Multiple sequence alignment - TraesCS7A01G331700

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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 TraesCS7A01G331700 chr7A 100.000 2414 0 0 1 2414 484603045 484600632 0.000000e+00 4458.0
1 TraesCS7A01G331700 chr7A 84.936 551 63 18 878 1415 708625347 708624804 7.590000e-150 540.0
2 TraesCS7A01G331700 chr7D 93.319 1437 62 16 756 2169 434170109 434168684 0.000000e+00 2091.0
3 TraesCS7A01G331700 chr7D 87.124 466 51 9 954 1415 615897827 615897367 9.890000e-144 520.0
4 TraesCS7A01G331700 chr7D 91.304 92 8 0 2323 2414 434168642 434168551 2.520000e-25 126.0
5 TraesCS7A01G331700 chr7D 95.349 43 2 0 2201 2243 434168688 434168646 4.310000e-08 69.4
6 TraesCS7A01G331700 chr7B 89.365 1702 94 33 757 2414 451364556 451362898 0.000000e+00 2060.0
7 TraesCS7A01G331700 chr7B 83.748 603 74 22 831 1415 708916997 708916401 1.260000e-152 549.0
8 TraesCS7A01G331700 chr3A 91.270 756 63 3 3 757 155469224 155468471 0.000000e+00 1027.0
9 TraesCS7A01G331700 chr4D 90.426 752 68 4 2 752 329142468 329141720 0.000000e+00 987.0
10 TraesCS7A01G331700 chr4D 89.907 753 72 3 1 752 318592475 318591726 0.000000e+00 966.0
11 TraesCS7A01G331700 chr4A 90.344 756 65 6 2 757 591075144 591074397 0.000000e+00 985.0
12 TraesCS7A01G331700 chr5A 90.318 754 63 7 3 755 653371700 653372444 0.000000e+00 979.0
13 TraesCS7A01G331700 chr5A 90.305 753 63 7 1 753 1779261 1780003 0.000000e+00 977.0
14 TraesCS7A01G331700 chr2A 90.079 756 70 5 1 755 46835221 46835972 0.000000e+00 976.0
15 TraesCS7A01G331700 chr3D 90.027 752 74 1 1 752 604795710 604796460 0.000000e+00 972.0
16 TraesCS7A01G331700 chr1A 89.842 758 69 8 4 760 73811294 73810544 0.000000e+00 966.0


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 TraesCS7A01G331700 chr7A 484600632 484603045 2413 True 4458.000000 4458 100.000 1 2414 1 chr7A.!!$R1 2413
1 TraesCS7A01G331700 chr7A 708624804 708625347 543 True 540.000000 540 84.936 878 1415 1 chr7A.!!$R2 537
2 TraesCS7A01G331700 chr7D 434168551 434170109 1558 True 762.133333 2091 93.324 756 2414 3 chr7D.!!$R2 1658
3 TraesCS7A01G331700 chr7B 451362898 451364556 1658 True 2060.000000 2060 89.365 757 2414 1 chr7B.!!$R1 1657
4 TraesCS7A01G331700 chr7B 708916401 708916997 596 True 549.000000 549 83.748 831 1415 1 chr7B.!!$R2 584
