Multiple sequence alignment - TraesCS5A01G293400

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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 TraesCS5A01G293400 chr5A 100.000 2743 0 0 1 2743 503096963 503099705 0.000000e+00 5066.0
1 TraesCS5A01G293400 chr5D 88.038 2558 218 43 200 2687 397996662 397999201 0.000000e+00 2948.0
2 TraesCS5A01G293400 chr5D 85.822 529 68 6 1843 2364 417014701 417015229 3.090000e-154 555.0
3 TraesCS5A01G293400 chr5D 77.356 711 116 28 2031 2713 462070834 462070141 1.990000e-101 379.0
4 TraesCS5A01G293400 chr5D 90.638 235 19 3 1 232 397996419 397996653 2.650000e-80 309.0
5 TraesCS5A01G293400 chr5D 88.889 135 12 3 1833 1965 462070984 462070851 2.190000e-36 163.0
6 TraesCS5A01G293400 chr5B 87.042 2076 210 22 716 2732 477987768 477989843 0.000000e+00 2289.0
7 TraesCS5A01G293400 chr5B 82.012 517 83 8 1859 2368 504295861 504296374 5.430000e-117 431.0
8 TraesCS5A01G293400 chr5B 85.326 184 20 6 1830 2008 556633256 556633437 1.680000e-42 183.0
9 TraesCS5A01G293400 chr2A 82.287 1067 163 16 774 1829 721442662 721443713 0.000000e+00 900.0
10 TraesCS5A01G293400 chr2A 77.404 863 138 36 1835 2666 581380360 581379524 6.920000e-126 460.0
11 TraesCS5A01G293400 chr2A 84.677 248 31 5 2250 2492 681253810 681254055 9.820000e-60 241.0
12 TraesCS5A01G293400 chr2A 86.667 105 11 3 19 122 668033406 668033304 2.230000e-21 113.0
13 TraesCS5A01G293400 chr6A 81.005 816 106 31 1833 2609 9460738 9459933 1.090000e-168 603.0
14 TraesCS5A01G293400 chr1B 80.593 675 101 24 1832 2493 583683591 583682934 6.820000e-136 494.0
15 TraesCS5A01G293400 chr1B 100.000 28 0 0 2715 2742 81199251 81199278 5.000000e-03 52.8
16 TraesCS5A01G293400 chr7D 84.244 476 61 12 2024 2492 296644635 296644167 4.170000e-123 451.0
17 TraesCS5A01G293400 chr4D 88.950 181 16 4 2314 2492 469325890 469325712 1.280000e-53 220.0
18 TraesCS5A01G293400 chr6D 81.890 127 16 6 1 122 394283817 394283941 1.740000e-17 100.0
19 TraesCS5A01G293400 chr3D 78.899 109 15 8 19 122 604630685 604630580 1.760000e-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 TraesCS5A01G293400 chr5A 503096963 503099705 2742 False 5066.0 5066 100.0000 1 2743 1 chr5A.!!$F1 2742
1 TraesCS5A01G293400 chr5D 397996419 397999201 2782 False 1628.5 2948 89.3380 1 2687 2 chr5D.!!$F2 2686
2 TraesCS5A01G293400 chr5D 417014701 417015229 528 False 555.0 555 85.8220 1843 2364 1 chr5D.!!$F1 521
