Multiple sequence alignment - TraesCS2B01G208100

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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 TraesCS2B01G208100 chr2B 100.000 4059 0 0 1 4059 188811253 188815311 0.000000e+00 7496
1 TraesCS2B01G208100 chr2B 91.785 633 49 3 1 633 795579686 795580315 0.000000e+00 878
2 TraesCS2B01G208100 chr2D 94.289 2609 89 28 662 3244 133050211 133052785 0.000000e+00 3938
3 TraesCS2B01G208100 chr2A 94.047 2587 84 26 664 3216 140555842 140558392 0.000000e+00 3860
4 TraesCS2B01G208100 chr2A 93.717 1146 58 5 2068 3211 139923221 139922088 0.000000e+00 1705
5 TraesCS2B01G208100 chr2A 89.782 734 33 18 781 1498 139937335 139936628 0.000000e+00 902
6 TraesCS2B01G208100 chr2A 82.880 882 55 30 3208 4024 140562574 140563424 0.000000e+00 704
7 TraesCS2B01G208100 chr2A 95.270 296 11 2 1518 1813 139932082 139931790 2.210000e-127 466
8 TraesCS2B01G208100 chr2A 97.235 217 6 0 1809 2025 139923432 139923216 6.410000e-98 368
9 TraesCS2B01G208100 chr2A 93.333 150 8 2 662 809 139937485 139937336 1.900000e-53 220
10 TraesCS2B01G208100 chr2A 90.698 86 5 3 3468 3551 139890936 139890852 1.190000e-20 111
11 TraesCS2B01G208100 chr5A 91.980 586 43 3 47 632 462896550 462897131 0.000000e+00 819
12 TraesCS2B01G208100 chr1B 88.959 634 59 9 1 633 546559883 546559260 0.000000e+00 773


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 TraesCS2B01G208100 chr2B 188811253 188815311 4058 False 7496.0 7496 100.0000 1 4059 1 chr2B.!!$F1 4058
1 TraesCS2B01G208100 chr2B 795579686 795580315 629 False 878.0 878 91.7850 1 633 1 chr2B.!!$F2 632
2 TraesCS2B01G208100 chr2D 133050211 133052785 2574 False 3938.0 3938 94.2890 662 3244 1 chr2D.!!$F1 2582
3 TraesCS2B01G208100 chr2A 140555842 140558392 2550 False 3860.0 3860 94.0470 664 3216 1 chr2A.!!$F1 2552
4 TraesCS2B01G208100 chr2A 139922088 139923432 1344 True 1036.5 1705 95.4760 1809 3211 2 chr2A.!!$R3 1402
5 TraesCS2B01G208100 chr2A 140562574 140563424 850 False 704.0 704 82.8800 3208 4024 1 chr2A.!!$F2 816
6 TraesCS2B01G208100 chr2A 139936628 139937485 857 True 561.0 902 91.5575 662 1498 2 chr2A.!!$R4 836
7 TraesCS2B01G208100 chr5A 462896550 462897131 581 False 819.0 819 91.9800 47 632 1 chr5A.!!$F1 585
8 TraesCS2B01G208100 chr1B 546559260 546559883 623 True 773.0 773 88.9590 1 633 1 chr1B.!!$R1 632

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
622 624 0.179103 GAATGCATTTTGGGCCCTCG 60.179 55.0 25.70 7.74 0.00 4.63 F
1143 1190 0.168348 CCGACGACGACTTCATCTGT 59.832 55.0 9.28 0.00 42.66 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1512 1569 0.038526 GAAGGCTGCCATGCATATGC 60.039 55.0 22.65 21.09 38.13 3.14 R
3116 3197 0.320771 GTGCCTTCTCCATGTCACGT 60.321 55.0 0.00 0.00 0.00 4.49 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 1.114627 GAAATCCAATCCTGGTGGCC 58.885 55.000 0.00 0.00 43.97 5.36
119 120 3.391382 CAGACCCGTGACCTCCCC 61.391 72.222 0.00 0.00 0.00 4.81
125 126 0.679960 CCCGTGACCTCCCCAAAATC 60.680 60.000 0.00 0.00 0.00 2.17
129 131 1.075601 TGACCTCCCCAAAATCAGCT 58.924 50.000 0.00 0.00 0.00 4.24
130 132 1.272092 TGACCTCCCCAAAATCAGCTG 60.272 52.381 7.63 7.63 0.00 4.24
245 247 3.029570 GACCTCTTAACCGGTGTAGGAT 58.970 50.000 24.02 12.71 32.62 3.24
283 285 1.133945 TGGCAAGCAGTTGTTGTAGGA 60.134 47.619 0.00 0.00 35.92 2.94
368 370 2.508300 GCCTAATTGGGTCTCCAGGTAA 59.492 50.000 9.87 0.00 45.04 2.85
444 446 5.276440 TCTCTGAATTTAGGAGAGAAGCCT 58.724 41.667 0.00 0.00 39.40 4.58
447 449 4.023980 TGAATTTAGGAGAGAAGCCTCGA 58.976 43.478 0.00 0.00 44.08 4.04
449 451 2.810870 TTAGGAGAGAAGCCTCGACT 57.189 50.000 0.00 0.00 44.08 4.18
478 480 2.269940 AGTCCAGCAAGTAGTCCCAAT 58.730 47.619 0.00 0.00 0.00 3.16
494 496 5.781818 AGTCCCAATGGATTGAATCAAAAGT 59.218 36.000 7.56 0.00 44.28 2.66
524 526 5.476599 TGATATCTAGCTTGAGGAGAAGAGC 59.523 44.000 3.82 0.00 35.42 4.09
536 538 0.543174 AGAAGAGCCGGAGTCTTGGT 60.543 55.000 20.83 8.02 0.00 3.67
552 554 1.301479 GGTTCGGTGAAGGCGTCTT 60.301 57.895 0.00 0.00 35.62 3.01
