Multiple sequence alignment - TraesCS5B01G316500

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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 TraesCS5B01G316500 chr5B 100.000 3032 0 0 1 3032 498889645 498886614 0.000000e+00 5600.0
1 TraesCS5B01G316500 chr5D 95.611 2324 71 11 721 3030 413762391 413760085 0.000000e+00 3698.0
2 TraesCS5B01G316500 chr5D 92.943 666 34 5 1 659 413763071 413762412 0.000000e+00 957.0
3 TraesCS5B01G316500 chr5D 94.845 97 4 1 1 96 413771370 413771274 1.880000e-32 150.0
4 TraesCS5B01G316500 chr5A 94.505 2293 82 11 758 3030 526402269 526400001 0.000000e+00 3496.0
5 TraesCS5B01G316500 chr5A 88.889 99 9 2 1 98 437086006 437085909 1.480000e-23 121.0
6 TraesCS5B01G316500 chr5A 88.660 97 9 2 1 96 437093894 437093799 1.910000e-22 117.0
7 TraesCS5B01G316500 chr5A 80.000 125 21 3 536 659 526402441 526402320 4.160000e-14 89.8
8 TraesCS5B01G316500 chrUn 95.718 397 14 3 2390 2784 479193544 479193149 1.190000e-178 636.0
9 TraesCS5B01G316500 chr7A 90.722 97 8 1 1 96 420110099 420110195 8.820000e-26 128.0
10 TraesCS5B01G316500 chr7A 89.691 97 9 1 1 96 420130273 420130369 4.110000e-24 122.0
11 TraesCS5B01G316500 chr7D 89.796 98 9 1 1 97 511106249 511106152 1.140000e-24 124.0
12 TraesCS5B01G316500 chr1A 88.776 98 10 1 1 97 490805065 490804968 5.310000e-23 119.0
13 TraesCS5B01G316500 chr3A 87.629 97 11 1 1 96 182922457 182922553 8.890000e-21 111.0


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 TraesCS5B01G316500 chr5B 498886614 498889645 3031 True 5600.0 5600 100.0000 1 3032 1 chr5B.!!$R1 3031
1 TraesCS5B01G316500 chr5D 413760085 413763071 2986 True 2327.5 3698 94.2770 1 3030 2 chr5D.!!$R2 3029
2 TraesCS5B01G316500 chr5A 526400001 526402441 2440 True 1792.9 3496 87.2525 536 3030 2 chr5A.!!$R3 2494

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
191 198 0.466124 GGATGTGAGAGGGGTAGCAC 59.534 60.0 0.0 0.0 0.0 4.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2042 2065 0.178903 ACCAGTTCCCCAGTGAGCTA 60.179 55.0 0.0 0.0 0.0 3.32 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
41 42 6.769512 AGTGAGGTTTAGAGAAGTAATTGCA 58.230 36.000 0.00 0.00 0.00 4.08
84 85 8.759782 AGTGAGTGGTTATTGTAGCTTAACTAT 58.240 33.333 0.00 0.00 32.15 2.12
87 88 7.208080 AGTGGTTATTGTAGCTTAACTATCGG 58.792 38.462 0.00 0.00 32.15 4.18
129 136 4.066139 ACATGCAGGGGAAGGGGC 62.066 66.667 2.31 0.00 0.00 5.80
175 182 7.448161 TCATGTTGTGACTCAATTAAAGTGGAT 59.552 33.333 0.00 0.00 38.38 3.41