5 TraesCS7A01G331700 chr3A 155468471 155469224 753 True 1027.000000 1027 91.270 3 757 1 chr3A.!!$R1 754
6 TraesCS7A01G331700 chr4D 329141720 329142468 748 True 987.000000 987 90.426 2 752 1 chr4D.!!$R2 750
7 TraesCS7A01G331700 chr4D 318591726 318592475 749 True 966.000000 966 89.907 1 752 1 chr4D.!!$R1 751
8 TraesCS7A01G331700 chr4A 591074397 591075144 747 True 985.000000 985 90.344 2 757 1 chr4A.!!$R1 755
9 TraesCS7A01G331700 chr5A 653371700 653372444 744 False 979.000000 979 90.318 3 755 1 chr5A.!!$F2 752
10 TraesCS7A01G331700 chr5A 1779261 1780003 742 False 977.000000 977 90.305 1 753 1 chr5A.!!$F1 752
11 TraesCS7A01G331700 chr2A 46835221 46835972 751 False 976.000000 976 90.079 1 755 1 chr2A.!!$F1 754
12 TraesCS7A01G331700 chr3D 604795710 604796460 750 False 972.000000 972 90.027 1 752 1 chr3D.!!$F1 751
13 TraesCS7A01G331700 chr1A 73810544 73811294 750 True 966.000000 966 89.842 4 760 1 chr1A.!!$R1 756

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
737 744 2.164017 GTGCAATATGCCACACATGTGA 59.836 45.455 31.94 10.25 44.12 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1796 1861 0.18135 AGCATACCAAGCAGGGTAGC 59.819 55.0 11.53 13.29 46.07 3.58 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
23 24 3.013276 CATGCATGCATGTGAGAATCC 57.987 47.619 40.30 8.94 46.20 3.01
28 29 4.705991 TGCATGCATGTGAGAATCCTTTTA 59.294 37.500 26.79 0.00 0.00 1.52
35 36 9.558396 TGCATGTGAGAATCCTTTTAAATTTTT 57.442 25.926 0.00 0.00 0.00 1.94
91 92 4.577687 TCCGATTGAAGATTCGTTTTCG 57.422 40.909 0.00 0.00 45.64 3.46
220 222 4.517453 GCCATGGTGTTTACACTGAAGTTA 59.483 41.667 14.67 0.00 45.73 2.24
221 223 5.183140 GCCATGGTGTTTACACTGAAGTTAT 59.817 40.000 14.67 0.00 45.73 1.89
323 327 6.375455 AGACTTGCCATGAACCATAAACTAAG 59.625 38.462 0.00 0.00 0.00 2.18
350 354 9.999660 ATTGCCATGATACATGCATTTAAAATA 57.000 25.926 0.00 0.00 33.08 1.40
439 443 5.473066 AAATTGCCATGCTCTACAAACTT 57.527 34.783 0.00 0.00 0.00 2.66
462 466 8.200792 ACTTAAATTGCCACATGACAACTTTAA 58.799 29.630 0.00 11.50 0.00 1.52
545 550 5.662456 TCGTCGAAACATATTAACATGGGA 58.338 37.500 0.00 0.00 0.00 4.37
591 596 6.403200 CGAGACGGATTTAATGGTGAAAACAT 60.403 38.462 0.00 0.00 0.00 2.71
654 661 8.943909 TTTTTAAGCCGAAAACCAAAAAGATA 57.056 26.923 0.00 0.00 0.00 1.98
699 706 7.450014 TCACATGTGGTAAAATGAGTGGTAAAT 59.550 33.333 25.16 0.00 0.00 1.40
