Multiple sequence alignment - TraesCS4D01G167500

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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 TraesCS4D01G167500 chr4D 100.000 2414 0 0 1 2414 290603752 290601339 0 4458
1 TraesCS4D01G167500 chr4D 93.304 1150 59 10 640 1779 61999802 62000943 0 1681
2 TraesCS4D01G167500 chr4D 91.963 647 49 3 1760 2405 72814905 72815549 0 904
3 TraesCS4D01G167500 chr4D 91.576 641 46 8 1760 2397 62000858 62001493 0 878
4 TraesCS4D01G167500 chr4D 91.640 634 46 4 1760 2391 405757551 405758179 0 870
5 TraesCS4D01G167500 chr4D 90.698 645 55 5 1760 2402 424710603 424709962 0 854
6 TraesCS4D01G167500 chr2D 93.430 1796 99 9 1 1779 260388088 260386295 0 2645
7 TraesCS4D01G167500 chr2D 92.500 1800 110 14 1 1779 167550655 167548860 0 2553
8 TraesCS4D01G167500 chr2D 91.847 1803 108 22 1 1779 450557242 450555455 0 2479
9 TraesCS4D01G167500 chr2D 91.850 638 50 2 1760 2396 450555539 450554903 0 889
10 TraesCS4D01G167500 chr7D 93.207 1796 100 15 1 1779 188532553 188534343 0 2621
11 TraesCS4D01G167500 chr7D 93.863 1108 48 13 683 1779 215218317 215219415 0 1652
12 TraesCS4D01G167500 chr7D 91.469 633 51 3 1760 2391 188534260 188534890 0 867
13 TraesCS4D01G167500 chr3D 92.758 1795 107 15 1 1779 146699535 146701322 0 2573
14 TraesCS4D01G167500 chr3D 92.487 1797 115 11 1 1779 397849377 397851171 0 2553
15 TraesCS4D01G167500 chr3D 93.560 1149 60 6 640 1779 418259564 418258421 0 1700
16 TraesCS4D01G167500 chr3D 93.299 1149 63 7 640 1779 365092401 365093544 0 1683
17 TraesCS4D01G167500 chr3D 92.512 641 43 5 1760 2398 541033199 541032562 0 913
18 TraesCS4D01G167500 chr3D 91.217 649 48 8 1760 2406 418258505 418257864 0 874
19 TraesCS4D01G167500 chr5D 92.591 1795 112 12 1 1779 249656396 249654607 0 2558
20 TraesCS4D01G167500 chr5D 91.292 1803 106 18 1 1779 405356680 405358455 0 2412
21 TraesCS4D01G167500 chr5D 91.484 1233 78 18 553 1779 522013302 522014513 0 1670
22 TraesCS4D01G167500 chr5D 90.783 651 53 7 1760 2408 137398112 137398757 0 863
23 TraesCS4D01G167500 chr6D 91.685 1792 120 18 1 1779 399393973 399392198 0 2457
24 TraesCS4D01G167500 chr6D 92.321 1146 55 15 640 1779 104855938 104854820 0 1598
25 TraesCS4D01G167500 chr5A 91.444 1800 125 16 1 1779 307496110 307497901 0 2444
26 TraesCS4D01G167500 chr1D 93.668 995 52 7 793 1779 63848820 63847829 0 1478
27 TraesCS4D01G167500 chr1D 90.631 1014 75 11 640 1649 211854811 211855808 0 1328


