Multiple sequence alignment - TraesCS4B01G016600

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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 TraesCS4B01G016600 chr4B 100.000 2488 0 0 1 2488 11994553 11997040 0.000000e+00 4595.0
1 TraesCS4B01G016600 chr4B 85.319 940 70 20 656 1536 12015945 12016875 0.000000e+00 909.0
2 TraesCS4B01G016600 chr4B 87.859 313 38 0 1070 1382 12051705 12052017 3.910000e-98 368.0
3 TraesCS4B01G016600 chr4B 87.500 64 1 2 835 892 12020757 12020819 1.600000e-07 67.6
4 TraesCS4B01G016600 chr4A 87.252 1059 77 31 665 1684 596689036 596687997 0.000000e+00 1155.0
5 TraesCS4B01G016600 chr4A 88.067 771 49 9 657 1386 596713817 596713049 0.000000e+00 874.0
6 TraesCS4B01G016600 chr4A 83.285 694 86 15 1799 2477 596712338 596711660 1.640000e-171 612.0
7 TraesCS4B01G016600 chr4A 83.015 524 62 13 31 549 596714303 596713802 1.360000e-122 449.0
8 TraesCS4B01G016600 chr4A 87.921 356 31 6 1384 1737 596713020 596712675 2.300000e-110 409.0
9 TraesCS4B01G016600 chr4A 82.174 460 52 17 2009 2455 596687733 596687291 3.910000e-98 368.0
10 TraesCS4B01G016600 chr4A 89.316 234 25 0 1137 1370 596683262 596683029 6.730000e-76 294.0
11 TraesCS4B01G016600 chr4A 81.288 326 39 14 1230 1543 596685919 596685604 6.870000e-61 244.0
12 TraesCS4B01G016600 chr4D 86.770 1028 63 24 656 1630 6698731 6699738 0.000000e+00 1077.0
13 TraesCS4B01G016600 chr4D 87.582 612 59 9 1879 2485 6683318 6683917 0.000000e+00 693.0
14 TraesCS4B01G016600 chr4D 86.888 633 65 14 1864 2488 6699981 6700603 0.000000e+00 693.0
15 TraesCS4B01G016600 chr4D 84.492 748 52 22 956 1661 6682168 6682893 0.000000e+00 680.0
16 TraesCS4B01G016600 chr4D 85.224 379 40 4 31 409 6681346 6681708 2.340000e-100 375.0
17 TraesCS4B01G016600 chr4D 86.120 317 37 4 1070 1382 6684819 6685132 3.970000e-88 335.0
18 TraesCS4B01G016600 chr4D 87.451 255 8 10 714 956 6681884 6682126 3.150000e-69 272.0


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 TraesCS4B01G016600 chr4B 11994553 11997040 2487 False 4595.00 4595 100.0000 1 2488 1 chr4B.!!$F1 2487
1 TraesCS4B01G016600 chr4B 12015945 12020819 4874 False 488.30 909 86.4095 656 1536 2 chr4B.!!$F3 880
2 TraesCS4B01G016600 chr4A 596711660 596714303 2643 True 586.00 874 85.5720 31 2477 4 chr4A.!!$R2 2446
3 TraesCS4B01G016600 chr4A 596683029 596689036 6007 True 515.25 1155 85.0075 665 2455 4 chr4A.!!$R1 1790
4 TraesCS4B01G016600 chr4D 6698731 6700603 1872 False 885.00 1077 86.8290 656 2488 2 chr4D.!!$F2 1832
5 TraesCS4B01G016600 chr4D 6681346 6685132 3786 False 471.00 693 86.1738 31 2485 5 chr4D.!!$F1 2454

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
584 624 0.038067 ACACGGTACATACGCAAGCA 60.038 50.0 0.0 0.0 45.62 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1668 1907 0.179089 CTCATCTCTTGCGGGACCAG 60.179 60.0 0.0 0.0 0.0 4.0 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
23 24 5.291905 AGGAGACCAATAAATAAGGACGG 57.708 43.478 0.00 0.00 0.00 4.79
24 25 4.966805 AGGAGACCAATAAATAAGGACGGA 59.033 41.667 0.00 0.00 0.00 4.69
25 26 5.070580 AGGAGACCAATAAATAAGGACGGAG 59.929 44.000 0.00 0.00 0.00 4.63
26 27 5.291905 AGACCAATAAATAAGGACGGAGG 57.708 43.478 0.00 0.00 0.00 4.30
27 28 4.720273 AGACCAATAAATAAGGACGGAGGT 59.280 41.667 0.00 0.00 0.00 3.85
28 29 5.032327 ACCAATAAATAAGGACGGAGGTC 57.968 43.478 0.00 0.00 42.66 3.85
29 30 4.056050 CCAATAAATAAGGACGGAGGTCG 58.944 47.826 0.00 0.00 44.39 4.79
42 43 2.418197 CGGAGGTCGTACATGAAACCAT 60.418 50.000 0.00 0.00 34.09 3.55
51 52 4.811024 CGTACATGAAACCATGCTCATACT 59.189 41.667 0.00 0.00 43.92 2.12
55 56 6.653020 ACATGAAACCATGCTCATACTCTAA 58.347 36.000 0.00 0.00 43.92 2.10
56 57 6.540189 ACATGAAACCATGCTCATACTCTAAC 59.460 38.462 0.00 0.00 43.92 2.34
63 64 6.942576 ACCATGCTCATACTCTAACTGTTTTT 59.057 34.615 0.00 0.00 0.00 1.94
103 104 2.979813 CGTGTTAGTTGCCAAATCTTGC 59.020 45.455 0.00 0.00 0.00 4.01
139 140 3.074390 TGGTCCAAGTTGAGTCCAATCAT 59.926 43.478 3.87 0.00 34.39 2.45
159 160 2.969628 ACTTATCCACGCTCAGGAAG 57.030 50.000 0.00 0.00 38.93 3.46
163 164 3.322466 CCACGCTCAGGAAGGGGT 61.322 66.667 0.00 0.00 42.11 4.95
