Multiple sequence alignment - TraesCS5A01G193400

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS5A01G193400 chr5A 100.000 2831 0 0 1 2831 396690506 396693336 0.000000e+00 5228.0
1 TraesCS5A01G193400 chr3A 95.211 1065 50 1 1768 2831 488195774 488196838 0.000000e+00 1683.0
2 TraesCS5A01G193400 chr4D 94.668 1069 53 4 1765 2831 340995361 340996427 0.000000e+00 1655.0
3 TraesCS5A01G193400 chr6A 94.633 1062 55 2 1772 2831 255463463 255462402 0.000000e+00 1644.0
4 TraesCS5A01G193400 chr6A 94.272 1065 59 2 1768 2831 255392059 255390996 0.000000e+00 1628.0
5 TraesCS5A01G193400 chr5D 94.476 1068 51 8 1767 2831 459424028 459422966 0.000000e+00 1639.0
6 TraesCS5A01G193400 chr5D 94.371 1066 57 3 1768 2831 512486151 512485087 0.000000e+00 1633.0
7 TraesCS5A01G193400 chr5D 84.305 446 45 12 1 434 299415687 299416119 2.030000e-111 412.0
8 TraesCS5A01G193400 chr5D 88.936 235 16 2 458 690 299416106 299416332 5.970000e-72 281.0
9 TraesCS5A01G193400 chr5D 97.619 42 1 0 757 798 549552124 549552083 3.910000e-09 73.1
10 TraesCS5A01G193400 chr2A 94.366 1065 59 1 1768 2831 418779752 418780816 0.000000e+00 1633.0
11 TraesCS5A01G193400 chr3D 94.288 1068 54 6 1768 2831 499852264 499853328 0.000000e+00 1628.0
12 TraesCS5A01G193400 chr7A 94.118 1071 57 5 1766 2831 172369419 172368350 0.000000e+00 1624.0
13 TraesCS5A01G193400 chr2D 95.364 949 44 0 819 1767 155160173 155159225 0.000000e+00 1509.0
14 TraesCS5A01G193400 chr2D 81.178 951 163 14 822 1767 71256096 71255157 0.000000e+00 750.0
15 TraesCS5A01G193400 chr1A 82.080 798 138 5 972 1767 341019137 341019931 0.000000e+00 676.0
16 TraesCS5A01G193400 chr5B 84.211 266 18 12 1 255 340635863 340636115 1.310000e-58 237.0
17 TraesCS5A01G193400 chr5B 95.238 42 2 0 757 798 701055364 701055323 1.820000e-07 67.6


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 TraesCS5A01G193400 chr5A 396690506 396693336 2830 False 5228.0 5228 100.0000 1 2831 1 chr5A.!!$F1 2830
1 TraesCS5A01G193400 chr3A 488195774 488196838 1064 False 1683.0 1683 95.2110 1768 2831 1 chr3A.!!$F1 1063
2 TraesCS5A01G193400 chr4D 340995361 340996427 1066 False 1655.0 1655 94.6680 1765 2831 1 chr4D.!!$F1 1066
3 TraesCS5A01G193400 chr6A 255462402 255463463 1061 True 1644.0 1644 94.6330 1772 2831 1 chr6A.!!$R2 1059
4 TraesCS5A01G193400 chr6A 255390996 255392059 1063 True 1628.0 1628 94.2720 1768 2831 1 chr6A.!!$R1 1063
5 TraesCS5A01G193400 chr5D 459422966 459424028 1062 True 1639.0 1639 94.4760 1767 2831 1 chr5D.!!$R1 1064
6 TraesCS5A01G193400 chr5D 512485087 512486151 1064 True 1633.0 1633 94.3710 1768 2831 1 chr5D.!!$R2 1063
7 TraesCS5A01G193400 chr5D 299415687 299416332 645 False 346.5 412 86.6205 1 690 2 chr5D.!!$F1 689
8 TraesCS5A01G193400 chr2A 418779752 418780816 1064 False 1633.0 1633 94.3660 1768 2831 1 chr2A.!!$F1 1063
9 TraesCS5A01G193400 chr3D 499852264 499853328 1064 False 1628.0 1628 94.2880 1768 2831 1 chr3D.!!$F1 1063
10 TraesCS5A01G193400 chr7A 172368350 172369419 1069 True 1624.0 1624 94.1180 1766 2831 1 chr7A.!!$R1 1065
11 TraesCS5A01G193400 chr2D 155159225 155160173 948 True 1509.0 1509 95.3640 819 1767 1 chr2D.!!$R2 948
12 TraesCS5A01G193400 chr2D 71255157 71256096 939 True 750.0 750 81.1780 822 1767 1 chr2D.!!$R1 945
13 TraesCS5A01G193400 chr1A 341019137 341019931 794 False 676.0 676 82.0800 972 1767 1 chr1A.!!$F1 795

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
421 443 0.031857 CACTTTGCATGCCAACGGAA 59.968 50.0 16.68 0.0 31.97 4.30 F
424 446 0.033228 TTTGCATGCCAACGGAAAGG 59.967 50.0 16.68 0.0 31.97 3.11 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1335 1360 0.533755 CAATCAGGAGGCCGTGATCC 60.534 60.0 15.96 9.37 44.4 3.36 R
1959 1989 0.942410 GCCGAACGTGTGCAGAACTA 60.942 55.0 0.00 0.00 0.0 2.24 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 2.156051 GAACTTCTCCGCCGGTGAGT 62.156 60.000 18.79 9.10 0.00 3.41
44 45 2.125773 AGGCTTGAGATTTCTGCCTG 57.874 50.000 17.74 0.00 45.36 4.85
45 46 1.632409 AGGCTTGAGATTTCTGCCTGA 59.368 47.619 17.74 0.00 45.36 3.86
67 69 3.195661 CGGCTAATGGGTTAAGAGTCAC 58.804 50.000 0.00 0.00 0.00 3.67
68 70 3.369052 CGGCTAATGGGTTAAGAGTCACA 60.369 47.826 0.00 0.00 0.00 3.58
70 72 4.576463 GGCTAATGGGTTAAGAGTCACATG 59.424 45.833 0.00 0.00 0.00 3.21
195 207 1.016130 CGCGCTCTGACAAGTCCAAT 61.016 55.000 5.56 0.00 0.00 3.16
225 237 1.584175 TTTTTGCCTACGAGTTCGCA 58.416 45.000 0.73 0.00 44.43 5.10
236 248 1.627550 GAGTTCGCAACGGAAGCCTC 61.628 60.000 0.00 0.00 36.23 4.70
251 263 0.599204 GCCTCGGAGACACAAACGAA 60.599 55.000 6.58 0.00 34.70 3.85
278 290 1.403687 GGGAGTCTGGCGGCTAATCT 61.404 60.000 11.43 3.36 0.00 2.40
298 320 9.781633 CTAATCTAGCTACTCCTAGTTGTTCTA 57.218 37.037 0.00 0.00 36.89 2.10
