Multiple sequence alignment - TraesCS7A01G211200

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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 TraesCS7A01G211200 chr7A 100.000 3706 0 0 1 3706 174202137 174198432 0 6844
1 TraesCS7A01G211200 chr7B 93.208 3725 200 34 1 3704 137791411 137787719 0 5428
2 TraesCS7A01G211200 chr7D 93.474 1992 94 19 1733 3706 171307994 171306021 0 2926
3 TraesCS7A01G211200 chr7D 94.431 1688 70 6 1 1687 171309861 171308197 0 2575


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 TraesCS7A01G211200 chr7A 174198432 174202137 3705 True 6844.0 6844 100.0000 1 3706 1 chr7A.!!$R1 3705
1 TraesCS7A01G211200 chr7B 137787719 137791411 3692 True 5428.0 5428 93.2080 1 3704 1 chr7B.!!$R1 3703
2 TraesCS7A01G211200 chr7D 171306021 171309861 3840 True 2750.5 2926 93.9525 1 3706 2 chr7D.!!$R1 3705

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
726 736 1.118838 TGAACCCAAAGCCACCAAAG 58.881 50.0 0.0 0.0 0.0 2.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2720 2902 0.385974 CAAAGGAGAAGGCGCAAACG 60.386 55.0 10.83 0.0 44.07 3.6 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
459 466 5.465390 TCTGAGTTAACACGTTCCAAATCAG 59.535 40.000 17.53 17.53 41.83 2.90
492 499 5.512942 TCATGGGAAGGTGATCTAACAAA 57.487 39.130 0.00 0.00 0.00 2.83
513 520 3.837355 AGGAACATGAGGTTTTTCAGCT 58.163 40.909 0.00 0.00 40.63 4.24
726 736 1.118838 TGAACCCAAAGCCACCAAAG 58.881 50.000 0.00 0.00 0.00 2.77
767 785 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
768 786 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
769 787 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
770 788 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
771 789 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
772 790 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
864 882 3.030291 ACAGAGTTAGCTCATCTCCCTG 58.970 50.000 9.43 0.00 44.00 4.45
1095 1113 0.482446 TGGCACAGGACCCTTCAAAT 59.518 50.000 0.00 0.00 0.00 2.32
1152 1170 4.408821 GAGCATGTGGTCCGGGCA 62.409 66.667 9.07 0.00 36.62 5.36
1164 1182 2.362369 CCGGGCAGAGATGGAGTGT 61.362 63.158 0.00 0.00 0.00 3.55
1238 1256 0.307760 GACTGTTTCGTGCAGGTTGG 59.692 55.000 6.26 0.00 38.22 3.77
1241 1259 1.008538 GTTTCGTGCAGGTTGGCTG 60.009 57.895 6.26 0.00 34.04 4.85
1264 1282 2.481795 CCAAACACTCTTTTGGCCACAG 60.482 50.000 3.88 4.52 46.92 3.66
1276 1294 1.292223 GCCACAGACGCTAACCTGA 59.708 57.895 0.00 0.00 34.65 3.86
1294 1312 4.471386 ACCTGAATGCTTATACTGTGGAGT 59.529 41.667 0.00 0.00 36.07 3.85
1295 1313 4.813161 CCTGAATGCTTATACTGTGGAGTG 59.187 45.833 0.00 0.00 33.21 3.51