3 TraesCS5A01G293400 chr5D 462070141 462070984 843 True 271.0 379 83.1225 1833 2713 2 chr5D.!!$R1 880
4 TraesCS5A01G293400 chr5B 477987768 477989843 2075 False 2289.0 2289 87.0420 716 2732 1 chr5B.!!$F1 2016
5 TraesCS5A01G293400 chr5B 504295861 504296374 513 False 431.0 431 82.0120 1859 2368 1 chr5B.!!$F2 509
6 TraesCS5A01G293400 chr2A 721442662 721443713 1051 False 900.0 900 82.2870 774 1829 1 chr2A.!!$F2 1055
7 TraesCS5A01G293400 chr2A 581379524 581380360 836 True 460.0 460 77.4040 1835 2666 1 chr2A.!!$R1 831
8 TraesCS5A01G293400 chr6A 9459933 9460738 805 True 603.0 603 81.0050 1833 2609 1 chr6A.!!$R1 776
9 TraesCS5A01G293400 chr1B 583682934 583683591 657 True 494.0 494 80.5930 1832 2493 1 chr1B.!!$R1 661

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
673 721 0.104855 CACTTATAGGCCTGCGAGCA 59.895 55.0 17.99 0.0 0.0 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1796 1880 0.408769 ATATCCTCCCCTCCCCCTCT 60.409 60.0 0.0 0.0 0.0 3.69 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 7.675062 AGATCTAGCCTAATTGGATGTAACTG 58.325 38.462 0.00 0.00 38.35 3.16
31 32 5.132502 CCTAATTGGATGTAACTGGCATGA 58.867 41.667 0.00 0.00 38.35 3.07
32 33 5.771666 CCTAATTGGATGTAACTGGCATGAT 59.228 40.000 0.00 0.00 38.35 2.45
33 34 6.942005 CCTAATTGGATGTAACTGGCATGATA 59.058 38.462 0.00 0.00 38.35 2.15
54 55 1.127567 TGCCTCCCTTGTACACTGCT 61.128 55.000 0.00 0.00 0.00 4.24
68 69 6.765403 TGTACACTGCTTAACCACTAATCTT 58.235 36.000 0.00 0.00 0.00 2.40
390 437 6.365789 ACACGATTAACATTTTCCAAATGCAG 59.634 34.615 8.77 0.00 0.00 4.41
391 438 5.348451 ACGATTAACATTTTCCAAATGCAGC 59.652 36.000 8.77 0.00 0.00 5.25
397 444 6.484818 ACATTTTCCAAATGCAGCATTAAC 57.515 33.333 21.15 0.00 32.43 2.01
408 455 9.532697 CAAATGCAGCATTAACATTTTCTAAAC 57.467 29.630 21.15 0.00 40.94 2.01
593 641 2.047061 CTACTAGGCCAGCCCAATACA 58.953 52.381 5.01 0.00 36.58 2.29
606 654 1.135527 CCAATACATGTTGGCCTGCAG 59.864 52.381 6.78 6.78 41.92 4.41
618 666 2.360350 CTGCAGGCGGACAATGGT 60.360 61.111 5.57 0.00 0.00 3.55
624 672 2.590092 GCGGACAATGGTAGGGCT 59.410 61.111 0.00 0.00 0.00 5.19
669 717 4.049393 GCCACTTATAGGCCTGCG 57.951 61.111 17.99 3.00 46.50 5.18
673 721 0.104855 CACTTATAGGCCTGCGAGCA 59.895 55.000 17.99 0.00 0.00 4.26
680 728 1.451028 GGCCTGCGAGCAATCTTCT 60.451 57.895 0.00 0.00 0.00 2.85