299 321 8.454570 AATCTAGCTACTCCTAGTTGTTCTAC 57.545 38.462 0.00 0.00 36.89 2.59
302 324 8.108364 TCTAGCTACTCCTAGTTGTTCTACTTT 58.892 37.037 0.00 0.00 36.89 2.66
325 347 2.668144 TTTGGTACACCCCTTGAAGG 57.332 50.000 3.69 3.69 39.29 3.46
326 348 0.111639 TTGGTACACCCCTTGAAGGC 59.888 55.000 5.50 0.00 39.29 4.35
327 349 1.063070 TGGTACACCCCTTGAAGGCA 61.063 55.000 5.50 0.00 32.73 4.75
328 350 0.331616 GGTACACCCCTTGAAGGCAT 59.668 55.000 5.50 0.00 32.73 4.40
329 351 1.272480 GGTACACCCCTTGAAGGCATT 60.272 52.381 5.50 0.00 32.73 3.56
330 352 2.525368 GTACACCCCTTGAAGGCATTT 58.475 47.619 5.50 0.00 32.73 2.32
331 353 1.341080 ACACCCCTTGAAGGCATTTG 58.659 50.000 5.50 2.11 32.73 2.32
332 354 1.341080 CACCCCTTGAAGGCATTTGT 58.659 50.000 5.50 0.00 32.73 2.83
333 355 1.693606 CACCCCTTGAAGGCATTTGTT 59.306 47.619 5.50 0.00 32.73 2.83
334 356 1.970640 ACCCCTTGAAGGCATTTGTTC 59.029 47.619 5.50 0.00 32.73 3.18
335 357 1.969923 CCCCTTGAAGGCATTTGTTCA 59.030 47.619 5.50 0.00 32.73 3.18
336 358 2.568509 CCCCTTGAAGGCATTTGTTCAT 59.431 45.455 5.50 0.00 32.79 2.57
337 359 3.008266 CCCCTTGAAGGCATTTGTTCATT 59.992 43.478 5.50 0.00 32.79 2.57
338 360 4.248058 CCCTTGAAGGCATTTGTTCATTC 58.752 43.478 5.50 0.00 32.79 2.67
339 361 4.262549 CCCTTGAAGGCATTTGTTCATTCA 60.263 41.667 5.50 0.00 32.79 2.57
340 362 4.927425 CCTTGAAGGCATTTGTTCATTCAG 59.073 41.667 0.00 0.00 32.79 3.02
341 363 3.916761 TGAAGGCATTTGTTCATTCAGC 58.083 40.909 0.00 0.00 0.00 4.26
342 364 3.321396 TGAAGGCATTTGTTCATTCAGCA 59.679 39.130 0.00 0.00 0.00 4.41
343 365 4.202233 TGAAGGCATTTGTTCATTCAGCAA 60.202 37.500 0.00 0.00 0.00 3.91
344 366 3.921677 AGGCATTTGTTCATTCAGCAAG 58.078 40.909 0.00 0.00 0.00 4.01
388 410 2.611722 GGCGCTCTAGAATTCAGGGATC 60.612 54.545 7.64 0.00 0.00 3.36
396 418 7.384524 TCTAGAATTCAGGGATCACATCAAT 57.615 36.000 8.44 0.00 0.00 2.57
401 423 5.648178 TTCAGGGATCACATCAATTGTTG 57.352 39.130 13.75 13.75 36.00 3.33
419 441 2.023223 GCACTTTGCATGCCAACGG 61.023 57.895 16.68 2.08 44.26 4.44
420 442 1.659233 CACTTTGCATGCCAACGGA 59.341 52.632 16.68 0.00 31.97 4.69
421 443 0.031857 CACTTTGCATGCCAACGGAA 59.968 50.000 16.68 0.00 31.97 4.30
422 444 0.749649 ACTTTGCATGCCAACGGAAA 59.250 45.000 16.68 6.84 31.97 3.13
423 445 1.269726 ACTTTGCATGCCAACGGAAAG 60.270 47.619 16.68 18.13 43.71 2.62
424 446 0.033228 TTTGCATGCCAACGGAAAGG 59.967 50.000 16.68 0.00 31.97 3.11
425 447 0.825425 TTGCATGCCAACGGAAAGGA 60.825 50.000 16.68 0.00 0.00 3.36
426 448 1.212751 GCATGCCAACGGAAAGGAC 59.787 57.895 6.36 0.00 0.00 3.85
427 449 1.523154 GCATGCCAACGGAAAGGACA 61.523 55.000 6.36 0.00 0.00 4.02
428 450 1.176527 CATGCCAACGGAAAGGACAT 58.823 50.000 0.00 0.00 0.00 3.06
429 451 1.135315 CATGCCAACGGAAAGGACATG 60.135 52.381 0.00 0.00 35.08 3.21
430 452 0.179004 TGCCAACGGAAAGGACATGT 60.179 50.000 0.00 0.00 0.00 3.21
431 453 0.958822 GCCAACGGAAAGGACATGTT 59.041 50.000 0.00 0.00 0.00 2.71
432 454 1.339929 GCCAACGGAAAGGACATGTTT 59.660 47.619 0.00 0.00 0.00 2.83
433 455 2.223947 GCCAACGGAAAGGACATGTTTT 60.224 45.455 0.00 0.00 0.00 2.43
434 456 3.739830 GCCAACGGAAAGGACATGTTTTT 60.740 43.478 0.00 4.33 0.00 1.94
435 457 4.048504 CCAACGGAAAGGACATGTTTTTC 58.951 43.478 20.19 20.19 0.00 2.29
436 458 4.048504 CAACGGAAAGGACATGTTTTTCC 58.951 43.478 28.66 28.66 44.01 3.13
437 459 3.562182 ACGGAAAGGACATGTTTTTCCT 58.438 40.909 31.66 23.14 44.83 3.36
447 469 8.862325 AGGACATGTTTTTCCTTTTTCTTTTT 57.138 26.923 0.00 0.00 39.36 1.94
474 496 5.635700 GCGAATAAAAGGGCATGTTTTGTTA 59.364 36.000 0.00 0.00 30.94 2.41
490 512 6.207810 TGTTTTGTTAAAGTATCGGCCATCTT 59.792 34.615 2.24 0.00 0.00 2.40
499 523 5.804639 AGTATCGGCCATCTTATTTGCATA 58.195 37.500 2.24 0.00 0.00 3.14
509 533 7.080099 CCATCTTATTTGCATATCTTCCGTTG 58.920 38.462 0.00 0.00 0.00 4.10
536 560 4.739793 TCATCTCAAACCCCTGAAAATGT 58.260 39.130 0.00 0.00 0.00 2.71
541 565 4.144297 TCAAACCCCTGAAAATGTGAGAG 58.856 43.478 0.00 0.00 0.00 3.20
552 576 1.114627 ATGTGAGAGATAGGCGTGCA 58.885 50.000 0.00 0.00 0.00 4.57
565 589 2.131183 GGCGTGCATCTCTCTGATTAC 58.869 52.381 0.00 0.00 32.05 1.89
586 610 2.517609 GACCCCTAGTCGGCAGATT 58.482 57.895 0.00 0.00 35.30 2.40
646 670 7.278135 CAACCAGATTCTATCTTGATCCTTGA 58.722 38.462 0.00 0.00 37.58 3.02
647 671 7.630005 ACCAGATTCTATCTTGATCCTTGAT 57.370 36.000 0.00 0.00 37.58 2.57
648 672 8.043429 ACCAGATTCTATCTTGATCCTTGATT 57.957 34.615 0.00 0.00 37.58 2.57
649 673 8.156165 ACCAGATTCTATCTTGATCCTTGATTC 58.844 37.037 0.00 0.00 37.58 2.52
650 674 7.607223 CCAGATTCTATCTTGATCCTTGATTCC 59.393 40.741 0.00 0.00 37.58 3.01
651 675 8.377034 CAGATTCTATCTTGATCCTTGATTCCT 58.623 37.037 0.00 0.00 37.58 3.36
652 676 8.596293 AGATTCTATCTTGATCCTTGATTCCTC 58.404 37.037 0.00 0.00 35.76 3.71