191 198 0.466124 GGATGTGAGAGGGGTAGCAC 59.534 60.000 0.00 0.00 0.00 4.40
192 199 1.195115 GATGTGAGAGGGGTAGCACA 58.805 55.000 0.00 0.00 44.31 4.57
202 209 1.209747 GGGGTAGCACACTTAGAAGGG 59.790 57.143 0.00 0.00 34.93 3.95
269 276 4.758251 CGACAGCCATGGCCACGA 62.758 66.667 33.14 0.00 43.17 4.35
311 318 3.309436 TTCAGGACGTCCATGGCGG 62.309 63.158 35.00 16.78 38.89 6.13
323 330 3.696518 ATGGCGGGCAGTCTAGGGA 62.697 63.158 10.83 0.00 0.00 4.20
392 399 3.160872 GCTAGAGCTTGGTTGGGAC 57.839 57.895 0.00 0.00 38.21 4.46
413 420 0.801067 GTACGTCGGCTAGCTTGGTG 60.801 60.000 15.72 3.93 0.00 4.17
449 456 2.093500 TCCGAGAACACATGGGAGAATG 60.093 50.000 0.00 0.00 0.00 2.67
487 494 3.189080 TGACGAAACTAACTACTAGCGCA 59.811 43.478 11.47 0.00 0.00 6.09
497 504 3.463944 ACTACTAGCGCACAACTTGTTT 58.536 40.909 11.47 0.00 0.00 2.83
511 518 1.342174 CTTGTTTGAGGCCACTTGCAT 59.658 47.619 5.01 0.00 43.89 3.96
514 521 1.818959 TTTGAGGCCACTTGCATGCC 61.819 55.000 16.68 8.54 45.70 4.40
545 553 2.668632 GAGCGTGGGACCCATTCA 59.331 61.111 18.51 0.00 35.28 2.57
587 595 4.769688 ACTATGTCCATTTCAGCGAATCA 58.230 39.130 0.00 0.00 0.00 2.57
604 612 1.522668 TCACTTGAGCAAACCCATCG 58.477 50.000 0.00 0.00 0.00 3.84
620 628 2.993899 CCATCGAGGGATTACGTTATGC 59.006 50.000 11.55 0.00 0.00 3.14
623 631 2.049228 CGAGGGATTACGTTATGCGAC 58.951 52.381 0.00 0.00 44.77 5.19
624 632 2.401351 GAGGGATTACGTTATGCGACC 58.599 52.381 0.00 0.00 44.77 4.79
625 633 1.134226 GGGATTACGTTATGCGACCG 58.866 55.000 0.00 0.00 44.77 4.79
680 691 9.759473 TTATAAGGTCTTATAGTATTACGGGCT 57.241 33.333 9.53 0.00 38.70 5.19
682 693 5.638133 AGGTCTTATAGTATTACGGGCTGA 58.362 41.667 0.00 0.00 0.00 4.26
684 695 5.105837 GGTCTTATAGTATTACGGGCTGAGG 60.106 48.000 0.00 0.00 0.00 3.86
686 697 3.537795 ATAGTATTACGGGCTGAGGGA 57.462 47.619 0.00 0.00 0.00 4.20
687 698 1.705873 AGTATTACGGGCTGAGGGAG 58.294 55.000 0.00 0.00 0.00 4.30
698 709 3.550437 GCTGAGGGAGCTATCTCAAAA 57.450 47.619 16.26 0.00 45.21 2.44
699 710 3.878778 GCTGAGGGAGCTATCTCAAAAA 58.121 45.455 16.26 0.00 45.21 1.94
700 711 3.625313 GCTGAGGGAGCTATCTCAAAAAC 59.375 47.826 16.26 6.18 45.21 2.43
701 712 4.836825 CTGAGGGAGCTATCTCAAAAACA 58.163 43.478 16.26 0.00 41.13 2.83
702 713 5.241403 TGAGGGAGCTATCTCAAAAACAA 57.759 39.130 14.01 0.00 41.13 2.83
703 714 5.819991 TGAGGGAGCTATCTCAAAAACAAT 58.180 37.500 14.01 0.00 41.13 2.71
704 715 5.882557 TGAGGGAGCTATCTCAAAAACAATC 59.117 40.000 14.01 0.00 41.13 2.67
705 716 5.819991 AGGGAGCTATCTCAAAAACAATCA 58.180 37.500 0.00 0.00 41.13 2.57
