Multiple sequence alignment - TraesCS1A01G423500

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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 TraesCS1A01G423500 chr1A 100.000 2336 0 0 1 2336 578832297 578829962 0.000000 4314.0
1 TraesCS1A01G423500 chr4B 91.919 792 61 3 1 791 393401298 393400509 0.000000 1105.0
2 TraesCS1A01G423500 chr4B 81.967 793 138 4 3 791 119485740 119484949 0.000000 667.0
3 TraesCS1A01G423500 chr1B 89.498 876 67 15 790 1653 670673927 670673065 0.000000 1085.0
4 TraesCS1A01G423500 chr1B 86.785 734 57 17 1634 2336 670673035 670672311 0.000000 782.0
5 TraesCS1A01G423500 chr1D 91.450 655 40 10 790 1430 482106586 482105934 0.000000 885.0
6 TraesCS1A01G423500 chr3B 88.354 644 75 0 1 644 358895694 358895051 0.000000 774.0
7 TraesCS1A01G423500 chr3B 92.500 40 1 2 752 791 21951767 21951730 0.000324 56.5
8 TraesCS1A01G423500 chr3D 83.083 798 119 16 2 791 300160705 300161494 0.000000 712.0
9 TraesCS1A01G423500 chr7B 94.286 35 1 1 750 784 182099205 182099172 0.004000 52.8


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 TraesCS1A01G423500 chr1A 578829962 578832297 2335 True 4314.0 4314 100.0000 1 2336 1 chr1A.!!$R1 2335
1 TraesCS1A01G423500 chr4B 393400509 393401298 789 True 1105.0 1105 91.9190 1 791 1 chr4B.!!$R2 790
2 TraesCS1A01G423500 chr4B 119484949 119485740 791 True 667.0 667 81.9670 3 791 1 chr4B.!!$R1 788
3 TraesCS1A01G423500 chr1B 670672311 670673927 1616 True 933.5 1085 88.1415 790 2336 2 chr1B.!!$R1 1546
4 TraesCS1A01G423500 chr1D 482105934 482106586 652 True 885.0 885 91.4500 790 1430 1 chr1D.!!$R1 640
5 TraesCS1A01G423500 chr3B 358895051 358895694 643 True 774.0 774 88.3540 1 644 1 chr3B.!!$R2 643
6 TraesCS1A01G423500 chr3D 300160705 300161494 789 False 712.0 712 83.0830 2 791 1 chr3D.!!$F1 789

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
331 332 0.319728 GGCAGAGTGCTGAAGAGACA 59.68 55.0 0.0 0.0 45.17 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1922 2014 0.031857 TGCGGCTCATGGTGTTTTTG 59.968 50.0 0.0 0.0 0.0 2.44 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 6.819284 TCAAATCAAGCCTTCAATCAACTTT 58.181 32.000 0.00 0.00 0.00 2.66
118 119 3.181472 GCCATGAAGGGAAGGCTAATTTG 60.181 47.826 0.00 0.00 43.70 2.32
157 158 1.813513 ACAGCTTGATCCCAAACTCG 58.186 50.000 0.00 0.00 0.00 4.18
284 285 3.006217 GCTTCAAAGGAAAGGAATGCACT 59.994 43.478 0.00 0.00 31.35 4.40
290 291 7.402054 TCAAAGGAAAGGAATGCACTTAGATA 58.598 34.615 0.00 0.00 0.00 1.98
