Multiple sequence alignment - TraesCS5B01G328700

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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 TraesCS5B01G328700 chr5B 100.000 2438 0 0 1 2438 512585379 512582942 0.000000e+00 4503.0
1 TraesCS5B01G328700 chr5B 93.769 1605 75 9 1 1594 208769151 208767561 0.000000e+00 2386.0
2 TraesCS5B01G328700 chr5B 88.482 191 9 5 1701 1878 208767535 208767345 4.080000e-53 219.0
3 TraesCS5B01G328700 chr5B 91.971 137 9 2 500 636 512584758 512584624 8.900000e-45 191.0
4 TraesCS5B01G328700 chr5B 91.971 137 9 2 622 756 512584880 512584744 8.900000e-45 191.0
5 TraesCS5B01G328700 chr5B 90.511 137 11 2 500 636 208768523 208768389 1.930000e-41 180.0
6 TraesCS5B01G328700 chr5B 90.511 137 11 2 622 756 208768645 208768509 1.930000e-41 180.0
7 TraesCS5B01G328700 chr5B 80.272 147 19 7 261 401 69141557 69141699 4.290000e-18 102.0
8 TraesCS5B01G328700 chr2B 96.560 1599 32 5 1 1594 357880705 357882285 0.000000e+00 2627.0
9 TraesCS5B01G328700 chr2B 96.813 753 11 4 1699 2438 357882309 357883061 0.000000e+00 1245.0
10 TraesCS5B01G328700 chr2B 95.312 128 4 2 1593 1718 368306269 368306142 4.110000e-48 202.0
11 TraesCS5B01G328700 chr2B 91.429 140 10 2 497 636 357881311 357881448 8.900000e-45 191.0
12 TraesCS5B01G328700 chr2B 91.489 141 6 6 622 756 357881188 357881328 3.200000e-44 189.0
13 TraesCS5B01G328700 chr3B 97.169 1095 27 2 504 1594 324238090 324236996 0.000000e+00 1847.0
14 TraesCS5B01G328700 chr3B 95.086 753 23 7 1699 2438 324236972 324236221 0.000000e+00 1173.0
15 TraesCS5B01G328700 chr3B 95.395 456 19 1 1 456 324238538 324238085 0.000000e+00 725.0
16 TraesCS5B01G328700 chr3B 82.654 761 87 20 1701 2438 101254438 101253700 1.230000e-177 632.0
17 TraesCS5B01G328700 chr3B 84.163 663 85 6 950 1594 612305641 612306301 2.060000e-175 625.0
18 TraesCS5B01G328700 chr3B 83.686 662 57 15 1 636 393754734 393755370 5.850000e-161 577.0
19 TraesCS5B01G328700 chr3B 82.779 662 94 7 950 1592 605454604 605453944 7.560000e-160 573.0
20 TraesCS5B01G328700 chr3B 91.184 397 21 6 619 1015 393755247 393755629 5.970000e-146 527.0
21 TraesCS5B01G328700 chr3B 85.538 325 30 6 1701 2009 393843503 393843826 8.410000e-85 324.0
22 TraesCS5B01G328700 chr3B 91.971 137 9 2 500 636 324237968 324237834 8.900000e-45 191.0
23 TraesCS5B01G328700 chr3B 90.511 137 7 3 626 756 324238090 324237954 2.490000e-40 176.0
24 TraesCS5B01G328700 chrUn 82.695 757 92 19 1701 2438 351801301 351800565 9.510000e-179 636.0
25 TraesCS5B01G328700 chrUn 82.563 757 93 19 1701 2438 351702324 351701588 4.420000e-177 630.0