567 569 0.788391 GTCTTACAAAGCCACGGACG 59.212 55.000 0.00 0.00 0.00 4.79
570 572 1.193874 CTTACAAAGCCACGGACGAAC 59.806 52.381 0.00 0.00 0.00 3.95
572 574 1.278637 CAAAGCCACGGACGAACAC 59.721 57.895 0.00 0.00 0.00 3.32
573 575 1.153329 AAAGCCACGGACGAACACA 60.153 52.632 0.00 0.00 0.00 3.72
583 585 2.286833 CGGACGAACACAAAGTTGTCAT 59.713 45.455 0.00 0.00 41.51 3.06
584 586 3.617669 GGACGAACACAAAGTTGTCATG 58.382 45.455 0.00 0.00 41.51 3.07
585 587 3.548014 GGACGAACACAAAGTTGTCATGG 60.548 47.826 0.00 0.00 41.51 3.66
586 588 3.275143 ACGAACACAAAGTTGTCATGGA 58.725 40.909 0.00 0.00 41.51 3.41
587 589 3.882888 ACGAACACAAAGTTGTCATGGAT 59.117 39.130 0.00 0.00 41.51 3.41
588 590 4.221342 CGAACACAAAGTTGTCATGGATG 58.779 43.478 0.00 0.00 41.51 3.51
589 591 3.648339 ACACAAAGTTGTCATGGATGC 57.352 42.857 0.00 0.00 39.91 3.91
590 592 3.225104 ACACAAAGTTGTCATGGATGCT 58.775 40.909 0.00 0.00 39.91 3.79
591 593 3.638160 ACACAAAGTTGTCATGGATGCTT 59.362 39.130 0.00 0.00 39.91 3.91
592 594 4.099881 ACACAAAGTTGTCATGGATGCTTT 59.900 37.500 0.00 0.00 39.91 3.51
593 595 5.051816 CACAAAGTTGTCATGGATGCTTTT 58.948 37.500 0.00 0.00 39.91 2.27
594 596 5.050634 CACAAAGTTGTCATGGATGCTTTTG 60.051 40.000 0.00 0.99 39.91 2.44
595 597 3.947910 AGTTGTCATGGATGCTTTTGG 57.052 42.857 0.00 0.00 0.00 3.28
596 598 3.233507 AGTTGTCATGGATGCTTTTGGT 58.766 40.909 0.00 0.00 0.00 3.67
597 599 3.256631 AGTTGTCATGGATGCTTTTGGTC 59.743 43.478 0.00 0.00 0.00 4.02
598 600 2.874014 TGTCATGGATGCTTTTGGTCA 58.126 42.857 0.00 0.00 0.00 4.02
599 601 3.433343 TGTCATGGATGCTTTTGGTCAT 58.567 40.909 0.00 0.00 0.00 3.06
600 602 3.193903 TGTCATGGATGCTTTTGGTCATG 59.806 43.478 0.00 0.00 34.89 3.07
601 603 3.444742 GTCATGGATGCTTTTGGTCATGA 59.555 43.478 0.00 0.00 38.71 3.07
602 604 4.098960 GTCATGGATGCTTTTGGTCATGAT 59.901 41.667 0.00 0.00 41.59 2.45
603 605 4.098807 TCATGGATGCTTTTGGTCATGATG 59.901 41.667 0.00 0.00 36.91 3.07
604 606 3.699413 TGGATGCTTTTGGTCATGATGA 58.301 40.909 0.00 0.00 0.00 2.92
605 607 4.087907 TGGATGCTTTTGGTCATGATGAA 58.912 39.130 0.00 0.00 0.00 2.57
606 608 4.712829 TGGATGCTTTTGGTCATGATGAAT 59.287 37.500 0.00 0.00 0.00 2.57
607 609 5.047847 GGATGCTTTTGGTCATGATGAATG 58.952 41.667 0.00 0.00 37.66 2.67
608 610 3.852286 TGCTTTTGGTCATGATGAATGC 58.148 40.909 0.00 8.74 36.11 3.56
609 611 3.258622 TGCTTTTGGTCATGATGAATGCA 59.741 39.130 17.37 17.37 36.11 3.96
610 612 4.081365 TGCTTTTGGTCATGATGAATGCAT 60.081 37.500 17.37 0.00 36.11 3.96
611 613 4.873827 GCTTTTGGTCATGATGAATGCATT 59.126 37.500 12.83 12.83 36.11 3.56
612 614 5.353123 GCTTTTGGTCATGATGAATGCATTT 59.647 36.000 14.33 0.00 36.11 2.32
613 615 6.128117 GCTTTTGGTCATGATGAATGCATTTT 60.128 34.615 14.33 4.38 36.11 1.82
614 616 6.729391 TTTGGTCATGATGAATGCATTTTG 57.271 33.333 14.33 7.08 36.11 2.44
615 617 4.760878 TGGTCATGATGAATGCATTTTGG 58.239 39.130 14.33 1.17 36.11 3.28
616 618 4.124238 GGTCATGATGAATGCATTTTGGG 58.876 43.478 14.33 2.22 36.11 4.12
617 619 3.558418 GTCATGATGAATGCATTTTGGGC 59.442 43.478 14.33 0.40 36.11 5.36
618 620 2.695127 TGATGAATGCATTTTGGGCC 57.305 45.000 14.33 0.00 34.11 5.80
619 621 1.209990 TGATGAATGCATTTTGGGCCC 59.790 47.619 17.59 17.59 34.11 5.80
620 622 1.487558 GATGAATGCATTTTGGGCCCT 59.512 47.619 25.70 0.00 34.11 5.19
621 623 0.903942 TGAATGCATTTTGGGCCCTC 59.096 50.000 25.70 9.30 0.00 4.30
622 624 0.179103 GAATGCATTTTGGGCCCTCG 60.179 55.000 25.70 7.74 0.00 4.63
623 625 0.614415 AATGCATTTTGGGCCCTCGA 60.614 50.000 25.70 8.82 0.00 4.04
624 626 0.614415 ATGCATTTTGGGCCCTCGAA 60.614 50.000 25.70 15.18 0.00 3.71
625 627 0.829602 TGCATTTTGGGCCCTCGAAA 60.830 50.000 25.70 20.46 0.00 3.46
626 628 0.389817 GCATTTTGGGCCCTCGAAAC 60.390 55.000 25.70 4.86 0.00 2.78
627 629 0.965439 CATTTTGGGCCCTCGAAACA 59.035 50.000 25.70 1.44 0.00 2.83
628 630 1.550072 CATTTTGGGCCCTCGAAACAT 59.450 47.619 25.70 4.19 0.00 2.71
629 631 2.588464 TTTTGGGCCCTCGAAACATA 57.412 45.000 25.70 0.00 0.00 2.29
630 632 2.122783 TTTGGGCCCTCGAAACATAG 57.877 50.000 25.70 0.00 0.00 2.23
631 633 1.281419 TTGGGCCCTCGAAACATAGA 58.719 50.000 25.70 0.00 0.00 1.98