331 332 0.319728 GGCAGAGTGCTGAAGAGACA 59.680 55.000 0.00 0.00 45.17 3.41
337 338 5.393569 GCAGAGTGCTGAAGAGACAGTAATA 60.394 44.000 0.00 0.00 45.17 0.98
425 426 6.421485 AGAGGCACATCACTTTATGAAGAAT 58.579 36.000 3.94 0.00 41.93 2.40
548 550 0.389025 TCTGCAGCAGACACTTCGAA 59.611 50.000 21.85 0.00 35.39 3.71
590 593 3.065095 GCAGGATCTGAATCTGCTTCAAC 59.935 47.826 20.79 0.61 43.20 3.18
595 598 5.413833 GGATCTGAATCTGCTTCAACTCAAA 59.586 40.000 0.00 0.00 43.20 2.69
601 604 7.143340 TGAATCTGCTTCAACTCAAAATCAAG 58.857 34.615 0.00 0.00 40.92 3.02
615 618 7.820872 ACTCAAAATCAAGGAAAAGCATATTGG 59.179 33.333 0.00 0.00 0.00 3.16
635 638 1.396301 GCAGTTTCAAGCTCTGGATCG 59.604 52.381 1.96 0.00 0.00 3.69
654 657 8.740123 TGGATCGGTAATAATTTGTAACATGT 57.260 30.769 0.00 0.00 0.00 3.21
690 693 7.419711 CCTAGAGAAGGTGTAGGTTGATTTA 57.580 40.000 0.00 0.00 40.94 1.40
695 701 9.588096 AGAGAAGGTGTAGGTTGATTTATTTTT 57.412 29.630 0.00 0.00 0.00 1.94
727 733 3.012518 CTCCTGGAGGCTTGTATTTGTG 58.987 50.000 16.19 0.00 34.44 3.33
731 737 2.224744 TGGAGGCTTGTATTTGTGCTCA 60.225 45.455 0.00 0.00 0.00 4.26
732 738 3.019564 GGAGGCTTGTATTTGTGCTCAT 58.980 45.455 0.00 0.00 0.00 2.90
742 749 7.637631 TGTATTTGTGCTCATTATTTGGCTA 57.362 32.000 0.00 0.00 0.00 3.93
761 770 6.876155 TGGCTAAATATAACACCGTAGAACA 58.124 36.000 0.00 0.00 0.00 3.18
783 792 5.467735 ACAATTGTTCTACGGTTTACAGGTC 59.532 40.000 4.92 0.00 0.00 3.85
784 793 3.287312 TGTTCTACGGTTTACAGGTCG 57.713 47.619 0.00 0.00 0.00 4.79
869 878 0.661187 CATCACGCACAAAGCACCAC 60.661 55.000 0.00 0.00 46.13 4.16
954 975 4.855388 GTCGTCGTAGTCAACATTACACAT 59.145 41.667 0.00 0.00 0.00 3.21
961 982 6.809689 CGTAGTCAACATTACACATACCAGAA 59.190 38.462 0.00 0.00 0.00 3.02
986 1007 2.740580 CGTACACACAAACCCTCACACT 60.741 50.000 0.00 0.00 0.00 3.55
1338 1359 1.310933 ACGAGTGGTGTAGGTAGCCG 61.311 60.000 0.00 0.00 0.00 5.52
1348 1369 2.930385 TAGGTAGCCGTCCGTCGAGG 62.930 65.000 0.00 0.00 42.86 4.63
1351 1372 1.078497 TAGCCGTCCGTCGAGGTAA 60.078 57.895 4.18 0.00 42.86 2.85
1354 1375 2.575262 CGTCCGTCGAGGTAACGC 60.575 66.667 14.48 0.00 46.39 4.84
1386 1407 2.202932 GACACGCGCATGGATCCT 60.203 61.111 14.23 0.00 0.00 3.24
1387 1408 2.202932 ACACGCGCATGGATCCTC 60.203 61.111 14.23 1.21 0.00 3.71
1388 1409 2.107750 CACGCGCATGGATCCTCT 59.892 61.111 14.23 0.00 0.00 3.69
1389 1410 1.363807 CACGCGCATGGATCCTCTA 59.636 57.895 14.23 0.00 0.00 2.43
1392 1419 0.249447 CGCGCATGGATCCTCTACAA 60.249 55.000 14.23 0.00 0.00 2.41
