.00 36.71 3.35
673 738 6.202188 ACACGTATTACAAAAGTGAACAGAGG 59.798 38.462 6.59 0.00 36.71 3.69
674 739 5.699458 ACGTATTACAAAAGTGAACAGAGGG 59.301 40.000 0.00 0.00 0.00 4.30
675 740 5.929992 CGTATTACAAAAGTGAACAGAGGGA 59.070 40.000 0.00 0.00 0.00 4.20
691 756 5.112686 CAGAGGGAGTAACTAACTTGATGC 58.887 45.833 0.00 0.00 39.07 3.91
731 796 7.916914 TTTTTCCTATGAGGCAGTAACTAAC 57.083 36.000 0.00 0.00 34.61 2.34
732 797 6.869206 TTTCCTATGAGGCAGTAACTAACT 57.131 37.500 0.00 0.00 34.24 2.24
744 809 7.334421 AGGCAGTAACTAACTTGATGTTGTATG 59.666 37.037 0.00 0.00 39.55 2.39
745 810 7.119262 GGCAGTAACTAACTTGATGTTGTATGT 59.881 37.037 0.00 0.00 39.55 2.29
780 845 8.767478 TTTTCCTATAGACTTTTGACTTACCG 57.233 34.615 0.00 0.00 0.00 4.02
781 846 7.472334 TTCCTATAGACTTTTGACTTACCGT 57.528 36.000 0.00 0.00 0.00 4.83
782 847 7.472334 TCCTATAGACTTTTGACTTACCGTT 57.528 36.000 0.00 0.00 0.00 4.44
783 848 7.318141 TCCTATAGACTTTTGACTTACCGTTG 58.682 38.462 0.00 0.00 0.00 4.10
784 849 7.177216 TCCTATAGACTTTTGACTTACCGTTGA 59.823 37.037 0.00 0.00 0.00 3.18
785 850 7.488471 CCTATAGACTTTTGACTTACCGTTGAG 59.512 40.741 0.00 0.00 0.00 3.02
790 855 2.851263 TGACTTACCGTTGAGGCATT 57.149 45.000 0.00 0.00 46.52 3.56
793 858 3.259876 TGACTTACCGTTGAGGCATTAGT 59.740 43.478 0.00 0.00 46.52 2.24
795 860 2.684001 TACCGTTGAGGCATTAGTGG 57.316 50.000 0.00 0.00 46.52 4.00
797 862 1.073284 ACCGTTGAGGCATTAGTGGTT 59.927 47.619 0.00 0.00 46.52 3.67
839 904 3.654414 CTGACGTCAGAGTTTTTAGCCT 58.346 45.455 36.73 0.00 46.59 4.58
840 905 4.058817 CTGACGTCAGAGTTTTTAGCCTT 58.941 43.478 36.73 0.00 46.59 4.35
842 907 4.272504 TGACGTCAGAGTTTTTAGCCTTTG 59.727 41.667 15.76 0.00 0.00 2.77
847 912 7.658575 ACGTCAGAGTTTTTAGCCTTTGTAATA 59.341 33.333 0.00 0.00 0.00 0.98
897 2101 2.440409 CAAGCCTAGTGGAAAGCACAT 58.560 47.619 0.00 0.00 34.57 3.21
904 2108 1.682854 AGTGGAAAGCACATTGTGGTG 59.317 47.619 21.18 0.00 43.73 4.17
938 2145 8.994429 TTCAGTTAAAGAGCAAACAAAATTGA 57.006 26.923 0.00 0.00 31.84 2.57
1193 2400 3.744749 TTACCCGTCATCGCGCTCG 62.745 63.158 5.56 3.04 35.54 5.03
1231 2438 1.299541 CTCGGGGGTTCGAATGATTG 58.700 55.000 0.00 0.00 38.77 2.67
1270 2477 0.947660 GCCCTTTGCTTGCTTGCTTC 60.948 55.000 3.47 0.00 36.87 3.86
1271 2478 0.677842 CCCTTTGCTTGCTTGCTTCT 59.322 50.000 3.47 0.00 0.00 2.85
1273 2480 2.132762 CCTTTGCTTGCTTGCTTCTTG 58.867 47.619 3.47 0.00 0.00 3.02
1274 2481 2.132762 CTTTGCTTGCTTGCTTCTTGG 58.867 47.619 3.47 0.00 0.00 3.61
1275 2482 1.401761 TTGCTTGCTTGCTTCTTGGA 58.598 45.000 3.47 0.00 0.00 3.53
1300 2507 1.045407 GGGTTTGTTCAAGGGGTTCC 58.955 55.000 0.00 0.00 0.00 3.62
1320 2531 2.417933 CCGCTCTGAGGAACATTTCTTG 59.582 50.000 6.83 0.00 0.00 3.02
1352 2563 4.274214 GCAATCAAGTCCGAATCATGATGA 59.726 41.667 9.46 0.00 31.49 2.92
1376 2596 2.967459 TAGTTGCAGACATGTTTGCG 57.033 45.000 29.56 8.31 42.84 4.85
1433 2653 3.494336 CTTCCTCAGCGCGCAAGG 61.494 66.667 34.23 34.23 38.28 3.61