632 634 0.539986 TGGGCCCTCGAAACATAGAC 59.460 55.000 25.70 0.00 0.00 2.59
633 635 0.831307 GGGCCCTCGAAACATAGACT 59.169 55.000 17.04 0.00 0.00 3.24
634 636 2.037144 GGGCCCTCGAAACATAGACTA 58.963 52.381 17.04 0.00 0.00 2.59
635 637 2.223994 GGGCCCTCGAAACATAGACTAC 60.224 54.545 17.04 0.00 0.00 2.73
636 638 2.694109 GGCCCTCGAAACATAGACTACT 59.306 50.000 0.00 0.00 0.00 2.57
637 639 3.243468 GGCCCTCGAAACATAGACTACTC 60.243 52.174 0.00 0.00 0.00 2.59
638 640 3.633065 GCCCTCGAAACATAGACTACTCT 59.367 47.826 0.00 0.00 0.00 3.24
639 641 4.098196 GCCCTCGAAACATAGACTACTCTT 59.902 45.833 0.00 0.00 0.00 2.85
640 642 5.298777 GCCCTCGAAACATAGACTACTCTTA 59.701 44.000 0.00 0.00 0.00 2.10
641 643 6.016108 GCCCTCGAAACATAGACTACTCTTAT 60.016 42.308 0.00 0.00 0.00 1.73
642 644 7.364200 CCCTCGAAACATAGACTACTCTTATG 58.636 42.308 0.00 0.00 0.00 1.90
643 645 6.858993 CCTCGAAACATAGACTACTCTTATGC 59.141 42.308 0.00 0.00 0.00 3.14
644 646 7.329588 TCGAAACATAGACTACTCTTATGCA 57.670 36.000 0.00 0.00 0.00 3.96
645 647 7.768240 TCGAAACATAGACTACTCTTATGCAA 58.232 34.615 0.00 0.00 0.00 4.08
646 648 8.248253 TCGAAACATAGACTACTCTTATGCAAA 58.752 33.333 0.00 0.00 0.00 3.68
647 649 8.535592 CGAAACATAGACTACTCTTATGCAAAG 58.464 37.037 0.00 0.00 0.00 2.77
648 650 8.723942 AAACATAGACTACTCTTATGCAAAGG 57.276 34.615 0.00 0.00 0.00 3.11
649 651 6.284459 ACATAGACTACTCTTATGCAAAGGC 58.716 40.000 0.00 0.00 41.68 4.35
650 652 4.143986 AGACTACTCTTATGCAAAGGCC 57.856 45.455 0.00 0.00 40.13 5.19
651 653 3.118223 AGACTACTCTTATGCAAAGGCCC 60.118 47.826 0.00 0.00 40.13 5.80
652 654 2.576191 ACTACTCTTATGCAAAGGCCCA 59.424 45.455 0.00 0.00 40.13 5.36
653 655 2.834638 ACTCTTATGCAAAGGCCCAT 57.165 45.000 0.00 0.00 40.13 4.00
654 656 2.659428 ACTCTTATGCAAAGGCCCATC 58.341 47.619 0.00 0.00 40.13 3.51
655 657 2.243221 ACTCTTATGCAAAGGCCCATCT 59.757 45.455 0.00 0.00 40.13 2.90
656 658 3.294214 CTCTTATGCAAAGGCCCATCTT 58.706 45.455 0.00 0.00 40.13 2.40
657 659 3.703052 CTCTTATGCAAAGGCCCATCTTT 59.297 43.478 0.00 0.00 40.13 2.52
658 660 4.095946 TCTTATGCAAAGGCCCATCTTTT 58.904 39.130 0.00 0.00 40.13 2.27
659 661 4.160252 TCTTATGCAAAGGCCCATCTTTTC 59.840 41.667 0.00 0.00 40.13 2.29
660 662 0.975887 TGCAAAGGCCCATCTTTTCC 59.024 50.000 0.00 0.00 40.13 3.13
701 703 1.434287 GGTTGCGAACGTTTTGGGT 59.566 52.632 0.46 0.00 0.00 4.51
798 835 1.598882 AACACACACACACACACACA 58.401 45.000 0.00 0.00 0.00 3.72
799 836 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
800 837 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
801 838 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
881 918 4.582240 GCAAAGCCCTATTCTATTGCTTCT 59.418 41.667 0.00 0.00 41.12 2.85
972 1016 4.778143 GCATCGTTGCCCCCGAGT 62.778 66.667 7.24 0.00 43.38 4.18
986 1030 2.223758 CCCCGAGTACGAATTCCTTCTC 60.224 54.545 0.00 4.44 42.66 2.87
987 1031 2.426024 CCCGAGTACGAATTCCTTCTCA 59.574 50.000 14.40 0.00 42.66 3.27
988 1032 3.489398 CCCGAGTACGAATTCCTTCTCAG 60.489 52.174 14.40 6.83 42.66 3.35
989 1033 3.109619 CGAGTACGAATTCCTTCTCAGC 58.890 50.000 14.40 0.00 42.66 4.26
990 1034 3.181495 CGAGTACGAATTCCTTCTCAGCT 60.181 47.826 14.40 0.00 42.66 4.24
991 1035 4.675671 CGAGTACGAATTCCTTCTCAGCTT 60.676 45.833 14.40 0.00 42.66 3.74
992 1036 4.749976 AGTACGAATTCCTTCTCAGCTTC 58.250 43.478 0.00 0.00 0.00 3.86
993 1037 3.971245 ACGAATTCCTTCTCAGCTTCT 57.029 42.857 0.00 0.00 0.00 2.85
994 1038 3.855858 ACGAATTCCTTCTCAGCTTCTC 58.144 45.455 0.00 0.00 0.00 2.87
995 1039 3.513515 ACGAATTCCTTCTCAGCTTCTCT 59.486 43.478 0.00 0.00 0.00 3.10
996 1040 3.864583 CGAATTCCTTCTCAGCTTCTCTG 59.135 47.826 0.00 0.00 44.21 3.35
1095 1142 2.963371 GAGAAGGCGACCGTGTCT 59.037 61.111 0.00 0.00 0.00 3.41
1143 1190 0.168348 CCGACGACGACTTCATCTGT 59.832 55.000 9.28 0.00 42.66 3.41
1313 1362 3.512329 TCCTAGTACTGATTTTGCACGGA 59.488 43.478 5.39 0.00 0.00 4.69
1323 1372 5.233225 TGATTTTGCACGGAATTAATTGCA 58.767 33.333 18.33 13.29 43.11 4.08
1346 1395 2.903135 GCAGGATCTCTACAGCCCTATT 59.097 50.000 0.00 0.00 0.00 1.73
1349 1398 4.462483 CAGGATCTCTACAGCCCTATTCTC 59.538 50.000 0.00 0.00 0.00 2.87