653 677 6.338214 TCTATCTTGATCCTTGATTCCTCG 57.662 41.667 0.00 0.00 0.00 4.63
672 696 1.337823 CGTCCATCCTTTCTCAACCGT 60.338 52.381 0.00 0.00 0.00 4.83
673 697 2.347731 GTCCATCCTTTCTCAACCGTC 58.652 52.381 0.00 0.00 0.00 4.79
683 707 5.008217 CCTTTCTCAACCGTCAACAACATAA 59.992 40.000 0.00 0.00 0.00 1.90
690 714 3.078097 CCGTCAACAACATAACATCCCA 58.922 45.455 0.00 0.00 0.00 4.37
691 715 3.694072 CCGTCAACAACATAACATCCCAT 59.306 43.478 0.00 0.00 0.00 4.00
692 716 4.201910 CCGTCAACAACATAACATCCCATC 60.202 45.833 0.00 0.00 0.00 3.51
693 717 4.201910 CGTCAACAACATAACATCCCATCC 60.202 45.833 0.00 0.00 0.00 3.51
694 718 4.097892 GTCAACAACATAACATCCCATCCC 59.902 45.833 0.00 0.00 0.00 3.85
695 719 4.017591 TCAACAACATAACATCCCATCCCT 60.018 41.667 0.00 0.00 0.00 4.20
696 720 5.192722 TCAACAACATAACATCCCATCCCTA 59.807 40.000 0.00 0.00 0.00 3.53
697 721 5.725551 ACAACATAACATCCCATCCCTAA 57.274 39.130 0.00 0.00 0.00 2.69
698 722 6.086011 ACAACATAACATCCCATCCCTAAA 57.914 37.500 0.00 0.00 0.00 1.85
699 723 5.891551 ACAACATAACATCCCATCCCTAAAC 59.108 40.000 0.00 0.00 0.00 2.01
700 724 5.725551 ACATAACATCCCATCCCTAAACA 57.274 39.130 0.00 0.00 0.00 2.83
701 725 6.086011 ACATAACATCCCATCCCTAAACAA 57.914 37.500 0.00 0.00 0.00 2.83
702 726 5.891551 ACATAACATCCCATCCCTAAACAAC 59.108 40.000 0.00 0.00 0.00 3.32
703 727 4.396357 AACATCCCATCCCTAAACAACA 57.604 40.909 0.00 0.00 0.00 3.33
704 728 4.396357 ACATCCCATCCCTAAACAACAA 57.604 40.909 0.00 0.00 0.00 2.83
705 729 4.086457 ACATCCCATCCCTAAACAACAAC 58.914 43.478 0.00 0.00 0.00 3.32
706 730 3.885976 TCCCATCCCTAAACAACAACA 57.114 42.857 0.00 0.00 0.00 3.33
707 731 4.186077 TCCCATCCCTAAACAACAACAA 57.814 40.909 0.00 0.00 0.00 2.83
708 732 3.892588 TCCCATCCCTAAACAACAACAAC 59.107 43.478 0.00 0.00 0.00 3.32
709 733 3.639094 CCCATCCCTAAACAACAACAACA 59.361 43.478 0.00 0.00 0.00 3.33
710 734 4.100189 CCCATCCCTAAACAACAACAACAA 59.900 41.667 0.00 0.00 0.00 2.83
711 735 5.047188 CCATCCCTAAACAACAACAACAAC 58.953 41.667 0.00 0.00 0.00 3.32
712 736 5.394663 CCATCCCTAAACAACAACAACAACA 60.395 40.000 0.00 0.00 0.00 3.33
713 737 5.723672 TCCCTAAACAACAACAACAACAA 57.276 34.783 0.00 0.00 0.00 2.83
714 738 5.471257 TCCCTAAACAACAACAACAACAAC 58.529 37.500 0.00 0.00 0.00 3.32
715 739 5.010719 TCCCTAAACAACAACAACAACAACA 59.989 36.000 0.00 0.00 0.00 3.33
716 740 5.696724 CCCTAAACAACAACAACAACAACAA 59.303 36.000 0.00 0.00 0.00 2.83
717 741 6.346999 CCCTAAACAACAACAACAACAACAAC 60.347 38.462 0.00 0.00 0.00 3.32
718 742 6.201044 CCTAAACAACAACAACAACAACAACA 59.799 34.615 0.00 0.00 0.00 3.33
719 743 6.610741 AAACAACAACAACAACAACAACAT 57.389 29.167 0.00 0.00 0.00 2.71
720 744 7.715265 AAACAACAACAACAACAACAACATA 57.285 28.000 0.00 0.00 0.00 2.29
721 745 7.715265 AACAACAACAACAACAACAACATAA 57.285 28.000 0.00 0.00 0.00 1.90
722 746 7.111353 ACAACAACAACAACAACAACATAAC 57.889 32.000 0.00 0.00 0.00 1.89
723 747 6.701841 ACAACAACAACAACAACAACATAACA 59.298 30.769 0.00 0.00 0.00 2.41
724 748 7.386299 ACAACAACAACAACAACAACATAACAT 59.614 29.630 0.00 0.00 0.00 2.71
725 749 7.518731 ACAACAACAACAACAACATAACATC 57.481 32.000 0.00 0.00 0.00 3.06
726 750 6.533367 ACAACAACAACAACAACATAACATCC 59.467 34.615 0.00 0.00 0.00 3.51
727 751 5.596845 ACAACAACAACAACATAACATCCC 58.403 37.500 0.00 0.00 0.00 3.85
728 752 5.127845 ACAACAACAACAACATAACATCCCA 59.872 36.000 0.00 0.00 0.00 4.37
729 753 5.452078 ACAACAACAACATAACATCCCAG 57.548 39.130 0.00 0.00 0.00 4.45
730 754 4.236935 CAACAACAACATAACATCCCAGC 58.763 43.478 0.00 0.00 0.00 4.85
731 755 3.495331 ACAACAACATAACATCCCAGCA 58.505 40.909 0.00 0.00 0.00 4.41
732 756 3.507233 ACAACAACATAACATCCCAGCAG 59.493 43.478 0.00 0.00 0.00 4.24
733 757 2.094675 ACAACATAACATCCCAGCAGC 58.905 47.619 0.00 0.00 0.00 5.25
734 758 1.406539 CAACATAACATCCCAGCAGCC 59.593 52.381 0.00 0.00 0.00 4.85
735 759 0.625316 ACATAACATCCCAGCAGCCA 59.375 50.000 0.00 0.00 0.00 4.75
736 760 1.315690 CATAACATCCCAGCAGCCAG 58.684 55.000 0.00 0.00 0.00 4.85
737 761 0.184451 ATAACATCCCAGCAGCCAGG 59.816 55.000 0.00 0.00 0.00 4.45
738 762 1.925285 TAACATCCCAGCAGCCAGGG 61.925 60.000 13.43 13.43 46.90 4.45
749 773 3.294493 GCCAGGGCTTCGCAAACA 61.294 61.111 2.30 0.00 38.26 2.83
750 774 2.855514 GCCAGGGCTTCGCAAACAA 61.856 57.895 2.30 0.00 38.26 2.83
751 775 1.739049 CCAGGGCTTCGCAAACAAA 59.261 52.632 0.00 0.00 0.00 2.83
752 776 0.103937 CCAGGGCTTCGCAAACAAAA 59.896 50.000 0.00 0.00 0.00 2.44
753 777 1.472376 CCAGGGCTTCGCAAACAAAAA 60.472 47.619 0.00 0.00 0.00 1.94
754 778 1.860326 CAGGGCTTCGCAAACAAAAAG 59.140 47.619 0.00 0.00 0.00 2.27
755 779 1.202521 AGGGCTTCGCAAACAAAAAGG 60.203 47.619 0.00 0.00 0.00 3.11
756 780 1.217001 GGCTTCGCAAACAAAAAGGG 58.783 50.000 0.00 0.00 0.00 3.95