1461 2681 3.346315 TCGAGGTTCGATTAGGTGTGTA 58.654 45.455 0.00 0.00 44.82 2.90
1629 2849 0.038310 AGGTAAACCTTGCTCAGCCC 59.962 55.000 0.00 0.00 46.09 5.19
1631 2851 1.616159 GTAAACCTTGCTCAGCCCAA 58.384 50.000 0.00 0.00 0.00 4.12
1649 2869 1.897423 AGGCCGGCCTTAATTTTGC 59.103 52.632 42.84 13.47 45.70 3.68
1657 2877 4.396790 CCGGCCTTAATTTTGCTGTAGTTA 59.603 41.667 0.00 0.00 0.00 2.24
1698 2918 3.430374 GCAATGGCATCATCTTTTGAGCT 60.430 43.478 0.00 0.00 37.89 4.09
1721 2941 8.938883 AGCTCATAAAATATCTTAACCTCCAGA 58.061 33.333 0.00 0.00 0.00 3.86
1826 3054 7.630082 AGATAAACTTTGTAACCATAGCTCCA 58.370 34.615 0.00 0.00 0.00 3.86
1885 3113 3.181469 GCGACCAGTGGGAATCATAGTTA 60.181 47.826 15.21 0.00 38.05 2.24
1886 3114 4.621991 CGACCAGTGGGAATCATAGTTAG 58.378 47.826 15.21 0.00 38.05 2.34
1887 3115 4.099573 CGACCAGTGGGAATCATAGTTAGT 59.900 45.833 15.21 0.00 38.05 2.24
2050 3279 4.241681 GCGATATGACTGAGGATTCCTTC 58.758 47.826 6.68 1.18 31.76 3.46
2107 3336 5.710099 TGTATCAAGGGATTTCAAGAACACC 59.290 40.000 0.00 0.00 34.89 4.16
2140 3369 2.461300 TCGGACTTGATGAGGATCCT 57.539 50.000 16.13 16.13 0.00 3.24
2334 3573 4.114794 GCAACAGAAATTCCACCATATGC 58.885 43.478 0.00 0.00 0.00 3.14
2387 3626 6.183360 TGTTGATGCCAAGTTATGTTTGTTCT 60.183 34.615 0.00 0.00 32.06 3.01
2469 3710 5.142639 ACATATAACCTGCAGCCATTCATT 58.857 37.500 8.66 0.00 0.00 2.57
2503 3744 6.848562 AGTACTTCCTCCATCCCAAAATAT 57.151 37.500 0.00 0.00 0.00 1.28
2554 3795 1.134699 CATGACTCGAGCTTAAGGCCA 60.135 52.381 13.61 0.00 43.05 5.36
2573 3814 4.335037 GGCCAATGCTTTTCAAAGTTTTCA 59.665 37.500 0.00 0.00 38.28 2.69
2574 3815 5.163673 GGCCAATGCTTTTCAAAGTTTTCAA 60.164 36.000 0.00 0.00 38.28 2.69
2742 3983 2.485795 GCCTGAAACAACCGTGCCA 61.486 57.895 0.00 0.00 0.00 4.92
2815 4056 2.418692 CAATTGCTGCTTGGAATGCAA 58.581 42.857 0.00 0.00 46.89 4.08
2835 4076 0.617413 AGCAACCTCCCACATCTGAG 59.383 55.000 0.00 0.00 0.00 3.35
2978 4223 8.410141 CAGGGAAACTTTTAAGTGTGTATTTGA 58.590 33.333 0.00 0.00 39.66 2.69
2979 4224 8.410912 AGGGAAACTTTTAAGTGTGTATTTGAC 58.589 33.333 0.00 0.00 39.66 3.18
2987 4232 7.843490 TTAAGTGTGTATTTGACAGGCTATC 57.157 36.000 0.00 0.00 39.29 2.08
3012 4257 9.573166 TCATTACCTTATGATTAATTGGACTGG 57.427 33.333 0.00 0.00 29.82 4.00
3093 4338 7.652105 GGTTACGCTACATCATATTTCAGAAGA 59.348 37.037 0.00 0.00 0.00 2.87
3104 4349 1.520494 TTCAGAAGAAGCAGCAGCAG 58.480 50.000 3.17 0.00 45.49 4.24
3159 4404 0.325671 GGAGGGAGTGATGGTCCTGA 60.326 60.000 0.00 0.00 34.16 3.86
3228 4473 4.742417 CCGAGAGATGAGGCATAATACTG 58.258 47.826 0.00 0.00 0.00 2.74
3446 4691 0.585357 CGAGCTGTGCATATCTTGGC 59.415 55.000 0.00 0.00 0.00 4.52
3820 5079 5.894393 TCTTGTAAAGGTTGGGTCATTTCAA 59.106 36.000 0.00 0.00 46.24 2.69
3827 5086 5.025453 AGGTTGGGTCATTTCAATTGCTAT 58.975 37.500 0.00 0.00 0.00 2.97
3828 5087 5.105228 AGGTTGGGTCATTTCAATTGCTATG 60.105 40.000 0.00 6.89 0.00 2.23