706 717 6.248433 AGGGAGCTATCTCAAAAACAATCAA 58.752 36.000 0.00 0.00 41.13 2.57
707 718 6.151817 AGGGAGCTATCTCAAAAACAATCAAC 59.848 38.462 0.00 0.00 41.13 3.18
708 719 6.071952 GGGAGCTATCTCAAAAACAATCAACA 60.072 38.462 0.00 0.00 41.13 3.33
709 720 7.370383 GGAGCTATCTCAAAAACAATCAACAA 58.630 34.615 0.00 0.00 41.13 2.83
710 721 7.327032 GGAGCTATCTCAAAAACAATCAACAAC 59.673 37.037 0.00 0.00 41.13 3.32
711 722 7.945134 AGCTATCTCAAAAACAATCAACAACT 58.055 30.769 0.00 0.00 0.00 3.16
712 723 8.078596 AGCTATCTCAAAAACAATCAACAACTC 58.921 33.333 0.00 0.00 0.00 3.01
713 724 7.862372 GCTATCTCAAAAACAATCAACAACTCA 59.138 33.333 0.00 0.00 0.00 3.41
714 725 9.734620 CTATCTCAAAAACAATCAACAACTCAA 57.265 29.630 0.00 0.00 0.00 3.02
716 727 8.824159 TCTCAAAAACAATCAACAACTCAAAA 57.176 26.923 0.00 0.00 0.00 2.44
717 728 9.265901 TCTCAAAAACAATCAACAACTCAAAAA 57.734 25.926 0.00 0.00 0.00 1.94
750 761 1.291877 GCAGCGACAACGATCAGGTT 61.292 55.000 0.00 0.00 42.66 3.50
801 812 3.341823 AGCTGTTGGACATTTGCTCTAG 58.658 45.455 0.00 0.00 0.00 2.43
970 993 2.863484 ATCCCCCAACCACCAGCA 60.863 61.111 0.00 0.00 0.00 4.41
1245 1268 0.556380 TCCTCCTCTCCTTCTCCCCT 60.556 60.000 0.00 0.00 0.00 4.79
1333 1356 3.785859 GCATCACGGAGGCCCTCA 61.786 66.667 13.90 0.00 32.93 3.86
1428 1451 3.626924 AAGGCGCTCGACCTTGGT 61.627 61.111 7.64 0.00 45.88 3.67
1590 1613 3.222855 CTCTCCCGCTGCGAGGAT 61.223 66.667 25.45 0.00 0.00 3.24
1750 1773 2.765250 GAACAGGAAGGTGCGAGCGA 62.765 60.000 0.00 0.00 0.00 4.93
1752 1775 4.070552 AGGAAGGTGCGAGCGACC 62.071 66.667 8.09 8.09 0.00 4.79
1812 1835 1.807573 GAAGGACGCTGCTCCGAAG 60.808 63.158 10.93 0.00 35.20 3.79
2011 2034 3.379452 GAGGAGGAGGATGAGAAGGAAA 58.621 50.000 0.00 0.00 0.00 3.13
2036 2059 5.364014 TGGATACTGGAGTGAATGAGCACT 61.364 45.833 0.00 0.00 44.97 4.40
2037 2060 7.364325 TGGATACTGGAGTGAATGAGCACTG 62.364 48.000 1.26 0.00 43.30 3.66
2066 2089 0.692476 CACTGGGGAACTGGTGATGA 59.308 55.000 0.00 0.00 35.79 2.92
2067 2090 1.283029 CACTGGGGAACTGGTGATGAT 59.717 52.381 0.00 0.00 35.79 2.45
2089 2112 6.306837 TGATTTCGTTTGTTTGTGTTCTGAAC 59.693 34.615 13.49 13.49 0.00 3.18
2105 2128 7.281549 GTGTTCTGAACTGAAACTTTTAGGGTA 59.718 37.037 20.18 0.00 0.00 3.69
2236 2259 9.099454 GTGAGTACCTAATAAAGAGTTGGATTG 57.901 37.037 0.00 0.00 0.00 2.67
2325 2354 6.516527 GCCAAACACCAGAAATTACTTCATGA 60.517 38.462 0.00 0.00 36.40 3.07
2330 2359 6.998074 ACACCAGAAATTACTTCATGACAAGA 59.002 34.615 0.00 0.00 36.40 3.02