757 781 0.581529 GCTTCGCAAACAAAAAGGGC 59.418 50.000 0.00 0.00 0.00 5.19
758 782 1.806247 GCTTCGCAAACAAAAAGGGCT 60.806 47.619 0.00 0.00 0.00 5.19
759 783 2.127251 CTTCGCAAACAAAAAGGGCTC 58.873 47.619 0.00 0.00 0.00 4.70
760 784 1.398692 TCGCAAACAAAAAGGGCTCT 58.601 45.000 0.00 0.00 0.00 4.09
761 785 1.336755 TCGCAAACAAAAAGGGCTCTC 59.663 47.619 0.00 0.00 0.00 3.20
762 786 1.770957 GCAAACAAAAAGGGCTCTCG 58.229 50.000 0.00 0.00 0.00 4.04
763 787 1.067060 GCAAACAAAAAGGGCTCTCGT 59.933 47.619 0.00 0.00 0.00 4.18
764 788 2.481276 GCAAACAAAAAGGGCTCTCGTT 60.481 45.455 0.00 0.00 0.00 3.85
765 789 3.115554 CAAACAAAAAGGGCTCTCGTTG 58.884 45.455 7.49 7.49 0.00 4.10
766 790 2.052782 ACAAAAAGGGCTCTCGTTGT 57.947 45.000 8.66 8.66 0.00 3.32
767 791 3.202829 ACAAAAAGGGCTCTCGTTGTA 57.797 42.857 12.04 0.00 31.92 2.41
768 792 2.876550 ACAAAAAGGGCTCTCGTTGTAC 59.123 45.455 12.04 0.00 31.92 2.90
769 793 3.139077 CAAAAAGGGCTCTCGTTGTACT 58.861 45.455 0.00 0.00 0.00 2.73
770 794 3.487120 AAAAGGGCTCTCGTTGTACTT 57.513 42.857 0.00 0.00 0.00 2.24
771 795 2.745515 AAGGGCTCTCGTTGTACTTC 57.254 50.000 0.00 0.00 0.00 3.01
772 796 1.926108 AGGGCTCTCGTTGTACTTCT 58.074 50.000 0.00 0.00 0.00 2.85
773 797 1.546476 AGGGCTCTCGTTGTACTTCTG 59.454 52.381 0.00 0.00 0.00 3.02
774 798 1.404315 GGGCTCTCGTTGTACTTCTGG 60.404 57.143 0.00 0.00 0.00 3.86
775 799 1.351153 GCTCTCGTTGTACTTCTGGC 58.649 55.000 0.00 0.00 0.00 4.85
776 800 1.336887 GCTCTCGTTGTACTTCTGGCA 60.337 52.381 0.00 0.00 0.00 4.92
777 801 2.866460 GCTCTCGTTGTACTTCTGGCAA 60.866 50.000 0.00 0.00 0.00 4.52
778 802 3.589988 CTCTCGTTGTACTTCTGGCAAT 58.410 45.455 0.00 0.00 0.00 3.56
779 803 3.585862 TCTCGTTGTACTTCTGGCAATC 58.414 45.455 0.00 0.00 0.00 2.67
780 804 3.006430 TCTCGTTGTACTTCTGGCAATCA 59.994 43.478 0.00 0.00 0.00 2.57
781 805 3.734463 TCGTTGTACTTCTGGCAATCAA 58.266 40.909 0.00 0.00 0.00 2.57
782 806 3.496884 TCGTTGTACTTCTGGCAATCAAC 59.503 43.478 0.00 0.00 0.00 3.18
783 807 3.664276 CGTTGTACTTCTGGCAATCAACG 60.664 47.826 16.80 16.80 45.78 4.10
784 808 3.120321 TGTACTTCTGGCAATCAACGT 57.880 42.857 0.00 0.00 0.00 3.99
785 809 3.472652 TGTACTTCTGGCAATCAACGTT 58.527 40.909 0.00 0.00 0.00 3.99
786 810 3.880490 TGTACTTCTGGCAATCAACGTTT 59.120 39.130 0.00 0.00 0.00 3.60
787 811 3.626028 ACTTCTGGCAATCAACGTTTC 57.374 42.857 0.00 0.00 0.00 2.78
788 812 3.214328 ACTTCTGGCAATCAACGTTTCT 58.786 40.909 0.00 0.00 0.00 2.52
789 813 3.632145 ACTTCTGGCAATCAACGTTTCTT 59.368 39.130 0.00 0.00 0.00 2.52
790 814 4.097892 ACTTCTGGCAATCAACGTTTCTTT 59.902 37.500 0.00 0.00 0.00 2.52
791 815 4.223320 TCTGGCAATCAACGTTTCTTTC 57.777 40.909 0.00 0.00 0.00 2.62
792 816 3.004315 TCTGGCAATCAACGTTTCTTTCC 59.996 43.478 0.00 0.00 0.00 3.13
793 817 2.035321 TGGCAATCAACGTTTCTTTCCC 59.965 45.455 0.00 0.00 0.00 3.97
794 818 2.609491 GGCAATCAACGTTTCTTTCCCC 60.609 50.000 0.00 0.00 0.00 4.81
795 819 2.296190 GCAATCAACGTTTCTTTCCCCT 59.704 45.455 0.00 0.00 0.00 4.79
796 820 3.611766 GCAATCAACGTTTCTTTCCCCTC 60.612 47.826 0.00 0.00 0.00 4.30
797 821 3.790089 ATCAACGTTTCTTTCCCCTCT 57.210 42.857 0.00 0.00 0.00 3.69
798 822 2.846193 TCAACGTTTCTTTCCCCTCTG 58.154 47.619 0.00 0.00 0.00 3.35
799 823 1.880027 CAACGTTTCTTTCCCCTCTGG 59.120 52.381 0.00 0.00 0.00 3.86
800 824 1.430992 ACGTTTCTTTCCCCTCTGGA 58.569 50.000 0.00 0.00 43.18 3.86
801 825 1.985895 ACGTTTCTTTCCCCTCTGGAT 59.014 47.619 0.00 0.00 44.66 3.41
802 826 2.290323 ACGTTTCTTTCCCCTCTGGATG 60.290 50.000 0.00 0.00 44.66 3.51
803 827 2.290323 CGTTTCTTTCCCCTCTGGATGT 60.290 50.000 0.00 0.00 44.66 3.06
804 828 3.348119 GTTTCTTTCCCCTCTGGATGTC 58.652 50.000 0.00 0.00 44.66 3.06
805 829 2.649742 TCTTTCCCCTCTGGATGTCT 57.350 50.000 0.00 0.00 44.66 3.41
806 830 2.921221 TCTTTCCCCTCTGGATGTCTT 58.079 47.619 0.00 0.00 44.66 3.01
807 831 4.074799 TCTTTCCCCTCTGGATGTCTTA 57.925 45.455 0.00 0.00 44.66 2.10
808 832 3.775316 TCTTTCCCCTCTGGATGTCTTAC 59.225 47.826 0.00 0.00 44.66 2.34
809 833 3.491766 TTCCCCTCTGGATGTCTTACT 57.508 47.619 0.00 0.00 44.66 2.24
810 834 3.033659 TCCCCTCTGGATGTCTTACTC 57.966 52.381 0.00 0.00 38.61 2.59
811 835 2.043227 CCCCTCTGGATGTCTTACTCC 58.957 57.143 0.00 0.00 35.39 3.85
812 836 2.043227 CCCTCTGGATGTCTTACTCCC 58.957 57.143 0.00 0.00 0.00 4.30
813 837 2.043227 CCTCTGGATGTCTTACTCCCC 58.957 57.143 0.00 0.00 0.00 4.81
814 838 2.359781 CCTCTGGATGTCTTACTCCCCT 60.360 54.545 0.00 0.00 0.00 4.79
815 839 3.117093 CCTCTGGATGTCTTACTCCCCTA 60.117 52.174 0.00 0.00 0.00 3.53
816 840 4.449968 CCTCTGGATGTCTTACTCCCCTAT 60.450 50.000 0.00 0.00 0.00 2.57
817 841 5.151454 CTCTGGATGTCTTACTCCCCTATT 58.849 45.833 0.00 0.00 0.00 1.73
917 941 1.469308 CGGCGAACTTCTCTAGTCAGT 59.531 52.381 0.00 0.00 35.54 3.41