3829 5088 5.105392 GGTTGGGTCATTTCAATTGCTATGA 60.105 40.000 14.54 14.54 0.00 2.15
3847 5124 3.969287 TGATTCTGGTGTCTTCTCTGG 57.031 47.619 0.00 0.00 0.00 3.86
3872 5149 0.032678 CAGCGATCGTTGGCTCCTAT 59.967 55.000 22.60 0.00 34.30 2.57
3873 5150 0.753262 AGCGATCGTTGGCTCCTATT 59.247 50.000 17.81 0.00 30.06 1.73
3875 5152 1.527311 GCGATCGTTGGCTCCTATTTC 59.473 52.381 17.81 0.00 0.00 2.17
3876 5153 1.787155 CGATCGTTGGCTCCTATTTCG 59.213 52.381 7.03 0.00 0.00 3.46
3881 6206 0.544697 TTGGCTCCTATTTCGGGGTC 59.455 55.000 0.00 0.00 0.00 4.46
3918 6243 2.758327 CGATGGAGGTGGGGACGA 60.758 66.667 0.00 0.00 0.00 4.20
3936 6261 1.036707 GATGAGGCCGAGAAGTAGCT 58.963 55.000 0.00 0.00 0.00 3.32
3944 6269 2.094649 GCCGAGAAGTAGCTACACTTGT 60.095 50.000 25.28 12.43 38.86 3.16
3960 6285 2.957006 ACTTGTGTACCTTCGAGACACT 59.043 45.455 17.35 1.99 43.15 3.55
3979 6304 3.322254 CACTTGAGAACTAGGTGGAGTGT 59.678 47.826 0.00 0.00 0.00 3.55
4037 6362 1.186200 CGGAGGAGATGGTCTTGTGA 58.814 55.000 0.00 0.00 0.00 3.58
4101 6430 4.929211 GCCAACCATAATTTTGACCTTGAC 59.071 41.667 0.00 0.00 0.00 3.18
4214 6543 2.104963 GTCCCATGGATGAGGAACCTAC 59.895 54.545 15.22 0.00 32.73 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
16 17 1.875009 TCAGCAAGTCAGAAGCACTG 58.125 50.000 4.84 4.84 46.97 3.66
25 26 2.768253 ACGGATCATTCAGCAAGTCA 57.232 45.000 0.00 0.00 0.00 3.41
106 107 1.302591 AGAGCTGTCGTCGTCCTCA 60.303 57.895 0.00 0.00 0.00 3.86
166 167 2.002586 CTGCCGAATTCGTCAATGTCT 58.997 47.619 25.10 0.00 37.74 3.41
378 443 2.019984 GTTCTCTAAATGGCAGGCCTG 58.980 52.381 29.34 29.34 36.94 4.85
382 447 2.972625 TCACGTTCTCTAAATGGCAGG 58.027 47.619 0.00 0.00 0.00 4.85
393 458 4.351192 ACTTGCAAATGTTTCACGTTCTC 58.649 39.130 0.00 0.00 0.00 2.87
430 495 1.604278 GGAGGCGAATGAAGGTTATGC 59.396 52.381 0.00 0.00 0.00 3.14
431 496 2.874701 CAGGAGGCGAATGAAGGTTATG 59.125 50.000 0.00 0.00 0.00 1.90
432 497 2.771943 TCAGGAGGCGAATGAAGGTTAT 59.228 45.455 0.00 0.00 0.00 1.89
433 498 2.093658 GTCAGGAGGCGAATGAAGGTTA 60.094 50.000 0.00 0.00 0.00 2.85
570 635 8.529476 TCTTACAAAAGTGAATAGAGGGAGTAC 58.471 37.037 0.00 0.00 34.13 2.73
571 636 8.529476 GTCTTACAAAAGTGAATAGAGGGAGTA 58.471 37.037 0.00 0.00 34.13 2.59
572 637 7.387643 GTCTTACAAAAGTGAATAGAGGGAGT 58.612 38.462 0.00 0.00 34.13 3.85
573 638 6.531948 CGTCTTACAAAAGTGAATAGAGGGAG 59.468 42.308 0.00 0.00 34.13 4.30
574 639 6.014840 ACGTCTTACAAAAGTGAATAGAGGGA 60.015 38.462 0.00 0.00 34.13 4.20
575 640 6.164176 ACGTCTTACAAAAGTGAATAGAGGG 58.836 40.000 0.00 0.00 34.13 4.30
576 641 7.653767 AACGTCTTACAAAAGTGAATAGAGG 57.346 36.000 0.00 0.00 34.13 3.69
581 646 8.885722 TGTCTAAAACGTCTTACAAAAGTGAAT 58.114 29.630 0.00 0.00 34.13 2.57
582 647 8.254178 TGTCTAAAACGTCTTACAAAAGTGAA 57.746 30.769 0.00 0.00 34.13 3.18
583 648 7.830940 TGTCTAAAACGTCTTACAAAAGTGA 57.169 32.000 0.00 0.00 34.13 3.41
584 649 9.498307 AAATGTCTAAAACGTCTTACAAAAGTG 57.502 29.630 0.00 0.00 34.13 3.16