165 166 3.382832 ACGCTCAGGAAGGGGTCG 61.383 66.667 0.00 0.00 42.11 4.79
179 180 1.495951 GGTCGCCGATTGACAACAC 59.504 57.895 0.00 0.00 38.10 3.32
206 207 2.238395 TGTGCTTGTGCCCTACATGATA 59.762 45.455 0.00 0.00 39.48 2.15
207 208 3.117926 TGTGCTTGTGCCCTACATGATAT 60.118 43.478 0.00 0.00 39.48 1.63
208 209 4.102367 TGTGCTTGTGCCCTACATGATATA 59.898 41.667 0.00 0.00 39.48 0.86
209 210 4.692625 GTGCTTGTGCCCTACATGATATAG 59.307 45.833 0.00 0.00 39.48 1.31
210 211 4.592778 TGCTTGTGCCCTACATGATATAGA 59.407 41.667 0.00 0.00 39.48 1.98
211 212 5.249163 TGCTTGTGCCCTACATGATATAGAT 59.751 40.000 0.00 0.00 39.48 1.98
212 213 6.440328 TGCTTGTGCCCTACATGATATAGATA 59.560 38.462 0.00 0.00 39.48 1.98
213 214 6.983307 GCTTGTGCCCTACATGATATAGATAG 59.017 42.308 0.00 0.00 39.48 2.08
214 215 7.364232 GCTTGTGCCCTACATGATATAGATAGT 60.364 40.741 0.00 0.00 39.48 2.12
215 216 8.435931 TTGTGCCCTACATGATATAGATAGTT 57.564 34.615 0.00 0.00 39.48 2.24
219 220 9.409918 TGCCCTACATGATATAGATAGTTAGAC 57.590 37.037 0.00 0.00 0.00 2.59
288 289 1.004745 AGGGTTGGCAAGAATCGATGT 59.995 47.619 0.00 0.00 0.00 3.06
321 322 5.572896 GGACATGCAAGTAAATTCGAAAAGG 59.427 40.000 0.00 0.00 0.00 3.11
323 324 6.149633 ACATGCAAGTAAATTCGAAAAGGAC 58.850 36.000 0.00 0.00 0.00 3.85
330 331 3.502123 AATTCGAAAAGGACACCCTCA 57.498 42.857 0.00 0.00 43.48 3.86
334 335 2.105821 TCGAAAAGGACACCCTCACAAT 59.894 45.455 0.00 0.00 43.48 2.71
338 339 1.074775 GGACACCCTCACAATGGCA 59.925 57.895 0.00 0.00 0.00 4.92
386 388 5.362430 AGGTCCAAAGTTGCAGTAAATTTCA 59.638 36.000 0.00 0.00 34.62 2.69
389 391 6.756542 GTCCAAAGTTGCAGTAAATTTCAAGT 59.243 34.615 0.00 0.00 34.62 3.16
427 459 4.002906 TGTACTGAGTTTTTCGGATGCT 57.997 40.909 0.00 0.00 36.00 3.79
433 465 5.940470 ACTGAGTTTTTCGGATGCTATCTTT 59.060 36.000 0.00 0.00 36.00 2.52
438 470 6.653320 AGTTTTTCGGATGCTATCTTTGTGTA 59.347 34.615 0.00 0.00 0.00 2.90
454 486 5.476752 TTGTGTAAAAATTTGCAAGCACC 57.523 34.783 0.00 0.00 34.63 5.01
459 491 6.699642 GTGTAAAAATTTGCAAGCACCTAGAA 59.300 34.615 0.00 0.00 34.63 2.10
465 497 3.207265 TGCAAGCACCTAGAAAAGTCA 57.793 42.857 0.00 0.00 0.00 3.41
544 584 8.958175 TTTAAATGTACTGTCATTTTTAGCGG 57.042 30.769 17.18 0.00 42.88 5.52
545 585 6.569179 AAATGTACTGTCATTTTTAGCGGT 57.431 33.333 10.41 0.00 42.88 5.68
546 586 6.569179 AATGTACTGTCATTTTTAGCGGTT 57.431 33.333 0.00 0.00 34.86 4.44
547 587 6.569179 ATGTACTGTCATTTTTAGCGGTTT 57.431 33.333 0.00 0.00 0.00 3.27
548 588 6.380095 TGTACTGTCATTTTTAGCGGTTTT 57.620 33.333 0.00 0.00 0.00 2.43
549 589 6.797454 TGTACTGTCATTTTTAGCGGTTTTT 58.203 32.000 0.00 0.00 0.00 1.94
569 609 6.614331 TTTTTGAACGGTTTTCTAAACACG 57.386 33.333 0.00 7.74 0.00 4.49
570 610 3.948196 TGAACGGTTTTCTAAACACGG 57.052 42.857 13.55 3.46 0.00 4.94
571 611 3.269178 TGAACGGTTTTCTAAACACGGT 58.731 40.909 13.55 9.36 0.00 4.83
572 612 4.437239 TGAACGGTTTTCTAAACACGGTA 58.563 39.130 13.55 2.73 0.00 4.02
573 613 4.269844 TGAACGGTTTTCTAAACACGGTAC 59.730 41.667 13.55 0.00 0.00 3.34
574 614 3.791245 ACGGTTTTCTAAACACGGTACA 58.209 40.909 13.55 0.00 0.00 2.90
575 615 4.379652 ACGGTTTTCTAAACACGGTACAT 58.620 39.130 13.55 0.00 0.00 2.29
576 616 5.537188 ACGGTTTTCTAAACACGGTACATA 58.463 37.500 13.55 0.00 0.00 2.29
577 617 5.405269 ACGGTTTTCTAAACACGGTACATAC 59.595 40.000 13.55 0.00 0.00 2.39
578 618 5.443170 CGGTTTTCTAAACACGGTACATACG 60.443 44.000 0.00 0.00 37.36 3.06
579 619 5.308147 GTTTTCTAAACACGGTACATACGC 58.692 41.667 0.00 0.00 34.00 4.42
580 620 3.846423 TCTAAACACGGTACATACGCA 57.154 42.857 0.00 0.00 34.00 5.24
581 621 4.171663 TCTAAACACGGTACATACGCAA 57.828 40.909 0.00 0.00 34.00 4.85
583 623 1.073177 AACACGGTACATACGCAAGC 58.927 50.000 0.00 0.00 45.62 4.01
584 624 0.038067 ACACGGTACATACGCAAGCA 60.038 50.000 0.00 0.00 45.62 3.91
585 625 1.286501 CACGGTACATACGCAAGCAT 58.713 50.000 0.00 0.00 45.62 3.79
586 626 1.257936 CACGGTACATACGCAAGCATC 59.742 52.381 0.00 0.00 45.62 3.91
587 627 1.134936 ACGGTACATACGCAAGCATCA 60.135 47.619 0.00 0.00 45.62 3.07
588 628 1.930503 CGGTACATACGCAAGCATCAA 59.069 47.619 0.00 0.00 45.62 2.57
589 629 2.033747 CGGTACATACGCAAGCATCAAG 60.034 50.000 0.00 0.00 45.62 3.02