26 TraesCS5B01G328700 chr2D 83.475 708 91 13 904 1594 117194281 117193583 9.510000e-179 636.0
27 TraesCS5B01G328700 chr2D 87.847 288 24 8 622 908 117194665 117194388 6.500000e-86 327.0
28 TraesCS5B01G328700 chr2D 86.957 138 8 5 491 628 117194674 117194547 1.950000e-31 147.0
29 TraesCS5B01G328700 chr1B 83.686 662 90 6 950 1594 199670875 199670215 2.070000e-170 608.0
30 TraesCS5B01G328700 chr1B 99.130 115 1 0 1593 1707 130638608 130638494 8.830000e-50 207.0
31 TraesCS5B01G328700 chr3A 82.486 708 98 10 904 1594 442907134 442906436 4.490000e-167 597.0
32 TraesCS5B01G328700 chr3A 87.925 265 23 6 645 908 442907497 442907241 1.100000e-78 303.0
33 TraesCS5B01G328700 chr3A 81.383 188 26 6 262 444 292181049 292180866 7.030000e-31 145.0
34 TraesCS5B01G328700 chr3A 80.319 188 28 5 261 443 292180119 292179936 1.520000e-27 134.0
35 TraesCS5B01G328700 chr3A 74.569 232 38 11 1701 1921 296901228 296901449 5.590000e-12 82.4
36 TraesCS5B01G328700 chr5A 82.345 708 99 10 904 1594 691995572 691994874 2.090000e-165 592.0
37 TraesCS5B01G328700 chr5A 86.713 286 27 8 624 908 691995954 691995679 8.470000e-80 307.0
38 TraesCS5B01G328700 chr5A 96.721 122 3 1 1593 1714 6212838 6212958 4.110000e-48 202.0
39 TraesCS5B01G328700 chr5A 84.783 138 11 5 491 628 691995965 691995838 1.970000e-26 130.0
40 TraesCS5B01G328700 chr7B 87.063 286 27 7 624 908 381905195 381905471 5.060000e-82 315.0
41 TraesCS5B01G328700 chr7B 96.063 127 1 4 1593 1716 699005994 699005869 1.140000e-48 204.0
42 TraesCS5B01G328700 chr7B 96.032 126 1 4 1593 1717 468112360 468112482 4.110000e-48 202.0
43 TraesCS5B01G328700 chr7B 82.278 158 26 2 137 294 185620528 185620683 4.230000e-28 135.0
44 TraesCS5B01G328700 chr5D 84.420 276 32 4 1813 2087 116654371 116654106 6.690000e-66 261.0
45 TraesCS5B01G328700 chr5D 97.541 122 0 3 1593 1712 52398762 52398642 3.180000e-49 206.0
46 TraesCS5B01G328700 chr7A 83.333 276 35 4 1813 2087 671185599 671185864 6.730000e-61 244.0
47 TraesCS5B01G328700 chr7A 78.912 147 21 7 261 401 220403163 220403021 9.280000e-15 91.6
48 TraesCS5B01G328700 chr7A 90.000 50 5 0 1872 1921 629777694 629777645 5.630000e-07 65.8
49 TraesCS5B01G328700 chr4A 95.312 128 3 3 1593 1719 365637322 365637197 1.480000e-47 200.0
50 TraesCS5B01G328700 chr6A 93.985 133 5 3 1593 1724 525760487 525760617 5.320000e-47 198.0
51 TraesCS5B01G328700 chr2A 94.615 130 4 2 1593 1722 496375707 496375833 5.320000e-47 198.0
52 TraesCS5B01G328700 chr6D 73.707 232 40 12 1701 1921 16118800 16119021 1.210000e-08 71.3
53 TraesCS5B01G328700 chr6D 78.788 99 15 3 318 410 28036347 28036249 7.280000e-06 62.1