934 958 2.601666 TGCTCGGCTCTGTCTGGT 60.602 61.111 0.00 0.00 0.00 4.00
936 960 2.575993 CTCGGCTCTGTCTGGTGG 59.424 66.667 0.00 0.00 0.00 4.61
942 966 1.528292 GCTCTGTCTGGTGGTCTCGT 61.528 60.000 0.00 0.00 0.00 4.18
948 972 0.535780 TCTGGTGGTCTCGTACGTGT 60.536 55.000 16.05 0.00 0.00 4.49
951 975 1.518056 GGTGGTCTCGTACGTGTGGA 61.518 60.000 16.05 6.99 0.00 4.02
1069 1094 1.544246 TCGAGGATCTTCTGAAACGCA 59.456 47.619 3.09 0.00 0.00 5.24
1086 1111 1.307097 GCATGGATCTGCAGGAAGAC 58.693 55.000 15.13 0.92 41.87 3.01
1140 1165 4.329545 GAGGAACAGGTGGCGGCA 62.330 66.667 7.97 7.97 0.00 5.69
1173 1198 2.380084 TTGCGAAGGTCCACATAGAC 57.620 50.000 0.00 0.00 35.95 2.59
1185 1210 3.054655 TCCACATAGACAAGGGGTTTAGC 60.055 47.826 0.00 0.00 0.00 3.09
1206 1231 0.320247 CATCTGCCCTCTATGCCGAC 60.320 60.000 0.00 0.00 0.00 4.79
1264 1289 1.474077 GGCGCAGGATTGAAGACAATT 59.526 47.619 10.83 0.00 45.30 2.32
1287 1312 2.023223 CACGGTGCAATTTGGCTGC 61.023 57.895 0.00 0.00 40.35 5.25
1335 1360 1.452108 GGGACCATGGCTCTTTCGG 60.452 63.158 13.04 0.00 0.00 4.30
1377 1402 4.260091 GCAGAATACGATGGGTTTACGAAC 60.260 45.833 0.00 0.00 34.96 3.95
1489 1514 1.272092 TGTGCAGGAAGATGGGGAAAG 60.272 52.381 0.00 0.00 0.00 2.62
1500 1525 6.960542 GGAAGATGGGGAAAGTCCTAGATATA 59.039 42.308 0.00 0.00 36.57 0.86
1520 1545 1.358103 ACAGACTACCCTACCAGCAGA 59.642 52.381 0.00 0.00 0.00 4.26
1602 1627 4.517453 CGGTTTGTAGGGATCACAAAGAAA 59.483 41.667 9.43 0.32 44.26 2.52
1611 1636 5.310857 AGGGATCACAAAGAAAGAGGTTACT 59.689 40.000 0.00 0.00 0.00 2.24
1711 1737 1.338890 TGGAACTGGGGAACACGACA 61.339 55.000 0.00 0.00 0.00 4.35
1722 1748 2.611971 GGAACACGACATGACCAAGCTA 60.612 50.000 0.00 0.00 0.00 3.32
1820 1847 0.107557 ACGCACATGCAGGATCATGA 60.108 50.000 12.39 0.00 44.94 3.07
1834 1861 5.358160 CAGGATCATGATGATGCATAGCAAT 59.642 40.000 25.35 3.58 46.03 3.56
1921 1951 3.747529 TGATGTAGTCGTACGTCTTCACA 59.252 43.478 19.61 17.88 43.23 3.58
1959 1989 1.006102 CGAAAGCACGACACCTCCT 60.006 57.895 0.00 0.00 35.09 3.69
2037 2067 3.380637 GGCGAAGTAGTAGATGAGTTCCA 59.619 47.826 0.00 0.00 0.00 3.53
2086 2116 2.612972 GGTGAAGAACAATCTCCGCAGA 60.613 50.000 0.00 0.00 33.77 4.26
2088 2118 2.300152 TGAAGAACAATCTCCGCAGAGT 59.700 45.455 0.00 0.00 41.26 3.24
2320 2351 1.987855 CCAGGGTTCCCAGCGTCTA 60.988 63.158 10.73 0.00 0.00 2.59
2451 2482 1.076995 CCCCTTCCGGTGAATTCCC 60.077 63.158 0.00 3.03 0.00 3.97
2463 2494 0.251073 GAATTCCCGAACCCTTCCGA 59.749 55.000 0.00 0.00 0.00 4.55
2542 2573 3.364062 CTCGTCATGTCCGTGATCTTAC 58.636 50.000 7.27 0.00 0.00 2.34
2806 2839 0.174845 TTGCCCGAGATTCGATCGTT 59.825 50.000 15.94 3.86 43.74 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.446272 CTCACCGGCGGAGAAGTTC 60.446 63.158 35.78 0.00 34.24 3.01
10 11 4.135153 CCTGACTCACCGGCGGAG 62.135 72.222 35.78 26.54 38.36 4.63
23 24 2.119801 GGCAGAAATCTCAAGCCTGA 57.880 50.000 0.00 0.00 40.20 3.86
44 45 3.118884 TGACTCTTAACCCATTAGCCGTC 60.119 47.826 0.00 0.00 0.00 4.79
45 46 2.835764 TGACTCTTAACCCATTAGCCGT 59.164 45.455 0.00 0.00 0.00 5.68
55 56 7.856145 AATCAATCTCATGTGACTCTTAACC 57.144 36.000 0.00 0.00 0.00 2.85
67 69 7.575155 GCCAGTGATCCATTAATCAATCTCATG 60.575 40.741 0.00 0.00 37.41 3.07
68 70 6.433404 GCCAGTGATCCATTAATCAATCTCAT 59.567 38.462 0.00 0.00 37.41 2.90
70 72 5.766670 TGCCAGTGATCCATTAATCAATCTC 59.233 40.000 0.00 5.06 37.41 2.75
177 189 0.723981 GATTGGACTTGTCAGAGCGC 59.276 55.000 0.00 0.00 0.00 5.92
181 193 1.699083 TGCAGGATTGGACTTGTCAGA 59.301 47.619 3.08 0.00 0.00 3.27
208 220 0.863144 GTTGCGAACTCGTAGGCAAA 59.137 50.000 8.59 0.00 45.77 3.68
209 221 1.279527 CGTTGCGAACTCGTAGGCAA 61.280 55.000 0.51 4.28 42.54 4.52
217 229 1.627550 GAGGCTTCCGTTGCGAACTC 61.628 60.000 0.00 0.00 0.00 3.01
223 235 2.815647 CTCCGAGGCTTCCGTTGC 60.816 66.667 0.00 0.00 0.00 4.17
225 237 1.906824 TGTCTCCGAGGCTTCCGTT 60.907 57.895 0.90 0.00 0.00 4.44
236 248 1.554042 CCGGTTCGTTTGTGTCTCCG 61.554 60.000 0.00 0.00 36.85 4.63
260 272 1.271102 CTAGATTAGCCGCCAGACTCC 59.729 57.143 0.00 0.00 0.00 3.85
278 290 8.647256 AAAAGTAGAACAACTAGGAGTAGCTA 57.353 34.615 0.00 0.00 0.00 3.32
308 330 1.063070 TGCCTTCAAGGGGTGTACCA 61.063 55.000 5.33 0.00 42.91 3.25
309 331 0.331616 ATGCCTTCAAGGGGTGTACC 59.668 55.000 5.33 0.00 35.37 3.34
315 337 1.969923 TGAACAAATGCCTTCAAGGGG 59.030 47.619 5.33 0.00 35.37 4.79
324 346 2.414138 GCTTGCTGAATGAACAAATGCC 59.586 45.455 0.00 0.00 0.00 4.40
325 347 2.091588 CGCTTGCTGAATGAACAAATGC 59.908 45.455 0.00 0.00 0.00 3.56
326 348 3.311106 ACGCTTGCTGAATGAACAAATG 58.689 40.909 0.00 0.00 0.00 2.32
327 349 3.648339 ACGCTTGCTGAATGAACAAAT 57.352 38.095 0.00 0.00 0.00 2.32
328 350 3.605922 CGTACGCTTGCTGAATGAACAAA 60.606 43.478 0.52 0.00 0.00 2.83