1299 1317 6.099701 TGAATGCTTATACTGTGGAGTGGTAT 59.900 38.462 0.00 0.00 33.21 2.73
1374 1392 2.607892 GGTGCTGCTTGACGACACC 61.608 63.158 0.00 0.00 43.57 4.16
1398 1416 1.833630 ACCATGATCGGAGAGAAGCAA 59.166 47.619 0.00 0.00 43.63 3.91
1544 1562 6.203647 ACGCAGTTGTCTTGGTAAAATAAAC 58.796 36.000 0.00 0.00 37.78 2.01
1546 1564 6.508777 GCAGTTGTCTTGGTAAAATAAACCA 58.491 36.000 0.00 0.00 45.26 3.67
1577 1595 8.509690 CAATGTTCAGAGTATTGATTCTTGTGT 58.490 33.333 3.69 0.00 34.55 3.72
1606 1624 5.584253 TTAGTTACTTTTGCTTGCACCAA 57.416 34.783 0.00 0.00 0.00 3.67
1614 1632 5.697633 ACTTTTGCTTGCACCAATTTCATAG 59.302 36.000 0.00 0.00 0.00 2.23
1640 1658 4.021104 GGCTTGCCTTTTGAGGAATAAGTT 60.021 41.667 4.11 0.00 0.00 2.66
1664 1682 5.601662 AGTATACCATCAGAAATCCACACG 58.398 41.667 0.00 0.00 0.00 4.49
1666 1684 3.973206 ACCATCAGAAATCCACACGTA 57.027 42.857 0.00 0.00 0.00 3.57
1712 1750 4.398988 CCATTTGGATGCTGTTTAGCTACA 59.601 41.667 0.00 0.00 43.69 2.74
1714 1752 6.406177 CCATTTGGATGCTGTTTAGCTACAAT 60.406 38.462 0.00 0.00 43.69 2.71
1725 1763 8.624776 GCTGTTTAGCTACAATTCCATATCTTT 58.375 33.333 0.00 0.00 46.57 2.52
1730 1768 9.905713 TTAGCTACAATTCCATATCTTTTGAGT 57.094 29.630 0.00 0.00 0.00 3.41
1801 1976 9.574516 AACAAAAGACTACAAACTCCATATCTT 57.425 29.630 0.00 0.00 0.00 2.40
1815 1990 3.459598 CCATATCTTTCTGACAAGGGGGA 59.540 47.826 0.00 0.00 0.00 4.81
1816 1991 4.079787 CCATATCTTTCTGACAAGGGGGAA 60.080 45.833 0.00 0.00 0.00 3.97
1820 1995 4.814967 TCTTTCTGACAAGGGGGAAAAAT 58.185 39.130 0.00 0.00 0.00 1.82
1831 2008 3.390967 AGGGGGAAAAATTGTTTCAGGTG 59.609 43.478 1.87 0.00 0.00 4.00
2007 2184 3.432326 GCCCTTGTCGGTATGATCTTCTT 60.432 47.826 0.00 0.00 0.00 2.52
2021 2198 9.155975 GTATGATCTTCTTTCTTTTGACAGCTA 57.844 33.333 0.00 0.00 0.00 3.32
2022 2199 8.804912 ATGATCTTCTTTCTTTTGACAGCTAT 57.195 30.769 0.00 0.00 0.00 2.97
2154 2334 8.472007 AAGTAGGATCTACAGATACTTCCTTG 57.528 38.462 9.24 0.00 42.96 3.61
2155 2335 7.588169 AGTAGGATCTACAGATACTTCCTTGT 58.412 38.462 9.24 0.00 42.96 3.16
2156 2336 6.969993 AGGATCTACAGATACTTCCTTGTC 57.030 41.667 0.00 0.00 42.96 3.18
2158 2338 7.129425 AGGATCTACAGATACTTCCTTGTCTT 58.871 38.462 0.00 0.00 42.96 3.01
2159 2339 7.069331 AGGATCTACAGATACTTCCTTGTCTTG 59.931 40.741 0.00 0.00 42.96 3.02
2161 2341 8.824756 ATCTACAGATACTTCCTTGTCTTGTA 57.175 34.615 0.00 0.00 32.01 2.41
2162 2342 8.645814 TCTACAGATACTTCCTTGTCTTGTAA 57.354 34.615 0.00 0.00 0.00 2.41
2221 2402 7.555554 CCTGAACCTTCTGAATTCTGATATGTT 59.444 37.037 14.89 16.15 0.00 2.71
2230 2411 5.044179 TGAATTCTGATATGTTTGAGGGGGT 60.044 40.000 7.05 0.00 0.00 4.95
2235 2416 1.072266 TATGTTTGAGGGGGTGCACT 58.928 50.000 17.98 0.00 0.00 4.40