1408 1435 4.817517 TCTACAAGAGGATGTCCGTTTTC 58.182 43.478 0.00 0.00 42.08 2.29
1418 1445 2.422597 TGTCCGTTTTCTGCGATTCAT 58.577 42.857 0.00 0.00 0.00 2.57
1434 1461 4.325204 CGATTCATGGTGTTGCTTTGAATG 59.675 41.667 1.53 0.00 37.20 2.67
1437 1464 2.512485 TGGTGTTGCTTTGAATGCAG 57.488 45.000 5.88 0.00 41.71 4.41
1480 1507 9.372369 TGTTTTCCTTTTTACATTCAACGAATT 57.628 25.926 0.00 0.00 28.87 2.17
1494 1521 9.061610 CATTCAACGAATTTGTATACTTTCCAC 57.938 33.333 4.17 0.00 36.49 4.02
1497 1524 7.226918 TCAACGAATTTGTATACTTTCCACACA 59.773 33.333 4.17 0.00 36.49 3.72
1540 1567 4.082354 AGTCATCTTCCATTTTGCTGAAGC 60.082 41.667 0.00 0.00 42.50 3.86
1547 1574 3.324268 TCCATTTTGCTGAAGCCATTGAA 59.676 39.130 0.00 0.00 41.18 2.69
1556 1583 3.817084 CTGAAGCCATTGAACTGTTCTCA 59.183 43.478 20.18 12.58 0.00 3.27
1565 1592 5.917541 TTGAACTGTTCTCACCGTAATTC 57.082 39.130 20.18 0.00 0.00 2.17
1588 1615 3.069016 GGGTTGTTGTCTTTTTCGGGAAT 59.931 43.478 0.00 0.00 0.00 3.01
1593 1620 6.642707 TGTTGTCTTTTTCGGGAATATGTT 57.357 33.333 0.00 0.00 0.00 2.71
1597 1624 7.461182 TGTCTTTTTCGGGAATATGTTCAAT 57.539 32.000 4.48 0.00 36.01 2.57
1599 1626 7.393234 TGTCTTTTTCGGGAATATGTTCAATCT 59.607 33.333 4.48 0.00 36.01 2.40
1617 1644 1.207089 TCTGTAAATCGGCAGTCCTGG 59.793 52.381 0.00 0.00 34.57 4.45
1622 1649 0.107508 AATCGGCAGTCCTGGATGTG 60.108 55.000 0.00 1.93 0.00 3.21
1623 1650 1.267574 ATCGGCAGTCCTGGATGTGT 61.268 55.000 0.00 0.00 0.00 3.72
1631 1658 1.741706 GTCCTGGATGTGTGATGCTTG 59.258 52.381 0.00 0.00 0.00 4.01
1632 1659 0.454600 CCTGGATGTGTGATGCTTGC 59.545 55.000 0.00 0.00 0.00 4.01
1633 1660 1.460504 CTGGATGTGTGATGCTTGCT 58.539 50.000 0.00 0.00 0.00 3.91
1636 1663 1.400846 GGATGTGTGATGCTTGCTCTG 59.599 52.381 0.00 0.00 0.00 3.35
1638 1665 2.837532 TGTGTGATGCTTGCTCTGTA 57.162 45.000 0.00 0.00 0.00 2.74
1639 1666 2.691927 TGTGTGATGCTTGCTCTGTAG 58.308 47.619 0.00 0.00 0.00 2.74
1649 1725 4.692625 TGCTTGCTCTGTAGAAGAATCAAC 59.307 41.667 0.00 0.00 33.37 3.18
1660 1736 2.363306 AGAATCAACTGTGTTGGCCA 57.637 45.000 0.00 0.00 0.00 5.36
1663 1739 0.185901 ATCAACTGTGTTGGCCAGGT 59.814 50.000 5.11 0.00 34.16 4.00
1666 1742 0.033601 AACTGTGTTGGCCAGGTTGA 60.034 50.000 5.11 0.00 34.16 3.18
1703 1779 1.502231 CAAGGGAACGTGTGACTCAG 58.498 55.000 0.00 0.00 34.90 3.35
1716 1792 0.807667 GACTCAGCTACCATGCACCG 60.808 60.000 0.00 0.00 34.99 4.94
1719 1795 2.167219 CAGCTACCATGCACCGACG 61.167 63.158 0.00 0.00 34.99 5.12