590 630 3.194861 GGTACATACGCAAGCATCAAGA 58.805 45.455 0.00 0.00 45.62 3.02
591 631 3.001330 GGTACATACGCAAGCATCAAGAC 59.999 47.826 0.00 0.00 45.62 3.01
592 632 2.977914 ACATACGCAAGCATCAAGACT 58.022 42.857 0.00 0.00 45.62 3.24
593 633 3.338249 ACATACGCAAGCATCAAGACTT 58.662 40.909 0.00 0.00 45.62 3.01
594 634 3.125829 ACATACGCAAGCATCAAGACTTG 59.874 43.478 9.03 9.03 44.88 3.16
595 635 1.882912 ACGCAAGCATCAAGACTTGA 58.117 45.000 19.85 19.85 44.89 3.02
596 636 2.221169 ACGCAAGCATCAAGACTTGAA 58.779 42.857 21.29 5.95 44.89 2.69
597 637 2.031682 ACGCAAGCATCAAGACTTGAAC 60.032 45.455 21.29 15.91 44.89 3.18
598 638 2.666619 CGCAAGCATCAAGACTTGAACC 60.667 50.000 21.29 14.49 44.89 3.62
599 639 2.352127 GCAAGCATCAAGACTTGAACCC 60.352 50.000 21.29 12.24 44.89 4.11
600 640 3.152341 CAAGCATCAAGACTTGAACCCT 58.848 45.455 21.29 14.08 44.89 4.34
601 641 2.787994 AGCATCAAGACTTGAACCCTG 58.212 47.619 21.29 15.43 43.95 4.45
602 642 2.373169 AGCATCAAGACTTGAACCCTGA 59.627 45.455 21.29 0.00 43.95 3.86
603 643 3.009916 AGCATCAAGACTTGAACCCTGAT 59.990 43.478 21.29 11.20 43.95 2.90
604 644 3.128242 GCATCAAGACTTGAACCCTGATG 59.872 47.826 21.29 13.78 43.95 3.07
605 645 3.423539 TCAAGACTTGAACCCTGATGG 57.576 47.619 15.58 0.00 36.59 3.51
614 654 3.234349 CCCTGATGGTCTGCGGAT 58.766 61.111 0.00 0.00 0.00 4.18
615 655 2.440946 CCCTGATGGTCTGCGGATA 58.559 57.895 0.00 0.00 0.00 2.59
616 656 0.979665 CCCTGATGGTCTGCGGATAT 59.020 55.000 0.00 0.00 0.00 1.63
617 657 1.066573 CCCTGATGGTCTGCGGATATC 60.067 57.143 13.13 13.13 0.00 1.63
618 658 1.620323 CCTGATGGTCTGCGGATATCA 59.380 52.381 18.71 18.71 31.77 2.15
619 659 2.611473 CCTGATGGTCTGCGGATATCAC 60.611 54.545 16.90 0.00 30.48 3.06
620 660 2.298446 CTGATGGTCTGCGGATATCACT 59.702 50.000 16.90 1.80 30.48 3.41
621 661 2.036346 TGATGGTCTGCGGATATCACTG 59.964 50.000 16.90 0.67 0.00 3.66
622 662 0.104855 TGGTCTGCGGATATCACTGC 59.895 55.000 4.83 6.01 41.89 4.40
623 663 0.390860 GGTCTGCGGATATCACTGCT 59.609 55.000 4.83 0.00 42.03 4.24
624 664 1.604185 GGTCTGCGGATATCACTGCTC 60.604 57.143 4.83 1.71 42.03 4.26
625 665 1.067669 GTCTGCGGATATCACTGCTCA 59.932 52.381 4.83 0.00 42.03 4.26
626 666 1.067669 TCTGCGGATATCACTGCTCAC 59.932 52.381 4.83 0.00 42.03 3.51
627 667 0.104855 TGCGGATATCACTGCTCACC 59.895 55.000 4.83 0.00 42.03 4.02
628 668 0.390860 GCGGATATCACTGCTCACCT 59.609 55.000 4.83 0.00 38.89 4.00
629 669 1.613925 GCGGATATCACTGCTCACCTA 59.386 52.381 4.83 0.00 38.89 3.08
630 670 2.035961 GCGGATATCACTGCTCACCTAA 59.964 50.000 4.83 0.00 38.89 2.69
631 671 3.643763 CGGATATCACTGCTCACCTAAC 58.356 50.000 4.83 0.00 0.00 2.34
632 672 3.553096 CGGATATCACTGCTCACCTAACC 60.553 52.174 4.83 0.00 0.00 2.85
633 673 3.388024 GGATATCACTGCTCACCTAACCA 59.612 47.826 4.83 0.00 0.00 3.67
634 674 4.040952 GGATATCACTGCTCACCTAACCAT 59.959 45.833 4.83 0.00 0.00 3.55
635 675 3.550437 ATCACTGCTCACCTAACCATC 57.450 47.619 0.00 0.00 0.00 3.51
636 676 2.540383 TCACTGCTCACCTAACCATCT 58.460 47.619 0.00 0.00 0.00 2.90
637 677 3.708451 TCACTGCTCACCTAACCATCTA 58.292 45.455 0.00 0.00 0.00 1.98
638 678 4.093743 TCACTGCTCACCTAACCATCTAA 58.906 43.478 0.00 0.00 0.00 2.10
639 679 4.081642 TCACTGCTCACCTAACCATCTAAC 60.082 45.833 0.00 0.00 0.00 2.34
640 680 3.197983 ACTGCTCACCTAACCATCTAACC 59.802 47.826 0.00 0.00 0.00 2.85
641 681 2.167693 TGCTCACCTAACCATCTAACCG 59.832 50.000 0.00 0.00 0.00 4.44
642 682 2.822764 CTCACCTAACCATCTAACCGC 58.177 52.381 0.00 0.00 0.00 5.68
643 683 2.431057 CTCACCTAACCATCTAACCGCT 59.569 50.000 0.00 0.00 0.00 5.52
644 684 2.167693 TCACCTAACCATCTAACCGCTG 59.832 50.000 0.00 0.00 0.00 5.18
645 685 2.167693 CACCTAACCATCTAACCGCTGA 59.832 50.000 0.00 0.00 0.00 4.26
646 686 3.039011 ACCTAACCATCTAACCGCTGAT 58.961 45.455 0.00 0.00 0.00 2.90
647 687 3.454812 ACCTAACCATCTAACCGCTGATT 59.545 43.478 0.00 0.00 0.00 2.57
648 688 3.809832 CCTAACCATCTAACCGCTGATTG 59.190 47.826 0.00 0.00 0.00 2.67
649 689 3.350219 AACCATCTAACCGCTGATTGT 57.650 42.857 0.00 0.00 0.00 2.71
650 690 3.350219 ACCATCTAACCGCTGATTGTT 57.650 42.857 0.00 0.00 0.00 2.83
651 691 3.686016 ACCATCTAACCGCTGATTGTTT 58.314 40.909 0.00 0.00 0.00 2.83