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 TraesCS4D01G167500 chr4D 290601339 290603752 2413 True 4458.0 4458 100.0000 1 2414 1 chr4D.!!$R1 2413
1 TraesCS4D01G167500 chr4D 61999802 62001493 1691 False 1279.5 1681 92.4400 640 2397 2 chr4D.!!$F3 1757
2 TraesCS4D01G167500 chr4D 72814905 72815549 644 False 904.0 904 91.9630 1760 2405 1 chr4D.!!$F1 645
3 TraesCS4D01G167500 chr4D 405757551 405758179 628 False 870.0 870 91.6400 1760 2391 1 chr4D.!!$F2 631
4 TraesCS4D01G167500 chr4D 424709962 424710603 641 True 854.0 854 90.6980 1760 2402 1 chr4D.!!$R2 642
5 TraesCS4D01G167500 chr2D 260386295 260388088 1793 True 2645.0 2645 93.4300 1 1779 1 chr2D.!!$R2 1778
6 TraesCS4D01G167500 chr2D 167548860 167550655 1795 True 2553.0 2553 92.5000 1 1779 1 chr2D.!!$R1 1778
7 TraesCS4D01G167500 chr2D 450554903 450557242 2339 True 1684.0 2479 91.8485 1 2396 2 chr2D.!!$R3 2395
8 TraesCS4D01G167500 chr7D 188532553 188534890 2337 False 1744.0 2621 92.3380 1 2391 2 chr7D.!!$F2 2390
9 TraesCS4D01G167500 chr7D 215218317 215219415 1098 False 1652.0 1652 93.8630 683 1779 1 chr7D.!!$F1 1096
10 TraesCS4D01G167500 chr3D 146699535 146701322 1787 False 2573.0 2573 92.7580 1 1779 1 chr3D.!!$F1 1778
11 TraesCS4D01G167500 chr3D 397849377 397851171 1794 False 2553.0 2553 92.4870 1 1779 1 chr3D.!!$F3 1778
12 TraesCS4D01G167500 chr3D 365092401 365093544 1143 False 1683.0 1683 93.2990 640 1779 1 chr3D.!!$F2 1139
13 TraesCS4D01G167500 chr3D 418257864 418259564 1700 True 1287.0 1700 92.3885 640 2406 2 chr3D.!!$R2 1766
14 TraesCS4D01G167500 chr3D 541032562 541033199 637 True 913.0 913 92.5120 1760 2398 1 chr3D.!!$R1 638
15 TraesCS4D01G167500 chr5D 249654607 249656396 1789 True 2558.0 2558 92.5910 1 1779 1 chr5D.!!$R1 1778
16 TraesCS4D01G167500 chr5D 405356680 405358455 1775 False 2412.0 2412 91.2920 1 1779 1 chr5D.!!$F2 1778
17 TraesCS4D01G167500 chr5D 522013302 522014513 1211 False 1670.0 1670 91.4840 553 1779 1 chr5D.!!$F3 1226
18 TraesCS4D01G167500 chr5D 137398112 137398757 645 False 863.0 863 90.7830 1760 2408 1 chr5D.!!$F1 648
19 TraesCS4D01G167500 chr6D 399392198 399393973 1775 True 2457.0 2457 91.6850 1 1779 1 chr6D.!!$R2 1778
20 TraesCS4D01G167500 chr6D 104854820 104855938 1118 True 1598.0 1598 92.3210 640 1779 1 chr6D.!!$R1 1139
21 TraesCS4D01G167500 chr5A 307496110 307497901 1791 False 2444.0 2444 91.4440 1 1779 1 chr5A.!!$F1 1778
22 TraesCS4D01G167500 chr1D 63847829 63848820 991 True 1478.0 1478 93.6680 793 1779 1 chr1D.!!$R1 986