1720 1796 2.125673 GCTACCATGCACCGACGT 60.126 61.111 0.00 0.00 0.00 4.34
1721 1797 2.452813 GCTACCATGCACCGACGTG 61.453 63.158 0.00 0.00 43.35 4.49
1757 1833 2.647297 GCCACACTTTGAGCTGGC 59.353 61.111 0.00 0.00 42.41 4.85
1769 1845 2.436115 GCTGGCCCGGTAGTCAAC 60.436 66.667 0.00 0.00 0.00 3.18
1795 1871 4.211794 ACTGCATAGCATTTTTGTTGTTGC 59.788 37.500 0.00 0.00 38.13 4.17
1796 1872 4.124970 TGCATAGCATTTTTGTTGTTGCA 58.875 34.783 0.00 0.00 37.56 4.08
1813 1905 2.730069 TGCAACAACAAGCAGAAATCG 58.270 42.857 0.00 0.00 35.51 3.34
1816 1908 3.664025 GCAACAACAAGCAGAAATCGTAC 59.336 43.478 0.00 0.00 0.00 3.67
1832 1924 8.770828 AGAAATCGTACAAAAAGATCTTCGAAA 58.229 29.630 15.78 0.00 0.00 3.46
1850 1942 5.901552 TCGAAATGCATACATCTGACTACA 58.098 37.500 0.00 0.00 34.62 2.74
1854 1946 6.668541 AATGCATACATCTGACTACACAAC 57.331 37.500 0.00 0.00 34.62 3.32
1891 1983 0.107456 ATGATAGGCTTCCTGGCACG 59.893 55.000 0.00 0.00 44.55 5.34
1896 1988 2.038837 GGCTTCCTGGCACGGTTAC 61.039 63.158 0.00 0.00 41.37 2.50
1914 2006 3.605749 CTCGGTCCACGGCCATTGT 62.606 63.158 2.24 0.00 44.45 2.71
1922 2014 2.398554 ACGGCCATTGTCATCACGC 61.399 57.895 2.24 0.00 0.00 5.34
1924 2016 1.882311 GGCCATTGTCATCACGCAA 59.118 52.632 0.00 0.00 0.00 4.85
1939 2031 1.003262 CGCAAAAACACCATGAGCCG 61.003 55.000 0.00 0.00 0.00 5.52
1964 2056 4.142204 ACATAAAAATCATCGTGCATGCCA 60.142 37.500 16.68 0.00 31.70 4.92
1975 2079 3.274586 CATGCCACAGCGCGCTAT 61.275 61.111 36.02 23.17 44.31 2.97
1978 2082 2.969238 GCCACAGCGCGCTATGAT 60.969 61.111 38.77 19.77 0.00 2.45
1980 2084 1.891060 GCCACAGCGCGCTATGATAC 61.891 60.000 38.77 23.61 0.00 2.24
1981 2085 0.597377 CCACAGCGCGCTATGATACA 60.597 55.000 38.77 0.00 0.00 2.29
1984 2088 0.637236 CAGCGCGCTATGATACATCG 59.363 55.000 36.02 13.72 0.00 3.84
1986 2090 0.363512 GCGCGCTATGATACATCGTG 59.636 55.000 26.67 0.00 0.00 4.35
2032 2136 1.882912 TGCATACAATCCCTCGCATC 58.117 50.000 0.00 0.00 0.00 3.91
2035 2139 2.225019 GCATACAATCCCTCGCATCAAG 59.775 50.000 0.00 0.00 0.00 3.02
2046 2150 2.481212 GCATCAAGCGACCAATCCA 58.519 52.632 0.00 0.00 0.00 3.41
2090 2194 4.607955 CCGAGATCATTAGAGCAACGTTA 58.392 43.478 0.00 0.00 33.13 3.18
2103 2207 1.798223 CAACGTTAGTGCTGCTGCTTA 59.202 47.619 17.00 6.70 40.48 3.09
2113 2217 1.747709 CTGCTGCTTATGCTCCTGTT 58.252 50.000 0.00 0.00 40.48 3.16
2118 2222 1.221414 GCTTATGCTCCTGTTAGCCG 58.779 55.000 0.00 0.00 42.05 5.52
2120 2224 2.548920 GCTTATGCTCCTGTTAGCCGAT 60.549 50.000 0.00 0.00 42.05 4.18