590 655 9.531942 TGTCTTAAATGTCTAAAACGTCTTACA 57.468 29.630 0.00 0.00 0.00 2.41
593 658 8.885722 TGTTGTCTTAAATGTCTAAAACGTCTT 58.114 29.630 0.00 0.00 0.00 3.01
594 659 8.333186 GTGTTGTCTTAAATGTCTAAAACGTCT 58.667 33.333 0.00 0.00 0.00 4.18
595 660 8.333186 AGTGTTGTCTTAAATGTCTAAAACGTC 58.667 33.333 0.00 0.00 0.00 4.34
596 661 8.205131 AGTGTTGTCTTAAATGTCTAAAACGT 57.795 30.769 0.00 0.00 0.00 3.99
604 669 9.783256 ACTGTTTTAAGTGTTGTCTTAAATGTC 57.217 29.630 10.86 7.10 44.15 3.06
611 676 9.705290 AAATTGAACTGTTTTAAGTGTTGTCTT 57.295 25.926 0.00 0.00 0.00 3.01
612 677 9.353999 GAAATTGAACTGTTTTAAGTGTTGTCT 57.646 29.630 0.00 0.00 0.00 3.41
613 678 9.134734 TGAAATTGAACTGTTTTAAGTGTTGTC 57.865 29.630 0.00 0.00 0.00 3.18
614 679 9.139174 CTGAAATTGAACTGTTTTAAGTGTTGT 57.861 29.630 0.00 0.00 0.00 3.32
615 680 9.139174 ACTGAAATTGAACTGTTTTAAGTGTTG 57.861 29.630 0.00 0.00 0.00 3.33
616 681 9.705290 AACTGAAATTGAACTGTTTTAAGTGTT 57.295 25.926 0.00 0.00 0.00 3.32
617 682 9.139174 CAACTGAAATTGAACTGTTTTAAGTGT 57.861 29.630 0.00 0.00 0.00 3.55
618 683 9.139174 ACAACTGAAATTGAACTGTTTTAAGTG 57.861 29.630 0.00 0.00 33.57 3.16
619 684 9.353999 GACAACTGAAATTGAACTGTTTTAAGT 57.646 29.630 0.00 0.00 33.57 2.24
620 685 9.573133 AGACAACTGAAATTGAACTGTTTTAAG 57.427 29.630 0.00 0.00 33.57 1.85
621 686 9.921637 AAGACAACTGAAATTGAACTGTTTTAA 57.078 25.926 0.00 0.00 33.57 1.52
623 688 9.353999 GTAAGACAACTGAAATTGAACTGTTTT 57.646 29.630 0.00 0.00 33.57 2.43
624 689 8.519526 TGTAAGACAACTGAAATTGAACTGTTT 58.480 29.630 0.00 0.00 33.57 2.83
625 690 7.968405 GTGTAAGACAACTGAAATTGAACTGTT 59.032 33.333 0.00 0.00 33.57 3.16
626 691 7.472543 GTGTAAGACAACTGAAATTGAACTGT 58.527 34.615 0.00 0.00 33.57 3.55
627 692 6.628856 CGTGTAAGACAACTGAAATTGAACTG 59.371 38.462 0.00 0.00 33.57 3.16
628 693 6.315393 ACGTGTAAGACAACTGAAATTGAACT 59.685 34.615 0.00 0.00 33.57 3.01
629 694 6.483687 ACGTGTAAGACAACTGAAATTGAAC 58.516 36.000 0.00 0.00 33.57 3.18
630 695 6.671614 ACGTGTAAGACAACTGAAATTGAA 57.328 33.333 0.00 0.00 33.57 2.69
631 696 7.956420 ATACGTGTAAGACAACTGAAATTGA 57.044 32.000 0.00 0.00 33.57 2.57
632 697 9.525007 GTAATACGTGTAAGACAACTGAAATTG 57.475 33.333 0.00 0.00 35.59 2.32
633 698 9.263538 TGTAATACGTGTAAGACAACTGAAATT 57.736 29.630 0.00 0.00 0.00 1.82
634 699 8.821147 TGTAATACGTGTAAGACAACTGAAAT 57.179 30.769 0.00 0.00 0.00 2.17
635 700 8.645730 TTGTAATACGTGTAAGACAACTGAAA 57.354 30.769 0.00 0.00 0.00 2.69
636 701 8.645730 TTTGTAATACGTGTAAGACAACTGAA 57.354 30.769 0.00 0.00 0.00 3.02
637 702 8.645730 TTTTGTAATACGTGTAAGACAACTGA 57.354 30.769 0.00 0.00 0.00 3.41
638 703 8.545420 ACTTTTGTAATACGTGTAAGACAACTG 58.455 33.333 0.00 2.33 0.00 3.16
639 704 8.545420 CACTTTTGTAATACGTGTAAGACAACT 58.455 33.333 0.00 0.00 0.00 3.16
640 705 8.542132 TCACTTTTGTAATACGTGTAAGACAAC 58.458 33.333 0.00 0.00 0.00 3.32