684 732 1.406614 CCTGCGAGCAATCTTCTTCCT 60.407 52.381 0.00 0.00 0.00 3.36
685 733 1.932511 CTGCGAGCAATCTTCTTCCTC 59.067 52.381 0.00 0.00 0.00 3.71
687 735 1.946745 CGAGCAATCTTCTTCCTCCC 58.053 55.000 0.00 0.00 0.00 4.30
690 738 1.630878 AGCAATCTTCTTCCTCCCGTT 59.369 47.619 0.00 0.00 0.00 4.44
691 739 1.740025 GCAATCTTCTTCCTCCCGTTG 59.260 52.381 0.00 0.00 0.00 4.10
692 740 2.876079 GCAATCTTCTTCCTCCCGTTGT 60.876 50.000 0.00 0.00 0.00 3.32
693 741 3.618997 GCAATCTTCTTCCTCCCGTTGTA 60.619 47.826 0.00 0.00 0.00 2.41
694 742 4.770795 CAATCTTCTTCCTCCCGTTGTAT 58.229 43.478 0.00 0.00 0.00 2.29
696 744 3.170717 TCTTCTTCCTCCCGTTGTATGT 58.829 45.455 0.00 0.00 0.00 2.29
698 746 1.475280 TCTTCCTCCCGTTGTATGTCG 59.525 52.381 0.00 0.00 0.00 4.35
699 747 0.108520 TTCCTCCCGTTGTATGTCGC 60.109 55.000 0.00 0.00 0.00 5.19
700 748 1.876714 CCTCCCGTTGTATGTCGCG 60.877 63.158 0.00 0.00 0.00 5.87
701 749 1.138036 CTCCCGTTGTATGTCGCGA 59.862 57.895 3.71 3.71 0.00 5.87
702 750 1.138047 CTCCCGTTGTATGTCGCGAC 61.138 60.000 31.66 31.66 0.00 5.19
703 751 1.153901 CCCGTTGTATGTCGCGACT 60.154 57.895 36.27 24.47 0.00 4.18
705 753 1.186030 CCGTTGTATGTCGCGACTAC 58.814 55.000 36.27 30.97 0.00 2.73
706 754 1.202110 CCGTTGTATGTCGCGACTACT 60.202 52.381 36.27 23.63 0.00 2.57
707 755 2.030823 CCGTTGTATGTCGCGACTACTA 59.969 50.000 36.27 26.57 0.00 1.82
708 756 3.278303 CGTTGTATGTCGCGACTACTAG 58.722 50.000 36.27 23.20 0.00 2.57
709 757 3.615614 GTTGTATGTCGCGACTACTAGG 58.384 50.000 36.27 0.00 0.00 3.02
710 758 3.183793 TGTATGTCGCGACTACTAGGA 57.816 47.619 36.27 17.59 0.00 2.94
711 759 3.534554 TGTATGTCGCGACTACTAGGAA 58.465 45.455 36.27 16.84 0.00 3.36
712 760 3.310774 TGTATGTCGCGACTACTAGGAAC 59.689 47.826 36.27 21.65 0.00 3.62
713 761 2.105006 TGTCGCGACTACTAGGAACT 57.895 50.000 36.27 0.00 46.37 3.01
714 762 1.736126 TGTCGCGACTACTAGGAACTG 59.264 52.381 36.27 0.00 41.52 3.16
718 788 3.693085 TCGCGACTACTAGGAACTGAAAT 59.307 43.478 3.71 0.00 41.52 2.17
799 874 4.715534 TGGTTTAAATCTGGACTGTCCA 57.284 40.909 26.79 26.79 45.98 4.02
914 995 4.864704 TGTTTTCTGCCAAGGTTATTCC 57.135 40.909 0.00 0.00 0.00 3.01
951 1032 9.832445 ATTGATATACATCCGAGTTTAGTGTTT 57.168 29.630 0.00 0.00 0.00 2.83
1045 1127 5.288232 TCAGAAACACAAGAAAATTGTTGCG 59.712 36.000 3.22 0.00 34.42 4.85
1123 1205 2.142357 CTCGTCCAGTGCTTCCGTCA 62.142 60.000 0.00 0.00 0.00 4.35