1376 1425 7.271511 ACAATGCTGTCAAAGGTGAAATAAAA 58.728 30.769 0.00 0.00 34.87 1.52
1491 1548 8.470002 TGTACTAGTATGATGCATGATCCATAC 58.530 37.037 20.62 20.62 31.66 2.39
1492 1549 6.567959 ACTAGTATGATGCATGATCCATACG 58.432 40.000 21.38 14.77 34.06 3.06
1493 1550 5.665916 AGTATGATGCATGATCCATACGA 57.334 39.130 21.38 0.00 34.06 3.43
1494 1551 5.414360 AGTATGATGCATGATCCATACGAC 58.586 41.667 21.38 7.45 34.06 4.34
1495 1552 4.548451 ATGATGCATGATCCATACGACT 57.452 40.909 2.46 0.00 0.00 4.18
1496 1553 3.656559 TGATGCATGATCCATACGACTG 58.343 45.455 2.46 0.00 0.00 3.51
1497 1554 3.321682 TGATGCATGATCCATACGACTGA 59.678 43.478 2.46 0.00 0.00 3.41
1498 1555 3.097877 TGCATGATCCATACGACTGAC 57.902 47.619 0.00 0.00 0.00 3.51
1499 1556 2.695147 TGCATGATCCATACGACTGACT 59.305 45.455 0.00 0.00 0.00 3.41
1500 1557 3.055591 GCATGATCCATACGACTGACTG 58.944 50.000 0.00 0.00 0.00 3.51
1501 1558 3.243535 GCATGATCCATACGACTGACTGA 60.244 47.826 0.00 0.00 0.00 3.41
1502 1559 4.294232 CATGATCCATACGACTGACTGAC 58.706 47.826 0.00 0.00 0.00 3.51
1503 1560 2.354821 TGATCCATACGACTGACTGACG 59.645 50.000 0.00 2.98 39.53 4.35
1504 1561 2.103537 TCCATACGACTGACTGACGA 57.896 50.000 10.71 0.00 37.29 4.20
1505 1562 2.640184 TCCATACGACTGACTGACGAT 58.360 47.619 10.71 0.00 37.29 3.73
1506 1563 2.354821 TCCATACGACTGACTGACGATG 59.645 50.000 10.71 9.29 37.29 3.84
1507 1564 2.541794 CCATACGACTGACTGACGATGG 60.542 54.545 10.71 13.21 36.37 3.51
1508 1565 0.450583 TACGACTGACTGACGATGGC 59.549 55.000 10.71 0.00 37.29 4.40
1509 1566 1.244697 ACGACTGACTGACGATGGCT 61.245 55.000 10.71 0.00 37.29 4.75
1510 1567 0.733150 CGACTGACTGACGATGGCTA 59.267 55.000 0.00 0.00 36.01 3.93
1512 1569 2.736978 GACTGACTGACGATGGCTATG 58.263 52.381 0.00 0.00 0.00 2.23
1513 1570 1.202463 ACTGACTGACGATGGCTATGC 60.202 52.381 0.00 0.00 0.00 3.14
1514 1571 0.823460 TGACTGACGATGGCTATGCA 59.177 50.000 0.00 0.00 0.00 3.96
1515 1572 1.413812 TGACTGACGATGGCTATGCAT 59.586 47.619 3.79 3.79 0.00 3.96
1516 1573 2.627699 TGACTGACGATGGCTATGCATA 59.372 45.455 6.20 6.20 0.00 3.14
1538 1595 2.042831 ATGGCAGCCTTCAACTCGC 61.043 57.895 14.15 0.00 0.00 5.03
1654 1711 3.432517 CCTCTTCGGCTTCACTGAG 57.567 57.895 0.00 0.00 34.32 3.35
1781 1838 6.580041 GCATTAATTCATGGCTACAAGAATCG 59.420 38.462 1.95 0.00 42.37 3.34
2345 2406 4.641645 TGGACAAGGTGGCGCAGG 62.642 66.667 10.83 0.00 0.00 4.85
3084 3151 1.392510 GCGACGAGGTTCCATTTGTAC 59.607 52.381 0.00 0.00 0.00 2.90
3085 3152 2.929592 GCGACGAGGTTCCATTTGTACT 60.930 50.000 0.00 0.00 0.00 2.73
3086 3153 2.921754 CGACGAGGTTCCATTTGTACTC 59.078 50.000 0.00 0.00 0.00 2.59
3087 3154 3.259902 GACGAGGTTCCATTTGTACTCC 58.740 50.000 0.00 0.00 0.00 3.85
3088 3155 2.904434 ACGAGGTTCCATTTGTACTCCT 59.096 45.455 0.00 0.00 0.00 3.69
3089 3156 4.091549 ACGAGGTTCCATTTGTACTCCTA 58.908 43.478 0.00 0.00 0.00 2.94
3246 3334 7.898918 TGTTACACAAGAATTAGCAGGTAGTA 58.101 34.615 0.00 0.00 0.00 1.82
3288 3377 2.810650 AGAGCCAGCGTTATTAACTCG 58.189 47.619 5.11 0.00 0.00 4.18
3297 3386 7.069569 CCAGCGTTATTAACTCGGATAATTTG 58.930 38.462 5.11 0.00 0.00 2.32
3301 3390 7.797123 GCGTTATTAACTCGGATAATTTGAAGG 59.203 37.037 5.11 0.00 0.00 3.46
3370 3481 8.715191 TGTTATTTTATGGCATGTGATTTTCC 57.285 30.769 10.98 0.00 0.00 3.13
3378 3489 2.677836 GCATGTGATTTTCCTCGCACTA 59.322 45.455 0.00 0.00 38.39 2.74
3383 3494 7.642669 CATGTGATTTTCCTCGCACTATAATT 58.357 34.615 0.00 0.00 38.39 1.40
3384 3495 7.015226 TGTGATTTTCCTCGCACTATAATTG 57.985 36.000 0.00 0.00 30.98 2.32
3397 3508 8.401709 TCGCACTATAATTGCAATCATTGTAAA 58.598 29.630 13.38 0.00 40.20 2.01
3409 3520 7.071414 GCAATCATTGTAAAAGGAAAGCAAAC 58.929 34.615 0.00 0.00 0.00 2.93
3417 3528 1.172812 AGGAAAGCAAACAGGGTCGC 61.173 55.000 0.00 0.00 0.00 5.19
3428 3539 3.590824 GGGTCGCCCATGAACTTG 58.409 61.111 9.72 0.00 44.65 3.16
3434 3545 2.257353 GCCCATGAACTTGCGAAGT 58.743 52.632 0.00 0.00 45.46 3.01
3442 3553 2.863153 CTTGCGAAGTTGCGAGGG 59.137 61.111 0.25 0.00 41.76 4.30
3443 3554 1.961277 CTTGCGAAGTTGCGAGGGT 60.961 57.895 0.25 0.00 41.76 4.34