329 351 2.096466 CGTACGCTTGCTGAATGAACAA 60.096 45.455 0.52 0.00 0.00 2.83
330 352 1.459209 CGTACGCTTGCTGAATGAACA 59.541 47.619 0.52 0.00 0.00 3.18
331 353 1.724623 TCGTACGCTTGCTGAATGAAC 59.275 47.619 11.24 0.00 0.00 3.18
332 354 1.992667 CTCGTACGCTTGCTGAATGAA 59.007 47.619 11.24 0.00 0.00 2.57
333 355 1.067846 ACTCGTACGCTTGCTGAATGA 60.068 47.619 11.24 0.00 0.00 2.57
334 356 1.321743 GACTCGTACGCTTGCTGAATG 59.678 52.381 11.24 0.00 0.00 2.67
335 357 1.630148 GACTCGTACGCTTGCTGAAT 58.370 50.000 11.24 0.00 0.00 2.57
336 358 0.388134 GGACTCGTACGCTTGCTGAA 60.388 55.000 11.24 0.00 0.00 3.02
337 359 1.211969 GGACTCGTACGCTTGCTGA 59.788 57.895 11.24 0.00 0.00 4.26
338 360 2.152699 CGGACTCGTACGCTTGCTG 61.153 63.158 11.24 1.14 0.00 4.41
339 361 2.178521 CGGACTCGTACGCTTGCT 59.821 61.111 11.24 0.00 0.00 3.91
340 362 1.868251 CTCGGACTCGTACGCTTGC 60.868 63.158 11.24 3.83 36.72 4.01
341 363 0.793478 CACTCGGACTCGTACGCTTG 60.793 60.000 11.24 5.81 36.72 4.01
342 364 1.500844 CACTCGGACTCGTACGCTT 59.499 57.895 11.24 0.00 36.72 4.68
343 365 3.036783 GCACTCGGACTCGTACGCT 62.037 63.158 11.24 0.00 36.72 5.07
344 366 2.576317 GCACTCGGACTCGTACGC 60.576 66.667 11.24 0.00 36.72 4.42
374 396 7.348815 ACAATTGATGTGATCCCTGAATTCTA 58.651 34.615 13.59 0.00 41.93 2.10
388 410 4.123276 GCAAAGTGCAACAATTGATGTG 57.877 40.909 13.59 8.19 44.26 3.21
401 423 2.023223 CCGTTGGCATGCAAAGTGC 61.023 57.895 21.36 2.03 45.29 4.40
422 444 8.862325 AAAAAGAAAAAGGAAAAACATGTCCT 57.138 26.923 0.00 0.00 46.62 3.85
445 467 4.636249 ACATGCCCTTTTATTCGCAAAAA 58.364 34.783 0.00 0.00 34.38 1.94
446 468 4.264460 ACATGCCCTTTTATTCGCAAAA 57.736 36.364 0.00 0.00 34.38 2.44
447 469 3.951775 ACATGCCCTTTTATTCGCAAA 57.048 38.095 0.00 0.00 34.38 3.68
448 470 3.951775 AACATGCCCTTTTATTCGCAA 57.048 38.095 0.00 0.00 34.38 4.85
449 471 3.951775 AAACATGCCCTTTTATTCGCA 57.048 38.095 0.00 0.00 35.35 5.10
450 472 3.993736 ACAAAACATGCCCTTTTATTCGC 59.006 39.130 0.00 0.00 0.00 4.70
451 473 7.644986 TTAACAAAACATGCCCTTTTATTCG 57.355 32.000 0.00 0.00 0.00 3.34
452 474 9.051679 ACTTTAACAAAACATGCCCTTTTATTC 57.948 29.630 0.00 0.00 0.00 1.75
453 475 8.972458 ACTTTAACAAAACATGCCCTTTTATT 57.028 26.923 0.00 0.00 0.00 1.40
455 477 9.699703 GATACTTTAACAAAACATGCCCTTTTA 57.300 29.630 0.00 0.00 0.00 1.52
456 478 7.383843 CGATACTTTAACAAAACATGCCCTTTT 59.616 33.333 0.00 0.00 0.00 2.27
461 483 4.561213 GCCGATACTTTAACAAAACATGCC 59.439 41.667 0.00 0.00 0.00 4.40
464 486 5.968528 TGGCCGATACTTTAACAAAACAT 57.031 34.783 0.00 0.00 0.00 2.71
474 496 4.887071 TGCAAATAAGATGGCCGATACTTT 59.113 37.500 0.00 0.00 0.00 2.66
490 512 7.335673 TGAAGTTCAACGGAAGATATGCAAATA 59.664 33.333 2.20 0.00 32.62 1.40
499 523 5.152623 TGAGATGAAGTTCAACGGAAGAT 57.847 39.130 10.14 0.00 32.62 2.40
509 533 4.021102 TCAGGGGTTTGAGATGAAGTTC 57.979 45.455 0.00 0.00 0.00 3.01
536 560 1.611006 GAGATGCACGCCTATCTCTCA 59.389 52.381 13.20 0.00 43.70 3.27
541 565 1.611006 TCAGAGAGATGCACGCCTATC 59.389 52.381 0.00 0.00 0.00 2.08
552 576 3.208692 AGGGGTCCTGTAATCAGAGAGAT 59.791 47.826 0.00 0.00 43.76 2.75
565 589 2.363795 TGCCGACTAGGGGTCCTG 60.364 66.667 0.00 0.00 41.64 3.86
582 606 5.266788 TGATTTGCATGGAGGAAAGAATCT 58.733 37.500 8.07 0.00 41.02 2.40
583 607 5.587388 TGATTTGCATGGAGGAAAGAATC 57.413 39.130 0.00 0.00 41.02 2.52
586 610 3.956199 GGATGATTTGCATGGAGGAAAGA 59.044 43.478 0.00 0.00 41.02 2.52
646 670 3.107601 TGAGAAAGGATGGACGAGGAAT 58.892 45.455 0.00 0.00 0.00 3.01
647 671 2.536066 TGAGAAAGGATGGACGAGGAA 58.464 47.619 0.00 0.00 0.00 3.36
648 672 2.231716 TGAGAAAGGATGGACGAGGA 57.768 50.000 0.00 0.00 0.00 3.71
649 673 2.622436 GTTGAGAAAGGATGGACGAGG 58.378 52.381 0.00 0.00 0.00 4.63
650 674 2.622436 GGTTGAGAAAGGATGGACGAG 58.378 52.381 0.00 0.00 0.00 4.18
651 675 1.067142 CGGTTGAGAAAGGATGGACGA 60.067 52.381 0.00 0.00 0.00 4.20
652 676 1.337823 ACGGTTGAGAAAGGATGGACG 60.338 52.381 0.00 0.00 0.00 4.79
653 677 2.289444 TGACGGTTGAGAAAGGATGGAC 60.289 50.000 0.00 0.00 0.00 4.02
672 696 4.017591 AGGGATGGGATGTTATGTTGTTGA 60.018 41.667 0.00 0.00 0.00 3.18
673 697 4.280819 AGGGATGGGATGTTATGTTGTTG 58.719 43.478 0.00 0.00 0.00 3.33
683 707 4.086457 GTTGTTGTTTAGGGATGGGATGT 58.914 43.478 0.00 0.00 0.00 3.06
690 714 5.923733 TGTTGTTGTTGTTGTTTAGGGAT 57.076 34.783 0.00 0.00 0.00 3.85
691 715 5.010719 TGTTGTTGTTGTTGTTGTTTAGGGA 59.989 36.000 0.00 0.00 0.00 4.20
692 716 5.230942 TGTTGTTGTTGTTGTTGTTTAGGG 58.769 37.500 0.00 0.00 0.00 3.53
693 717 6.201044 TGTTGTTGTTGTTGTTGTTGTTTAGG 59.799 34.615 0.00 0.00 0.00 2.69
694 718 7.166628 TGTTGTTGTTGTTGTTGTTGTTTAG 57.833 32.000 0.00 0.00 0.00 1.85
695 719 7.715265 ATGTTGTTGTTGTTGTTGTTGTTTA 57.285 28.000 0.00 0.00 0.00 2.01
696 720 6.610741 ATGTTGTTGTTGTTGTTGTTGTTT 57.389 29.167 0.00 0.00 0.00 2.83