1134 1216 2.560981 TGCTTCCGTCATAGAAGACACA 59.439 45.455 4.75 0.00 42.80 3.72
1149 1231 2.124983 ACATGCAGGCGCTTCGAT 60.125 55.556 7.64 0.00 39.64 3.59
1204 1286 1.354031 TCAAGGCCAACAAGGATAGCA 59.646 47.619 5.01 0.00 41.22 3.49
1241 1323 2.117156 GCCTTGCTGTCATCGCCAT 61.117 57.895 0.00 0.00 0.00 4.40
1314 1396 0.991920 AGGCCGAGGAAAAGGATCAA 59.008 50.000 0.00 0.00 0.00 2.57
1317 1399 2.760650 GGCCGAGGAAAAGGATCAAATT 59.239 45.455 0.00 0.00 0.00 1.82
1326 1408 6.842807 AGGAAAAGGATCAAATTATCCAGCAT 59.157 34.615 9.45 0.00 46.81 3.79
1359 1441 6.096987 CCTACTGTGACAATATGTACTCCAGT 59.903 42.308 0.00 0.00 0.00 4.00
1361 1443 5.246203 ACTGTGACAATATGTACTCCAGTGT 59.754 40.000 0.00 0.00 0.00 3.55
1468 1550 4.644234 ACATTCCCAAATATTGCGATGACA 59.356 37.500 0.00 0.00 0.00 3.58
1581 1663 2.159226 GCTGACCATGTAGTTAGCGAGT 60.159 50.000 3.71 0.00 39.24 4.18
1591 1673 1.077089 GTTAGCGAGTTGGCGAGGAC 61.077 60.000 0.00 0.00 38.18 3.85
1603 1685 0.107703 GCGAGGACATGAATGTGGGA 60.108 55.000 0.00 0.00 41.95 4.37
1686 1769 6.458751 CCACAATGTTATCACTGAACTATGCC 60.459 42.308 0.00 0.00 0.00 4.40
1813 1898 2.289979 AGAGGGGGAGGGGAGGAT 60.290 66.667 0.00 0.00 0.00 3.24
1872 1960 3.500654 CGACTAGAGGGGGTGATTAGGAT 60.501 52.174 0.00 0.00 0.00 3.24
1986 2079 9.516314 GAAAATCTTAACAAGTAACAAGTGCTT 57.484 29.630 0.00 0.00 0.00 3.91
2073 2175 4.877823 TCGATGGAGATGAGGATGTTTTTG 59.122 41.667 0.00 0.00 0.00 2.44
2084 2186 3.641436 AGGATGTTTTTGTGAAGTTCCCC 59.359 43.478 0.00 0.00 0.00 4.81
2184 2295 1.340308 CCTCATGCCCTCACACAATGA 60.340 52.381 0.00 0.00 35.45 2.57
2202 2313 5.943416 ACAATGAAAGGTATCGTGAATCCAA 59.057 36.000 0.00 0.00 0.00 3.53
2221 2332 1.562672 ATAGCGGTGCCCTTGAAGGT 61.563 55.000 10.82 0.00 31.93 3.50
2261 2374 0.104409 ACAAGGTTGGGGGTCTCTCT 60.104 55.000 0.00 0.00 0.00 3.10
2290 2403 2.352805 GGAGGCTCCCAACACCAG 59.647 66.667 23.49 0.00 0.00 4.00
2323 2439 3.678056 ATATAGATTTTGGCTCCGCGA 57.322 42.857 8.23 0.00 0.00 5.87
2369 2485 3.127425 AGCACCCAAGAGTAACAAGTC 57.873 47.619 0.00 0.00 0.00 3.01
2463 2581 7.244886 TCATCAAAGTATGAGAGAGTTTGGA 57.755 36.000 0.00 0.00 42.53 3.53
2536 2677 2.603652 GGGCGGAAGAAGAAGGGGT 61.604 63.158 0.00 0.00 0.00 4.95
2616 2781 2.025037 CCATCCAGAAGAAATGTCCCCA 60.025 50.000 0.00 0.00 0.00 4.96
2642 2807 0.261696 AGCACCAAGGGGACAAAGTT 59.738 50.000 0.00 0.00 38.05 2.66
2675 2841 0.996583 AAAGATTAGGGGTCGGGCAA 59.003 50.000 0.00 0.00 0.00 4.52