641 706 8.645730 TCACTTTTGTAATACGTGTAAGACAA 57.354 30.769 0.00 0.65 0.00 3.18
642 707 8.542132 GTTCACTTTTGTAATACGTGTAAGACA 58.458 33.333 0.00 0.00 0.00 3.41
643 708 8.542132 TGTTCACTTTTGTAATACGTGTAAGAC 58.458 33.333 0.00 0.00 0.00 3.01
644 709 8.645730 TGTTCACTTTTGTAATACGTGTAAGA 57.354 30.769 0.00 0.00 0.00 2.10
645 710 8.757789 TCTGTTCACTTTTGTAATACGTGTAAG 58.242 33.333 0.00 0.00 0.00 2.34
646 711 8.645730 TCTGTTCACTTTTGTAATACGTGTAA 57.354 30.769 0.00 0.00 0.00 2.41
647 712 7.383029 CCTCTGTTCACTTTTGTAATACGTGTA 59.617 37.037 0.00 0.00 0.00 2.90
648 713 6.202188 CCTCTGTTCACTTTTGTAATACGTGT 59.798 38.462 0.00 0.00 0.00 4.49
649 714 6.347402 CCCTCTGTTCACTTTTGTAATACGTG 60.347 42.308 0.00 0.00 0.00 4.49
650 715 5.699458 CCCTCTGTTCACTTTTGTAATACGT 59.301 40.000 0.00 0.00 0.00 3.57
651 716 5.929992 TCCCTCTGTTCACTTTTGTAATACG 59.070 40.000 0.00 0.00 0.00 3.06
652 717 6.935208 ACTCCCTCTGTTCACTTTTGTAATAC 59.065 38.462 0.00 0.00 0.00 1.89
653 718 7.074653 ACTCCCTCTGTTCACTTTTGTAATA 57.925 36.000 0.00 0.00 0.00 0.98
654 719 5.941788 ACTCCCTCTGTTCACTTTTGTAAT 58.058 37.500 0.00 0.00 0.00 1.89
655 720 5.367945 ACTCCCTCTGTTCACTTTTGTAA 57.632 39.130 0.00 0.00 0.00 2.41
656 721 6.099269 AGTTACTCCCTCTGTTCACTTTTGTA 59.901 38.462 0.00 0.00 0.00 2.41
657 722 3.933861 ACTCCCTCTGTTCACTTTTGT 57.066 42.857 0.00 0.00 0.00 2.83
658 723 5.368989 AGTTACTCCCTCTGTTCACTTTTG 58.631 41.667 0.00 0.00 0.00 2.44
659 724 5.632034 AGTTACTCCCTCTGTTCACTTTT 57.368 39.130 0.00 0.00 0.00 2.27
660 725 6.326843 AGTTAGTTACTCCCTCTGTTCACTTT 59.673 38.462 0.00 0.00 28.23 2.66
661 726 5.839606 AGTTAGTTACTCCCTCTGTTCACTT 59.160 40.000 0.00 0.00 28.23 3.16
662 727 5.395611 AGTTAGTTACTCCCTCTGTTCACT 58.604 41.667 0.00 0.00 28.23 3.41
663 728 5.725325 AGTTAGTTACTCCCTCTGTTCAC 57.275 43.478 0.00 0.00 28.23 3.18
664 729 5.836898 TCAAGTTAGTTACTCCCTCTGTTCA 59.163 40.000 0.00 0.00 35.54 3.18
665 730 6.342338 TCAAGTTAGTTACTCCCTCTGTTC 57.658 41.667 0.00 0.00 35.54 3.18
666 731 6.702329 CATCAAGTTAGTTACTCCCTCTGTT 58.298 40.000 0.00 0.00 35.54 3.16
667 732 5.337652 GCATCAAGTTAGTTACTCCCTCTGT 60.338 44.000 0.00 0.00 35.54 3.41
668 733 5.105146 AGCATCAAGTTAGTTACTCCCTCTG 60.105 44.000 0.00 0.00 35.54 3.35
669 734 5.026790 AGCATCAAGTTAGTTACTCCCTCT 58.973 41.667 0.00 0.00 35.54 3.69
670 735 5.112686 CAGCATCAAGTTAGTTACTCCCTC 58.887 45.833 0.00 0.00 35.54 4.30
671 736 4.532521 ACAGCATCAAGTTAGTTACTCCCT 59.467 41.667 0.00 0.00 35.54 4.20
672 737 4.833390 ACAGCATCAAGTTAGTTACTCCC 58.167 43.478 0.00 0.00 35.54 4.30
707 772 7.686434 AGTTAGTTACTGCCTCATAGGAAAAA 58.314 34.615 0.00 0.00 37.01 1.94
708 773 7.253905 AGTTAGTTACTGCCTCATAGGAAAA 57.746 36.000 0.00 0.00 37.01 2.29
709 774 6.869206 AGTTAGTTACTGCCTCATAGGAAA 57.131 37.500 0.00 0.00 37.01 3.13
710 775 6.439375 TCAAGTTAGTTACTGCCTCATAGGAA 59.561 38.462 0.00 0.00 35.56 3.36
711 776 5.955959 TCAAGTTAGTTACTGCCTCATAGGA 59.044 40.000 0.00 0.00 35.56 2.94