2515 2544 1.270550 CTTTGGACACTTGCACATCCC 59.729 52.381 0.00 0.00 0.00 3.85
2539 2569 4.851639 AATATCTCCTTCCAGCAACAGT 57.148 40.909 0.00 0.00 0.00 3.55
2560 2591 4.164221 AGTTGCAGCCTTAGGATTAGCTAA 59.836 41.667 8.99 8.99 33.33 3.09
2565 2596 3.580895 AGCCTTAGGATTAGCTAAGCTCC 59.419 47.826 20.32 17.79 40.44 4.70
2570 2601 2.976185 AGGATTAGCTAAGCTCCCTTCC 59.024 50.000 20.32 15.14 40.44 3.46
2577 2608 2.158885 GCTAAGCTCCCTTCCGATTCTT 60.159 50.000 0.00 0.00 32.47 2.52
2589 2620 3.839778 TCCGATTCTTCCCCAAGTTTTT 58.160 40.909 0.00 0.00 0.00 1.94
2590 2621 3.572255 TCCGATTCTTCCCCAAGTTTTTG 59.428 43.478 0.00 0.00 0.00 2.44
2591 2622 3.317150 CGATTCTTCCCCAAGTTTTTGC 58.683 45.455 0.00 0.00 32.79 3.68
2592 2623 3.005791 CGATTCTTCCCCAAGTTTTTGCT 59.994 43.478 0.00 0.00 32.79 3.91
2593 2624 3.817709 TTCTTCCCCAAGTTTTTGCTG 57.182 42.857 0.00 0.00 32.79 4.41
2594 2625 1.412343 TCTTCCCCAAGTTTTTGCTGC 59.588 47.619 0.00 0.00 32.79 5.25
2699 2730 5.732633 CTCAGACTTCTCATCTGGTCATTT 58.267 41.667 2.37 0.00 43.25 2.32
2700 2731 5.485620 TCAGACTTCTCATCTGGTCATTTG 58.514 41.667 2.37 0.00 43.25 2.32
2715 2746 1.476085 CATTTGTGGCGCCCATTAGAA 59.524 47.619 26.77 12.51 35.28 2.10
2718 2749 1.452108 GTGGCGCCCATTAGAAGCT 60.452 57.895 26.77 0.00 35.28 3.74
2733 2764 3.146066 AGAAGCTGCAAAACATTACCGA 58.854 40.909 1.02 0.00 0.00 4.69
2821 2852 3.444742 TGTGAATATGCTTGCCTCCTTTG 59.555 43.478 0.00 0.00 0.00 2.77
2836 2867 4.884164 CCTCCTTTGACTTGATATGGAACC 59.116 45.833 0.00 0.00 0.00 3.62
2840 2871 5.183140 CCTTTGACTTGATATGGAACCGTTT 59.817 40.000 0.00 0.00 0.00 3.60
2841 2872 5.873179 TTGACTTGATATGGAACCGTTTC 57.127 39.130 0.00 0.00 0.00 2.78
2845 2876 7.335627 TGACTTGATATGGAACCGTTTCTTAT 58.664 34.615 0.00 0.00 31.71 1.73
2903 2935 3.129988 CCCCTTATTTTGCAGCTGAAGAG 59.870 47.826 20.43 1.24 0.00 2.85
2925 2957 3.131046 GGAATGGAAGATCAAACGGCAAT 59.869 43.478 0.00 0.00 0.00 3.56
2931 2963 4.580580 GGAAGATCAAACGGCAATTCCTAT 59.419 41.667 0.00 0.00 33.51 2.57
2982 3018 8.459521 TCTGACCAATATTTTTGCATTAAACG 57.540 30.769 0.00 0.00 0.00 3.60
3001 3038 1.526887 CGTATATGAAGGTTGCTGCGG 59.473 52.381 0.00 0.00 0.00 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 3.094484 ACCTCACTTTGTTCCAAACCA 57.906 42.857 0.00 0.00 0.00 3.67
41 42 3.949754 CTCACTAATGGTGCCATGTCATT 59.050 43.478 4.26 0.00 44.98 2.57
65 66 6.423001 CACCCGATAGTTAAGCTACAATAACC 59.577 42.308 3.01 0.00 33.47 2.85
84 85 1.661480 CGGTCACTGTAACACCCGA 59.339 57.895 0.00 0.00 37.66 5.14