23 TraesCS4D01G167500 chr1D 211854811 211855808 997 False 1328.0 1328 90.6310 640 1649 1 chr1D.!!$F1 1009

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
309 317 0.030235 CGTCAGCCGTCCGATCATAA 59.970 55.0 0.0 0.0 0.0 1.90 F
913 947 0.338467 TAAGCCACCCTCTGCCTCTA 59.662 55.0 0.0 0.0 0.0 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1132 1214 0.038159 CCAGACGCGAGGAAGAACTT 60.038 55.0 15.93 0.00 0.00 2.66 R
1748 1851 0.191064 ATGCCCTAGCTAGGTGCCTA 59.809 55.0 32.81 23.14 44.23 3.93 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
27 28 0.534877 AGACAACATTGTGCGCAGGA 60.535 50.000 12.22 1.69 42.43 3.86
128 133 8.788325 AAATGACCATAGACCAAGTTTAGTAC 57.212 34.615 0.00 0.00 0.00 2.73
309 317 0.030235 CGTCAGCCGTCCGATCATAA 59.970 55.000 0.00 0.00 0.00 1.90
356 364 5.278758 CCGATCTGGTCTTCTAGAAGGAATC 60.279 48.000 28.09 20.61 38.88 2.52
358 366 6.015519 CGATCTGGTCTTCTAGAAGGAATCAT 60.016 42.308 28.09 16.51 38.88 2.45
403 411 0.953471 CGCCGTTGGATCACAAGGAA 60.953 55.000 14.38 0.00 45.38 3.36
426 434 1.809619 CCGCATCGTTGGATCGTGT 60.810 57.895 0.00 0.00 0.00 4.49
520 531 4.306600 GTTGTTATTGTGCCCAAAAGGAG 58.693 43.478 0.00 0.00 38.24 3.69
558 570 2.906153 CCGTCGAATTGCGTTGTTTTA 58.094 42.857 0.00 0.00 41.80 1.52
599 612 0.391228 TTGTGAACGTGCTGGCTCTA 59.609 50.000 0.00 0.00 0.00 2.43
670 694 8.801299 ACCAAATTTTTAAGGGCCAAATTTATG 58.199 29.630 18.94 16.03 37.79 1.90
800 826 0.739561 TTTCAAACCACCGTTTCCCG 59.260 50.000 0.00 0.00 40.28 5.14
857 883 5.432885 AAACGGGTTACTTCACATTTGAG 57.567 39.130 0.00 0.00 31.71 3.02
859 885 2.811431 CGGGTTACTTCACATTTGAGCA 59.189 45.455 0.00 0.00 31.71 4.26
913 947 0.338467 TAAGCCACCCTCTGCCTCTA 59.662 55.000 0.00 0.00 0.00 2.43
998 1072 3.450457 CCTTCTTCTAGCACATCCTCAGT 59.550 47.826 0.00 0.00 0.00 3.41
1010 1084 3.453717 ACATCCTCAGTCATGCAGTACAT 59.546 43.478 0.00 0.00 40.66 2.29
1200 1282 1.002087 AGGATGTTCCGTGTCAAGGAC 59.998 52.381 7.04 4.08 42.75 3.85
1221 1303 1.065647 TCATCCAAAACGGGGTGGTA 58.934 50.000 0.00 0.00 39.63 3.25
1245 1327 0.689623 CTCTCCTTGCCCACTTCACT 59.310 55.000 0.00 0.00 0.00 3.41
1337 1423 2.291465 CCCACAACATGTTCACAGAGTG 59.709 50.000 8.48 12.24 34.45 3.51
1360 1446 4.778143 ACATCTTCCCCACCGCGC 62.778 66.667 0.00 0.00 0.00 6.86
1448 1536 0.907230 GGAGTGAGGTGGAGAAGGCT 60.907 60.000 0.00 0.00 0.00 4.58
1628 1731 4.099419 TCAACTATGTGATCGTGCTATGGT 59.901 41.667 0.00 0.00 0.00 3.55
1685 1788 6.712241 TTTTCTTAGAGAGATCGCTTTGTG 57.288 37.500 0.00 0.00 33.49 3.33