54 TraesCS5B01G328700 chr1A 94.595 37 1 1 375 410 8167139 8167175 3.390000e-04 56.5


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 TraesCS5B01G328700 chr5B 512582942 512585379 2437 True 1628.333333 4503 94.647333 1 2438 3 chr5B.!!$R2 2437
1 TraesCS5B01G328700 chr5B 208767345 208769151 1806 True 741.250000 2386 90.818250 1 1878 4 chr5B.!!$R1 1877
2 TraesCS5B01G328700 chr2B 357880705 357883061 2356 False 1063.000000 2627 94.072750 1 2438 4 chr2B.!!$F1 2437
3 TraesCS5B01G328700 chr3B 324236221 324238538 2317 True 822.400000 1847 94.026400 1 2438 5 chr3B.!!$R3 2437
4 TraesCS5B01G328700 chr3B 101253700 101254438 738 True 632.000000 632 82.654000 1701 2438 1 chr3B.!!$R1 737
5 TraesCS5B01G328700 chr3B 612305641 612306301 660 False 625.000000 625 84.163000 950 1594 1 chr3B.!!$F2 644
6 TraesCS5B01G328700 chr3B 605453944 605454604 660 True 573.000000 573 82.779000 950 1592 1 chr3B.!!$R2 642
7 TraesCS5B01G328700 chr3B 393754734 393755629 895 False 552.000000 577 87.435000 1 1015 2 chr3B.!!$F3 1014
8 TraesCS5B01G328700 chrUn 351800565 351801301 736 True 636.000000 636 82.695000 1701 2438 1 chrUn.!!$R2 737
9 TraesCS5B01G328700 chrUn 351701588 351702324 736 True 630.000000 630 82.563000 1701 2438 1 chrUn.!!$R1 737
10 TraesCS5B01G328700 chr2D 117193583 117194674 1091 True 370.000000 636 86.093000 491 1594 3 chr2D.!!$R1 1103
11 TraesCS5B01G328700 chr1B 199670215 199670875 660 True 608.000000 608 83.686000 950 1594 1 chr1B.!!$R2 644
12 TraesCS5B01G328700 chr3A 442906436 442907497 1061 True 450.000000 597 85.205500 645 1594 2 chr3A.!!$R2 949
13 TraesCS5B01G328700 chr5A 691994874 691995965 1091 True 343.000000 592 84.613667 491 1594 3 chr5A.!!$R1 1103

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
357 383 0.179094 TCGTCGCCTGTTGAGTTTGT 60.179 50.0 0.0 0.0 0.0 2.83 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1604 1768 0.248289 GTACGCAGCCTTTCCCTACA 59.752 55.0 0.0 0.0 0.0 2.74 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
188 214 2.325661 TCCTCCTCATCAGTCCAACA 57.674 50.000 0.00 0.00 0.00 3.33
357 383 0.179094 TCGTCGCCTGTTGAGTTTGT 60.179 50.000 0.00 0.00 0.00 2.83
372 398 2.747446 AGTTTGTTGTCGTTCTTGCACT 59.253 40.909 0.00 0.00 0.00 4.40
565 598 2.843113 GGGATGGGGATTCAGAGGATAG 59.157 54.545 0.00 0.00 0.00 2.08
796 830 7.287005 TGTGAAGAGAGACTACTGGTTTAAAGA 59.713 37.037 0.00 0.00 0.00 2.52
1027 1174 2.278404 CCATTCCCGCCCCAATGA 59.722 61.111 0.00 0.00 32.56 2.57
1259 1418 2.364842 ATCCGGACTCTGCTGCCT 60.365 61.111 6.12 0.00 0.00 4.75
1467 1630 4.842574 AGTTTCCTGCAACATTTTTGGTT 58.157 34.783 0.00 0.00 0.00 3.67