652 692 3.689649 ACCATCTAACCGCTGATTGTTTC 59.310 43.478 0.00 0.00 0.00 2.78
653 693 3.242413 CCATCTAACCGCTGATTGTTTCG 60.242 47.826 0.00 0.00 0.00 3.46
654 694 1.730064 TCTAACCGCTGATTGTTTCGC 59.270 47.619 0.00 0.00 0.00 4.70
655 695 1.732259 CTAACCGCTGATTGTTTCGCT 59.268 47.619 0.00 0.00 0.00 4.93
656 696 0.951558 AACCGCTGATTGTTTCGCTT 59.048 45.000 0.00 0.00 0.00 4.68
657 697 0.951558 ACCGCTGATTGTTTCGCTTT 59.048 45.000 0.00 0.00 0.00 3.51
658 698 1.336755 ACCGCTGATTGTTTCGCTTTT 59.663 42.857 0.00 0.00 0.00 2.27
659 699 2.223711 ACCGCTGATTGTTTCGCTTTTT 60.224 40.909 0.00 0.00 0.00 1.94
660 700 2.405025 CCGCTGATTGTTTCGCTTTTTC 59.595 45.455 0.00 0.00 0.00 2.29
663 703 4.909305 CGCTGATTGTTTCGCTTTTTCTTA 59.091 37.500 0.00 0.00 0.00 2.10
680 720 7.499321 TTTTCTTAAGCGGTCTTGAATGTAA 57.501 32.000 0.00 0.00 33.85 2.41
702 742 8.417106 TGTAATGTTCATAGGAGAAGAGATGAC 58.583 37.037 0.00 0.00 0.00 3.06
719 764 1.196012 GACCTCGGGGATCAGAGTTT 58.804 55.000 9.33 0.00 36.25 2.66
855 937 1.391157 AAAGAAGCCGCCAAGTGCAA 61.391 50.000 0.00 0.00 41.33 4.08
856 938 1.181098 AAGAAGCCGCCAAGTGCAAT 61.181 50.000 0.00 0.00 41.33 3.56
857 939 0.322456 AGAAGCCGCCAAGTGCAATA 60.322 50.000 0.00 0.00 41.33 1.90
858 940 0.525761 GAAGCCGCCAAGTGCAATAA 59.474 50.000 0.00 0.00 41.33 1.40
859 941 0.965439 AAGCCGCCAAGTGCAATAAA 59.035 45.000 0.00 0.00 41.33 1.40
860 942 0.243636 AGCCGCCAAGTGCAATAAAC 59.756 50.000 0.00 0.00 41.33 2.01
861 943 0.243636 GCCGCCAAGTGCAATAAACT 59.756 50.000 0.00 0.00 41.33 2.66
862 944 1.732405 GCCGCCAAGTGCAATAAACTC 60.732 52.381 0.00 0.00 41.33 3.01
863 945 1.135402 CCGCCAAGTGCAATAAACTCC 60.135 52.381 0.00 0.00 41.33 3.85
864 946 1.135402 CGCCAAGTGCAATAAACTCCC 60.135 52.381 0.00 0.00 41.33 4.30
865 947 1.892474 GCCAAGTGCAATAAACTCCCA 59.108 47.619 0.00 0.00 40.77 4.37
877 959 1.562672 AACTCCCATCCACCCCGAAG 61.563 60.000 0.00 0.00 0.00 3.79
958 1052 2.000447 GTAGGATGAAGCACACGTTCC 59.000 52.381 0.00 0.00 0.00 3.62
1003 1152 0.462581 GCTCGGCCTCATCATCAACA 60.463 55.000 0.00 0.00 0.00 3.33
1014 1167 5.335426 CCTCATCATCAACACAAGAAACCAG 60.335 44.000 0.00 0.00 0.00 4.00
1104 1288 1.138568 ATGGCATGGAGGAGGAAGAG 58.861 55.000 0.00 0.00 0.00 2.85
1240 1424 3.706373 GTGAGGCTGCTCCGGGAA 61.706 66.667 0.00 0.00 40.77 3.97
1420 1637 8.414003 CAGTGCCAATGTAGAAGAGTATAGTTA 58.586 37.037 0.00 0.00 0.00 2.24
1451 1669 8.567285 ACGAAGTCCTTTCTTTGATTGATATT 57.433 30.769 0.00 0.00 29.74 1.28
1496 1714 7.360361 ACATTAGGAACGTGAAAGACAAATTC 58.640 34.615 0.00 0.00 0.00 2.17
1528 1746 2.721971 AAGTGCTCACTCCACCTGCG 62.722 60.000 2.68 0.00 41.58 5.18
1537 1766 1.572085 CTCCACCTGCGCAAGAACTG 61.572 60.000 14.09 0.14 43.02 3.16
1538 1767 1.893808 CCACCTGCGCAAGAACTGT 60.894 57.895 14.09 0.00 43.02 3.55
1539 1768 0.602638 CCACCTGCGCAAGAACTGTA 60.603 55.000 14.09 0.00 43.02 2.74
1540 1769 0.512952 CACCTGCGCAAGAACTGTAC 59.487 55.000 14.09 0.00 43.02 2.90
1569 1799 7.147976 AGTTAGTTCTTCCATTTCAATTGTGC 58.852 34.615 5.13 0.00 0.00 4.57
1576 1806 3.192422 TCCATTTCAATTGTGCCTAACGG 59.808 43.478 5.13 0.00 0.00 4.44
1620 1859 5.333952 CCAAACCATTAGTTACACGCGTTTA 60.334 40.000 10.22 4.50 37.88 2.01
1639 1878 4.503714 TTACTATTCTTTGGGCTCCTGG 57.496 45.455 0.00 0.00 0.00 4.45
1664 1903 3.818210 TCTTTTGAAGCGCCAGTCAATTA 59.182 39.130 16.62 9.25 33.90 1.40
1665 1904 4.277174 TCTTTTGAAGCGCCAGTCAATTAA 59.723 37.500 16.62 9.95 33.90 1.40
1666 1905 4.782019 TTTGAAGCGCCAGTCAATTAAT 57.218 36.364 16.62 0.00 33.90 1.40
1667 1906 4.782019 TTGAAGCGCCAGTCAATTAATT 57.218 36.364 13.10 0.00 0.00 1.40
1668 1907 4.355543 TGAAGCGCCAGTCAATTAATTC 57.644 40.909 2.29 0.00 0.00 2.17
1669 1908 4.009675 TGAAGCGCCAGTCAATTAATTCT 58.990 39.130 2.29 0.00 0.00 2.40
1697 1936 0.467384 AAGAGATGAGGACGCCATGG 59.533 55.000 7.63 7.63 0.00 3.66
1737 1976 3.330720 AACCGAGGGGGAGGCTTG 61.331 66.667 0.00 0.00 39.97 4.01
1785 2293 3.083997 GGGGCGTCCTCCACAGAT 61.084 66.667 5.77 0.00 0.00 2.90
1815 2329 4.954118 TGGGACTGGGACTGGCGT 62.954 66.667 0.00 0.00 35.52 5.68
1825 2339 0.245539 GGACTGGCGTTGTACTAGCA 59.754 55.000 9.29 0.00 0.00 3.49
1852 3608 1.661341 CAGCAAGGCATGAGAGGTAC 58.339 55.000 0.00 0.00 0.00 3.34