710 717 8.862325 AAATGAGTGGTAAATAAGACATGTGA 57.138 30.769 1.15 0.00 0.00 3.58
737 744 2.164017 GTGCAATATGCCACACATGTGA 59.836 45.455 31.94 10.25 44.12 3.58
739 746 2.424601 GCAATATGCCACACATGTGAGT 59.575 45.455 31.94 8.09 45.30 3.41
1098 1136 3.562635 GTTTTCGAGGAGGGCACG 58.437 61.111 0.00 0.00 0.00 5.34
1164 1202 0.840722 ACCCCAAGAAGGTGATCCGT 60.841 55.000 0.00 0.00 35.85 4.69
1263 1301 2.040606 ACCCGCTACACCCTGGAT 59.959 61.111 0.00 0.00 0.00 3.41
1437 1475 5.450137 GGAGCAGAGCGTCTTTACAATACTA 60.450 44.000 0.00 0.00 0.00 1.82
1438 1476 5.583495 AGCAGAGCGTCTTTACAATACTAG 58.417 41.667 0.00 0.00 0.00 2.57
1440 1478 6.318144 AGCAGAGCGTCTTTACAATACTAGTA 59.682 38.462 4.77 4.77 0.00 1.82
1561 1604 9.584008 AGAGTTTAATTAAGGCATGATGATGAT 57.416 29.630 0.00 0.00 0.00 2.45
1562 1605 9.622004 GAGTTTAATTAAGGCATGATGATGATG 57.378 33.333 0.00 0.00 0.00 3.07
1563 1606 9.358406 AGTTTAATTAAGGCATGATGATGATGA 57.642 29.630 0.00 0.00 0.00 2.92
1594 1637 7.936496 TCCATGTGTTAAATCATGCTAAAGA 57.064 32.000 12.74 5.08 39.74 2.52
1618 1661 3.619729 GCACATGGTTGCAATTTTGTTG 58.380 40.909 0.59 0.00 42.49 3.33
1621 1664 4.515944 CACATGGTTGCAATTTTGTTGGAT 59.484 37.500 0.59 0.00 0.00 3.41
1630 1673 5.774690 TGCAATTTTGTTGGATCTTACTCCT 59.225 36.000 0.00 0.00 36.20 3.69
1708 1754 5.812642 AGTAATATCTGACGCAACCTTTCTG 59.187 40.000 0.00 0.00 0.00 3.02
1721 1767 5.390613 CAACCTTTCTGTTAAATAGTGCGG 58.609 41.667 0.00 0.00 0.00 5.69
1722 1768 4.648651 ACCTTTCTGTTAAATAGTGCGGT 58.351 39.130 0.00 0.00 0.00 5.68
1723 1769 4.454504 ACCTTTCTGTTAAATAGTGCGGTG 59.545 41.667 0.00 0.00 0.00 4.94
1724 1770 4.454504 CCTTTCTGTTAAATAGTGCGGTGT 59.545 41.667 0.00 0.00 0.00 4.16
1725 1771 5.048991 CCTTTCTGTTAAATAGTGCGGTGTT 60.049 40.000 0.00 0.00 0.00 3.32
1726 1772 6.380095 TTTCTGTTAAATAGTGCGGTGTTT 57.620 33.333 0.00 0.00 0.00 2.83
1727 1773 7.308109 CCTTTCTGTTAAATAGTGCGGTGTTTA 60.308 37.037 0.00 0.00 0.00 2.01
1728 1774 6.470557 TCTGTTAAATAGTGCGGTGTTTAC 57.529 37.500 0.00 0.00 0.00 2.01
1741 1787 4.386954 GCGGTGTTTACTGTTTAGGACTAC 59.613 45.833 0.00 0.00 35.54 2.73
1757 1821 8.591114 TTAGGACTACCATGGATATTAGCTAC 57.409 38.462 21.47 3.78 38.94 3.58
1781 1845 6.618196 ACCCAGTATATTCAGTTAGCCCTTTA 59.382 38.462 0.00 0.00 0.00 1.85
1783 1847 7.444487 CCCAGTATATTCAGTTAGCCCTTTAAC 59.556 40.741 0.00 0.00 34.48 2.01