2142 2247 1.650314 GCGGTGTGAAATAACGGGGG 61.650 60.000 0.00 0.00 0.00 5.40
2148 2253 0.108041 TGAAATAACGGGGGCGACTC 60.108 55.000 0.00 0.00 0.00 3.36
2152 2257 0.616891 ATAACGGGGGCGACTCTTTT 59.383 50.000 0.00 0.00 0.00 2.27
2156 2261 1.298859 CGGGGGCGACTCTTTTTCAG 61.299 60.000 0.00 0.00 0.00 3.02
2161 2266 2.342179 GGCGACTCTTTTTCAGGAGAG 58.658 52.381 0.00 0.00 43.90 3.20
2193 2298 0.901827 TTCTAGCATCAACCGCCTCA 59.098 50.000 0.00 0.00 0.00 3.86
2207 2312 2.823154 CCGCCTCATTTTTCCTTGGTAA 59.177 45.455 0.00 0.00 0.00 2.85
2259 2364 9.283420 GAAAATAGAAGCTAAGAAAGAATGCAC 57.717 33.333 0.00 0.00 0.00 4.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 4.165950 TGGGAAAAGATTATCCAGCTGCTA 59.834 41.667 8.66 0.00 37.46 3.49
157 158 1.923356 TGAAAATTGGGTGCTCCTCC 58.077 50.000 4.53 0.00 36.20 4.30
199 200 6.705381 AGAAGAAAATCTTGTGTCTCAGTCTG 59.295 38.462 0.00 0.00 36.73 3.51
284 285 4.871871 TTGGGCAATGAGGGTTATCTAA 57.128 40.909 0.00 0.00 0.00 2.10
290 291 1.341080 CAGTTTGGGCAATGAGGGTT 58.659 50.000 0.00 0.00 0.00 4.11
331 332 2.238898 GCCCCACAGAAGGTGTATTACT 59.761 50.000 0.00 0.00 46.44 2.24
337 338 2.839098 CAGCCCCACAGAAGGTGT 59.161 61.111 0.00 0.00 46.44 4.16
394 395 7.882791 TCATAAAGTGATGTGCCTCTTTTCTTA 59.117 33.333 0.00 0.00 33.55 2.10
425 426 4.914983 AGATGTTCTGATGCAAGGAGAAA 58.085 39.130 6.92 0.87 0.00 2.52
493 495 3.393941 TGCCATTTCTTTGGGTCCAAATT 59.606 39.130 14.67 0.01 43.78 1.82
514 516 4.937620 TGCTGCAGACCTCTAAATACTTTG 59.062 41.667 20.43 0.00 0.00 2.77
590 593 7.201582 GCCAATATGCTTTTCCTTGATTTTGAG 60.202 37.037 0.00 0.00 0.00 3.02
595 598 5.188359 ACTGCCAATATGCTTTTCCTTGATT 59.812 36.000 0.00 0.00 0.00 2.57
601 604 4.819769 TGAAACTGCCAATATGCTTTTCC 58.180 39.130 0.00 0.00 35.15 3.13
615 618 1.396301 CGATCCAGAGCTTGAAACTGC 59.604 52.381 0.00 0.00 0.00 4.40
695 701 1.465188 TCCAGGAGGCCAAAGGGAA 60.465 57.895 5.01 0.00 35.59 3.97
727 733 9.626045 GGTGTTATATTTAGCCAAATAATGAGC 57.374 33.333 1.38 0.00 39.46 4.26
761 770 4.687483 CGACCTGTAAACCGTAGAACAATT 59.313 41.667 0.00 0.00 0.00 2.32
804 813 1.134220 GGAAGGTGGTTGAGTCACACA 60.134 52.381 13.97 4.37 36.87 3.72
869 878 2.350498 GGGGATTTGTACGTGTGATTCG 59.650 50.000 0.00 0.00 0.00 3.34
954 975 5.280945 GTTTGTGTGTACGTACTTCTGGTA 58.719 41.667 25.12 1.36 0.00 3.25
961 982 2.694628 TGAGGGTTTGTGTGTACGTACT 59.305 45.455 25.12 1.90 0.00 2.73
986 1007 0.673985 CGCCATGGATCGGTCTTCTA 59.326 55.000 18.40 0.00 0.00 2.10