1895 3651 2.202703 CCTAAGGTTCGGCCGACG 60.203 66.667 31.19 11.76 43.70 5.12
1955 3711 1.970639 CTCTCGGCCGATGGATCAT 59.029 57.895 31.19 0.00 0.00 2.45
2015 3774 7.979786 AAAGAGGAAAGATATCAGTCCACTA 57.020 36.000 20.83 0.00 31.75 2.74
2026 3785 8.874156 AGATATCAGTCCACTAGCAAATATTCA 58.126 33.333 5.32 0.00 0.00 2.57
2044 3803 1.414919 TCAGCCCGAGTTACAAGTGTT 59.585 47.619 0.00 0.00 0.00 3.32
2054 3815 7.172703 CCCGAGTTACAAGTGTTTATCTTTCTT 59.827 37.037 0.00 0.00 0.00 2.52
2066 3827 7.491048 GTGTTTATCTTTCTTCTTTTTGCCACA 59.509 33.333 0.00 0.00 0.00 4.17
2259 4358 3.701542 TGGGTGTAGCAAATCAACAACAA 59.298 39.130 0.00 0.00 32.35 2.83
2261 4360 4.744631 GGGTGTAGCAAATCAACAACAAAG 59.255 41.667 0.00 0.00 32.35 2.77
2338 4437 5.939883 TCACACTTTTAGACCAGATTGATGG 59.060 40.000 0.00 0.00 46.47 3.51
2341 4440 5.939883 CACTTTTAGACCAGATTGATGGACA 59.060 40.000 0.00 0.00 43.57 4.02
2393 4493 2.297315 TCGCTATCGAAGATGGCTCATT 59.703 45.455 14.63 0.00 45.12 2.57
2394 4494 2.665537 CGCTATCGAAGATGGCTCATTC 59.334 50.000 14.63 0.00 45.12 2.67
2395 4495 3.657634 GCTATCGAAGATGGCTCATTCA 58.342 45.455 10.46 0.00 45.12 2.57
2396 4496 4.252073 GCTATCGAAGATGGCTCATTCAT 58.748 43.478 10.46 0.00 45.12 2.57
2404 4504 7.439356 TCGAAGATGGCTCATTCATAGTTAAAG 59.561 37.037 0.00 0.00 0.00 1.85
2447 4554 2.596851 AATGCCTCCCAGCGTGTCT 61.597 57.895 0.00 0.00 34.65 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.427481 TCCGTCCTTATTTATTGGTCTCCTT 59.573 40.000 0.00 0.00 0.00 3.36
1 2 4.966805 TCCGTCCTTATTTATTGGTCTCCT 59.033 41.667 0.00 0.00 0.00 3.69
2 3 5.286267 TCCGTCCTTATTTATTGGTCTCC 57.714 43.478 0.00 0.00 0.00 3.71
3 4 5.163332 ACCTCCGTCCTTATTTATTGGTCTC 60.163 44.000 0.00 0.00 0.00 3.36
4 5 4.720273 ACCTCCGTCCTTATTTATTGGTCT 59.280 41.667 0.00 0.00 0.00 3.85
5 6 5.032327 ACCTCCGTCCTTATTTATTGGTC 57.968 43.478 0.00 0.00 0.00 4.02
6 7 4.442472 CGACCTCCGTCCTTATTTATTGGT 60.442 45.833 0.00 0.00 35.40 3.67
7 8 4.056050 CGACCTCCGTCCTTATTTATTGG 58.944 47.826 0.00 0.00 35.40 3.16
19 20 6.698999 ATGGTTTCATGTACGACCTCCGTC 62.699 50.000 0.00 0.00 40.59 4.79
20 21 4.939474 ATGGTTTCATGTACGACCTCCGT 61.939 47.826 0.00 0.00 42.57 4.69
21 22 1.067425 TGGTTTCATGTACGACCTCCG 60.067 52.381 0.00 0.00 45.44 4.63
22 23 2.754946 TGGTTTCATGTACGACCTCC 57.245 50.000 0.00 0.00 33.33 4.30
36 37 6.054860 ACAGTTAGAGTATGAGCATGGTTT 57.945 37.500 0.00 0.00 0.00 3.27
42 43 9.944376 ATAAGAAAAACAGTTAGAGTATGAGCA 57.056 29.630 0.00 0.00 0.00 4.26
63 64 9.467258 CTAACACGTTCCGGATTATTTATAAGA 57.533 33.333 4.15 0.00 0.00 2.10
70 71 4.093850 GCAACTAACACGTTCCGGATTATT 59.906 41.667 4.15 0.00 0.00 1.40
86 87 2.095969 CGACGCAAGATTTGGCAACTAA 60.096 45.455 0.00 0.00 43.62 2.24
88 89 0.238289 CGACGCAAGATTTGGCAACT 59.762 50.000 0.00 0.00 43.62 3.16
90 91 0.237235 GACGACGCAAGATTTGGCAA 59.763 50.000 0.00 0.00 43.62 4.52
91 92 0.882484 TGACGACGCAAGATTTGGCA 60.882 50.000 0.00 0.00 43.62 4.92
139 140 2.693591 CCTTCCTGAGCGTGGATAAGTA 59.306 50.000 0.00 0.00 33.09 2.24
159 160 2.046700 TTGTCAATCGGCGACCCC 60.047 61.111 13.76 0.70 32.15 4.95
163 164 0.317160 AGAGTGTTGTCAATCGGCGA 59.683 50.000 13.87 13.87 42.50 5.54
165 166 3.243068 ACAAAAGAGTGTTGTCAATCGGC 60.243 43.478 0.00 0.00 42.50 5.54
179 180 3.575399 GGGCACAAGCACAAAAGAG 57.425 52.632 0.00 0.00 45.91 2.85
211 212 9.831737 GTTGAAAATACTCGTAGTGTCTAACTA 57.168 33.333 0.00 0.00 40.56 2.24
212 213 7.811713 GGTTGAAAATACTCGTAGTGTCTAACT 59.188 37.037 0.00 0.00 43.40 2.24
213 214 7.596248 TGGTTGAAAATACTCGTAGTGTCTAAC 59.404 37.037 0.00 0.00 35.24 2.34
214 215 7.660112 TGGTTGAAAATACTCGTAGTGTCTAA 58.340 34.615 0.00 0.00 35.24 2.10
215 216 7.218228 TGGTTGAAAATACTCGTAGTGTCTA 57.782 36.000 0.00 0.00 35.24 2.59
219 220 6.455646 GCAGATGGTTGAAAATACTCGTAGTG 60.456 42.308 0.00 0.00 0.00 2.74
230 231 8.584157 AGTGTAAATATTGCAGATGGTTGAAAA 58.416 29.630 0.00 0.00 0.00 2.29
272 273 1.681780 GGGGACATCGATTCTTGCCAA 60.682 52.381 0.00 0.00 0.00 4.52
273 274 0.107214 GGGGACATCGATTCTTGCCA 60.107 55.000 0.00 0.00 0.00 4.92
288 289 3.203086 TTGCATGTCCGCTTGGGGA 62.203 57.895 2.10 2.10 36.01 4.81