1784 1848 7.170998 CCAGTATATTCAGTTAGCCCTTTAACG 59.829 40.741 0.00 0.00 38.32 3.18
1796 1861 6.937436 AGCCCTTTAACGGTCTAATAATTG 57.063 37.500 0.00 0.00 0.00 2.32
1799 1864 6.484308 GCCCTTTAACGGTCTAATAATTGCTA 59.516 38.462 0.00 0.00 0.00 3.49
1801 1866 7.041576 CCCTTTAACGGTCTAATAATTGCTACC 60.042 40.741 0.00 0.00 0.00 3.18
1809 1874 5.239525 GTCTAATAATTGCTACCCTGCTTGG 59.760 44.000 0.00 0.00 0.00 3.61
1826 1891 4.010349 GCTTGGTATGCTTGTAACTTCCT 58.990 43.478 0.00 0.00 0.00 3.36
1905 1970 4.098196 TGTTGGGTTTAGTACTGTTTTGGC 59.902 41.667 5.39 0.00 0.00 4.52
1946 2011 6.655003 TCATATTGACCCTTTTCACTGTCTTC 59.345 38.462 0.00 0.00 0.00 2.87
1959 2024 3.862267 CACTGTCTTCCATAGCTTCTTCG 59.138 47.826 0.00 0.00 0.00 3.79
1986 2071 1.386533 ATATGCAGTGCCAAGACAGC 58.613 50.000 13.72 0.00 0.00 4.40
2066 2151 6.339730 TGCATCACTTGTTTTTCTCAATTGT 58.660 32.000 5.13 0.00 30.93 2.71
2169 2257 9.967346 AAATGAGAATATGAGAAAATGATGCAG 57.033 29.630 0.00 0.00 0.00 4.41
2170 2258 8.693120 ATGAGAATATGAGAAAATGATGCAGT 57.307 30.769 0.00 0.00 0.00 4.40
2171 2259 7.927048 TGAGAATATGAGAAAATGATGCAGTG 58.073 34.615 0.00 0.00 0.00 3.66
2172 2260 7.771826 TGAGAATATGAGAAAATGATGCAGTGA 59.228 33.333 0.00 0.00 0.00 3.41
2173 2261 8.515695 AGAATATGAGAAAATGATGCAGTGAA 57.484 30.769 0.00 0.00 0.00 3.18
2174 2262 8.622157 AGAATATGAGAAAATGATGCAGTGAAG 58.378 33.333 0.00 0.00 0.00 3.02
2175 2263 4.430137 TGAGAAAATGATGCAGTGAAGC 57.570 40.909 0.00 0.00 0.00 3.86
2183 2271 3.786656 TGCAGTGAAGCAGTCTGTT 57.213 47.368 0.93 0.00 40.11 3.16
2184 2272 1.302366 TGCAGTGAAGCAGTCTGTTG 58.698 50.000 0.93 0.00 40.11 3.33
2185 2273 1.134431 TGCAGTGAAGCAGTCTGTTGA 60.134 47.619 0.93 0.00 40.11 3.18
2186 2274 2.149578 GCAGTGAAGCAGTCTGTTGAT 58.850 47.619 0.93 0.00 0.00 2.57
2187 2275 2.159234 GCAGTGAAGCAGTCTGTTGATC 59.841 50.000 0.93 0.00 0.00 2.92
2188 2276 3.396560 CAGTGAAGCAGTCTGTTGATCA 58.603 45.455 0.93 0.00 0.00 2.92
2189 2277 4.001652 CAGTGAAGCAGTCTGTTGATCAT 58.998 43.478 0.00 0.00 0.00 2.45
2190 2278 4.001652 AGTGAAGCAGTCTGTTGATCATG 58.998 43.478 0.00 0.00 0.00 3.07
2191 2279 3.750130 GTGAAGCAGTCTGTTGATCATGT 59.250 43.478 0.00 0.00 0.00 3.21
2192 2280 3.999001 TGAAGCAGTCTGTTGATCATGTC 59.001 43.478 0.00 0.00 0.00 3.06
2193 2281 2.614779 AGCAGTCTGTTGATCATGTCG 58.385 47.619 0.00 0.00 0.00 4.35