1594 1758 3.081804 CCCAACATGGACAAGGTAACTC 58.918 50.000 0.00 0.00 44.95 3.01
1595 1759 3.244911 CCCAACATGGACAAGGTAACTCT 60.245 47.826 0.00 0.00 44.95 3.24
1596 1760 4.398319 CCAACATGGACAAGGTAACTCTT 58.602 43.478 0.00 0.00 44.95 2.85
1597 1761 5.514136 CCCAACATGGACAAGGTAACTCTTA 60.514 44.000 0.00 0.00 44.95 2.10
1611 1775 7.179076 GGTAACTCTTACAGAAATGTAGGGA 57.821 40.000 0.00 0.00 37.88 4.20
1612 1776 7.618137 GGTAACTCTTACAGAAATGTAGGGAA 58.382 38.462 0.00 0.00 37.88 3.97
1614 1778 9.152595 GTAACTCTTACAGAAATGTAGGGAAAG 57.847 37.037 0.00 0.00 36.17 2.62
1615 1779 6.712276 ACTCTTACAGAAATGTAGGGAAAGG 58.288 40.000 0.00 0.00 0.00 3.11
1617 1781 5.250774 TCTTACAGAAATGTAGGGAAAGGCT 59.749 40.000 0.00 0.00 0.00 4.58
1618 1782 3.690460 ACAGAAATGTAGGGAAAGGCTG 58.310 45.455 0.00 0.00 0.00 4.85
1619 1783 2.424956 CAGAAATGTAGGGAAAGGCTGC 59.575 50.000 0.00 0.00 0.00 5.25
1620 1784 1.401905 GAAATGTAGGGAAAGGCTGCG 59.598 52.381 0.00 0.00 0.00 5.18
1621 1785 0.328258 AATGTAGGGAAAGGCTGCGT 59.672 50.000 0.00 0.00 0.00 5.24
1622 1786 1.200519 ATGTAGGGAAAGGCTGCGTA 58.799 50.000 0.00 0.00 0.00 4.42
1623 1787 0.248289 TGTAGGGAAAGGCTGCGTAC 59.752 55.000 0.00 0.00 37.28 3.67
1624 1788 0.535797 GTAGGGAAAGGCTGCGTACT 59.464 55.000 0.00 0.00 34.81 2.73
1625 1789 1.753073 GTAGGGAAAGGCTGCGTACTA 59.247 52.381 0.00 0.00 34.81 1.82
1626 1790 1.497161 AGGGAAAGGCTGCGTACTAT 58.503 50.000 0.00 0.00 0.00 2.12
1627 1791 2.674420 AGGGAAAGGCTGCGTACTATA 58.326 47.619 0.00 0.00 0.00 1.31
1628 1792 2.628657 AGGGAAAGGCTGCGTACTATAG 59.371 50.000 0.00 0.00 0.00 1.31
1629 1793 2.626743 GGGAAAGGCTGCGTACTATAGA 59.373 50.000 6.78 0.00 0.00 1.98
1630 1794 3.552478 GGGAAAGGCTGCGTACTATAGAC 60.552 52.174 6.78 0.00 0.00 2.59
1631 1795 3.552478 GGAAAGGCTGCGTACTATAGACC 60.552 52.174 6.78 0.00 0.00 3.85
1632 1796 1.618487 AGGCTGCGTACTATAGACCC 58.382 55.000 6.78 0.00 0.00 4.46
1633 1797 1.133575 AGGCTGCGTACTATAGACCCA 60.134 52.381 6.78 0.00 0.00 4.51
1634 1798 1.684983 GGCTGCGTACTATAGACCCAA 59.315 52.381 6.78 0.00 0.00 4.12
1635 1799 2.101917 GGCTGCGTACTATAGACCCAAA 59.898 50.000 6.78 0.00 0.00 3.28
1636 1800 3.381949 GCTGCGTACTATAGACCCAAAG 58.618 50.000 6.78 0.00 0.00 2.77
1637 1801 3.181478 GCTGCGTACTATAGACCCAAAGT 60.181 47.826 6.78 0.00 0.00 2.66
1638 1802 4.360563 CTGCGTACTATAGACCCAAAGTG 58.639 47.826 6.78 0.00 0.00 3.16
1639 1803 3.131577 TGCGTACTATAGACCCAAAGTGG 59.868 47.826 6.78 0.00 37.25 4.00
1640 1804 3.131755 GCGTACTATAGACCCAAAGTGGT 59.868 47.826 6.78 0.00 42.79 4.16
1645 1809 4.373771 GACCCAAAGTGGTCGGAC 57.626 61.111 0.00 0.00 44.98 4.79
1646 1810 1.302271 GACCCAAAGTGGTCGGACC 60.302 63.158 20.36 20.36 44.98 4.46