712 777 6.222038 TCAAGTTAGTTACTGCCTCATAGG 57.778 41.667 0.00 0.00 37.12 2.57
714 779 7.182817 ACATCAAGTTAGTTACTGCCTCATA 57.817 36.000 0.00 0.00 37.12 2.15
715 780 6.054860 ACATCAAGTTAGTTACTGCCTCAT 57.945 37.500 0.00 0.00 37.12 2.90
716 781 5.483685 ACATCAAGTTAGTTACTGCCTCA 57.516 39.130 0.00 0.00 37.12 3.86
717 782 5.701290 ACAACATCAAGTTAGTTACTGCCTC 59.299 40.000 0.00 0.00 38.74 4.70
718 783 5.621193 ACAACATCAAGTTAGTTACTGCCT 58.379 37.500 0.00 0.00 38.74 4.75
719 784 5.941948 ACAACATCAAGTTAGTTACTGCC 57.058 39.130 0.00 0.00 38.74 4.85
720 785 8.029642 ACATACAACATCAAGTTAGTTACTGC 57.970 34.615 0.00 0.00 38.74 4.40
759 824 7.318141 TCAACGGTAAGTCAAAAGTCTATAGG 58.682 38.462 0.00 0.00 0.00 2.57
760 825 7.488471 CCTCAACGGTAAGTCAAAAGTCTATAG 59.512 40.741 0.00 0.00 0.00 1.31
761 826 7.318141 CCTCAACGGTAAGTCAAAAGTCTATA 58.682 38.462 0.00 0.00 0.00 1.31
763 828 5.535333 CCTCAACGGTAAGTCAAAAGTCTA 58.465 41.667 0.00 0.00 0.00 2.59
764 829 4.377897 CCTCAACGGTAAGTCAAAAGTCT 58.622 43.478 0.00 0.00 0.00 3.24
765 830 3.059120 GCCTCAACGGTAAGTCAAAAGTC 60.059 47.826 0.00 0.00 34.25 3.01
766 831 2.876550 GCCTCAACGGTAAGTCAAAAGT 59.123 45.455 0.00 0.00 34.25 2.66
767 832 2.875933 TGCCTCAACGGTAAGTCAAAAG 59.124 45.455 0.00 0.00 34.25 2.27
769 834 2.623878 TGCCTCAACGGTAAGTCAAA 57.376 45.000 0.00 0.00 34.25 2.69
770 835 2.851263 ATGCCTCAACGGTAAGTCAA 57.149 45.000 0.00 0.00 34.25 3.18
771 836 2.851263 AATGCCTCAACGGTAAGTCA 57.149 45.000 0.00 0.00 34.25 3.41
772 837 3.617263 CACTAATGCCTCAACGGTAAGTC 59.383 47.826 0.00 0.00 34.25 3.01
773 838 3.596214 CACTAATGCCTCAACGGTAAGT 58.404 45.455 0.00 0.00 34.25 2.24
774 839 2.936498 CCACTAATGCCTCAACGGTAAG 59.064 50.000 0.00 0.00 34.25 2.34
776 841 1.903860 ACCACTAATGCCTCAACGGTA 59.096 47.619 0.00 0.00 34.25 4.02
777 842 0.690762 ACCACTAATGCCTCAACGGT 59.309 50.000 0.00 0.00 34.25 4.83
778 843 1.821216 AACCACTAATGCCTCAACGG 58.179 50.000 0.00 0.00 0.00 4.44
779 844 2.351726 GCTAACCACTAATGCCTCAACG 59.648 50.000 0.00 0.00 0.00 4.10
780 845 3.610911 AGCTAACCACTAATGCCTCAAC 58.389 45.455 0.00 0.00 0.00 3.18
781 846 5.366768 AGATAGCTAACCACTAATGCCTCAA 59.633 40.000 0.00 0.00 0.00 3.02
782 847 4.901849 AGATAGCTAACCACTAATGCCTCA 59.098 41.667 0.00 0.00 0.00 3.86
783 848 5.476091 AGATAGCTAACCACTAATGCCTC 57.524 43.478 0.00 0.00 0.00 4.70
784 849 5.896073 AAGATAGCTAACCACTAATGCCT 57.104 39.130 0.00 0.00 0.00 4.75
785 850 7.041303 GGTTTAAGATAGCTAACCACTAATGCC 60.041 40.741 7.64 2.93 39.80 4.40
786 851 7.497909 TGGTTTAAGATAGCTAACCACTAATGC 59.502 37.037 10.63 0.00 43.65 3.56
790 855 7.909518 TGTTGGTTTAAGATAGCTAACCACTA 58.090 34.615 13.65 4.88 46.98 2.74
793 858 8.107095 AGATTGTTGGTTTAAGATAGCTAACCA 58.893 33.333 10.63 10.63 46.02 3.67
795 860 9.162764 TCAGATTGTTGGTTTAAGATAGCTAAC 57.837 33.333 0.00 0.00 0.00 2.34
797 862 7.491372 CGTCAGATTGTTGGTTTAAGATAGCTA 59.509 37.037 0.00 0.00 0.00 3.32