1695 1798 1.873698 TCGCTTTGTGAGTAACCACC 58.126 50.000 0.00 0.00 36.26 4.61
1696 1799 1.414919 TCGCTTTGTGAGTAACCACCT 59.585 47.619 0.00 0.00 36.26 4.00
1697 1800 2.629137 TCGCTTTGTGAGTAACCACCTA 59.371 45.455 0.00 0.00 36.26 3.08
1698 1801 2.993899 CGCTTTGTGAGTAACCACCTAG 59.006 50.000 0.00 0.00 36.26 3.02
1699 1802 3.554337 CGCTTTGTGAGTAACCACCTAGT 60.554 47.826 0.00 0.00 36.26 2.57
1700 1803 3.746492 GCTTTGTGAGTAACCACCTAGTG 59.254 47.826 0.00 0.00 36.26 2.74
1701 1804 3.396260 TTGTGAGTAACCACCTAGTGC 57.604 47.619 0.00 0.00 36.26 4.40
1702 1805 2.321719 TGTGAGTAACCACCTAGTGCA 58.678 47.619 0.00 0.00 36.26 4.57
1703 1806 2.903784 TGTGAGTAACCACCTAGTGCAT 59.096 45.455 0.00 0.00 36.26 3.96
1704 1807 3.262420 GTGAGTAACCACCTAGTGCATG 58.738 50.000 0.00 0.00 31.34 4.06
1705 1808 2.280628 GAGTAACCACCTAGTGCATGC 58.719 52.381 11.82 11.82 31.34 4.06
1706 1809 1.628340 AGTAACCACCTAGTGCATGCA 59.372 47.619 18.46 18.46 31.34 3.96
1707 1810 1.737793 GTAACCACCTAGTGCATGCAC 59.262 52.381 37.87 37.87 46.50 4.57
1715 1818 2.050168 GTGCATGCACCCACAACG 60.050 61.111 35.69 0.00 40.79 4.10
1716 1819 2.203266 TGCATGCACCCACAACGA 60.203 55.556 18.46 0.00 0.00 3.85
1717 1820 1.825622 TGCATGCACCCACAACGAA 60.826 52.632 18.46 0.00 0.00 3.85
1718 1821 1.371635 GCATGCACCCACAACGAAC 60.372 57.895 14.21 0.00 0.00 3.95
1719 1822 1.285641 CATGCACCCACAACGAACC 59.714 57.895 0.00 0.00 0.00 3.62
1720 1823 1.901464 ATGCACCCACAACGAACCC 60.901 57.895 0.00 0.00 0.00 4.11
1721 1824 2.203294 GCACCCACAACGAACCCT 60.203 61.111 0.00 0.00 0.00 4.34
1722 1825 1.826487 GCACCCACAACGAACCCTT 60.826 57.895 0.00 0.00 0.00 3.95
1723 1826 1.792118 GCACCCACAACGAACCCTTC 61.792 60.000 0.00 0.00 0.00 3.46
1724 1827 0.179029 CACCCACAACGAACCCTTCT 60.179 55.000 0.00 0.00 0.00 2.85
1725 1828 0.549469 ACCCACAACGAACCCTTCTT 59.451 50.000 0.00 0.00 0.00 2.52
1726 1829 1.064240 ACCCACAACGAACCCTTCTTT 60.064 47.619 0.00 0.00 0.00 2.52
1727 1830 2.028876 CCCACAACGAACCCTTCTTTT 58.971 47.619 0.00 0.00 0.00 2.27
1728 1831 2.429250 CCCACAACGAACCCTTCTTTTT 59.571 45.455 0.00 0.00 0.00 1.94
1752 1855 6.503589 TTACACAACCACAAATATGTAGGC 57.496 37.500 0.00 0.00 37.82 3.93
1753 1856 4.402829 ACACAACCACAAATATGTAGGCA 58.597 39.130 0.00 0.00 37.82 4.75
1754 1857 4.217550 ACACAACCACAAATATGTAGGCAC 59.782 41.667 0.00 0.00 37.82 5.01
1755 1858 3.761752 ACAACCACAAATATGTAGGCACC 59.238 43.478 0.00 0.00 37.82 5.01
1756 1859 4.016444 CAACCACAAATATGTAGGCACCT 58.984 43.478 0.00 0.00 37.82 4.00