3444 3555 2.175184 CTTGCGAAGTTGCGAGGGTG 62.175 60.000 0.25 0.00 41.76 4.61
3445 3556 3.423154 GCGAAGTTGCGAGGGTGG 61.423 66.667 0.00 0.00 0.00 4.61
3446 3557 2.030562 CGAAGTTGCGAGGGTGGT 59.969 61.111 0.00 0.00 0.00 4.16
3447 3558 2.027625 CGAAGTTGCGAGGGTGGTC 61.028 63.158 0.00 0.00 0.00 4.02
3448 3559 1.371558 GAAGTTGCGAGGGTGGTCT 59.628 57.895 0.00 0.00 0.00 3.85
3449 3560 0.250338 GAAGTTGCGAGGGTGGTCTT 60.250 55.000 0.00 0.00 0.00 3.01
3450 3561 1.001633 GAAGTTGCGAGGGTGGTCTTA 59.998 52.381 0.00 0.00 0.00 2.10
3451 3562 1.276622 AGTTGCGAGGGTGGTCTTAT 58.723 50.000 0.00 0.00 0.00 1.73
3452 3563 2.463752 AGTTGCGAGGGTGGTCTTATA 58.536 47.619 0.00 0.00 0.00 0.98
3453 3564 3.039011 AGTTGCGAGGGTGGTCTTATAT 58.961 45.455 0.00 0.00 0.00 0.86
3454 3565 4.220724 AGTTGCGAGGGTGGTCTTATATA 58.779 43.478 0.00 0.00 0.00 0.86
3455 3566 4.652421 AGTTGCGAGGGTGGTCTTATATAA 59.348 41.667 0.00 0.00 0.00 0.98
3456 3567 5.307196 AGTTGCGAGGGTGGTCTTATATAAT 59.693 40.000 0.00 0.00 0.00 1.28
3457 3568 5.818678 TGCGAGGGTGGTCTTATATAATT 57.181 39.130 0.00 0.00 0.00 1.40
3458 3569 6.921486 TGCGAGGGTGGTCTTATATAATTA 57.079 37.500 0.00 0.00 0.00 1.40
3459 3570 7.490657 TGCGAGGGTGGTCTTATATAATTAT 57.509 36.000 2.97 2.97 0.00 1.28
3460 3571 7.913789 TGCGAGGGTGGTCTTATATAATTATT 58.086 34.615 2.68 0.00 0.00 1.40
3461 3572 8.380099 TGCGAGGGTGGTCTTATATAATTATTT 58.620 33.333 2.68 0.00 0.00 1.40
3462 3573 9.227777 GCGAGGGTGGTCTTATATAATTATTTT 57.772 33.333 2.68 0.00 0.00 1.82
3465 3576 9.734984 AGGGTGGTCTTATATAATTATTTTCCG 57.265 33.333 2.68 0.00 0.00 4.30
3466 3577 9.511272 GGGTGGTCTTATATAATTATTTTCCGT 57.489 33.333 2.68 0.00 0.00 4.69
3523 3634 7.337689 CCTCAAATGGAGATAATTGTTGTCTCA 59.662 37.037 15.26 5.44 46.16 3.27
3618 3735 9.354673 TCTTTTTGTCCATCATTTCTCTTAAGT 57.645 29.630 1.63 0.00 0.00 2.24
3773 3918 8.519799 AGATGTTCCAAGTCTTCAACTTTTTA 57.480 30.769 5.80 0.00 46.26 1.52
3778 3924 9.803315 GTTCCAAGTCTTCAACTTTTTAAGATT 57.197 29.630 0.00 0.00 46.26 2.40
3885 4031 6.934083 AGTTTTCATGTTTCCAAACTGTGTTT 59.066 30.769 3.92 0.00 37.92 2.83
3911 4057 6.210584 GGAATTCCAAGACATGTTCCCTTTTA 59.789 38.462 20.04 0.00 35.64 1.52
3921 4067 9.679661 AGACATGTTCCCTTTTAAAATTTTGTT 57.320 25.926 13.76 0.00 0.00 2.83
3925 4071 9.679661 ATGTTCCCTTTTAAAATTTTGTTCACT 57.320 25.926 13.76 0.00 0.00 3.41
3947 4093 9.483916 TCACTGATAAGAAAATTCGTACTTTCA 57.516 29.630 7.74 0.00 34.60 2.69
3960 4106 7.527084 TTCGTACTTTCAAATTTTGTTTGGG 57.473 32.000 8.89 0.58 0.00 4.12
4048 4199 9.889128 AAAAGTTCAAAGATTCAGAAAAATCCA 57.111 25.926 0.00 0.00 36.49 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 3.243569 ACGATATTCTTCAGAGCTTCCCG 60.244 47.826 0.00 0.00 0.00 5.14
119 120 6.309737 GCTAACAAAGATTCCAGCTGATTTTG 59.690 38.462 17.39 17.95 0.00 2.44
125 126 4.352600 CAGCTAACAAAGATTCCAGCTG 57.647 45.455 6.78 6.78 46.87 4.24
129 131 4.019792 TCAGCAGCTAACAAAGATTCCA 57.980 40.909 0.00 0.00 0.00 3.53
130 132 5.573337 ATTCAGCAGCTAACAAAGATTCC 57.427 39.130 0.00 0.00 0.00 3.01
196 198 1.442769 TGCATGCGAACCTCTCTTTC 58.557 50.000 14.09 0.00 0.00 2.62
283 285 1.488705 TTCGTCCTGGCCATTGACCT 61.489 55.000 22.94 0.00 0.00 3.85
368 370 1.018226 GCGAGTGCTGCTGAATGACT 61.018 55.000 0.00 0.00 38.39 3.41
447 449 3.891366 ACTTGCTGGACTTATTGCAAAGT 59.109 39.130 1.71 2.71 43.45 2.66
449 451 5.070001 ACTACTTGCTGGACTTATTGCAAA 58.930 37.500 1.71 0.00 43.45 3.68
494 496 8.311395 TCTCCTCAAGCTAGATATCAAGAAAA 57.689 34.615 5.32 0.00 0.00 2.29
524 526 1.374252 CACCGAACCAAGACTCCGG 60.374 63.158 0.00 0.00 45.09 5.14
536 538 0.675083 TGTAAGACGCCTTCACCGAA 59.325 50.000 0.00 0.00 33.94 4.30
552 554 0.104487 TGTTCGTCCGTGGCTTTGTA 59.896 50.000 0.00 0.00 0.00 2.41
560 562 1.395608 ACAACTTTGTGTTCGTCCGTG 59.604 47.619 0.00 0.00 40.49 4.94
567 569 3.983344 GCATCCATGACAACTTTGTGTTC 59.017 43.478 0.00 0.00 42.43 3.18
570 572 3.928727 AGCATCCATGACAACTTTGTG 57.071 42.857 0.00 0.00 42.43 3.33
572 574 4.449743 CCAAAAGCATCCATGACAACTTTG 59.550 41.667 0.00 0.00 0.00 2.77
573 575 4.101430 ACCAAAAGCATCCATGACAACTTT 59.899 37.500 0.00 0.00 0.00 2.66