873 2077 1.613437 GCTTTCCACTAGGCTTGCAAA 59.387 47.619 0.00 0.00 33.74 3.68
897 2101 8.833231 TTTAACTGAAAAATGAAACACCACAA 57.167 26.923 0.00 0.00 0.00 3.33
904 2108 9.689075 GTTTGCTCTTTAACTGAAAAATGAAAC 57.311 29.630 0.00 0.00 0.00 2.78
1231 2438 1.996191 CTACTCACCGAAGCAAGAAGC 59.004 52.381 0.00 0.00 46.19 3.86
1270 2477 3.164268 TGAACAAACCCATCCATCCAAG 58.836 45.455 0.00 0.00 0.00 3.61
1271 2478 3.251016 TGAACAAACCCATCCATCCAA 57.749 42.857 0.00 0.00 0.00 3.53
1273 2480 2.497273 CCTTGAACAAACCCATCCATCC 59.503 50.000 0.00 0.00 0.00 3.51
1274 2481 2.497273 CCCTTGAACAAACCCATCCATC 59.503 50.000 0.00 0.00 0.00 3.51
1275 2482 2.539302 CCCTTGAACAAACCCATCCAT 58.461 47.619 0.00 0.00 0.00 3.41
1300 2507 3.070018 ACAAGAAATGTTCCTCAGAGCG 58.930 45.455 0.00 0.00 40.06 5.03
1352 2563 4.023707 GCAAACATGTCTGCAACTAAGAGT 60.024 41.667 19.20 0.00 38.48 3.24
1376 2596 0.533032 GAGCCCCGGATAGATACAGC 59.467 60.000 0.73 0.00 0.00 4.40
1461 2681 7.761249 GCATTTAATTACAAAGCAAGATCAGGT 59.239 33.333 0.00 0.00 0.00 4.00
1635 2855 4.434713 AACTACAGCAAAATTAAGGCCG 57.565 40.909 0.00 0.00 0.00 6.13
1642 2862 7.524717 AGTGGACAATAACTACAGCAAAATT 57.475 32.000 0.00 0.00 0.00 1.82
1648 2868 8.040716 ACAATTTAGTGGACAATAACTACAGC 57.959 34.615 0.00 0.00 0.00 4.40
1657 2877 7.322664 CCATTGCTTACAATTTAGTGGACAAT 58.677 34.615 0.00 0.00 44.21 2.71
1711 2931 1.340017 GGCAGTGCATTCTGGAGGTTA 60.340 52.381 18.61 0.00 36.12 2.85
1721 2941 1.927487 TTTGATCAGGGCAGTGCATT 58.073 45.000 18.61 0.42 0.00 3.56
1852 3080 1.532868 CACTGGTCGCAAAAAGGAGAG 59.467 52.381 0.00 0.00 0.00 3.20
2050 3279 9.661187 GTGCAGAGAATTAGATTTCATTACATG 57.339 33.333 0.00 0.00 0.00 3.21
2107 3336 2.960819 AGTCCGATTTCTCGTTCAAGG 58.039 47.619 0.00 0.00 43.49 3.61
2140 3369 3.840666 GAGGCCTATAACTCATGGATGGA 59.159 47.826 4.42 0.00 33.95 3.41
2334 3573 4.392921 AGGGATCACTGTATCAGAAACG 57.607 45.455 0.00 0.00 35.18 3.60
2449 3690 6.543430 AAAAATGAATGGCTGCAGGTTATA 57.457 33.333 17.12 0.00 0.00 0.98
2473 3714 5.729229 TGGGATGGAGGAAGTACTTCAATAA 59.271 40.000 31.30 17.27 41.20 1.40
2476 3717 3.526899 TGGGATGGAGGAAGTACTTCAA 58.473 45.455 31.30 16.96 41.20 2.69
2491 3732 5.587388 AGAGCAACACATATTTTGGGATG 57.413 39.130 0.00 0.00 34.77 3.51
2492 3733 5.716228 TGAAGAGCAACACATATTTTGGGAT 59.284 36.000 0.00 0.00 31.13 3.85
2503 3744 6.463360 TGTATACTTGATGAAGAGCAACACA 58.537 36.000 0.00 0.00 32.98 3.72
2554 3795 7.686438 AGGTTTGAAAACTTTGAAAAGCATT 57.314 28.000 5.93 0.00 39.63 3.56
2637 3878 8.855110 TGTTGTAAATCCATCTTTTAAGCTGAA 58.145 29.630 0.00 0.00 0.00 3.02
2682 3923 1.595093 ATAAAAGGCAGTGGCACGGC 61.595 55.000 30.63 30.63 43.71 5.68
2742 3983 1.557099 TGAGTTCCTCGCTGGTGTAT 58.443 50.000 0.00 0.00 37.07 2.29
2815 4056 1.004044 CTCAGATGTGGGAGGTTGCTT 59.996 52.381 0.00 0.00 0.00 3.91
2835 4076 4.708726 ATTAAATCACAGACCTTGCTGC 57.291 40.909 0.00 0.00 39.51 5.25