2194 2282 2.028658 AGCAGTCTGTTGATCATGTCGT 60.029 45.455 0.00 0.00 0.00 4.34
2195 2283 3.193479 AGCAGTCTGTTGATCATGTCGTA 59.807 43.478 0.00 0.00 0.00 3.43
2196 2284 3.304559 GCAGTCTGTTGATCATGTCGTAC 59.695 47.826 0.00 0.00 0.00 3.67
2197 2285 4.485163 CAGTCTGTTGATCATGTCGTACA 58.515 43.478 0.00 0.00 0.00 2.90
2198 2286 4.923281 CAGTCTGTTGATCATGTCGTACAA 59.077 41.667 0.00 0.00 0.00 2.41
2199 2287 4.923871 AGTCTGTTGATCATGTCGTACAAC 59.076 41.667 0.00 0.00 40.44 3.32
2210 2334 5.462729 TCATGTCGTACAACATACAACGTTT 59.537 36.000 0.00 0.00 37.78 3.60
2239 2363 7.381225 GTGCAACATGATCTCAAAGATTGAGC 61.381 42.308 13.85 3.68 46.53 4.26
2261 2385 0.034337 CTGCTTGCATTGGCCTGTTT 59.966 50.000 3.32 0.00 40.13 2.83
2262 2386 0.469070 TGCTTGCATTGGCCTGTTTT 59.531 45.000 3.32 0.00 40.13 2.43
2263 2387 0.869730 GCTTGCATTGGCCTGTTTTG 59.130 50.000 3.32 0.00 40.13 2.44
2264 2388 1.811176 GCTTGCATTGGCCTGTTTTGT 60.811 47.619 3.32 0.00 40.13 2.83
2265 2389 1.868498 CTTGCATTGGCCTGTTTTGTG 59.132 47.619 3.32 0.00 40.13 3.33
2266 2390 0.532417 TGCATTGGCCTGTTTTGTGC 60.532 50.000 3.32 4.53 40.13 4.57
2267 2391 0.249996 GCATTGGCCTGTTTTGTGCT 60.250 50.000 3.32 0.00 0.00 4.40
2268 2392 1.504359 CATTGGCCTGTTTTGTGCTG 58.496 50.000 3.32 0.00 0.00 4.41
2269 2393 1.068895 CATTGGCCTGTTTTGTGCTGA 59.931 47.619 3.32 0.00 0.00 4.26
2270 2394 1.189752 TTGGCCTGTTTTGTGCTGAA 58.810 45.000 3.32 0.00 0.00 3.02
2271 2395 1.412079 TGGCCTGTTTTGTGCTGAAT 58.588 45.000 3.32 0.00 0.00 2.57
2272 2396 1.340889 TGGCCTGTTTTGTGCTGAATC 59.659 47.619 3.32 0.00 0.00 2.52
2273 2397 1.615392 GGCCTGTTTTGTGCTGAATCT 59.385 47.619 0.00 0.00 0.00 2.40
2274 2398 2.352127 GGCCTGTTTTGTGCTGAATCTC 60.352 50.000 0.00 0.00 0.00 2.75
2275 2399 2.555757 GCCTGTTTTGTGCTGAATCTCT 59.444 45.455 0.00 0.00 0.00 3.10
2276 2400 3.005155 GCCTGTTTTGTGCTGAATCTCTT 59.995 43.478 0.00 0.00 0.00 2.85
2277 2401 4.216257 GCCTGTTTTGTGCTGAATCTCTTA 59.784 41.667 0.00 0.00 0.00 2.10
2278 2402 5.105997 GCCTGTTTTGTGCTGAATCTCTTAT 60.106 40.000 0.00 0.00 0.00 1.73
2279 2403 6.549952 CCTGTTTTGTGCTGAATCTCTTATC 58.450 40.000 0.00 0.00 0.00 1.75
2299 2423 1.464608 CTGCAATCGGTTGTGTAGTGG 59.535 52.381 10.66 0.00 37.65 4.00
2315 2439 3.261981 AGTGGTCTTCGTTTCACTTGT 57.738 42.857 0.00 0.00 37.18 3.16