2237 2418 1.603739 GTTTGAGGGGGTGCACTCC 60.604 63.158 28.78 28.78 32.80 3.85
2245 2426 0.618458 GGGGTGCACTCCTGTTATCA 59.382 55.000 29.33 0.00 0.00 2.15
2251 2432 5.455326 GGGTGCACTCCTGTTATCATCTTAT 60.455 44.000 17.98 0.00 0.00 1.73
2253 2434 6.051717 GTGCACTCCTGTTATCATCTTATGT 58.948 40.000 10.32 0.00 0.00 2.29
2260 2441 8.492673 TCCTGTTATCATCTTATGTTGAACAC 57.507 34.615 0.00 0.00 0.00 3.32
2272 2454 8.029522 TCTTATGTTGAACACTGCTTACTAGAG 58.970 37.037 0.00 0.00 0.00 2.43
2315 2497 1.024046 CCCACACGATTGGATTCGCA 61.024 55.000 8.42 0.00 42.82 5.10
2412 2594 0.392729 CCTCAGCAAGCTCAAGGAGG 60.393 60.000 12.53 11.54 36.33 4.30
2421 2603 1.920325 CTCAAGGAGGTCTGCCCCA 60.920 63.158 0.00 0.00 34.57 4.96
2469 2651 3.986054 TGGACAGCCACACTTCCT 58.014 55.556 0.00 0.00 39.92 3.36
2492 2674 2.740447 GACCTTCGACAACGCCTATTTT 59.260 45.455 0.00 0.00 39.58 1.82
2496 2678 3.034721 TCGACAACGCCTATTTTGAGT 57.965 42.857 0.00 0.00 39.58 3.41
2510 2692 0.391661 TTGAGTCGCTCATCAAGGGC 60.392 55.000 9.78 0.00 40.39 5.19
2636 2818 1.134965 CAGTTCTCGGACTCCATGGTC 60.135 57.143 12.58 2.28 35.66 4.02
2710 2892 3.935203 AGATTCGTGAACACATAAGCTGG 59.065 43.478 5.80 0.00 0.00 4.85
2711 2893 2.831685 TCGTGAACACATAAGCTGGT 57.168 45.000 5.80 0.00 0.00 4.00
2728 2910 1.370051 GTGGAACCTTCGTTTGCGC 60.370 57.895 0.00 0.00 38.14 6.09
2857 3039 8.721133 TTGGCTGTATGGAGTAATAGAGAATA 57.279 34.615 0.00 0.00 0.00 1.75
2917 3102 7.809665 TGATATTATGTACACATCAGCAATGC 58.190 34.615 0.00 0.00 39.12 3.56
2928 3113 4.584743 ACATCAGCAATGCATTCTGATCAT 59.415 37.500 30.65 24.10 43.44 2.45
3234 3424 4.978099 AGGATTATCATGCTGTACAAGGG 58.022 43.478 0.00 0.00 27.88 3.95
3256 3452 1.103398 GCTGCTTGGTGTTCTGTGGT 61.103 55.000 0.00 0.00 0.00 4.16
3258 3454 0.254462 TGCTTGGTGTTCTGTGGTCA 59.746 50.000 0.00 0.00 0.00 4.02
3284 3480 1.077501 ACCATGTCATCTTGGCCCG 60.078 57.895 0.00 0.00 40.99 6.13
3320 3516 1.959899 GCACCAGCAATGACGAGTCG 61.960 60.000 11.85 11.85 41.58 4.18
3332 3528 2.479650 GAGTCGTCGGTCAGGTCG 59.520 66.667 0.00 0.00 0.00 4.79
3365 3561 0.249868 TGAAGGTGAACTCAGGCACG 60.250 55.000 0.00 0.00 35.91 5.34
3410 3606 3.723348 GACGCTTGCCACCGTTCC 61.723 66.667 0.00 0.00 37.87 3.62
3557 3753 0.179018 GCAGACCCTTGTCAACCAGT 60.179 55.000 0.00 0.00 44.33 4.00
3575 3771 6.426646 ACCAGTACATCAAGTTTCTTCTCT 57.573 37.500 0.00 0.00 0.00 3.10
3609 3805 5.258841 TCTTCACCTGATCATCAAGCAATT 58.741 37.500 0.00 0.00 0.00 2.32
3610 3806 6.417258 TCTTCACCTGATCATCAAGCAATTA 58.583 36.000 0.00 0.00 0.00 1.40
3611 3807 6.317140 TCTTCACCTGATCATCAAGCAATTAC 59.683 38.462 0.00 0.00 0.00 1.89
3648 3844 1.228033 CATCATCGATGGCAGGGCA 60.228 57.895 24.61 4.33 36.51 5.36