87 88 2.025418 CCGCGGTCACTGTAACACC 61.025 63.158 19.50 0.00 0.00 4.16
129 136 0.543749 AGGAATCAAGCCGAGAAGGG 59.456 55.000 0.00 0.00 41.48 3.95
175 182 0.178932 AGTGTGCTACCCCTCTCACA 60.179 55.000 0.00 0.00 37.14 3.58
191 198 1.212935 CCACCCCATCCCTTCTAAGTG 59.787 57.143 0.00 0.00 0.00 3.16
192 199 1.596496 CCACCCCATCCCTTCTAAGT 58.404 55.000 0.00 0.00 0.00 2.24
202 209 2.784347 GCTATAAGAAGCCACCCCATC 58.216 52.381 0.00 0.00 36.45 3.51
285 292 1.289380 GACGTCCTGAACTTCGCCT 59.711 57.895 3.51 0.00 0.00 5.52
311 318 0.260523 AGACCTCTCCCTAGACTGCC 59.739 60.000 0.00 0.00 0.00 4.85
323 330 1.000771 TGCGTCAGCCTAGACCTCT 60.001 57.895 0.00 0.00 44.33 3.69
376 383 0.834687 ACCGTCCCAACCAAGCTCTA 60.835 55.000 0.00 0.00 0.00 2.43
391 398 2.042831 AAGCTAGCCGACGTACCGT 61.043 57.895 12.13 0.00 45.10 4.83
392 399 1.585521 CAAGCTAGCCGACGTACCG 60.586 63.158 12.13 0.00 0.00 4.02
449 456 0.178301 GTCATCTCGTCCTTTCCCCC 59.822 60.000 0.00 0.00 0.00 5.40
487 494 2.143876 AGTGGCCTCAAACAAGTTGT 57.856 45.000 3.32 1.64 38.47 3.32
497 504 2.677524 GGCATGCAAGTGGCCTCA 60.678 61.111 21.36 0.00 44.32 3.86
587 595 1.611673 CCTCGATGGGTTTGCTCAAGT 60.612 52.381 0.00 0.00 0.00 3.16
604 612 2.401351 GGTCGCATAACGTAATCCCTC 58.599 52.381 0.00 0.00 44.19 4.30
620 628 5.973651 TGACACTATACTAGTAACGGTCG 57.026 43.478 6.70 4.60 37.23 4.79
654 665 9.759473 AGCCCGTAATACTATAAGACCTTATAA 57.241 33.333 9.86 0.00 37.51 0.98
655 666 9.182214 CAGCCCGTAATACTATAAGACCTTATA 57.818 37.037 8.65 8.65 37.07 0.98
656 667 7.892241 TCAGCCCGTAATACTATAAGACCTTAT 59.108 37.037 7.36 7.36 39.02 1.73
657 668 7.233632 TCAGCCCGTAATACTATAAGACCTTA 58.766 38.462 0.00 0.00 0.00 2.69
658 669 6.073314 TCAGCCCGTAATACTATAAGACCTT 58.927 40.000 0.00 0.00 0.00 3.50
659 670 5.638133 TCAGCCCGTAATACTATAAGACCT 58.362 41.667 0.00 0.00 0.00 3.85
660 671 5.105837 CCTCAGCCCGTAATACTATAAGACC 60.106 48.000 0.00 0.00 0.00 3.85
669 680 0.033642 GCTCCCTCAGCCCGTAATAC 59.966 60.000 0.00 0.00 43.17 1.89
679 690 4.836825 TGTTTTTGAGATAGCTCCCTCAG 58.163 43.478 14.96 0.00 40.13 3.35
680 691 4.908601 TGTTTTTGAGATAGCTCCCTCA 57.091 40.909 5.36 12.39 40.55 3.86
682 693 5.819991 TGATTGTTTTTGAGATAGCTCCCT 58.180 37.500 5.36 0.00 40.55 4.20
684 695 6.913170 TGTTGATTGTTTTTGAGATAGCTCC 58.087 36.000 5.36 0.00 40.55 4.70
686 697 7.945134 AGTTGTTGATTGTTTTTGAGATAGCT 58.055 30.769 0.00 0.00 0.00 3.32
687 698 7.862372 TGAGTTGTTGATTGTTTTTGAGATAGC 59.138 33.333 0.00 0.00 0.00 2.97
688 699 9.734620 TTGAGTTGTTGATTGTTTTTGAGATAG 57.265 29.630 0.00 0.00 0.00 2.08