2316 2440 3.195661 AGTGGTCTTCGTTTCACTTGTC 58.804 45.455 0.00 0.00 37.18 3.18
2317 2441 2.034001 GTGGTCTTCGTTTCACTTGTCG 60.034 50.000 0.00 0.00 0.00 4.35
2318 2442 1.525619 GGTCTTCGTTTCACTTGTCGG 59.474 52.381 0.00 0.00 0.00 4.79
2321 2445 2.605818 TCTTCGTTTCACTTGTCGGTTG 59.394 45.455 0.00 0.00 0.00 3.77
2335 2475 1.814394 TCGGTTGTGTAGTGCTCGTAT 59.186 47.619 0.00 0.00 0.00 3.06
2341 2481 6.040878 GGTTGTGTAGTGCTCGTATTAGATT 58.959 40.000 0.00 0.00 0.00 2.40
2344 2484 7.563888 TGTGTAGTGCTCGTATTAGATTAGT 57.436 36.000 0.00 0.00 0.00 2.24
2349 2489 6.210078 AGTGCTCGTATTAGATTAGTCTTGC 58.790 40.000 0.00 0.00 35.87 4.01
2367 2507 1.344114 TGCCTTGCCTTTGATTTGGTC 59.656 47.619 0.00 0.00 0.00 4.02
2403 2543 3.699038 TGCTGCCTATATGGACCAAAAAC 59.301 43.478 0.00 0.00 38.35 2.43
2410 2550 7.504238 TGCCTATATGGACCAAAAACGATAATT 59.496 33.333 0.00 0.00 38.35 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
171 173 6.904463 TTCATATGCAATAGACATGGCAAT 57.096 33.333 0.00 0.00 44.38 3.56
323 327 7.949903 TTTAAATGCATGTATCATGGCAATC 57.050 32.000 0.00 0.00 40.02 2.67
439 443 9.553064 AAATTAAAGTTGTCATGTGGCAATTTA 57.447 25.926 8.23 8.74 42.06 1.40
462 466 7.878127 ACACTGTAGTTGACATAGTGCTTAAAT 59.122 33.333 0.00 0.00 37.61 1.40
536 541 8.772250 AGATCTTCAAAACTAGATCCCATGTTA 58.228 33.333 0.00 0.00 38.24 2.41
545 550 6.316640 TCTCGACGAGATCTTCAAAACTAGAT 59.683 38.462 23.27 0.00 33.35 1.98
654 661 2.303890 TGAACAGATGACATCAGCAGGT 59.696 45.455 17.57 3.12 34.14 4.00
699 706 2.270923 GCACATCGCTCACATGTCTTA 58.729 47.619 0.00 0.00 37.77 2.10
797 806 2.774234 AGATCGGATGAAGTTGTGGGAT 59.226 45.455 0.00 0.00 0.00 3.85
804 813 4.290942 AGGTTAGGAGATCGGATGAAGTT 58.709 43.478 0.00 0.00 0.00 2.66
1164 1202 1.549170 GTCTTCTTGGCCGAGTCCTTA 59.451 52.381 19.96 0.00 0.00 2.69
1263 1301 0.031585 CCACGTCCTTGAAGTCGACA 59.968 55.000 19.50 0.00 0.00 4.35
1437 1475 6.899393 TTGATTGCAAGAACAAGGAATACT 57.101 33.333 4.94 0.00 31.96 2.12
1438 1476 7.433425 GCTATTGATTGCAAGAACAAGGAATAC 59.567 37.037 4.94 0.00 37.45 1.89
1440 1478 6.071221 TGCTATTGATTGCAAGAACAAGGAAT 60.071 34.615 4.94 0.08 37.45 3.01
1618 1661 4.479786 AACAGCTCAAGGAGTAAGATCC 57.520 45.455 0.00 0.00 39.89 3.36
1621 1664 6.879458 GGAAATAAACAGCTCAAGGAGTAAGA 59.121 38.462 0.00 0.00 31.39 2.10
1630 1673 5.779771 AGAATTGGGGAAATAAACAGCTCAA 59.220 36.000 0.00 0.00 0.00 3.02