3695 3891 5.581874 ACAAAAGTGCTTTTCATTTCAGGTG 59.418 36.000 6.92 0.00 40.45 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 6.127535 CCGTAACTCCTACCTTTAACTGATCA 60.128 42.308 0.00 0.00 0.00 2.92
326 327 3.801114 ACCAGTGAGGAAAACAAAAGC 57.199 42.857 0.00 0.00 41.22 3.51
327 328 7.979444 TCTATACCAGTGAGGAAAACAAAAG 57.021 36.000 0.00 0.00 41.22 2.27
432 439 3.064207 TGGAACGTGTTAACTCAGATGC 58.936 45.455 7.22 1.76 0.00 3.91
459 466 0.961019 TTCCCATGAACACAAGCAGC 59.039 50.000 0.00 0.00 0.00 5.25
492 499 3.837355 AGCTGAAAAACCTCATGTTCCT 58.163 40.909 0.00 0.00 35.67 3.36
621 631 5.841810 TGCTGTTCCCTTGTTTTAAATCAG 58.158 37.500 0.00 0.00 0.00 2.90
726 736 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
767 785 3.054802 CACTAATGGGTCAAAGGCTCTCT 60.055 47.826 0.00 0.00 0.00 3.10
768 786 3.274288 CACTAATGGGTCAAAGGCTCTC 58.726 50.000 0.00 0.00 0.00 3.20
769 787 2.644798 ACACTAATGGGTCAAAGGCTCT 59.355 45.455 0.00 0.00 0.00 4.09
770 788 2.749621 CACACTAATGGGTCAAAGGCTC 59.250 50.000 0.00 0.00 0.00 4.70
771 789 2.795329 CACACTAATGGGTCAAAGGCT 58.205 47.619 0.00 0.00 0.00 4.58
772 790 1.202348 GCACACTAATGGGTCAAAGGC 59.798 52.381 0.00 0.00 0.00 4.35
864 882 5.179555 GGTGTATGAAGAGAAACTGGTCAAC 59.820 44.000 0.00 0.00 0.00 3.18
1092 1110 0.990374 AGTGCTCCAGGCTCAGATTT 59.010 50.000 0.00 0.00 42.39 2.17
1095 1113 0.040351 AGTAGTGCTCCAGGCTCAGA 59.960 55.000 0.00 0.00 42.39 3.27
1152 1170 1.593787 CACCGCACACTCCATCTCT 59.406 57.895 0.00 0.00 0.00 3.10
1238 1256 1.856802 CAAAAGAGTGTTTGGGCAGC 58.143 50.000 0.00 0.00 35.29 5.25
1245 1263 2.427095 GTCTGTGGCCAAAAGAGTGTTT 59.573 45.455 17.65 0.00 0.00 2.83
1246 1264 2.024414 GTCTGTGGCCAAAAGAGTGTT 58.976 47.619 17.65 0.00 0.00 3.32
1260 1278 1.394917 GCATTCAGGTTAGCGTCTGTG 59.605 52.381 0.00 0.00 33.13 3.66
1261 1279 1.276421 AGCATTCAGGTTAGCGTCTGT 59.724 47.619 0.00 0.00 33.13 3.41
1264 1282 5.175856 CAGTATAAGCATTCAGGTTAGCGTC 59.824 44.000 0.00 0.00 42.86 5.19
1276 1294 4.844349 ACCACTCCACAGTATAAGCATT 57.156 40.909 0.00 0.00 0.00 3.56
1294 1312 6.939730 TGTTCAGAGCAAACTCAATAATACCA 59.060 34.615 0.00 0.00 46.09 3.25
1295 1313 7.377766 TGTTCAGAGCAAACTCAATAATACC 57.622 36.000 0.00 0.00 46.09 2.73
1299 1317 6.936335 TCAGATGTTCAGAGCAAACTCAATAA 59.064 34.615 0.00 0.00 46.09 1.40
1374 1392 1.371022 CTCTCCGATCATGGTCGCG 60.371 63.158 23.02 15.57 40.17 5.87
1398 1416 2.611473 CGAGTTCACATTCTGGTCTGCT 60.611 50.000 0.00 0.00 0.00 4.24
1539 1557 5.838521 ACTCTGAACATTGGGTTTGGTTTAT 59.161 36.000 0.00 0.00 40.63 1.40
1544 1562 5.476599 TCAATACTCTGAACATTGGGTTTGG 59.523 40.000 9.66 0.00 40.63 3.28