2687 2853 3.984732 GGGCAAAGCAGAGGGGGT 61.985 66.667 0.00 0.00 0.00 4.95
2692 2858 4.658786 AAGCAGAGGGGGTCGGGT 62.659 66.667 0.00 0.00 31.84 5.28
2721 2887 0.771127 TCCAAGACCCCAAGAACCTG 59.229 55.000 0.00 0.00 0.00 4.00
2725 2891 3.610911 CAAGACCCCAAGAACCTGATAC 58.389 50.000 0.00 0.00 0.00 2.24
2732 2898 3.455910 CCCAAGAACCTGATACATCTCCA 59.544 47.826 0.00 0.00 0.00 3.86
2733 2899 4.080356 CCCAAGAACCTGATACATCTCCAA 60.080 45.833 0.00 0.00 0.00 3.53
2734 2900 4.878397 CCAAGAACCTGATACATCTCCAAC 59.122 45.833 0.00 0.00 0.00 3.77
2735 2901 4.392921 AGAACCTGATACATCTCCAACG 57.607 45.455 0.00 0.00 0.00 4.10
2736 2902 2.604046 ACCTGATACATCTCCAACGC 57.396 50.000 0.00 0.00 0.00 4.84
2737 2903 1.831106 ACCTGATACATCTCCAACGCA 59.169 47.619 0.00 0.00 0.00 5.24
2738 2904 2.435805 ACCTGATACATCTCCAACGCAT 59.564 45.455 0.00 0.00 0.00 4.73
2739 2905 3.062763 CCTGATACATCTCCAACGCATC 58.937 50.000 0.00 0.00 0.00 3.91
2740 2906 3.244009 CCTGATACATCTCCAACGCATCT 60.244 47.826 0.00 0.00 0.00 2.90
2741 2907 4.021981 CCTGATACATCTCCAACGCATCTA 60.022 45.833 0.00 0.00 0.00 1.98
2742 2908 5.509670 CCTGATACATCTCCAACGCATCTAA 60.510 44.000 0.00 0.00 0.00 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 4.165180 TGCCAGTTACATCCAATTAGGCTA 59.835 41.667 0.00 0.00 40.18 3.93
31 32 3.685550 GCAGTGTACAAGGGAGGCATTAT 60.686 47.826 0.00 0.00 0.00 1.28
32 33 2.355716 GCAGTGTACAAGGGAGGCATTA 60.356 50.000 0.00 0.00 0.00 1.90
33 34 1.614317 GCAGTGTACAAGGGAGGCATT 60.614 52.381 0.00 0.00 0.00 3.56
370 417 7.690952 AATGCTGCATTTGGAAAATGTTAAT 57.309 28.000 21.48 0.00 28.76 1.40
544 592 3.000041 TCGCCTGATGACATTGTGTTAC 59.000 45.455 0.00 0.00 0.00 2.50
550 598 0.926155 CGACTCGCCTGATGACATTG 59.074 55.000 0.00 0.00 0.00 2.82
551 599 3.352447 CGACTCGCCTGATGACATT 57.648 52.632 0.00 0.00 0.00 2.71
572 620 2.047830 GTATTGGGCTGGCCTAGTAGT 58.952 52.381 21.72 1.31 36.10 2.73
606 654 2.516225 GCCCTACCATTGTCCGCC 60.516 66.667 0.00 0.00 0.00 6.13
610 658 0.462047 CGGTGAGCCCTACCATTGTC 60.462 60.000 0.00 0.00 38.11 3.18
611 659 1.602237 CGGTGAGCCCTACCATTGT 59.398 57.895 0.00 0.00 38.11 2.71
613 661 2.590092 GCGGTGAGCCCTACCATT 59.410 61.111 0.00 0.00 40.81 3.16
614 662 3.849951 CGCGGTGAGCCCTACCAT 61.850 66.667 0.00 0.00 44.76 3.55
664 712 1.012841 GGAAGAAGATTGCTCGCAGG 58.987 55.000 0.00 0.00 0.00 4.85
667 715 1.294857 GGAGGAAGAAGATTGCTCGC 58.705 55.000 3.53 0.00 37.70 5.03