697 721 7.224753 TGTTATGTTGTTGTTGTTGTTGTTGTT 59.775 29.630 0.00 0.00 0.00 2.83
698 722 6.701841 TGTTATGTTGTTGTTGTTGTTGTTGT 59.298 30.769 0.00 0.00 0.00 3.32
699 723 7.110179 TGTTATGTTGTTGTTGTTGTTGTTG 57.890 32.000 0.00 0.00 0.00 3.33
700 724 7.064016 GGATGTTATGTTGTTGTTGTTGTTGTT 59.936 33.333 0.00 0.00 0.00 2.83
701 725 6.533367 GGATGTTATGTTGTTGTTGTTGTTGT 59.467 34.615 0.00 0.00 0.00 3.32
702 726 6.019156 GGGATGTTATGTTGTTGTTGTTGTTG 60.019 38.462 0.00 0.00 0.00 3.33
703 727 6.045955 GGGATGTTATGTTGTTGTTGTTGTT 58.954 36.000 0.00 0.00 0.00 2.83
704 728 5.127845 TGGGATGTTATGTTGTTGTTGTTGT 59.872 36.000 0.00 0.00 0.00 3.32
705 729 5.595885 TGGGATGTTATGTTGTTGTTGTTG 58.404 37.500 0.00 0.00 0.00 3.33
706 730 5.738783 GCTGGGATGTTATGTTGTTGTTGTT 60.739 40.000 0.00 0.00 0.00 2.83
707 731 4.261994 GCTGGGATGTTATGTTGTTGTTGT 60.262 41.667 0.00 0.00 0.00 3.32
708 732 4.236935 GCTGGGATGTTATGTTGTTGTTG 58.763 43.478 0.00 0.00 0.00 3.33
709 733 3.894427 TGCTGGGATGTTATGTTGTTGTT 59.106 39.130 0.00 0.00 0.00 2.83
710 734 3.495331 TGCTGGGATGTTATGTTGTTGT 58.505 40.909 0.00 0.00 0.00 3.32
711 735 3.674138 GCTGCTGGGATGTTATGTTGTTG 60.674 47.826 0.00 0.00 0.00 3.33
712 736 2.493278 GCTGCTGGGATGTTATGTTGTT 59.507 45.455 0.00 0.00 0.00 2.83
713 737 2.094675 GCTGCTGGGATGTTATGTTGT 58.905 47.619 0.00 0.00 0.00 3.32
714 738 1.406539 GGCTGCTGGGATGTTATGTTG 59.593 52.381 0.00 0.00 0.00 3.33
715 739 1.005805 TGGCTGCTGGGATGTTATGTT 59.994 47.619 0.00 0.00 0.00 2.71
716 740 0.625316 TGGCTGCTGGGATGTTATGT 59.375 50.000 0.00 0.00 0.00 2.29
717 741 1.315690 CTGGCTGCTGGGATGTTATG 58.684 55.000 0.00 0.00 0.00 1.90
718 742 0.184451 CCTGGCTGCTGGGATGTTAT 59.816 55.000 0.00 0.00 0.00 1.89
719 743 1.609239 CCTGGCTGCTGGGATGTTA 59.391 57.895 0.00 0.00 0.00 2.41
720 744 2.357836 CCTGGCTGCTGGGATGTT 59.642 61.111 0.00 0.00 0.00 2.71
721 745 3.736224 CCCTGGCTGCTGGGATGT 61.736 66.667 20.96 0.00 46.15 3.06
739 763 2.127251 GAGCCCTTTTTGTTTGCGAAG 58.873 47.619 0.00 0.00 0.00 3.79
740 764 1.754226 AGAGCCCTTTTTGTTTGCGAA 59.246 42.857 0.00 0.00 0.00 4.70
741 765 1.336755 GAGAGCCCTTTTTGTTTGCGA 59.663 47.619 0.00 0.00 0.00 5.10
742 766 1.770957 GAGAGCCCTTTTTGTTTGCG 58.229 50.000 0.00 0.00 0.00 4.85
743 767 1.067060 ACGAGAGCCCTTTTTGTTTGC 59.933 47.619 0.00 0.00 0.00 3.68
744 768 3.115554 CAACGAGAGCCCTTTTTGTTTG 58.884 45.455 0.00 0.00 0.00 2.93
745 769 2.758423 ACAACGAGAGCCCTTTTTGTTT 59.242 40.909 0.00 0.00 28.87 2.83
746 770 2.375146 ACAACGAGAGCCCTTTTTGTT 58.625 42.857 0.00 0.00 28.87 2.83
747 771 2.052782 ACAACGAGAGCCCTTTTTGT 57.947 45.000 0.00 0.00 0.00 2.83
748 772 3.139077 AGTACAACGAGAGCCCTTTTTG 58.861 45.455 0.00 0.00 0.00 2.44
749 773 3.487120 AGTACAACGAGAGCCCTTTTT 57.513 42.857 0.00 0.00 0.00 1.94
750 774 3.071167 AGAAGTACAACGAGAGCCCTTTT 59.929 43.478 0.00 0.00 0.00 2.27
751 775 2.633481 AGAAGTACAACGAGAGCCCTTT 59.367 45.455 0.00 0.00 0.00 3.11
752 776 2.028930 CAGAAGTACAACGAGAGCCCTT 60.029 50.000 0.00 0.00 0.00 3.95
753 777 1.546476 CAGAAGTACAACGAGAGCCCT 59.454 52.381 0.00 0.00 0.00 5.19
754 778 1.404315 CCAGAAGTACAACGAGAGCCC 60.404 57.143 0.00 0.00 0.00 5.19
755 779 1.997669 CCAGAAGTACAACGAGAGCC 58.002 55.000 0.00 0.00 0.00 4.70
756 780 1.336887 TGCCAGAAGTACAACGAGAGC 60.337 52.381 0.00 0.00 0.00 4.09
757 781 2.724977 TGCCAGAAGTACAACGAGAG 57.275 50.000 0.00 0.00 0.00 3.20
758 782 3.006430 TGATTGCCAGAAGTACAACGAGA 59.994 43.478 0.00 0.00 0.00 4.04
759 783 3.325870 TGATTGCCAGAAGTACAACGAG 58.674 45.455 0.00 0.00 0.00 4.18
760 784 3.394674 TGATTGCCAGAAGTACAACGA 57.605 42.857 0.00 0.00 0.00 3.85
761 785 3.810373 GTTGATTGCCAGAAGTACAACG 58.190 45.455 0.00 0.00 0.00 4.10
762 786 3.250040 ACGTTGATTGCCAGAAGTACAAC 59.750 43.478 0.00 0.00 34.72 3.32
763 787 3.472652 ACGTTGATTGCCAGAAGTACAA 58.527 40.909 0.00 0.00 0.00 2.41
764 788 3.120321 ACGTTGATTGCCAGAAGTACA 57.880 42.857 0.00 0.00 0.00 2.90
765 789 4.213482 AGAAACGTTGATTGCCAGAAGTAC 59.787 41.667 0.00 0.00 0.00 2.73
766 790 4.385825 AGAAACGTTGATTGCCAGAAGTA 58.614 39.130 0.00 0.00 0.00 2.24
767 791 3.214328 AGAAACGTTGATTGCCAGAAGT 58.786 40.909 0.00 0.00 0.00 3.01
768 792 3.904136 AGAAACGTTGATTGCCAGAAG 57.096 42.857 0.00 0.00 0.00 2.85
769 793 4.499019 GGAAAGAAACGTTGATTGCCAGAA 60.499 41.667 14.98 0.00 0.00 3.02
770 794 3.004315 GGAAAGAAACGTTGATTGCCAGA 59.996 43.478 14.98 0.00 0.00 3.86
771 795 3.308530 GGAAAGAAACGTTGATTGCCAG 58.691 45.455 14.98 0.00 0.00 4.85
772 796 2.035321 GGGAAAGAAACGTTGATTGCCA 59.965 45.455 19.45 0.00 32.42 4.92
773 797 2.609491 GGGGAAAGAAACGTTGATTGCC 60.609 50.000 17.57 17.57 0.00 4.52
774 798 2.296190 AGGGGAAAGAAACGTTGATTGC 59.704 45.455 0.00 2.73 0.00 3.56
775 799 3.821033 AGAGGGGAAAGAAACGTTGATTG 59.179 43.478 0.00 0.00 0.00 2.67