2885 4126 9.997482 GTTTTGAGAACAACTTACAATACTGAA 57.003 29.630 0.00 0.00 35.63 3.02
2887 4128 8.402472 TGGTTTTGAGAACAACTTACAATACTG 58.598 33.333 0.00 0.00 35.63 2.74
2888 4129 8.514330 TGGTTTTGAGAACAACTTACAATACT 57.486 30.769 0.00 0.00 35.63 2.12
2889 4130 8.617809 TCTGGTTTTGAGAACAACTTACAATAC 58.382 33.333 0.00 0.00 35.63 1.89
2891 4132 7.639113 TCTGGTTTTGAGAACAACTTACAAT 57.361 32.000 0.00 0.00 35.63 2.71
2892 4133 7.455641 TTCTGGTTTTGAGAACAACTTACAA 57.544 32.000 0.00 0.00 35.63 2.41
2893 4134 7.175990 AGTTTCTGGTTTTGAGAACAACTTACA 59.824 33.333 0.00 0.00 35.63 2.41
2898 4143 7.170828 ACAAAAGTTTCTGGTTTTGAGAACAAC 59.829 33.333 13.05 0.00 43.42 3.32
2910 4155 1.119684 GGCCCACAAAAGTTTCTGGT 58.880 50.000 10.11 0.00 0.00 4.00
2987 4232 9.573166 TCCAGTCCAATTAATCATAAGGTAATG 57.427 33.333 0.00 0.00 0.00 1.90
3008 4253 6.926630 TTATTATTTTGCAGGGTTTCCAGT 57.073 33.333 0.00 0.00 34.83 4.00
3093 4338 2.726274 GTGTTGCTGCTGCTGCTT 59.274 55.556 27.67 0.00 40.48 3.91
3104 4349 4.024809 GTCAGTACTTTCAGAAGGTGTTGC 60.025 45.833 8.17 0.00 37.19 4.17
3171 4416 1.486211 ATTACCTGAGGTGGACTCCG 58.514 55.000 15.83 0.00 46.01 4.63
3228 4473 6.523201 CCGCATACAACATACTTTCTGTTTTC 59.477 38.462 0.00 0.00 34.69 2.29
3355 4600 1.337071 CCGCTACTAATCGAAGCCTCA 59.663 52.381 0.63 0.00 32.50 3.86
3446 4691 1.059913 AACAAGACACTGGAGGAGGG 58.940 55.000 0.00 0.00 0.00 4.30
3693 4950 4.148128 TCTCCTGCATTCTGAATTCCTC 57.852 45.455 2.27 0.00 0.00 3.71
3766 5024 4.193826 ACATACGAGCAAACATGAGACT 57.806 40.909 0.00 0.00 0.00 3.24
3820 5079 5.999044 AGAAGACACCAGAATCATAGCAAT 58.001 37.500 0.00 0.00 0.00 3.56
3827 5086 2.027745 GCCAGAGAAGACACCAGAATCA 60.028 50.000 0.00 0.00 0.00 2.57
3828 5087 2.027745 TGCCAGAGAAGACACCAGAATC 60.028 50.000 0.00 0.00 0.00 2.52
3829 5088 1.980765 TGCCAGAGAAGACACCAGAAT 59.019 47.619 0.00 0.00 0.00 2.40
3847 5124 2.023741 CAACGATCGCTGCCATGC 59.976 61.111 16.60 0.00 0.00 4.06
3872 5149 4.011517 GACGCCCTGACCCCGAAA 62.012 66.667 0.00 0.00 0.00 3.46
3892 6217 1.153369 ACCTCCATCGACCGCATTG 60.153 57.895 0.00 0.00 0.00 2.82
3918 6243 1.957877 GTAGCTACTTCTCGGCCTCAT 59.042 52.381 16.88 0.00 0.00 2.90
3936 6261 3.884693 TGTCTCGAAGGTACACAAGTGTA 59.115 43.478 8.88 8.88 44.42 2.90
3944 6269 3.483421 TCTCAAGTGTCTCGAAGGTACA 58.517 45.455 0.00 0.00 0.00 2.90
3960 6285 3.305720 ACACACTCCACCTAGTTCTCAA 58.694 45.455 0.00 0.00 0.00 3.02
4002 6327 0.976641 TCCGACTCATCTTGCCTGTT 59.023 50.000 0.00 0.00 0.00 3.16
4005 6330 0.324738 TCCTCCGACTCATCTTGCCT 60.325 55.000 0.00 0.00 0.00 4.75
4037 6362 2.052782 ACACCAAGGCGAACTTTCTT 57.947 45.000 0.00 0.00 37.29 2.52
4101 6430 1.601419 TTAGAGCTCGTTGACCCCCG 61.601 60.000 8.37 0.00 0.00 5.73
4146 6475 0.485099 ATGGCTATCCCTCGACTCCT 59.515 55.000 0.00 0.00 0.00 3.69
4151 6480 2.971901 TACTCATGGCTATCCCTCGA 57.028 50.000 0.00 0.00 0.00 4.04


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

AutoCloner maintained by Alex Coulton.