1647 1811 2.033602 CCCAAAGTGGTCGGACCC 59.966 66.667 23.81 14.91 37.50 4.46
1648 1812 2.526046 CCCAAAGTGGTCGGACCCT 61.526 63.158 23.81 16.82 37.50 4.34
1649 1813 1.454539 CCAAAGTGGTCGGACCCTT 59.545 57.895 23.81 21.08 37.50 3.95
1650 1814 0.605589 CCAAAGTGGTCGGACCCTTC 60.606 60.000 23.81 13.97 37.50 3.46
1651 1815 0.605589 CAAAGTGGTCGGACCCTTCC 60.606 60.000 23.81 9.51 37.50 3.46
1652 1816 1.775934 AAAGTGGTCGGACCCTTCCC 61.776 60.000 23.81 7.17 38.99 3.97
1653 1817 2.606826 GTGGTCGGACCCTTCCCT 60.607 66.667 23.81 0.00 38.99 4.20
1654 1818 2.606519 TGGTCGGACCCTTCCCTG 60.607 66.667 23.81 0.00 38.99 4.45
1655 1819 3.400054 GGTCGGACCCTTCCCTGG 61.400 72.222 16.55 0.00 38.99 4.45
1656 1820 2.284405 GTCGGACCCTTCCCTGGA 60.284 66.667 0.00 0.00 38.99 3.86
1657 1821 2.284405 TCGGACCCTTCCCTGGAC 60.284 66.667 0.00 0.00 38.99 4.02
1658 1822 3.400054 CGGACCCTTCCCTGGACC 61.400 72.222 0.00 0.00 38.99 4.46
1659 1823 3.015753 GGACCCTTCCCTGGACCC 61.016 72.222 0.00 0.00 35.57 4.46
1660 1824 2.125225 GACCCTTCCCTGGACCCT 59.875 66.667 0.00 0.00 0.00 4.34
1661 1825 2.204151 ACCCTTCCCTGGACCCTG 60.204 66.667 0.00 0.00 0.00 4.45
1662 1826 3.732849 CCCTTCCCTGGACCCTGC 61.733 72.222 0.00 0.00 0.00 4.85
1663 1827 4.101448 CCTTCCCTGGACCCTGCG 62.101 72.222 0.00 0.00 0.00 5.18
1664 1828 4.785453 CTTCCCTGGACCCTGCGC 62.785 72.222 0.00 0.00 0.00 6.09
1689 1853 3.558674 GAGCTACATGCACCAGGTT 57.441 52.632 0.00 0.00 45.94 3.50
1690 1854 1.089920 GAGCTACATGCACCAGGTTG 58.910 55.000 0.00 0.00 45.94 3.77
1691 1855 0.962356 AGCTACATGCACCAGGTTGC 60.962 55.000 8.03 8.03 44.17 4.17
1692 1856 1.937546 GCTACATGCACCAGGTTGCC 61.938 60.000 10.46 0.00 39.88 4.52
1693 1857 1.304052 TACATGCACCAGGTTGCCC 60.304 57.895 10.46 0.00 42.25 5.36
1694 1858 1.788518 TACATGCACCAGGTTGCCCT 61.789 55.000 10.46 0.00 42.25 5.19
1695 1859 1.909781 CATGCACCAGGTTGCCCTT 60.910 57.895 10.46 0.00 42.25 3.95
1696 1860 1.152269 ATGCACCAGGTTGCCCTTT 60.152 52.632 10.46 0.00 42.25 3.11
1697 1861 0.763986 ATGCACCAGGTTGCCCTTTT 60.764 50.000 10.46 0.00 42.25 2.27
1705 1869 4.222810 ACCAGGTTGCCCTTTTTATCAATC 59.777 41.667 0.00 0.00 39.89 2.67
1706 1870 4.222588 CCAGGTTGCCCTTTTTATCAATCA 59.777 41.667 0.00 0.00 39.89 2.57
1713 1877 7.185318 TGCCCTTTTTATCAATCATGTCAAT 57.815 32.000 0.00 0.00 0.00 2.57
1778 1942 6.449830 ACCCTCTAAAGTACCAAAACTGAT 57.550 37.500 0.00 0.00 0.00 2.90
2015 2193 4.216257 ACGCAGCAAACAAATACTTCAGAT 59.784 37.500 0.00 0.00 0.00 2.90
2342 2527 1.228521 TGTCCACTGCACCATTGGG 60.229 57.895 7.78 0.00 35.33 4.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