321 322 0.250901 AGTGCCATTGTGAGGGTGTC 60.251 55.000 0.00 0.00 0.00 3.67
323 324 2.198827 TTAGTGCCATTGTGAGGGTG 57.801 50.000 0.00 0.00 0.00 4.61
363 364 5.596845 TGAAATTTACTGCAACTTTGGACC 58.403 37.500 0.00 0.00 0.00 4.46
411 443 5.705441 ACAAAGATAGCATCCGAAAAACTCA 59.295 36.000 0.00 0.00 0.00 3.41
417 449 7.441890 TTTTACACAAAGATAGCATCCGAAA 57.558 32.000 0.00 0.00 0.00 3.46
427 459 8.547069 GTGCTTGCAAATTTTTACACAAAGATA 58.453 29.630 0.00 0.00 0.00 1.98
433 465 4.764172 AGGTGCTTGCAAATTTTTACACA 58.236 34.783 0.00 0.00 0.00 3.72
438 470 6.823182 ACTTTTCTAGGTGCTTGCAAATTTTT 59.177 30.769 0.00 0.00 0.00 1.94
546 586 5.572126 CCGTGTTTAGAAAACCGTTCAAAAA 59.428 36.000 0.41 0.00 0.00 1.94
547 587 5.094134 CCGTGTTTAGAAAACCGTTCAAAA 58.906 37.500 0.41 0.00 0.00 2.44
548 588 4.155644 ACCGTGTTTAGAAAACCGTTCAAA 59.844 37.500 0.41 0.00 0.00 2.69
549 589 3.688673 ACCGTGTTTAGAAAACCGTTCAA 59.311 39.130 0.41 0.00 0.00 2.69
550 590 3.269178 ACCGTGTTTAGAAAACCGTTCA 58.731 40.909 0.41 0.00 0.00 3.18
551 591 3.950087 ACCGTGTTTAGAAAACCGTTC 57.050 42.857 0.41 0.00 0.00 3.95
552 592 4.187694 TGTACCGTGTTTAGAAAACCGTT 58.812 39.130 0.41 0.00 0.00 4.44
553 593 3.791245 TGTACCGTGTTTAGAAAACCGT 58.209 40.909 0.41 0.00 0.00 4.83
554 594 4.996062 ATGTACCGTGTTTAGAAAACCG 57.004 40.909 0.41 3.98 0.00 4.44
555 595 5.668621 GCGTATGTACCGTGTTTAGAAAACC 60.669 44.000 0.41 0.00 0.00 3.27
556 596 5.107530 TGCGTATGTACCGTGTTTAGAAAAC 60.108 40.000 0.00 0.00 0.00 2.43
557 597 4.987285 TGCGTATGTACCGTGTTTAGAAAA 59.013 37.500 0.00 0.00 0.00 2.29
558 598 4.554292 TGCGTATGTACCGTGTTTAGAAA 58.446 39.130 0.00 0.00 0.00 2.52
559 599 4.171663 TGCGTATGTACCGTGTTTAGAA 57.828 40.909 0.00 0.00 0.00 2.10
560 600 3.846423 TGCGTATGTACCGTGTTTAGA 57.154 42.857 0.00 0.00 0.00 2.10
561 601 3.241868 GCTTGCGTATGTACCGTGTTTAG 60.242 47.826 0.00 0.00 0.00 1.85
562 602 2.667481 GCTTGCGTATGTACCGTGTTTA 59.333 45.455 0.00 0.00 0.00 2.01
563 603 1.461897 GCTTGCGTATGTACCGTGTTT 59.538 47.619 0.00 0.00 0.00 2.83
564 604 1.073177 GCTTGCGTATGTACCGTGTT 58.927 50.000 0.00 0.00 0.00 3.32
565 605 0.038067 TGCTTGCGTATGTACCGTGT 60.038 50.000 0.00 0.00 0.00 4.49
566 606 1.257936 GATGCTTGCGTATGTACCGTG 59.742 52.381 0.00 0.00 0.00 4.94
567 607 1.134936 TGATGCTTGCGTATGTACCGT 60.135 47.619 0.00 0.00 0.00 4.83
568 608 1.566404 TGATGCTTGCGTATGTACCG 58.434 50.000 0.00 0.00 0.00 4.02
569 609 3.001330 GTCTTGATGCTTGCGTATGTACC 59.999 47.826 0.00 0.00 0.00 3.34
570 610 3.865745 AGTCTTGATGCTTGCGTATGTAC 59.134 43.478 0.00 0.00 0.00 2.90
571 611 4.123497 AGTCTTGATGCTTGCGTATGTA 57.877 40.909 0.00 0.00 0.00 2.29
572 612 2.977914 AGTCTTGATGCTTGCGTATGT 58.022 42.857 0.00 0.00 0.00 2.29
573 613 3.371898 TCAAGTCTTGATGCTTGCGTATG 59.628 43.478 11.36 0.00 41.15 2.39
574 614 3.599343 TCAAGTCTTGATGCTTGCGTAT 58.401 40.909 11.36 0.00 41.15 3.06
575 615 3.038788 TCAAGTCTTGATGCTTGCGTA 57.961 42.857 11.36 0.00 41.15 4.42
576 616 1.882912 TCAAGTCTTGATGCTTGCGT 58.117 45.000 11.36 0.00 41.15 5.24
577 617 2.578495 GTTCAAGTCTTGATGCTTGCG 58.422 47.619 15.95 0.00 41.15 4.85
578 618 2.352127 GGGTTCAAGTCTTGATGCTTGC 60.352 50.000 15.95 3.45 41.15 4.01
579 619 3.057736 CAGGGTTCAAGTCTTGATGCTTG 60.058 47.826 15.95 9.08 42.32 4.01
580 620 3.152341 CAGGGTTCAAGTCTTGATGCTT 58.848 45.455 15.95 0.93 39.84 3.91
581 621 2.373169 TCAGGGTTCAAGTCTTGATGCT 59.627 45.455 15.95 0.00 39.84 3.79
582 622 2.783135 TCAGGGTTCAAGTCTTGATGC 58.217 47.619 15.95 11.57 39.84 3.91
583 623 3.693085 CCATCAGGGTTCAAGTCTTGATG 59.307 47.826 15.95 11.15 39.84 3.07
584 624 3.960571 CCATCAGGGTTCAAGTCTTGAT 58.039 45.455 15.95 0.00 39.84 2.57
585 625 3.423539 CCATCAGGGTTCAAGTCTTGA 57.576 47.619 11.36 11.36 38.04 3.02
597 637 0.979665 ATATCCGCAGACCATCAGGG 59.020 55.000 0.00 0.00 44.81 4.45
598 638 1.620323 TGATATCCGCAGACCATCAGG 59.380 52.381 0.00 0.00 42.21 3.86
599 639 2.298446 AGTGATATCCGCAGACCATCAG 59.702 50.000 0.00 0.00 30.99 2.90
600 640 2.036346 CAGTGATATCCGCAGACCATCA 59.964 50.000 0.00 0.00 0.00 3.07
601 641 2.681706 CAGTGATATCCGCAGACCATC 58.318 52.381 0.00 0.00 0.00 3.51
602 642 1.270518 GCAGTGATATCCGCAGACCAT 60.271 52.381 0.00 0.00 0.00 3.55