1668 1714 9.737427 CAGATATTACTCACGAACAAGACTAAT 57.263 33.333 0.00 0.00 0.00 1.73
1680 1726 3.486108 GGTTGCGTCAGATATTACTCACG 59.514 47.826 0.00 0.00 0.00 4.35
1708 1754 6.232139 ACAGTAAACACCGCACTATTTAAC 57.768 37.500 0.00 0.00 0.00 2.01
1721 1767 6.370718 CCATGGTAGTCCTAAACAGTAAACAC 59.629 42.308 2.57 0.00 34.23 3.32
1722 1768 6.270463 TCCATGGTAGTCCTAAACAGTAAACA 59.730 38.462 12.58 0.00 34.23 2.83
1723 1769 6.704310 TCCATGGTAGTCCTAAACAGTAAAC 58.296 40.000 12.58 0.00 34.23 2.01
1724 1770 6.938698 TCCATGGTAGTCCTAAACAGTAAA 57.061 37.500 12.58 0.00 34.23 2.01
1725 1771 8.792830 ATATCCATGGTAGTCCTAAACAGTAA 57.207 34.615 12.58 0.00 34.23 2.24
1726 1772 8.792830 AATATCCATGGTAGTCCTAAACAGTA 57.207 34.615 12.58 0.00 34.23 2.74
1727 1773 7.691993 AATATCCATGGTAGTCCTAAACAGT 57.308 36.000 12.58 0.00 34.23 3.55
1728 1774 7.819900 GCTAATATCCATGGTAGTCCTAAACAG 59.180 40.741 12.58 0.00 34.23 3.16
1741 1787 6.814954 ATACTGGGTAGCTAATATCCATGG 57.185 41.667 4.97 4.97 44.00 3.66
1757 1821 5.568620 AAGGGCTAACTGAATATACTGGG 57.431 43.478 0.00 0.00 0.00 4.45
1781 1845 5.365619 CAGGGTAGCAATTATTAGACCGTT 58.634 41.667 0.00 0.00 0.00 4.44
1783 1847 3.746492 GCAGGGTAGCAATTATTAGACCG 59.254 47.826 0.00 0.00 0.00 4.79
1784 1848 4.974399 AGCAGGGTAGCAATTATTAGACC 58.026 43.478 0.00 0.00 36.85 3.85
1796 1861 0.181350 AGCATACCAAGCAGGGTAGC 59.819 55.000 11.53 13.29 46.07 3.58
1799 1864 0.405585 ACAAGCATACCAAGCAGGGT 59.594 50.000 4.63 4.63 43.89 4.34
1801 1866 3.347216 AGTTACAAGCATACCAAGCAGG 58.653 45.455 0.00 0.00 45.67 4.85
1809 1874 8.552034 GTCAATATGAGGAAGTTACAAGCATAC 58.448 37.037 0.00 0.00 0.00 2.39
1826 1891 3.713248 AGGCAGTGAGATGGTCAATATGA 59.287 43.478 0.00 0.00 36.74 2.15
1893 1958 3.369546 ACAAGCATGCCAAAACAGTAC 57.630 42.857 15.66 0.00 0.00 2.73
1905 1970 7.130917 GTCAATATGAAGAAGCTACAAGCATG 58.869 38.462 1.22 0.00 45.56 4.06
1946 2011 7.062371 GCATATAACTGTACGAAGAAGCTATGG 59.938 40.741 0.00 0.00 0.00 2.74
1959 2024 5.006746 GTCTTGGCACTGCATATAACTGTAC 59.993 44.000 2.82 0.00 0.00 2.90
1986 2071 9.811995 ATCAAAATGACAATATGAGACCATTTG 57.188 29.630 0.00 0.00 35.30 2.32
2047 2132 9.950680 ACTATGTACAATTGAGAAAAACAAGTG 57.049 29.630 13.59 0.00 44.90 3.16
2066 2151 7.685849 ACTTTTAAGGCCCTCATACTATGTA 57.314 36.000 0.00 0.00 0.00 2.29