1757 1860 5.189928 CAACCACAAATATGTAGGCACCTA 58.810 41.667 0.00 0.00 37.82 3.08
1758 1861 5.036117 ACCACAAATATGTAGGCACCTAG 57.964 43.478 0.00 0.00 37.82 3.02
1763 1866 5.012148 ACAAATATGTAGGCACCTAGCTAGG 59.988 44.000 33.98 33.98 43.03 3.02
1837 1942 1.137675 CACCTAGCTAGTGCATGCAGA 59.862 52.381 23.41 11.54 42.74 4.26
1875 1980 9.302345 TGTTCAATTTATTTGTCGTAGCAAAAA 57.698 25.926 6.64 0.53 41.03 1.94
1881 1986 1.600023 TGTCGTAGCAAAAAGGGTGG 58.400 50.000 0.00 0.00 0.00 4.61
1949 2055 4.256920 GCTCTAAATCAAGGAGACAAGCA 58.743 43.478 0.00 0.00 0.00 3.91
2035 2141 2.181777 GCTCGGTCAGTGCATCGA 59.818 61.111 0.00 0.00 39.04 3.59
2122 2228 1.152483 ATGCAGGCTTGTTGGGTGT 60.152 52.632 0.00 0.00 0.00 4.16
2123 2229 1.466025 ATGCAGGCTTGTTGGGTGTG 61.466 55.000 0.00 0.00 0.00 3.82
2143 2249 2.435437 TGTGCATAGCAGGCTTCTATCA 59.565 45.455 3.56 3.56 40.08 2.15
2192 2299 2.312436 GGACGACCCAACGAAACCG 61.312 63.158 0.00 0.00 37.03 4.44
2217 2324 0.108804 CAACGGTCGACTGGCTACAT 60.109 55.000 27.33 3.11 0.00 2.29
2257 2365 5.366829 TCGTCAGAGTTAACGATCAAAGA 57.633 39.130 0.00 0.00 42.49 2.52
2265 2373 5.607477 AGTTAACGATCAAAGAACTGACCA 58.393 37.500 0.00 0.00 0.00 4.02
2288 2396 2.732094 CGACGTCCGTTGTGACCC 60.732 66.667 10.58 0.00 31.35 4.46
2325 2433 1.633945 GCAAGGGAGAGGGGAAAACTA 59.366 52.381 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
56 60 0.798776 CGAGGTCAAATGAGCACCAC 59.201 55.000 14.36 3.18 44.42 4.16
270 278 0.252974 TTGGGAGCTAGGGTTAGGCA 60.253 55.000 0.00 0.00 0.00 4.75
333 341 5.300539 TGATTCCTTCTAGAAGACCAGATCG 59.699 44.000 30.17 13.13 40.79 3.69
356 364 2.758327 ATGCAGCCAGCCCACATG 60.758 61.111 0.00 0.00 44.83 3.21
496 506 3.243569 CCTTTTGGGCACAATAACAACGA 60.244 43.478 0.06 0.00 36.29 3.85
508 519 0.827507 GCTTGGTCTCCTTTTGGGCA 60.828 55.000 0.00 0.00 40.87 5.36
599 612 8.761575 ATTGATTTCAAACGATGCAAAAGTAT 57.238 26.923 0.00 0.00 39.55 2.12
670 694 4.252073 TGTGGCCATTTTGCATGATAAAC 58.748 39.130 9.72 0.00 0.00 2.01
800 826 3.695022 ATCGGGAGTGTACACGCGC 62.695 63.158 28.83 28.83 41.15 6.86
827 853 3.065095 TGAAGTAACCCGTTTTCAAACCG 59.935 43.478 0.00 0.00 35.51 4.44
857 883 2.925563 ACGTGTTATTTAGCCGTAGTGC 59.074 45.455 0.00 0.00 0.00 4.40
913 947 1.739750 GGAGATGGATGAGGGATGGT 58.260 55.000 0.00 0.00 0.00 3.55
998 1072 1.190643 TGGTCCGATGTACTGCATGA 58.809 50.000 0.00 0.00 38.06 3.07
1010 1084 0.971386 GAAGTGGTAGGTTGGTCCGA 59.029 55.000 0.00 0.00 41.99 4.55
1043 1118 1.152419 GGAGGGTAGAGCCTCTCCC 60.152 68.421 23.37 16.97 43.31 4.30