1546 1564 7.671398 AGAATCAATACTCTGAACATTGGGTTT 59.329 33.333 9.66 4.15 40.63 3.27
1549 1567 7.121759 ACAAGAATCAATACTCTGAACATTGGG 59.878 37.037 9.66 0.00 31.88 4.12
1552 1570 8.627208 ACACAAGAATCAATACTCTGAACATT 57.373 30.769 0.00 0.00 0.00 2.71
1577 1595 5.048991 GCAAGCAAAAGTAACTAAGCCACTA 60.049 40.000 0.00 0.00 0.00 2.74
1640 1658 6.322969 ACGTGTGGATTTCTGATGGTATACTA 59.677 38.462 2.25 0.00 0.00 1.82
1661 1679 8.988934 ACAGCAGGTTATAATGAAATATACGTG 58.011 33.333 0.00 0.00 0.00 4.49
1664 1682 8.237267 GGCACAGCAGGTTATAATGAAATATAC 58.763 37.037 0.00 0.00 0.00 1.47
1666 1684 6.777091 TGGCACAGCAGGTTATAATGAAATAT 59.223 34.615 0.00 0.00 0.00 1.28
1720 1758 9.372369 GTTTGCATACTACTCTACTCAAAAGAT 57.628 33.333 0.00 0.00 0.00 2.40
1721 1759 8.364894 TGTTTGCATACTACTCTACTCAAAAGA 58.635 33.333 8.78 0.00 0.00 2.52
1722 1760 8.534333 TGTTTGCATACTACTCTACTCAAAAG 57.466 34.615 8.78 0.00 0.00 2.27
1725 1763 8.364894 TCTTTGTTTGCATACTACTCTACTCAA 58.635 33.333 8.78 0.00 0.00 3.02
1726 1764 7.892609 TCTTTGTTTGCATACTACTCTACTCA 58.107 34.615 8.78 0.00 0.00 3.41
1727 1765 8.648968 GTTCTTTGTTTGCATACTACTCTACTC 58.351 37.037 8.78 0.00 0.00 2.59
1729 1767 8.306680 TGTTCTTTGTTTGCATACTACTCTAC 57.693 34.615 8.78 1.69 0.00 2.59
1730 1768 8.935844 CATGTTCTTTGTTTGCATACTACTCTA 58.064 33.333 8.78 0.00 0.00 2.43
1731 1769 7.661437 TCATGTTCTTTGTTTGCATACTACTCT 59.339 33.333 8.78 0.00 0.00 3.24
1782 1957 8.035394 TGTCAGAAAGATATGGAGTTTGTAGTC 58.965 37.037 0.00 0.00 0.00 2.59
1801 1976 4.294347 ACAATTTTTCCCCCTTGTCAGAA 58.706 39.130 0.00 0.00 0.00 3.02
1815 1990 3.118075 CCCACCCACCTGAAACAATTTTT 60.118 43.478 0.00 0.00 0.00 1.94
1816 1991 2.437651 CCCACCCACCTGAAACAATTTT 59.562 45.455 0.00 0.00 0.00 1.82
1820 1995 1.456705 GCCCACCCACCTGAAACAA 60.457 57.895 0.00 0.00 0.00 2.83
1831 2008 2.006991 ATCCCAGTAAGGCCCACCC 61.007 63.158 0.00 0.00 36.11 4.61
1930 2107 5.070001 CAGAACTTGGAAATAAGGGTGACA 58.930 41.667 0.00 0.00 31.94 3.58
2060 2240 8.462016 GCTTGATTGTCTGGTTCTGTTAATATT 58.538 33.333 0.00 0.00 0.00 1.28
2061 2241 7.201644 CGCTTGATTGTCTGGTTCTGTTAATAT 60.202 37.037 0.00 0.00 0.00 1.28
2062 2242 6.092122 CGCTTGATTGTCTGGTTCTGTTAATA 59.908 38.462 0.00 0.00 0.00 0.98
2063 2243 5.106555 CGCTTGATTGTCTGGTTCTGTTAAT 60.107 40.000 0.00 0.00 0.00 1.40
2084 2264 4.701956 ATTTTACATTGCTTACAGCGCT 57.298 36.364 2.64 2.64 46.26 5.92
2221 2402 2.121963 AGGAGTGCACCCCCTCAA 60.122 61.111 14.67 0.00 0.00 3.02
2230 2411 6.239217 ACATAAGATGATAACAGGAGTGCA 57.761 37.500 0.00 0.00 0.00 4.57
2235 2416 8.321353 AGTGTTCAACATAAGATGATAACAGGA 58.679 33.333 0.00 0.00 33.75 3.86
2237 2418 7.907045 GCAGTGTTCAACATAAGATGATAACAG 59.093 37.037 0.00 0.00 33.75 3.16