188 214 1.832912 GGATCCGCCAATCCTCTGT 59.167 57.895 0.00 0.00 41.78 3.41
246 272 5.509498 CCCATCCATCAACCTAGAAGAAAA 58.491 41.667 0.00 0.00 0.00 2.29
247 273 4.079787 CCCCATCCATCAACCTAGAAGAAA 60.080 45.833 0.00 0.00 0.00 2.52
258 284 0.692756 TCGCCTACCCCATCCATCAA 60.693 55.000 0.00 0.00 0.00 2.57
259 285 0.692756 TTCGCCTACCCCATCCATCA 60.693 55.000 0.00 0.00 0.00 3.07
357 383 1.013596 CACCAGTGCAAGAACGACAA 58.986 50.000 0.00 0.00 0.00 3.18
518 551 0.028505 GACAAGCTGCACACACACAG 59.971 55.000 1.02 0.00 36.96 3.66
696 729 3.444388 CGACCTCTTAACCTCTTACTGCT 59.556 47.826 0.00 0.00 0.00 4.24
796 830 9.503399 AAGAAACCTTGTTAAAGTATCGATTCT 57.497 29.630 1.71 0.00 0.00 2.40
1023 1170 4.467084 ACATCGGCCGGCGTCATT 62.467 61.111 27.83 0.68 0.00 2.57
1240 1399 2.581354 GCAGCAGAGTCCGGATGT 59.419 61.111 7.81 0.00 0.00 3.06
1259 1418 5.199024 AGTGCAGCATTAAACAATTGACA 57.801 34.783 13.59 0.00 0.00 3.58
1467 1630 6.182627 ACAGATATGTGGAAGCAAGATGAAA 58.817 36.000 4.70 0.00 0.00 2.69
1510 1674 5.328691 TGTTCTTCTTTGCTAAACAACACG 58.671 37.500 0.00 0.00 38.23 4.49
1594 1758 5.355350 CAGCCTTTCCCTACATTTCTGTAAG 59.645 44.000 0.00 0.00 37.41 2.34
1595 1759 5.253330 CAGCCTTTCCCTACATTTCTGTAA 58.747 41.667 0.00 0.00 37.41 2.41
1596 1760 4.843728 CAGCCTTTCCCTACATTTCTGTA 58.156 43.478 0.00 0.00 36.79 2.74
1597 1761 3.690460 CAGCCTTTCCCTACATTTCTGT 58.310 45.455 0.00 0.00 39.49 3.41
1601 1765 1.271926 ACGCAGCCTTTCCCTACATTT 60.272 47.619 0.00 0.00 0.00 2.32
1602 1766 0.328258 ACGCAGCCTTTCCCTACATT 59.672 50.000 0.00 0.00 0.00 2.71
1603 1767 1.134491 GTACGCAGCCTTTCCCTACAT 60.134 52.381 0.00 0.00 0.00 2.29
1604 1768 0.248289 GTACGCAGCCTTTCCCTACA 59.752 55.000 0.00 0.00 0.00 2.74
1605 1769 0.535797 AGTACGCAGCCTTTCCCTAC 59.464 55.000 0.00 0.00 0.00 3.18
1607 1771 1.497161 ATAGTACGCAGCCTTTCCCT 58.503 50.000 0.00 0.00 0.00 4.20
1609 1773 3.552478 GGTCTATAGTACGCAGCCTTTCC 60.552 52.174 0.00 0.00 0.00 3.13
1610 1774 3.552478 GGGTCTATAGTACGCAGCCTTTC 60.552 52.174 0.00 0.00 0.00 2.62
1611 1775 2.364647 GGGTCTATAGTACGCAGCCTTT 59.635 50.000 0.00 0.00 0.00 3.11
1612 1776 1.962100 GGGTCTATAGTACGCAGCCTT 59.038 52.381 0.00 0.00 0.00 4.35
1614 1778 1.325355 TGGGTCTATAGTACGCAGCC 58.675 55.000 13.98 8.23 35.18 4.85
1615 1779 3.181478 ACTTTGGGTCTATAGTACGCAGC 60.181 47.826 16.00 2.07 40.36 5.25
1617 1781 3.131577 CCACTTTGGGTCTATAGTACGCA 59.868 47.826 13.98 13.98 37.94 5.24
1618 1782 3.131755 ACCACTTTGGGTCTATAGTACGC 59.868 47.826 0.00 6.13 43.37 4.42
1619 1783 4.996788 ACCACTTTGGGTCTATAGTACG 57.003 45.455 0.00 0.00 43.37 3.67
1629 1793 2.826003 GGGTCCGACCACTTTGGGT 61.826 63.158 19.43 0.00 43.37 4.51