669 717 1.208293 ACGGGAGGAAGAAGATTGCTC 59.792 52.381 0.97 0.97 36.34 4.26
673 721 4.225267 ACATACAACGGGAGGAAGAAGATT 59.775 41.667 0.00 0.00 0.00 2.40
680 728 0.108520 GCGACATACAACGGGAGGAA 60.109 55.000 0.00 0.00 0.00 3.36
684 732 1.153978 GTCGCGACATACAACGGGA 60.154 57.895 33.09 0.00 45.83 5.14
685 733 0.099259 TAGTCGCGACATACAACGGG 59.901 55.000 37.85 0.00 42.22 5.28
687 735 2.169663 AGTAGTCGCGACATACAACG 57.830 50.000 37.85 0.00 0.00 4.10
690 738 3.183793 TCCTAGTAGTCGCGACATACA 57.816 47.619 37.85 22.75 0.00 2.29
691 739 3.559242 AGTTCCTAGTAGTCGCGACATAC 59.441 47.826 37.85 31.44 0.00 2.39
692 740 3.558829 CAGTTCCTAGTAGTCGCGACATA 59.441 47.826 37.85 25.30 0.00 2.29
693 741 2.355132 CAGTTCCTAGTAGTCGCGACAT 59.645 50.000 37.85 25.53 0.00 3.06
694 742 1.736126 CAGTTCCTAGTAGTCGCGACA 59.264 52.381 37.85 22.36 0.00 4.35
696 744 2.391616 TCAGTTCCTAGTAGTCGCGA 57.608 50.000 3.71 3.71 0.00 5.87
698 746 6.972722 AGATATTTCAGTTCCTAGTAGTCGC 58.027 40.000 0.00 0.00 0.00 5.19
751 821 6.541278 AGAAAATAATGGTAGCGGTTTAGTCC 59.459 38.462 0.00 0.00 0.00 3.85
885 960 2.284754 TGGCAGAAAACATGGCTACA 57.715 45.000 0.00 0.00 43.25 2.74
914 995 6.903479 CGGATGTATATCAATCAATCAATGCG 59.097 38.462 1.63 0.00 34.90 4.73
965 1046 7.661536 ACTGTAGGTGCATGGTATATATAGG 57.338 40.000 0.00 0.00 0.00 2.57
1123 1205 1.945387 CGCCTGCATGTGTCTTCTAT 58.055 50.000 0.00 0.00 0.00 1.98
1134 1216 2.898840 CCATCGAAGCGCCTGCAT 60.899 61.111 2.29 0.00 46.23 3.96
1149 1231 1.314730 TATCGTAGATGTCAGCGCCA 58.685 50.000 2.29 0.00 45.12 5.69
1204 1286 3.857038 ACGCTTGTCCGTGGTGGT 61.857 61.111 0.00 0.00 40.40 4.16
1281 1363 4.329545 GCCTTCAGGGTGGCGACA 62.330 66.667 0.00 0.00 39.71 4.35
1314 1396 2.498167 GCGAGGACATGCTGGATAATT 58.502 47.619 0.00 0.00 0.00 1.40
1317 1399 0.760567 AGGCGAGGACATGCTGGATA 60.761 55.000 0.00 0.00 0.00 2.59
1326 1408 0.538746 TGTCACAGTAGGCGAGGACA 60.539 55.000 0.00 0.00 33.31 4.02
1359 1441 2.666272 TGTCAAATAGGCCCACAACA 57.334 45.000 0.00 0.00 0.00 3.33
1361 1443 2.524306 CCTTGTCAAATAGGCCCACAA 58.476 47.619 0.00 0.00 0.00 3.33
1440 1522 3.381272 CGCAATATTTGGGAATGTCCAGT 59.619 43.478 0.00 0.00 45.47 4.00
1468 1550 2.665603 GCCTGCCTCGAGGAACTT 59.334 61.111 35.69 0.00 41.55 2.66
1497 1579 1.148157 CGCTGTTCTCGGCATCGAAT 61.148 55.000 0.00 0.00 45.47 3.34
1578 1660 1.667724 CATTCATGTCCTCGCCAACTC 59.332 52.381 0.00 0.00 0.00 3.01