2245 2426 8.531982 TCTAGTAAGCAGTGTTCAACATAAGAT 58.468 33.333 0.00 0.00 0.00 2.40
2251 2432 5.784578 TCTCTAGTAAGCAGTGTTCAACA 57.215 39.130 0.00 0.00 0.00 3.33
2253 2434 8.191446 GTCATATCTCTAGTAAGCAGTGTTCAA 58.809 37.037 0.00 0.00 0.00 2.69
2260 2441 7.654923 TGCAAATGTCATATCTCTAGTAAGCAG 59.345 37.037 0.00 0.00 0.00 4.24
2272 2454 7.088905 GGATCCTTCAATGCAAATGTCATATC 58.911 38.462 3.84 0.00 0.00 1.63
2421 2603 2.178876 TTGTCGTCGCCACCATCCAT 62.179 55.000 0.00 0.00 0.00 3.41
2492 2674 1.219124 GCCCTTGATGAGCGACTCA 59.781 57.895 11.12 11.12 44.99 3.41
2636 2818 3.068590 GGTTGGTGATATTGCCCATCTTG 59.931 47.826 0.00 0.00 0.00 3.02
2710 2892 1.370051 GCGCAAACGAAGGTTCCAC 60.370 57.895 0.30 0.00 43.93 4.02
2711 2893 2.548295 GGCGCAAACGAAGGTTCCA 61.548 57.895 10.83 0.00 43.93 3.53
2720 2902 0.385974 CAAAGGAGAAGGCGCAAACG 60.386 55.000 10.83 0.00 44.07 3.60
2728 2910 4.592942 TCATCAACCATCAAAGGAGAAGG 58.407 43.478 0.00 0.00 0.00 3.46
2917 3102 8.162878 ACAGGTGCTAAAATATGATCAGAATG 57.837 34.615 0.09 0.00 37.54 2.67
2928 3113 7.994425 TCAGATTGAAACAGGTGCTAAAATA 57.006 32.000 0.00 0.00 0.00 1.40
2978 3168 8.635765 TGTATTTTCTCTTTGGCAGTCTTTAT 57.364 30.769 0.00 0.00 0.00 1.40
2979 3169 8.458573 TTGTATTTTCTCTTTGGCAGTCTTTA 57.541 30.769 0.00 0.00 0.00 1.85
2980 3170 6.959639 TGTATTTTCTCTTTGGCAGTCTTT 57.040 33.333 0.00 0.00 0.00 2.52
3234 3424 1.285023 CAGAACACCAAGCAGCAGC 59.715 57.895 0.00 0.00 42.56 5.25
3256 3452 2.639347 AGATGACATGGTCACCAAGTGA 59.361 45.455 10.07 0.37 45.65 3.41
3258 3454 3.415212 CAAGATGACATGGTCACCAAGT 58.585 45.455 3.81 3.81 45.65 3.16
3267 3463 1.825191 CCGGGCCAAGATGACATGG 60.825 63.158 4.39 0.00 37.85 3.66
3284 3480 4.200283 CAGGCCGTCGAGCTCTCC 62.200 72.222 12.85 5.07 0.00 3.71
3314 3510 2.479650 GACCTGACCGACGACTCG 59.520 66.667 0.00 0.00 39.83 4.18
3320 3516 1.991099 GCTACTCCGACCTGACCGAC 61.991 65.000 0.00 0.00 0.00 4.79
3365 3561 1.217882 CCGACTCACACAAGTTCACC 58.782 55.000 0.00 0.00 0.00 4.02
3458 3654 4.000620 TACCTCCCAGGCCACCGA 62.001 66.667 5.01 0.00 39.63 4.69
3542 3738 2.708861 TGATGTACTGGTTGACAAGGGT 59.291 45.455 0.00 0.00 0.00 4.34
3557 3753 5.470098 GCACCAAGAGAAGAAACTTGATGTA 59.530 40.000 0.00 0.00 43.98 2.29
3609 3805 5.319140 TGCTTAAGTTAGCTCATGACGTA 57.681 39.130 4.02 0.00 41.76 3.57
3610 3806 4.188247 TGCTTAAGTTAGCTCATGACGT 57.812 40.909 4.02 0.00 41.76 4.34
3611 3807 4.805719 TGATGCTTAAGTTAGCTCATGACG 59.194 41.667 4.02 0.00 41.76 4.35
3648 3844 6.142817 GTCGAAACTGTTCATAACTGCAAAT 58.857 36.000 0.00 0.00 32.89 2.32


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

AutoCloner maintained by Alex Coulton.