1130 1151 2.203056 CATCCGCCTCGATTGCCA 60.203 61.111 1.90 0.00 0.00 4.92
1198 1219 2.815647 GGCGCTCAACTCCTTCGG 60.816 66.667 7.64 0.00 0.00 4.30
1338 1359 2.575262 CGCGTTACCTCGACGGAC 60.575 66.667 0.00 0.00 40.66 4.79
1348 1369 3.613702 CATCCGTCGGCGCGTTAC 61.614 66.667 18.95 2.51 36.67 2.50
1354 1375 3.630148 GTCATGCATCCGTCGGCG 61.630 66.667 6.34 0.29 37.95 6.46
1359 1380 3.188100 CGCGTGTCATGCATCCGT 61.188 61.111 17.03 0.00 0.00 4.69
1386 1407 4.527038 AGAAAACGGACATCCTCTTGTAGA 59.473 41.667 0.00 0.00 0.00 2.59
1387 1408 4.627467 CAGAAAACGGACATCCTCTTGTAG 59.373 45.833 0.00 0.00 0.00 2.74
1388 1409 4.566004 CAGAAAACGGACATCCTCTTGTA 58.434 43.478 0.00 0.00 0.00 2.41
1389 1410 3.403038 CAGAAAACGGACATCCTCTTGT 58.597 45.455 0.00 0.00 0.00 3.16
1392 1419 1.673033 CGCAGAAAACGGACATCCTCT 60.673 52.381 0.00 0.00 0.00 3.69
1401 1428 1.468520 ACCATGAATCGCAGAAAACGG 59.531 47.619 0.00 0.00 43.58 4.44
1408 1435 0.806868 AGCAACACCATGAATCGCAG 59.193 50.000 0.00 0.00 0.00 5.18
1418 1445 1.538634 GCTGCATTCAAAGCAACACCA 60.539 47.619 0.00 0.00 42.17 4.17
1437 1464 4.367386 AAACATAGAGCAGCTGATTTGC 57.633 40.909 20.43 1.38 41.83 3.68
1515 1542 6.183360 GCTTCAGCAAAATGGAAGATGACTAT 60.183 38.462 4.91 0.00 40.28 2.12
1518 1545 4.171754 GCTTCAGCAAAATGGAAGATGAC 58.828 43.478 4.91 0.00 40.28 3.06
1540 1567 2.494059 ACGGTGAGAACAGTTCAATGG 58.506 47.619 15.85 3.41 0.00 3.16
1565 1592 1.268845 CCCGAAAAAGACAACAACCCG 60.269 52.381 0.00 0.00 0.00 5.28
1568 1595 6.443792 ACATATTCCCGAAAAAGACAACAAC 58.556 36.000 0.00 0.00 0.00 3.32
1588 1615 6.112734 ACTGCCGATTTACAGATTGAACATA 58.887 36.000 0.00 0.00 37.35 2.29
1593 1620 3.197766 AGGACTGCCGATTTACAGATTGA 59.802 43.478 0.00 0.00 39.96 2.57
1597 1624 1.207089 CCAGGACTGCCGATTTACAGA 59.793 52.381 0.00 0.00 39.96 3.41
1599 1626 1.271856 TCCAGGACTGCCGATTTACA 58.728 50.000 0.00 0.00 39.96 2.41
1617 1644 2.082231 ACAGAGCAAGCATCACACATC 58.918 47.619 0.00 0.00 0.00 3.06
1622 1649 3.854666 TCTTCTACAGAGCAAGCATCAC 58.145 45.455 0.00 0.00 0.00 3.06
1623 1650 4.541973 TTCTTCTACAGAGCAAGCATCA 57.458 40.909 0.00 0.00 31.12 3.07
1631 1658 5.233988 ACACAGTTGATTCTTCTACAGAGC 58.766 41.667 0.00 0.00 31.12 4.09
1632 1659 6.146837 CCAACACAGTTGATTCTTCTACAGAG 59.853 42.308 11.19 0.00 31.12 3.35
1633 1660 5.991606 CCAACACAGTTGATTCTTCTACAGA 59.008 40.000 11.19 0.00 31.04 3.41
1636 1663 4.083271 GGCCAACACAGTTGATTCTTCTAC 60.083 45.833 11.19 0.00 0.00 2.59
1638 1665 2.887152 GGCCAACACAGTTGATTCTTCT 59.113 45.455 11.19 0.00 0.00 2.85