1630 1794 2.033602 GGGTCCGACCACTTTGGG 59.966 66.667 19.43 0.00 43.37 4.12
1631 1795 0.605589 GAAGGGTCCGACCACTTTGG 60.606 60.000 19.43 0.00 41.02 3.28
1632 1796 0.605589 GGAAGGGTCCGACCACTTTG 60.606 60.000 19.43 0.00 41.02 2.77
1633 1797 1.759236 GGAAGGGTCCGACCACTTT 59.241 57.895 19.43 9.96 41.02 2.66
1634 1798 2.222013 GGGAAGGGTCCGACCACTT 61.222 63.158 19.43 17.88 46.04 3.16
1635 1799 2.606826 GGGAAGGGTCCGACCACT 60.607 66.667 19.43 10.80 46.04 4.00
1636 1800 2.606826 AGGGAAGGGTCCGACCAC 60.607 66.667 19.43 8.70 46.04 4.16
1637 1801 2.606519 CAGGGAAGGGTCCGACCA 60.607 66.667 19.43 0.00 46.04 4.02
1638 1802 3.400054 CCAGGGAAGGGTCCGACC 61.400 72.222 9.30 9.30 46.04 4.79
1639 1803 2.284405 TCCAGGGAAGGGTCCGAC 60.284 66.667 0.00 0.00 46.04 4.79
1640 1804 2.284405 GTCCAGGGAAGGGTCCGA 60.284 66.667 0.00 0.00 46.04 4.55
1641 1805 3.400054 GGTCCAGGGAAGGGTCCG 61.400 72.222 0.00 0.00 46.04 4.79
1642 1806 3.015753 GGGTCCAGGGAAGGGTCC 61.016 72.222 0.00 0.00 44.10 4.46
1643 1807 2.125225 AGGGTCCAGGGAAGGGTC 59.875 66.667 0.00 0.00 0.00 4.46
1644 1808 2.204151 CAGGGTCCAGGGAAGGGT 60.204 66.667 0.00 0.00 0.00 4.34
1645 1809 3.732849 GCAGGGTCCAGGGAAGGG 61.733 72.222 0.00 0.00 0.00 3.95
1646 1810 4.101448 CGCAGGGTCCAGGGAAGG 62.101 72.222 0.00 0.00 0.00 3.46
1647 1811 4.785453 GCGCAGGGTCCAGGGAAG 62.785 72.222 0.30 0.00 0.00 3.46
1659 1823 4.819761 TAGCTCCCGCTTGCGCAG 62.820 66.667 11.31 6.32 46.47 5.18
1662 1826 2.202932 ATGTAGCTCCCGCTTGCG 60.203 61.111 8.14 8.14 46.47 4.85
1663 1827 2.828128 GCATGTAGCTCCCGCTTGC 61.828 63.158 0.00 0.00 46.47 4.01
1664 1828 1.450134 TGCATGTAGCTCCCGCTTG 60.450 57.895 0.00 0.00 46.47 4.01
1665 1829 1.450312 GTGCATGTAGCTCCCGCTT 60.450 57.895 0.00 0.00 46.47 4.68
1671 1835 1.089920 CAACCTGGTGCATGTAGCTC 58.910 55.000 14.15 0.00 45.94 4.09
1672 1836 0.962356 GCAACCTGGTGCATGTAGCT 60.962 55.000 14.15 0.00 44.29 3.32
1673 1837 1.508088 GCAACCTGGTGCATGTAGC 59.492 57.895 6.00 6.00 44.29 3.58
1674 1838 2.183409 GGCAACCTGGTGCATGTAG 58.817 57.895 18.44 0.00 46.81 2.74
1675 1839 4.413928 GGCAACCTGGTGCATGTA 57.586 55.556 18.44 0.00 46.81 2.29
1687 1851 6.397272 TGACATGATTGATAAAAAGGGCAAC 58.603 36.000 0.00 0.00 0.00 4.17
1688 1852 6.602410 TGACATGATTGATAAAAAGGGCAA 57.398 33.333 0.00 0.00 0.00 4.52
1689 1853 6.602410 TTGACATGATTGATAAAAAGGGCA 57.398 33.333 0.00 0.00 0.00 5.36
1778 1942 7.485418 TTTAGTTTTGTATCGCTGAAAGTCA 57.515 32.000 0.00 0.00 35.30 3.41
2015 2193 8.245195 TGTAGTCTACAACAATATCCAGCATA 57.755 34.615 10.37 0.00 35.38 3.14


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

AutoCloner maintained by Alex Coulton.