603 643 0.104855 GCAGTGATATCCGCAGACCA 59.895 55.000 0.00 0.00 0.00 4.02
604 644 0.390860 AGCAGTGATATCCGCAGACC 59.609 55.000 0.00 0.00 0.00 3.85
605 645 1.067669 TGAGCAGTGATATCCGCAGAC 59.932 52.381 0.00 0.00 0.00 3.51
606 646 1.067669 GTGAGCAGTGATATCCGCAGA 59.932 52.381 0.00 0.00 0.00 4.26
607 647 1.495878 GTGAGCAGTGATATCCGCAG 58.504 55.000 0.00 0.00 0.00 5.18
608 648 0.104855 GGTGAGCAGTGATATCCGCA 59.895 55.000 0.00 0.00 0.00 5.69
609 649 0.390860 AGGTGAGCAGTGATATCCGC 59.609 55.000 0.00 0.51 0.00 5.54
610 650 3.553096 GGTTAGGTGAGCAGTGATATCCG 60.553 52.174 0.00 0.00 0.00 4.18
611 651 3.388024 TGGTTAGGTGAGCAGTGATATCC 59.612 47.826 0.00 0.00 0.00 2.59
612 652 4.672587 TGGTTAGGTGAGCAGTGATATC 57.327 45.455 0.00 0.00 0.00 1.63
613 653 4.904251 AGATGGTTAGGTGAGCAGTGATAT 59.096 41.667 0.00 0.00 0.00 1.63
614 654 4.290093 AGATGGTTAGGTGAGCAGTGATA 58.710 43.478 0.00 0.00 0.00 2.15
615 655 3.110705 AGATGGTTAGGTGAGCAGTGAT 58.889 45.455 0.00 0.00 0.00 3.06
616 656 2.540383 AGATGGTTAGGTGAGCAGTGA 58.460 47.619 0.00 0.00 0.00 3.41
617 657 4.184629 GTTAGATGGTTAGGTGAGCAGTG 58.815 47.826 0.00 0.00 0.00 3.66
618 658 3.197983 GGTTAGATGGTTAGGTGAGCAGT 59.802 47.826 0.00 0.00 0.00 4.40
619 659 3.738281 CGGTTAGATGGTTAGGTGAGCAG 60.738 52.174 0.00 0.00 0.00 4.24
620 660 2.167693 CGGTTAGATGGTTAGGTGAGCA 59.832 50.000 0.00 0.00 0.00 4.26
621 661 2.822764 CGGTTAGATGGTTAGGTGAGC 58.177 52.381 0.00 0.00 0.00 4.26
622 662 2.431057 AGCGGTTAGATGGTTAGGTGAG 59.569 50.000 0.00 0.00 0.00 3.51
623 663 2.167693 CAGCGGTTAGATGGTTAGGTGA 59.832 50.000 0.00 0.00 31.47 4.02
624 664 2.167693 TCAGCGGTTAGATGGTTAGGTG 59.832 50.000 0.00 0.00 36.78 4.00
625 665 2.463752 TCAGCGGTTAGATGGTTAGGT 58.536 47.619 0.00 0.00 36.78 3.08
626 666 3.753294 ATCAGCGGTTAGATGGTTAGG 57.247 47.619 0.00 0.00 36.78 2.69
627 667 4.442706 ACAATCAGCGGTTAGATGGTTAG 58.557 43.478 0.00 0.00 37.50 2.34
628 668 4.481368 ACAATCAGCGGTTAGATGGTTA 57.519 40.909 0.00 0.00 37.50 2.85
629 669 3.350219 ACAATCAGCGGTTAGATGGTT 57.650 42.857 0.00 0.00 40.73 3.67
630 670 3.350219 AACAATCAGCGGTTAGATGGT 57.650 42.857 0.00 0.00 36.78 3.55
631 671 3.242413 CGAAACAATCAGCGGTTAGATGG 60.242 47.826 0.00 0.00 36.78 3.51
632 672 3.785505 GCGAAACAATCAGCGGTTAGATG 60.786 47.826 0.00 0.00 37.65 2.90
633 673 2.351726 GCGAAACAATCAGCGGTTAGAT 59.648 45.455 0.00 0.00 0.00 1.98
634 674 1.730064 GCGAAACAATCAGCGGTTAGA 59.270 47.619 0.00 0.00 0.00 2.10
635 675 1.732259 AGCGAAACAATCAGCGGTTAG 59.268 47.619 0.00 0.00 34.29 2.34
636 676 1.803334 AGCGAAACAATCAGCGGTTA 58.197 45.000 0.00 0.00 34.29 2.85
637 677 0.951558 AAGCGAAACAATCAGCGGTT 59.048 45.000 0.00 0.00 39.28 4.44
638 678 0.951558 AAAGCGAAACAATCAGCGGT 59.048 45.000 0.00 0.00 34.29 5.68
639 679 2.050477 AAAAGCGAAACAATCAGCGG 57.950 45.000 0.00 0.00 34.29 5.52
640 680 3.300009 AGAAAAAGCGAAACAATCAGCG 58.700 40.909 0.00 0.00 34.29 5.18
641 681 6.614371 GCTTAAGAAAAAGCGAAACAATCAGC 60.614 38.462 6.67 0.00 42.21 4.26
642 682 6.801218 GCTTAAGAAAAAGCGAAACAATCAG 58.199 36.000 6.67 0.00 42.21 2.90
643 683 6.747659 GCTTAAGAAAAAGCGAAACAATCA 57.252 33.333 6.67 0.00 42.21 2.57
653 693 4.483476 TCAAGACCGCTTAAGAAAAAGC 57.517 40.909 6.67 0.00 46.78 3.51
654 694 6.438763 ACATTCAAGACCGCTTAAGAAAAAG 58.561 36.000 6.67 0.00 31.81 2.27
655 695 6.385649 ACATTCAAGACCGCTTAAGAAAAA 57.614 33.333 6.67 0.00 31.81 1.94
656 696 7.499321 TTACATTCAAGACCGCTTAAGAAAA 57.501 32.000 6.67 0.00 31.81 2.29
657 697 7.174253 ACATTACATTCAAGACCGCTTAAGAAA 59.826 33.333 6.67 0.00 31.81 2.52
658 698 6.653320 ACATTACATTCAAGACCGCTTAAGAA 59.347 34.615 6.67 0.00 31.81 2.52
659 699 6.170506 ACATTACATTCAAGACCGCTTAAGA 58.829 36.000 6.67 0.00 31.81 2.10
660 700 6.422776 ACATTACATTCAAGACCGCTTAAG 57.577 37.500 0.00 0.00 31.81 1.85
663 703 4.759693 TGAACATTACATTCAAGACCGCTT 59.240 37.500 0.00 0.00 33.16 4.68
680 720 6.142498 AGGTCATCTCTTCTCCTATGAACAT 58.858 40.000 0.00 0.00 38.30 2.71
702 742 1.195115 TCAAACTCTGATCCCCGAGG 58.805 55.000 8.17 0.00 0.00 4.63
719 764 3.585732 AGGGAGAAAGTAACCGGAAATCA 59.414 43.478 9.46 0.00 0.00 2.57
753 801 2.147958 GTTAGGTTCGTTGCATGGTGA 58.852 47.619 0.00 0.00 0.00 4.02