1639 1666 2.622942 TGGCCAACACAGTTGATTCTTC 59.377 45.455 0.61 0.00 0.00 2.87
1649 1725 1.799258 GCTCAACCTGGCCAACACAG 61.799 60.000 7.01 0.02 35.74 3.66
1703 1779 2.125673 ACGTCGGTGCATGGTAGC 60.126 61.111 0.00 0.00 0.00 3.58
1749 1825 3.075005 GACTACCGGGCCAGCTCA 61.075 66.667 6.32 0.00 0.00 4.26
1750 1826 2.656069 TTGACTACCGGGCCAGCTC 61.656 63.158 6.32 1.62 0.00 4.09
1769 1845 5.224888 ACAACAAAAATGCTATGCAGTCAG 58.775 37.500 0.00 0.00 43.65 3.51
1775 1851 4.728917 TGCAACAACAAAAATGCTATGC 57.271 36.364 0.00 0.00 39.49 3.14
1795 1871 4.843147 TGTACGATTTCTGCTTGTTGTTG 58.157 39.130 0.00 0.00 0.00 3.33
1796 1872 5.493133 TTGTACGATTTCTGCTTGTTGTT 57.507 34.783 0.00 0.00 0.00 2.83
1813 1905 9.000018 GTATGCATTTCGAAGATCTTTTTGTAC 58.000 33.333 9.87 0.00 35.04 2.90
1816 1908 8.624701 ATGTATGCATTTCGAAGATCTTTTTG 57.375 30.769 9.87 3.31 35.04 2.44
1832 1924 4.805719 CGTTGTGTAGTCAGATGTATGCAT 59.194 41.667 3.79 3.79 38.18 3.96
1850 1942 4.193090 TGTGTGGTCAACTAAATCGTTGT 58.807 39.130 3.92 0.00 43.55 3.32
1854 1946 5.801350 ATCATGTGTGGTCAACTAAATCG 57.199 39.130 0.00 0.00 0.00 3.34
1864 1956 2.171448 AGGAAGCCTATCATGTGTGGTC 59.829 50.000 0.00 0.00 28.47 4.02
1891 1983 2.125793 GCCGTGGACCGAGTAACC 60.126 66.667 0.00 0.00 39.56 2.85
1896 1988 2.819595 CAATGGCCGTGGACCGAG 60.820 66.667 0.00 0.00 39.56 4.63
1914 2006 2.620585 TCATGGTGTTTTTGCGTGATGA 59.379 40.909 0.00 0.00 0.00 2.92
1922 2014 0.031857 TGCGGCTCATGGTGTTTTTG 59.968 50.000 0.00 0.00 0.00 2.44
1924 2016 1.106351 TGTGCGGCTCATGGTGTTTT 61.106 50.000 0.00 0.00 0.00 2.43
1964 2056 1.702886 GATGTATCATAGCGCGCTGT 58.297 50.000 41.85 34.14 0.00 4.40
1975 2079 2.410392 GTGCAACGTTCACGATGTATCA 59.590 45.455 6.30 0.00 42.86 2.15
2077 2181 2.066262 GCAGCACTAACGTTGCTCTAA 58.934 47.619 11.99 0.00 39.72 2.10
2090 2194 0.747283 GGAGCATAAGCAGCAGCACT 60.747 55.000 3.17 0.00 45.49 4.40
2103 2207 1.069823 CAGATCGGCTAACAGGAGCAT 59.930 52.381 0.00 0.00 44.76 3.79
2118 2222 2.030457 CCGTTATTTCACACCGCAGATC 59.970 50.000 0.00 0.00 0.00 2.75
2120 2224 1.434555 CCGTTATTTCACACCGCAGA 58.565 50.000 0.00 0.00 0.00 4.26
2177 2282 2.418368 AAATGAGGCGGTTGATGCTA 57.582 45.000 0.00 0.00 0.00 3.49
2237 2342 7.279758 GTCAGTGCATTCTTTCTTAGCTTCTAT 59.720 37.037 0.00 0.00 0.00 1.98
2252 2357 8.153479 TGTATTATACCAATGTCAGTGCATTC 57.847 34.615 9.07 0.00 37.00 2.67


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

AutoCloner maintained by Alex Coulton.