690 701 9.434420 TTTTGAGTTGTTGATTGTTTTTGAGAT 57.566 25.926 0.00 0.00 0.00 2.75
691 702 8.824159 TTTTGAGTTGTTGATTGTTTTTGAGA 57.176 26.923 0.00 0.00 0.00 3.27
715 726 6.446318 TGTCGCTGCTTCATTTATTCTTTTT 58.554 32.000 0.00 0.00 0.00 1.94
716 727 6.012658 TGTCGCTGCTTCATTTATTCTTTT 57.987 33.333 0.00 0.00 0.00 2.27
717 728 5.627499 TGTCGCTGCTTCATTTATTCTTT 57.373 34.783 0.00 0.00 0.00 2.52
718 729 5.393962 GTTGTCGCTGCTTCATTTATTCTT 58.606 37.500 0.00 0.00 0.00 2.52
719 730 4.436050 CGTTGTCGCTGCTTCATTTATTCT 60.436 41.667 0.00 0.00 0.00 2.40
725 736 1.394917 GATCGTTGTCGCTGCTTCATT 59.605 47.619 0.00 0.00 36.96 2.57
736 747 4.715527 ACCTACTAACCTGATCGTTGTC 57.284 45.455 0.00 0.00 0.00 3.18
801 812 0.527817 CGGTCCTTGTGCGATCTACC 60.528 60.000 0.00 0.00 0.00 3.18
1287 1310 1.781555 GTGCTCCATGTCGACAACG 59.218 57.895 24.13 16.34 41.26 4.10
1290 1313 2.261361 CCGTGCTCCATGTCGACA 59.739 61.111 22.48 22.48 0.00 4.35
1590 1613 0.543277 GGCAGATGATGAGGGTGTCA 59.457 55.000 0.00 0.00 40.38 3.58
1713 1736 2.140792 CCCGGGATCCCACAGGTAG 61.141 68.421 30.42 11.91 35.37 3.18
1752 1775 1.761667 CCTCTCAGCCTCCCTCAGG 60.762 68.421 0.00 0.00 46.82 3.86
1812 1835 0.451783 CCAAGTAAGCCGCATTGGTC 59.548 55.000 7.96 0.00 41.21 4.02
2011 2034 4.164796 TGCTCATTCACTCCAGTATCCATT 59.835 41.667 0.00 0.00 0.00 3.16
2038 2061 0.615850 GTTCCCCAGTGAGCTAAGCT 59.384 55.000 0.00 0.00 43.88 3.74
2039 2062 0.615850 AGTTCCCCAGTGAGCTAAGC 59.384 55.000 0.00 0.00 0.00 3.09
2040 2063 1.065854 CCAGTTCCCCAGTGAGCTAAG 60.066 57.143 0.00 0.00 0.00 2.18
2041 2064 0.984230 CCAGTTCCCCAGTGAGCTAA 59.016 55.000 0.00 0.00 0.00 3.09
2042 2065 0.178903 ACCAGTTCCCCAGTGAGCTA 60.179 55.000 0.00 0.00 0.00 3.32
2043 2066 1.462238 ACCAGTTCCCCAGTGAGCT 60.462 57.895 0.00 0.00 0.00 4.09
2044 2067 1.302832 CACCAGTTCCCCAGTGAGC 60.303 63.158 0.00 0.00 31.79 4.26
2045 2068 0.987294 ATCACCAGTTCCCCAGTGAG 59.013 55.000 0.00 0.00 42.13 3.51
2046 2069 0.692476 CATCACCAGTTCCCCAGTGA 59.308 55.000 0.00 0.00 42.95 3.41
2047 2070 0.692476 TCATCACCAGTTCCCCAGTG 59.308 55.000 0.00 0.00 0.00 3.66
2048 2071 1.673767 ATCATCACCAGTTCCCCAGT 58.326 50.000 0.00 0.00 0.00 4.00
2049 2072 2.814805 AATCATCACCAGTTCCCCAG 57.185 50.000 0.00 0.00 0.00 4.45
2066 2089 6.307800 CAGTTCAGAACACAAACAAACGAAAT 59.692 34.615 15.85 0.00 0.00 2.17
2067 2090 5.627367 CAGTTCAGAACACAAACAAACGAAA 59.373 36.000 15.85 0.00 0.00 3.46
2089 2112 9.025041 AGAAAATGGATACCCTAAAAGTTTCAG 57.975 33.333 0.00 0.00 0.00 3.02