583 585 3.699413 TCATCATGACCAAAAGCATCCA 58.301 40.909 0.00 0.00 0.00 3.41
584 586 4.724074 TTCATCATGACCAAAAGCATCC 57.276 40.909 0.00 0.00 0.00 3.51
585 587 4.506654 GCATTCATCATGACCAAAAGCATC 59.493 41.667 0.00 0.00 34.31 3.91
586 588 4.081365 TGCATTCATCATGACCAAAAGCAT 60.081 37.500 0.00 0.00 34.31 3.79
587 589 3.258622 TGCATTCATCATGACCAAAAGCA 59.741 39.130 0.00 5.02 34.31 3.91
588 590 3.852286 TGCATTCATCATGACCAAAAGC 58.148 40.909 0.00 2.30 34.31 3.51
589 591 6.978343 AAATGCATTCATCATGACCAAAAG 57.022 33.333 13.38 0.00 34.31 2.27
590 592 6.149640 CCAAAATGCATTCATCATGACCAAAA 59.850 34.615 13.38 0.00 34.31 2.44
591 593 5.644206 CCAAAATGCATTCATCATGACCAAA 59.356 36.000 13.38 0.00 34.31 3.28
592 594 5.179533 CCAAAATGCATTCATCATGACCAA 58.820 37.500 13.38 0.00 34.31 3.67
593 595 4.383226 CCCAAAATGCATTCATCATGACCA 60.383 41.667 13.38 0.00 34.31 4.02
594 596 4.124238 CCCAAAATGCATTCATCATGACC 58.876 43.478 13.38 0.00 34.31 4.02
595 597 3.558418 GCCCAAAATGCATTCATCATGAC 59.442 43.478 13.38 0.00 34.31 3.06
596 598 3.432467 GGCCCAAAATGCATTCATCATGA 60.432 43.478 13.38 0.00 34.31 3.07
597 599 2.875933 GGCCCAAAATGCATTCATCATG 59.124 45.455 13.38 7.19 35.73 3.07
598 600 2.158726 GGGCCCAAAATGCATTCATCAT 60.159 45.455 19.95 0.00 31.27 2.45
599 601 1.209990 GGGCCCAAAATGCATTCATCA 59.790 47.619 19.95 0.00 31.27 3.07
600 602 1.487558 AGGGCCCAAAATGCATTCATC 59.512 47.619 27.56 0.85 31.27 2.92
601 603 1.487558 GAGGGCCCAAAATGCATTCAT 59.512 47.619 27.56 1.84 33.53 2.57
602 604 0.903942 GAGGGCCCAAAATGCATTCA 59.096 50.000 27.56 0.00 0.00 2.57
603 605 0.179103 CGAGGGCCCAAAATGCATTC 60.179 55.000 27.56 8.32 0.00 2.67
604 606 0.614415 TCGAGGGCCCAAAATGCATT 60.614 50.000 27.56 5.99 0.00 3.56
605 607 0.614415 TTCGAGGGCCCAAAATGCAT 60.614 50.000 27.56 0.00 0.00 3.96
606 608 0.829602 TTTCGAGGGCCCAAAATGCA 60.830 50.000 27.56 0.00 0.00 3.96
607 609 0.389817 GTTTCGAGGGCCCAAAATGC 60.390 55.000 27.56 6.05 0.00 3.56
608 610 0.965439 TGTTTCGAGGGCCCAAAATG 59.035 50.000 27.56 8.57 0.00 2.32
609 611 1.937191 ATGTTTCGAGGGCCCAAAAT 58.063 45.000 27.56 7.03 0.00 1.82
610 612 2.040545 TCTATGTTTCGAGGGCCCAAAA 59.959 45.455 27.56 18.22 0.00 2.44
611 613 1.631388 TCTATGTTTCGAGGGCCCAAA 59.369 47.619 27.56 13.64 0.00 3.28
612 614 1.065709 GTCTATGTTTCGAGGGCCCAA 60.066 52.381 27.56 6.77 0.00 4.12
613 615 0.539986 GTCTATGTTTCGAGGGCCCA 59.460 55.000 27.56 0.00 0.00 5.36
614 616 0.831307 AGTCTATGTTTCGAGGGCCC 59.169 55.000 16.46 16.46 0.00 5.80
615 617 2.694109 AGTAGTCTATGTTTCGAGGGCC 59.306 50.000 0.00 0.00 0.00 5.80
616 618 3.633065 AGAGTAGTCTATGTTTCGAGGGC 59.367 47.826 0.00 0.00 0.00 5.19
617 619 5.838531 AAGAGTAGTCTATGTTTCGAGGG 57.161 43.478 0.00 0.00 30.45 4.30
618 620 6.858993 GCATAAGAGTAGTCTATGTTTCGAGG 59.141 42.308 0.00 0.00 30.45 4.63
619 621 7.418408 TGCATAAGAGTAGTCTATGTTTCGAG 58.582 38.462 0.00 0.00 30.45 4.04
620 622 7.329588 TGCATAAGAGTAGTCTATGTTTCGA 57.670 36.000 0.00 0.00 30.45 3.71
621 623 7.987268 TTGCATAAGAGTAGTCTATGTTTCG 57.013 36.000 0.00 0.00 30.45 3.46
622 624 8.821894 CCTTTGCATAAGAGTAGTCTATGTTTC 58.178 37.037 0.00 0.00 30.45 2.78
623 625 7.281100 GCCTTTGCATAAGAGTAGTCTATGTTT 59.719 37.037 0.00 0.00 37.47 2.83
624 626 6.763610 GCCTTTGCATAAGAGTAGTCTATGTT 59.236 38.462 0.00 0.00 37.47 2.71
625 627 6.284459 GCCTTTGCATAAGAGTAGTCTATGT 58.716 40.000 0.00 0.00 37.47 2.29
626 628 5.698545 GGCCTTTGCATAAGAGTAGTCTATG 59.301 44.000 0.00 6.59 40.13 2.23
627 629 5.221742 GGGCCTTTGCATAAGAGTAGTCTAT 60.222 44.000 0.84 0.00 40.13 1.98
628 630 4.101119 GGGCCTTTGCATAAGAGTAGTCTA 59.899 45.833 0.84 0.00 40.13 2.59
629 631 3.118223 GGGCCTTTGCATAAGAGTAGTCT 60.118 47.826 0.84 0.00 40.13 3.24
630 632 3.206964 GGGCCTTTGCATAAGAGTAGTC 58.793 50.000 0.84 0.00 40.13 2.59
631 633 2.576191 TGGGCCTTTGCATAAGAGTAGT 59.424 45.455 4.53 0.00 40.13 2.73
632 634 3.281727 TGGGCCTTTGCATAAGAGTAG 57.718 47.619 4.53 0.00 40.13 2.57
633 635 3.459598 AGATGGGCCTTTGCATAAGAGTA 59.540 43.478 4.53 0.00 40.13 2.59
634 636 2.243221 AGATGGGCCTTTGCATAAGAGT 59.757 45.455 4.53 0.00 40.13 3.24