1132 1214 0.038159 CCAGACGCGAGGAAGAACTT 60.038 55.000 15.93 0.00 0.00 2.66
1200 1282 1.582610 CCACCCCGTTTTGGATGACG 61.583 60.000 0.00 0.00 42.00 4.35
1221 1303 1.073897 GTGGGCAAGGAGAGCAACT 59.926 57.895 0.00 0.00 0.00 3.16
1245 1327 3.998341 GGTAGAAGGCGTTGAATGTGTTA 59.002 43.478 0.00 0.00 0.00 2.41
1337 1423 1.250840 GGTGGGGAAGATGTTGGTGC 61.251 60.000 0.00 0.00 0.00 5.01
1360 1446 2.360350 AAGAGTGTGCATGCGGGG 60.360 61.111 14.09 0.00 0.00 5.73
1628 1731 3.780294 ACATGTAGATAGGGCCAACAAGA 59.220 43.478 6.18 0.00 0.00 3.02
1675 1778 2.038557 AGGTGGTTACTCACAAAGCGAT 59.961 45.455 6.38 0.00 39.27 4.58
1685 1788 2.280628 GCATGCACTAGGTGGTTACTC 58.719 52.381 14.21 0.00 33.64 2.59
1695 1798 0.523072 GTTGTGGGTGCATGCACTAG 59.477 55.000 40.86 0.00 45.52 2.57
1696 1799 1.233950 CGTTGTGGGTGCATGCACTA 61.234 55.000 40.86 29.92 45.52 2.74
1697 1800 2.554636 CGTTGTGGGTGCATGCACT 61.555 57.895 40.86 0.00 45.52 4.40
1698 1801 2.050168 CGTTGTGGGTGCATGCAC 60.050 61.111 37.29 37.29 45.49 4.57
1699 1802 1.825622 TTCGTTGTGGGTGCATGCA 60.826 52.632 18.46 18.46 0.00 3.96
1700 1803 1.371635 GTTCGTTGTGGGTGCATGC 60.372 57.895 11.82 11.82 0.00 4.06
1701 1804 1.285641 GGTTCGTTGTGGGTGCATG 59.714 57.895 0.00 0.00 0.00 4.06
1702 1805 1.901464 GGGTTCGTTGTGGGTGCAT 60.901 57.895 0.00 0.00 0.00 3.96
1703 1806 2.517402 GGGTTCGTTGTGGGTGCA 60.517 61.111 0.00 0.00 0.00 4.57
1704 1807 1.792118 GAAGGGTTCGTTGTGGGTGC 61.792 60.000 0.00 0.00 0.00 5.01
1705 1808 0.179029 AGAAGGGTTCGTTGTGGGTG 60.179 55.000 0.00 0.00 34.02 4.61
1706 1809 0.549469 AAGAAGGGTTCGTTGTGGGT 59.451 50.000 0.00 0.00 34.02 4.51
1707 1810 1.687563 AAAGAAGGGTTCGTTGTGGG 58.312 50.000 0.00 0.00 30.22 4.61
1708 1811 3.793797 AAAAAGAAGGGTTCGTTGTGG 57.206 42.857 0.00 0.00 31.78 4.17
1726 1829 7.868415 GCCTACATATTTGTGGTTGTGTAAAAA 59.132 33.333 0.00 0.00 36.53 1.94
1727 1830 7.014326 TGCCTACATATTTGTGGTTGTGTAAAA 59.986 33.333 0.00 0.00 36.53 1.52
1728 1831 6.490381 TGCCTACATATTTGTGGTTGTGTAAA 59.510 34.615 0.00 0.00 36.53 2.01
1729 1832 6.004574 TGCCTACATATTTGTGGTTGTGTAA 58.995 36.000 0.00 0.00 36.53 2.41
1730 1833 5.413213 GTGCCTACATATTTGTGGTTGTGTA 59.587 40.000 0.00 0.00 36.53 2.90
1731 1834 4.217550 GTGCCTACATATTTGTGGTTGTGT 59.782 41.667 0.00 0.00 36.53 3.72
1732 1835 4.380444 GGTGCCTACATATTTGTGGTTGTG 60.380 45.833 0.00 0.00 36.53 3.33
1733 1836 3.761752 GGTGCCTACATATTTGTGGTTGT 59.238 43.478 0.00 0.00 36.53 3.32
1734 1837 4.016444 AGGTGCCTACATATTTGTGGTTG 58.984 43.478 0.00 0.00 36.53 3.77