2236 2259 2.160417 GGACACAGCAGCATTTCACTAC 59.840 50.000 0.00 0.00 0.00 2.73
2325 2354 4.781934 ACTTACCACTGCTTTTCTCTTGT 58.218 39.130 0.00 0.00 0.00 3.16
2330 2359 5.420739 TGGAAAAACTTACCACTGCTTTTCT 59.579 36.000 0.00 0.00 34.64 2.52
2515 2544 5.416952 ACTGTTGCTGGAAGGAGATATTTTG 59.583 40.000 0.00 0.00 33.89 2.44
2539 2569 4.708177 CTTAGCTAATCCTAAGGCTGCAA 58.292 43.478 6.64 0.00 40.23 4.08
2560 2591 0.833949 GGAAGAATCGGAAGGGAGCT 59.166 55.000 0.00 0.00 0.00 4.09
2565 2596 1.282157 ACTTGGGGAAGAATCGGAAGG 59.718 52.381 0.00 0.00 0.00 3.46
2570 2601 3.005791 AGCAAAAACTTGGGGAAGAATCG 59.994 43.478 0.00 0.00 0.00 3.34
2577 2608 1.039856 GAGCAGCAAAAACTTGGGGA 58.960 50.000 0.00 0.00 0.00 4.81
2589 2620 3.198417 TGGTCATGAGATAAAGAGCAGCA 59.802 43.478 0.00 0.00 34.03 4.41
2590 2621 3.559242 GTGGTCATGAGATAAAGAGCAGC 59.441 47.826 0.00 0.00 38.92 5.25
2591 2622 3.801050 CGTGGTCATGAGATAAAGAGCAG 59.199 47.826 0.00 0.00 38.92 4.24
2592 2623 3.447229 TCGTGGTCATGAGATAAAGAGCA 59.553 43.478 0.00 0.00 36.30 4.26
2593 2624 4.046938 TCGTGGTCATGAGATAAAGAGC 57.953 45.455 0.00 0.00 0.00 4.09
2594 2625 5.836347 TCATCGTGGTCATGAGATAAAGAG 58.164 41.667 0.00 0.00 0.00 2.85
2674 2705 2.495270 GACCAGATGAGAAGTCTGAGCA 59.505 50.000 4.79 0.00 44.57 4.26
2699 2730 1.748879 GCTTCTAATGGGCGCCACA 60.749 57.895 30.85 23.70 35.80 4.17
2700 2731 1.452108 AGCTTCTAATGGGCGCCAC 60.452 57.895 30.85 18.39 35.80 5.01
2715 2746 1.200020 GCTCGGTAATGTTTTGCAGCT 59.800 47.619 0.00 0.00 0.00 4.24
2718 2749 0.109964 GCGCTCGGTAATGTTTTGCA 60.110 50.000 0.00 0.00 0.00 4.08
2758 2789 3.125316 GTCTTAGTGGCAGCACATGTTAC 59.875 47.826 0.00 0.00 0.00 2.50
2813 2844 4.884164 GGTTCCATATCAAGTCAAAGGAGG 59.116 45.833 0.00 0.00 0.00 4.30
2821 2852 7.787725 ATAAGAAACGGTTCCATATCAAGTC 57.212 36.000 10.19 0.00 33.92 3.01
2836 2867 7.112565 GCATCATGCATAACAGAATAAGAAACG 59.887 37.037 4.20 0.00 44.26 3.60
2884 2916 5.633830 TTCCTCTTCAGCTGCAAAATAAG 57.366 39.130 9.47 6.54 0.00 1.73
2887 2919 3.194968 CCATTCCTCTTCAGCTGCAAAAT 59.805 43.478 9.47 0.11 0.00 1.82
2903 2935 2.091541 TGCCGTTTGATCTTCCATTCC 58.908 47.619 0.00 0.00 0.00 3.01
2925 2957 7.256083 GGTTATTACCCGCTTCTCTAATAGGAA 60.256 40.741 0.00 0.00 38.60 3.36
2931 2963 5.364446 TGATGGTTATTACCCGCTTCTCTAA 59.636 40.000 0.00 0.00 44.35 2.10
2982 3018 2.544267 GTCCGCAGCAACCTTCATATAC 59.456 50.000 0.00 0.00 0.00 1.47


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

AutoCloner maintained by Alex Coulton.