855 937 0.843984 CGGGGTGGATGGGAGTTTAT 59.156 55.000 0.00 0.00 0.00 1.40
856 938 0.252789 TCGGGGTGGATGGGAGTTTA 60.253 55.000 0.00 0.00 0.00 2.01
857 939 1.137594 TTCGGGGTGGATGGGAGTTT 61.138 55.000 0.00 0.00 0.00 2.66
858 940 1.540367 TTCGGGGTGGATGGGAGTT 60.540 57.895 0.00 0.00 0.00 3.01
859 941 1.995626 CTTCGGGGTGGATGGGAGT 60.996 63.158 0.00 0.00 0.00 3.85
860 942 2.746375 CCTTCGGGGTGGATGGGAG 61.746 68.421 0.00 0.00 0.00 4.30
861 943 2.690881 CCTTCGGGGTGGATGGGA 60.691 66.667 0.00 0.00 0.00 4.37
877 959 3.593794 CCCGACCTCGACGATCCC 61.594 72.222 0.00 0.00 43.02 3.85
958 1052 1.871039 CATTTATACGGCCGGGAAGTG 59.129 52.381 31.76 21.06 0.00 3.16
1003 1152 1.961277 CGAGGCGCTGGTTTCTTGT 60.961 57.895 7.64 0.00 0.00 3.16
1061 1224 4.024556 GGCGATGAATAAGAATGTGTCAGG 60.025 45.833 0.00 0.00 0.00 3.86
1148 1332 1.153939 CCTTCTCCAGCTCGTCGTG 60.154 63.158 0.00 0.00 0.00 4.35
1158 1342 1.000486 CCTCTCGGGACCTTCTCCA 60.000 63.158 0.00 0.00 41.63 3.86
1378 1562 0.532862 ACTGCTGCATATGTACGCCC 60.533 55.000 1.31 0.00 0.00 6.13
1420 1637 9.319143 CAATCAAAGAAAGGACTTCGTATATCT 57.681 33.333 0.00 0.00 39.22 1.98
1474 1692 5.524646 ACGAATTTGTCTTTCACGTTCCTAA 59.475 36.000 0.00 0.00 0.00 2.69
1475 1693 5.050634 CACGAATTTGTCTTTCACGTTCCTA 60.051 40.000 0.00 0.00 0.00 2.94
1496 1714 3.725740 GTGAGCACTTCAAATTTGACACG 59.274 43.478 20.35 13.61 37.61 4.49
1569 1799 4.332819 GTGATTTCAATGTCTCCCGTTAGG 59.667 45.833 0.00 0.00 37.24 2.69
1576 1806 3.826157 TGGGTTGTGATTTCAATGTCTCC 59.174 43.478 0.00 0.00 0.00 3.71
1620 1859 2.562296 TCCAGGAGCCCAAAGAATAGT 58.438 47.619 0.00 0.00 0.00 2.12
1639 1878 2.226437 TGACTGGCGCTTCAAAAGAATC 59.774 45.455 7.64 0.00 0.00 2.52
1664 1903 0.984230 TCTCTTGCGGGACCAGAATT 59.016 50.000 0.00 0.00 0.00 2.17
1665 1904 1.134280 CATCTCTTGCGGGACCAGAAT 60.134 52.381 0.00 0.00 0.00 2.40
1666 1905 0.250234 CATCTCTTGCGGGACCAGAA 59.750 55.000 0.00 0.00 0.00 3.02
1667 1906 0.614697 TCATCTCTTGCGGGACCAGA 60.615 55.000 0.00 0.00 0.00 3.86
1668 1907 0.179089 CTCATCTCTTGCGGGACCAG 60.179 60.000 0.00 0.00 0.00 4.00
1669 1908 1.617018 CCTCATCTCTTGCGGGACCA 61.617 60.000 0.00 0.00 0.00 4.02
1709 1948 4.143333 CTCGGTTCCGTGGGCGAT 62.143 66.667 11.04 0.00 41.33 4.58
1720 1959 3.330720 CAAGCCTCCCCCTCGGTT 61.331 66.667 0.00 0.00 0.00 4.44
1768 2092 3.083997 ATCTGTGGAGGACGCCCC 61.084 66.667 0.00 0.00 0.00 5.80
1769 2093 2.187946 CATCTGTGGAGGACGCCC 59.812 66.667 0.00 0.00 0.00 6.13
1781 2289 3.112263 TCCCACTAAACCTACCCATCTG 58.888 50.000 0.00 0.00 0.00 2.90
1785 2293 2.262637 CAGTCCCACTAAACCTACCCA 58.737 52.381 0.00 0.00 0.00 4.51
1815 2329 2.103373 CTGCCTCCTCTGCTAGTACAA 58.897 52.381 0.00 0.00 0.00 2.41
1825 2339 2.307162 ATGCCTTGCTGCCTCCTCT 61.307 57.895 0.00 0.00 0.00 3.69
1872 3628 2.038837 GCCGAACCTTAGGGCACAC 61.039 63.158 2.32 0.00 46.13 3.82
1895 3651 0.893727 AACAAACCACCTCCGGCATC 60.894 55.000 0.00 0.00 0.00 3.91
1899 3655 1.901464 CCCAACAAACCACCTCCGG 60.901 63.158 0.00 0.00 0.00 5.14
1994 3751 5.303078 TGCTAGTGGACTGATATCTTTCCTC 59.697 44.000 18.56 15.90 0.00 3.71
2003 3762 6.931281 GCTGAATATTTGCTAGTGGACTGATA 59.069 38.462 7.01 0.00 0.00 2.15
2015 3774 2.717639 ACTCGGGCTGAATATTTGCT 57.282 45.000 12.13 0.00 0.00 3.91
2026 3785 2.632987 AAACACTTGTAACTCGGGCT 57.367 45.000 0.00 0.00 0.00 5.19
2044 3803 8.420222 TCATTGTGGCAAAAAGAAGAAAGATAA 58.580 29.630 0.00 0.00 0.00 1.75
2054 3815 8.806429 TTAGAGATATCATTGTGGCAAAAAGA 57.194 30.769 5.32 0.00 0.00 2.52
2237 4336 3.291584 TGTTGTTGATTTGCTACACCCA 58.708 40.909 0.00 0.00 32.03 4.51
2259 4358 5.765510 TCATTGGAGCCCACATATTTACTT 58.234 37.500 0.00 0.00 30.78 2.24
2261 4360 6.127897 GCTATCATTGGAGCCCACATATTTAC 60.128 42.308 0.00 0.00 30.78 2.01
2338 4437 7.704789 AACAGAAGAAAATTTGCTTCATGTC 57.295 32.000 31.64 12.81 42.21 3.06
2341 4440 8.721019 TCAAAACAGAAGAAAATTTGCTTCAT 57.279 26.923 31.64 20.59 42.21 2.57
2422 4527 0.685458 GCTGGGAGGCATTGTCCAAT 60.685 55.000 0.00 0.00 35.57 3.16
2447 4554 6.211184 ACAGTTTGAAAAAGCCCATGATATCA 59.789 34.615 8.10 8.10 0.00 2.15


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

AutoCloner maintained by Alex Coulton.