776 800 3.821033 CAGAGGGGAAAGAAACGTTGATT 59.179 43.478 0.00 0.00 0.00 2.57
777 801 3.412386 CAGAGGGGAAAGAAACGTTGAT 58.588 45.455 0.00 0.00 0.00 2.57
778 802 2.486548 CCAGAGGGGAAAGAAACGTTGA 60.487 50.000 0.00 0.00 40.01 3.18
779 803 1.880027 CCAGAGGGGAAAGAAACGTTG 59.120 52.381 0.00 0.00 40.01 4.10
780 804 1.772453 TCCAGAGGGGAAAGAAACGTT 59.228 47.619 0.00 0.00 44.80 3.99
781 805 1.430992 TCCAGAGGGGAAAGAAACGT 58.569 50.000 0.00 0.00 44.80 3.99
791 815 2.043227 GGAGTAAGACATCCAGAGGGG 58.957 57.143 0.00 0.00 35.54 4.79
792 816 2.043227 GGGAGTAAGACATCCAGAGGG 58.957 57.143 0.00 0.00 37.33 4.30
793 817 2.043227 GGGGAGTAAGACATCCAGAGG 58.957 57.143 0.00 0.00 37.33 3.69
794 818 3.039252 AGGGGAGTAAGACATCCAGAG 57.961 52.381 0.00 0.00 37.33 3.35
795 819 4.834406 ATAGGGGAGTAAGACATCCAGA 57.166 45.455 0.00 0.00 37.33 3.86
796 820 4.021894 CGAATAGGGGAGTAAGACATCCAG 60.022 50.000 0.00 0.00 37.33 3.86
797 821 3.895656 CGAATAGGGGAGTAAGACATCCA 59.104 47.826 0.00 0.00 37.33 3.41
798 822 3.896272 ACGAATAGGGGAGTAAGACATCC 59.104 47.826 0.00 0.00 34.64 3.51
799 823 5.532664 AACGAATAGGGGAGTAAGACATC 57.467 43.478 0.00 0.00 0.00 3.06
800 824 5.539193 CCTAACGAATAGGGGAGTAAGACAT 59.461 44.000 10.12 0.00 46.55 3.06
801 825 4.891756 CCTAACGAATAGGGGAGTAAGACA 59.108 45.833 10.12 0.00 46.55 3.41
802 826 5.450592 CCTAACGAATAGGGGAGTAAGAC 57.549 47.826 10.12 0.00 46.55 3.01
813 837 4.397103 GGAACCCAAAACCCTAACGAATAG 59.603 45.833 0.00 0.00 0.00 1.73
814 838 4.043184 AGGAACCCAAAACCCTAACGAATA 59.957 41.667 0.00 0.00 0.00 1.75
815 839 3.159472 GGAACCCAAAACCCTAACGAAT 58.841 45.455 0.00 0.00 0.00 3.34
816 840 2.175284 AGGAACCCAAAACCCTAACGAA 59.825 45.455 0.00 0.00 0.00 3.85
817 841 1.776063 AGGAACCCAAAACCCTAACGA 59.224 47.619 0.00 0.00 0.00 3.85
855 879 3.698289 TGGACGGAGATAGTTGACTCTT 58.302 45.455 0.00 0.00 34.11 2.85
861 885 2.933495 TCGTTGGACGGAGATAGTTG 57.067 50.000 0.27 0.00 42.81 3.16
905 929 0.811915 GCCGAGCACTGACTAGAGAA 59.188 55.000 0.00 0.00 0.00 2.87
917 941 2.601666 ACCAGACAGAGCCGAGCA 60.602 61.111 0.00 0.00 0.00 4.26
934 958 1.239296 CCTCCACACGTACGAGACCA 61.239 60.000 24.41 1.47 0.00 4.02
936 960 1.239968 ACCCTCCACACGTACGAGAC 61.240 60.000 24.41 0.00 0.00 3.36
942 966 1.764134 AGAACAAACCCTCCACACGTA 59.236 47.619 0.00 0.00 0.00 3.57
951 975 0.549469 AACGTGGGAGAACAAACCCT 59.451 50.000 0.00 0.00 45.74 4.34
998 1023 1.270199 CCTCTTCCTGAGATGCCATCG 60.270 57.143 0.00 0.00 45.39 3.84
1046 1071 3.619038 GCGTTTCAGAAGATCCTCGATTT 59.381 43.478 0.00 0.00 0.00 2.17
1069 1094 1.489481 TCGTCTTCCTGCAGATCCAT 58.511 50.000 17.39 0.00 0.00 3.41
1185 1210 1.377994 GGCATAGAGGGCAGATGGG 59.622 63.158 0.00 0.00 0.00 4.00
1188 1213 0.760567 TGTCGGCATAGAGGGCAGAT 60.761 55.000 0.00 0.00 37.76 2.90
1194 1219 2.824936 AGATCTCATGTCGGCATAGAGG 59.175 50.000 21.31 4.56 34.27 3.69
1206 1231 3.751518 TGGATTCCATGCAGATCTCATG 58.248 45.455 19.85 19.85 40.60 3.07
1264 1289 1.804372 GCCAAATTGCACCGTGAACAA 60.804 47.619 1.65 0.00 0.00 2.83
1287 1312 1.676006 GCCGTATTCCAATCACCCAAG 59.324 52.381 0.00 0.00 0.00 3.61
1335 1360 0.533755 CAATCAGGAGGCCGTGATCC 60.534 60.000 15.96 9.37 44.40 3.36
1489 1514 7.037730 TGGTAGGGTAGTCTGTATATCTAGGAC 60.038 44.444 0.00 0.00 0.00 3.85
1500 1525 1.358103 TCTGCTGGTAGGGTAGTCTGT 59.642 52.381 0.00 0.00 0.00 3.41
1520 1545 2.687370 GGACAAATTCGCCTGCAAAAT 58.313 42.857 0.00 0.00 0.00 1.82
1602 1627 5.840081 ACCTGGTAATAGTCAGTAACCTCT 58.160 41.667 0.00 0.00 0.00 3.69
1611 1636 5.773091 TCATACTGGACCTGGTAATAGTCA 58.227 41.667 11.82 2.97 31.99 3.41
1711 1737 2.441001 CTCCCCATTCTAGCTTGGTCAT 59.559 50.000 0.00 0.00 0.00 3.06
1722 1748 5.103344 AGCCAATAAGAAATCTCCCCATTCT 60.103 40.000 0.00 0.00 35.00 2.40
1808 1835 2.649531 TGCATCATCATGATCCTGCA 57.350 45.000 26.54 26.54 34.28 4.41
1820 1847 3.561528 CCCCTCTCATTGCTATGCATCAT 60.562 47.826 0.19 0.00 38.76 2.45
1834 1861 1.148027 AGACAACACTCTCCCCTCTCA 59.852 52.381 0.00 0.00 0.00 3.27
1921 1951 2.100916 CGGTACTTGGATCAGTCGGATT 59.899 50.000 0.00 0.00 36.00 3.01
1959 1989 0.942410 GCCGAACGTGTGCAGAACTA 60.942 55.000 0.00 0.00 0.00 2.24
2054 2084 3.738982 TGTTCTTCACCAACATCGTCAT 58.261 40.909 0.00 0.00 0.00 3.06
2086 2116 1.542915 TCGTAGTGCTTAGGCGAAACT 59.457 47.619 0.00 0.00 42.25 2.66
2088 2118 2.728690 TTCGTAGTGCTTAGGCGAAA 57.271 45.000 0.00 0.00 42.25 3.46
2155 2186 5.041191 AGAGACATCAAGAAACACCAAGT 57.959 39.130 0.00 0.00 0.00 3.16
2451 2482 0.034337 TTGGACTTCGGAAGGGTTCG 59.966 55.000 20.97 0.00 0.00 3.95
2463 2494 7.691993 ATATGGGATAGTAGTGTTTGGACTT 57.308 36.000 0.00 0.00 0.00 3.01
2490 2521 7.559590 CAGAATGGTCCGAAGATAAAGATTT 57.440 36.000 0.00 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.