635 637 2.941480 AGATGGGCCTTTGCATAAGAG 58.059 47.619 4.53 3.03 40.13 2.85
636 638 3.386932 AAGATGGGCCTTTGCATAAGA 57.613 42.857 4.53 0.00 40.13 2.10
637 639 4.436332 GAAAAGATGGGCCTTTGCATAAG 58.564 43.478 4.53 0.00 40.13 1.73
638 640 3.197549 GGAAAAGATGGGCCTTTGCATAA 59.802 43.478 4.53 0.00 40.13 1.90
639 641 2.765699 GGAAAAGATGGGCCTTTGCATA 59.234 45.455 4.53 0.00 40.13 3.14
640 642 1.556451 GGAAAAGATGGGCCTTTGCAT 59.444 47.619 4.53 0.00 40.13 3.96
641 643 0.975887 GGAAAAGATGGGCCTTTGCA 59.024 50.000 4.53 0.00 40.13 4.08
642 644 0.108662 CGGAAAAGATGGGCCTTTGC 60.109 55.000 4.53 0.83 36.57 3.68
643 645 1.256812 ACGGAAAAGATGGGCCTTTG 58.743 50.000 4.53 0.00 36.57 2.77
644 646 2.009681 AACGGAAAAGATGGGCCTTT 57.990 45.000 4.53 0.00 37.94 3.11
645 647 2.009681 AAACGGAAAAGATGGGCCTT 57.990 45.000 4.53 0.00 0.00 4.35
646 648 2.009681 AAAACGGAAAAGATGGGCCT 57.990 45.000 4.53 0.00 0.00 5.19
647 649 2.831685 AAAAACGGAAAAGATGGGCC 57.168 45.000 0.00 0.00 0.00 5.80
648 650 3.006003 TGGTAAAAACGGAAAAGATGGGC 59.994 43.478 0.00 0.00 0.00 5.36
649 651 4.857509 TGGTAAAAACGGAAAAGATGGG 57.142 40.909 0.00 0.00 0.00 4.00
798 835 1.741145 GAACAGGACGGTTTGTTGTGT 59.259 47.619 14.16 0.00 37.63 3.72
799 836 1.267832 CGAACAGGACGGTTTGTTGTG 60.268 52.381 14.16 5.70 37.63 3.33
800 837 1.011333 CGAACAGGACGGTTTGTTGT 58.989 50.000 14.16 0.72 37.63 3.32
801 838 1.011333 ACGAACAGGACGGTTTGTTG 58.989 50.000 14.16 10.06 41.48 3.33
881 918 1.118965 TCGGAGTGAAGTCAGCCCAA 61.119 55.000 0.00 0.00 0.00 4.12
958 1002 3.751246 CGTACTCGGGGGCAACGA 61.751 66.667 2.88 2.88 38.79 3.85
960 1004 0.392060 AATTCGTACTCGGGGGCAAC 60.392 55.000 0.00 0.00 37.69 4.17
965 1009 1.755380 AGAAGGAATTCGTACTCGGGG 59.245 52.381 0.22 0.00 37.69 5.73
972 1016 4.707448 AGAGAAGCTGAGAAGGAATTCGTA 59.293 41.667 0.22 0.00 0.00 3.43
1143 1190 4.700365 CACCAGTCGAGCGTCGCA 62.700 66.667 21.09 0.00 40.21 5.10
1313 1362 6.774170 TGTAGAGATCCTGCATGCAATTAATT 59.226 34.615 22.88 5.91 32.40 1.40
1323 1372 1.055040 GGGCTGTAGAGATCCTGCAT 58.945 55.000 0.00 0.00 36.89 3.96
1346 1395 4.040339 TCACCTTTGACAGCATTGTAGAGA 59.960 41.667 0.00 0.00 37.76 3.10
1349 1398 5.437289 TTTCACCTTTGACAGCATTGTAG 57.563 39.130 0.00 0.00 37.76 2.74
1491 1548 0.733150 TAGCCATCGTCAGTCAGTCG 59.267 55.000 0.00 0.00 0.00 4.18
1492 1549 2.736978 CATAGCCATCGTCAGTCAGTC 58.263 52.381 0.00 0.00 0.00 3.51
1493 1550 1.202463 GCATAGCCATCGTCAGTCAGT 60.202 52.381 0.00 0.00 0.00 3.41
1494 1551 1.202452 TGCATAGCCATCGTCAGTCAG 60.202 52.381 0.00 0.00 0.00 3.51
1495 1552 0.823460 TGCATAGCCATCGTCAGTCA 59.177 50.000 0.00 0.00 0.00 3.41
1496 1553 2.160822 ATGCATAGCCATCGTCAGTC 57.839 50.000 0.00 0.00 0.00 3.51
1497 1554 3.593096 CATATGCATAGCCATCGTCAGT 58.407 45.455 12.79 0.00 0.00 3.41
1498 1555 2.350804 GCATATGCATAGCCATCGTCAG 59.649 50.000 22.84 0.00 41.59 3.51
1499 1556 2.349590 GCATATGCATAGCCATCGTCA 58.650 47.619 22.84 0.00 41.59 4.35
1512 1569 0.038526 GAAGGCTGCCATGCATATGC 60.039 55.000 22.65 21.09 38.13 3.14
1513 1570 1.324383 TGAAGGCTGCCATGCATATG 58.676 50.000 22.65 0.00 38.13 1.78
1514 1571 1.684983 GTTGAAGGCTGCCATGCATAT 59.315 47.619 22.65 0.00 38.13 1.78
1515 1572 1.105457 GTTGAAGGCTGCCATGCATA 58.895 50.000 22.65 4.28 38.13 3.14
1516 1573 0.613853 AGTTGAAGGCTGCCATGCAT 60.614 50.000 22.65 0.00 38.13 3.96
1538 1595 0.533755 CCTCCAAGCCTAATCCGCAG 60.534 60.000 0.00 0.00 0.00 5.18
1781 1838 4.496010 GCATGCAGATCAGATGTGAACTTC 60.496 45.833 14.21 0.00 33.70 3.01
2345 2406 2.456119 CCTCCATGTCGCTGAACGC 61.456 63.158 0.00 0.00 43.23 4.84
2488 2549 1.590147 GAACACGGACGACATCCCT 59.410 57.895 0.00 0.00 46.04 4.20
2722 2783 2.338500 GTCGAGTTGGACAGGTTGATC 58.662 52.381 0.00 0.00 36.91 2.92
2767 2828 2.756400 GGGTGCAGGTCCATGTCA 59.244 61.111 0.00 0.00 0.00 3.58
2796 2857 2.670934 CTTCCGCCTGCAGCAACT 60.671 61.111 8.66 0.00 44.04 3.16
3084 3151 9.790389 CTAACTACTGTAGTTCACAAATAGGAG 57.210 37.037 30.45 17.18 45.38 3.69
3085 3152 8.746530 CCTAACTACTGTAGTTCACAAATAGGA 58.253 37.037 30.45 12.65 45.38 2.94
3086 3153 8.746530 TCCTAACTACTGTAGTTCACAAATAGG 58.253 37.037 30.45 26.99 45.38 2.57