1735 1838 4.316025 AGGTGCCTACATATTTGTGGTT 57.684 40.909 0.00 0.00 36.53 3.67
1736 1839 4.686122 GCTAGGTGCCTACATATTTGTGGT 60.686 45.833 0.00 0.00 34.86 4.16
1737 1840 3.815401 GCTAGGTGCCTACATATTTGTGG 59.185 47.826 0.00 0.00 34.86 4.17
1738 1841 4.708177 AGCTAGGTGCCTACATATTTGTG 58.292 43.478 0.00 0.00 44.23 3.33
1739 1842 5.012148 CCTAGCTAGGTGCCTACATATTTGT 59.988 44.000 28.90 0.00 44.23 2.83
1740 1843 5.482908 CCTAGCTAGGTGCCTACATATTTG 58.517 45.833 28.90 0.18 44.23 2.32
1741 1844 4.532521 CCCTAGCTAGGTGCCTACATATTT 59.467 45.833 33.00 0.00 44.23 1.40
1742 1845 4.097418 CCCTAGCTAGGTGCCTACATATT 58.903 47.826 33.00 0.00 44.23 1.28
1743 1846 3.714144 CCCTAGCTAGGTGCCTACATAT 58.286 50.000 33.00 0.00 44.23 1.78
1744 1847 2.822006 GCCCTAGCTAGGTGCCTACATA 60.822 54.545 33.00 0.00 44.23 2.29
1745 1848 2.016905 CCCTAGCTAGGTGCCTACAT 57.983 55.000 33.00 0.00 44.23 2.29
1746 1849 0.759436 GCCCTAGCTAGGTGCCTACA 60.759 60.000 33.00 0.00 44.23 2.74
1747 1850 0.759436 TGCCCTAGCTAGGTGCCTAC 60.759 60.000 32.81 19.71 44.23 3.18
1748 1851 0.191064 ATGCCCTAGCTAGGTGCCTA 59.809 55.000 32.81 23.14 44.23 3.93
1749 1852 1.074167 ATGCCCTAGCTAGGTGCCT 60.074 57.895 32.81 26.04 44.23 4.75
1750 1853 1.072159 CATGCCCTAGCTAGGTGCC 59.928 63.158 32.81 23.75 44.23 5.01
1751 1854 1.599240 GCATGCCCTAGCTAGGTGC 60.599 63.158 33.00 31.89 42.03 5.01
1752 1855 0.250209 CTGCATGCCCTAGCTAGGTG 60.250 60.000 33.00 26.06 42.03 4.00
1753 1856 2.049627 GCTGCATGCCCTAGCTAGGT 62.050 60.000 33.00 16.27 42.03 3.08
1754 1857 1.302351 GCTGCATGCCCTAGCTAGG 60.302 63.158 30.05 30.05 43.25 3.02
1755 1858 4.375569 GCTGCATGCCCTAGCTAG 57.624 61.111 16.68 14.20 40.80 3.42
1875 1980 2.362369 CCACTCGCATCTCCACCCT 61.362 63.158 0.00 0.00 0.00 4.34
1949 2055 1.480137 CTGGTTCCTCTCTTCTCGCAT 59.520 52.381 0.00 0.00 0.00 4.73
2122 2228 2.435437 TGATAGAAGCCTGCTATGCACA 59.565 45.455 0.00 0.00 33.79 4.57
2123 2229 3.117491 TGATAGAAGCCTGCTATGCAC 57.883 47.619 0.00 0.00 33.79 4.57
2208 2315 1.819632 GCGTTGGGGATGTAGCCAG 60.820 63.158 0.00 0.00 0.00 4.85
2250 2358 2.872038 GCCGTCTGGTCAGTTCTTTGAT 60.872 50.000 0.00 0.00 37.67 2.57
2257 2365 2.338984 GTCGCCGTCTGGTCAGTT 59.661 61.111 0.00 0.00 37.67 3.16
2288 2396 1.377333 GCCCGAAACCCTCAGAAGG 60.377 63.158 0.00 0.00 42.95 3.46
2325 2433 2.293399 CCCACGCTCTTAACTTTTGCTT 59.707 45.455 0.00 0.00 0.00 3.91


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

AutoCloner maintained by Alex Coulton.