1581 1663 1.452110 CACATTCATGTCCTCGCCAA 58.548 50.000 0.00 0.00 39.39 4.52
1591 1673 8.279970 TCTTATTGTAGTTTCCCACATTCATG 57.720 34.615 0.00 0.00 0.00 3.07
1686 1769 6.932356 AAGAAATATGTGCCAGTATGTCTG 57.068 37.500 0.00 0.00 43.27 3.51
1739 1823 9.967451 TGGATATTCCAGTCACTATTGTTTTTA 57.033 29.630 0.00 0.00 42.67 1.52
1755 1839 1.136828 CGGAAGGGGTGGATATTCCA 58.863 55.000 3.93 0.00 45.98 3.53
1784 1868 1.333636 CCCCCTCTGTTCATCGCTCT 61.334 60.000 0.00 0.00 0.00 4.09
1793 1877 2.456840 CTCCCCTCCCCCTCTGTT 59.543 66.667 0.00 0.00 0.00 3.16
1794 1878 3.700350 CCTCCCCTCCCCCTCTGT 61.700 72.222 0.00 0.00 0.00 3.41
1796 1880 0.408769 ATATCCTCCCCTCCCCCTCT 60.409 60.000 0.00 0.00 0.00 3.69
1813 1898 4.027674 TCAGCTGCCAACAAGGTTAATA 57.972 40.909 9.47 0.00 40.61 0.98
1986 2079 9.502091 AGTTATTATCTTGTGTTTACTCTTGCA 57.498 29.630 0.00 0.00 0.00 4.08
2029 2130 2.172851 TCCACTTGCGGTTATTTCGT 57.827 45.000 0.00 0.00 0.00 3.85
2184 2295 4.750098 CGCTATTGGATTCACGATACCTTT 59.250 41.667 0.00 0.00 0.00 3.11
2221 2332 1.129917 TGTAAAGGTCCCGGTTGTCA 58.870 50.000 0.00 0.00 0.00 3.58
2261 2374 2.570302 GGGAGCCTCCAGTTAAGTTGTA 59.430 50.000 13.90 0.00 38.64 2.41
2290 2403 6.634436 CCAAAATCTATATTGAAGCTTCGTGC 59.366 38.462 21.11 0.00 43.29 5.34
2323 2439 3.297736 CACCCTAGACGGAAGAGGTTAT 58.702 50.000 0.00 0.00 33.16 1.89
2369 2485 3.365465 CCTCGGCTTCTACATCTACATCG 60.365 52.174 0.00 0.00 0.00 3.84
2463 2581 1.226311 GGATCTCCTTCCCCAACCAT 58.774 55.000 0.00 0.00 0.00 3.55
2496 2614 4.340950 CCAACCCTAATATGTCCGCAAAAT 59.659 41.667 0.00 0.00 0.00 1.82
2500 2618 1.142060 CCCAACCCTAATATGTCCGCA 59.858 52.381 0.00 0.00 0.00 5.69
2503 2621 1.544759 CCGCCCAACCCTAATATGTCC 60.545 57.143 0.00 0.00 0.00 4.02
2504 2622 1.418637 TCCGCCCAACCCTAATATGTC 59.581 52.381 0.00 0.00 0.00 3.06
2590 2755 3.350833 ACATTTCTTCTGGATGGTCTGC 58.649 45.455 0.00 0.00 0.00 4.26
2657 2822 0.996583 TTTGCCCGACCCCTAATCTT 59.003 50.000 0.00 0.00 0.00 2.40
2675 2841 3.248248 TACCCGACCCCCTCTGCTT 62.248 63.158 0.00 0.00 0.00 3.91
2713 2879 4.759782 CGTTGGAGATGTATCAGGTTCTT 58.240 43.478 0.00 0.00 0.00 2.52
2714 2880 3.430929 GCGTTGGAGATGTATCAGGTTCT 60.431 47.826 0.00 0.00 0.00 3.01
2716 2882 2.236146 TGCGTTGGAGATGTATCAGGTT 59.764 45.455 0.00 0.00 0.00 3.50


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

AutoCloner maintained by Alex Coulton.