3087 3154 9.570488 GTCCTAACTACTGTAGTTCACAAATAG 57.430 37.037 30.45 21.13 45.38 1.73
3088 3155 8.239314 CGTCCTAACTACTGTAGTTCACAAATA 58.761 37.037 30.45 14.48 45.38 1.40
3089 3156 7.088905 CGTCCTAACTACTGTAGTTCACAAAT 58.911 38.462 30.45 12.61 45.38 2.32
3116 3197 0.320771 GTGCCTTCTCCATGTCACGT 60.321 55.000 0.00 0.00 0.00 4.49
3246 3334 2.239402 TCATGATATGGCAGTGTGGTGT 59.761 45.455 0.00 0.00 0.00 4.16
3255 3343 2.812983 GCTGGCTCTTCATGATATGGCA 60.813 50.000 14.46 14.46 0.00 4.92
3288 3377 5.596836 TGCCAATGACCTTCAAATTATCC 57.403 39.130 0.00 0.00 0.00 2.59
3297 3386 3.949754 TCTTCATGATGCCAATGACCTTC 59.050 43.478 0.00 0.00 0.00 3.46
3301 3390 5.509716 TCATTCTTCATGATGCCAATGAC 57.490 39.130 15.87 0.00 36.94 3.06
3323 3412 0.179086 CGCCAAAAACAACTGCCCTT 60.179 50.000 0.00 0.00 0.00 3.95
3329 3418 7.546778 AAAATAACAATCGCCAAAAACAACT 57.453 28.000 0.00 0.00 0.00 3.16
3368 3479 4.702831 TGATTGCAATTATAGTGCGAGGA 58.297 39.130 14.33 0.00 45.27 3.71
3369 3480 5.618056 ATGATTGCAATTATAGTGCGAGG 57.382 39.130 14.33 0.00 45.27 4.63
3370 3481 6.432936 ACAATGATTGCAATTATAGTGCGAG 58.567 36.000 16.24 4.82 45.27 5.03
3383 3494 5.851720 TGCTTTCCTTTTACAATGATTGCA 58.148 33.333 4.84 0.00 0.00 4.08
3384 3495 6.783892 TTGCTTTCCTTTTACAATGATTGC 57.216 33.333 4.84 0.00 0.00 3.56
3397 3508 1.318576 CGACCCTGTTTGCTTTCCTT 58.681 50.000 0.00 0.00 0.00 3.36
3428 3539 3.423154 CCACCCTCGCAACTTCGC 61.423 66.667 0.00 0.00 0.00 4.70
3430 3541 0.250338 AAGACCACCCTCGCAACTTC 60.250 55.000 0.00 0.00 0.00 3.01
3432 3543 1.276622 ATAAGACCACCCTCGCAACT 58.723 50.000 0.00 0.00 0.00 3.16
3434 3545 5.818678 ATTATATAAGACCACCCTCGCAA 57.181 39.130 1.02 0.00 0.00 4.85
3436 3547 8.788325 AAATAATTATATAAGACCACCCTCGC 57.212 34.615 0.00 0.00 0.00 5.03
3439 3550 9.734984 CGGAAAATAATTATATAAGACCACCCT 57.265 33.333 0.00 0.00 0.00 4.34
3440 3551 9.511272 ACGGAAAATAATTATATAAGACCACCC 57.489 33.333 0.00 0.00 0.00 4.61
3453 3564 8.192110 GCCATAGAAAACCACGGAAAATAATTA 58.808 33.333 0.00 0.00 0.00 1.40
3454 3565 7.039270 GCCATAGAAAACCACGGAAAATAATT 58.961 34.615 0.00 0.00 0.00 1.40
3455 3566 6.379988 AGCCATAGAAAACCACGGAAAATAAT 59.620 34.615 0.00 0.00 0.00 1.28
3456 3567 5.712917 AGCCATAGAAAACCACGGAAAATAA 59.287 36.000 0.00 0.00 0.00 1.40
3457 3568 5.258051 AGCCATAGAAAACCACGGAAAATA 58.742 37.500 0.00 0.00 0.00 1.40
3458 3569 4.086457 AGCCATAGAAAACCACGGAAAAT 58.914 39.130 0.00 0.00 0.00 1.82
3459 3570 3.492337 AGCCATAGAAAACCACGGAAAA 58.508 40.909 0.00 0.00 0.00 2.29
3460 3571 3.149005 AGCCATAGAAAACCACGGAAA 57.851 42.857 0.00 0.00 0.00 3.13
3461 3572 2.817258 CAAGCCATAGAAAACCACGGAA 59.183 45.455 0.00 0.00 0.00 4.30
3462 3573 2.432444 CAAGCCATAGAAAACCACGGA 58.568 47.619 0.00 0.00 0.00 4.69
3463 3574 1.135402 GCAAGCCATAGAAAACCACGG 60.135 52.381 0.00 0.00 0.00 4.94
3464 3575 1.539388 TGCAAGCCATAGAAAACCACG 59.461 47.619 0.00 0.00 0.00 4.94
3465 3576 3.514645 CATGCAAGCCATAGAAAACCAC 58.485 45.455 0.00 0.00 31.47 4.16
3466 3577 2.496871 CCATGCAAGCCATAGAAAACCA 59.503 45.455 0.00 0.00 31.47 3.67
3473 3584 3.953612 TCCTTAAACCATGCAAGCCATAG 59.046 43.478 0.00 0.00 31.47 2.23
3560 3677 9.491675 CTTAGTCAATCTGATTATCTGAATGCT 57.508 33.333 10.90 12.46 28.97 3.79
3574 3691 8.571336 ACAAAAAGACCAATCTTAGTCAATCTG 58.429 33.333 0.00 0.00 44.82 2.90
3590 3707 6.581171 AGAGAAATGATGGACAAAAAGACC 57.419 37.500 0.00 0.00 0.00 3.85
3841 3987 9.883142 TGAAAACTTTCTAAAATGTGGACATTT 57.117 25.926 11.22 11.22 45.11 2.32
3861 4007 6.720012 AACACAGTTTGGAAACATGAAAAC 57.280 33.333 0.00 2.51 42.32 2.43
3863 4009 6.718454 CAAACACAGTTTGGAAACATGAAA 57.282 33.333 13.33 0.00 42.32 2.69
3885 4031 3.075882 AGGGAACATGTCTTGGAATTCCA 59.924 43.478 23.63 23.63 45.94 3.53
3888 4034 7.610580 TTAAAAGGGAACATGTCTTGGAATT 57.389 32.000 0.00 0.00 0.00 2.17
3921 4067 9.483916 TGAAAGTACGAATTTTCTTATCAGTGA 57.516 29.630 0.00 0.00 33.66 3.41
3939 4085 7.201661 GGAACCCCAAACAAAATTTGAAAGTAC 60.202 37.037 13.19 0.00 0.00 2.73


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

AutoCloner maintained by Alex Coulton.