2076 2161 5.885912 TCACATGATAACTTTTAAGGCCCTC 59.114 40.000 0.00 0.00 0.00 4.30
2079 2164 7.284489 TGGTATCACATGATAACTTTTAAGGCC 59.716 37.037 16.04 0.00 43.38 5.19
2148 2236 8.515695 TTCACTGCATCATTTTCTCATATTCT 57.484 30.769 0.00 0.00 0.00 2.40
2159 2247 3.190744 CAGACTGCTTCACTGCATCATTT 59.809 43.478 0.00 0.00 42.48 2.32
2164 2252 1.878088 CAACAGACTGCTTCACTGCAT 59.122 47.619 1.25 0.00 42.48 3.96
2165 2253 1.134431 TCAACAGACTGCTTCACTGCA 60.134 47.619 1.25 0.00 41.05 4.41
2166 2254 1.586422 TCAACAGACTGCTTCACTGC 58.414 50.000 1.25 0.00 35.38 4.40
2167 2255 3.396560 TGATCAACAGACTGCTTCACTG 58.603 45.455 1.25 0.00 37.62 3.66
2168 2256 3.758755 TGATCAACAGACTGCTTCACT 57.241 42.857 1.25 0.00 0.00 3.41
2169 2257 3.750130 ACATGATCAACAGACTGCTTCAC 59.250 43.478 0.00 0.00 0.00 3.18
2170 2258 3.999001 GACATGATCAACAGACTGCTTCA 59.001 43.478 0.00 1.27 0.00 3.02
2171 2259 3.061831 CGACATGATCAACAGACTGCTTC 59.938 47.826 0.00 0.00 0.00 3.86
2172 2260 2.998670 CGACATGATCAACAGACTGCTT 59.001 45.455 0.00 0.00 0.00 3.91
2173 2261 2.028658 ACGACATGATCAACAGACTGCT 60.029 45.455 0.00 0.00 0.00 4.24
2174 2262 2.341257 ACGACATGATCAACAGACTGC 58.659 47.619 0.00 0.00 0.00 4.40
2175 2263 4.485163 TGTACGACATGATCAACAGACTG 58.515 43.478 0.00 0.00 0.00 3.51
2176 2264 4.783764 TGTACGACATGATCAACAGACT 57.216 40.909 0.00 0.00 0.00 3.24
2177 2265 4.684242 TGTTGTACGACATGATCAACAGAC 59.316 41.667 12.11 1.28 41.77 3.51
2178 2266 4.877282 TGTTGTACGACATGATCAACAGA 58.123 39.130 12.11 0.00 41.77 3.41
2179 2267 5.784750 ATGTTGTACGACATGATCAACAG 57.215 39.130 25.00 0.00 46.78 3.16
2181 2269 6.641176 TGTATGTTGTACGACATGATCAAC 57.359 37.500 30.98 22.60 40.33 3.18
2182 2270 6.183360 CGTTGTATGTTGTACGACATGATCAA 60.183 38.462 30.98 26.68 40.33 2.57
2183 2271 5.287513 CGTTGTATGTTGTACGACATGATCA 59.712 40.000 30.98 23.77 40.33 2.92
2184 2272 5.287752 ACGTTGTATGTTGTACGACATGATC 59.712 40.000 30.98 22.07 40.33 2.92
2185 2273 5.165676 ACGTTGTATGTTGTACGACATGAT 58.834 37.500 30.98 14.39 40.33 2.45
2186 2274 4.548494 ACGTTGTATGTTGTACGACATGA 58.452 39.130 30.98 18.39 40.33 3.07
2187 2275 4.896562 ACGTTGTATGTTGTACGACATG 57.103 40.909 30.98 19.48 40.33 3.21
2188 2276 5.910637 AAACGTTGTATGTTGTACGACAT 57.089 34.783 27.68 27.68 42.57 3.06
2189 2277 5.745769 TGTAAACGTTGTATGTTGTACGACA 59.254 36.000 18.23 18.23 37.44 4.35
2190 2278 6.074888 ACTGTAAACGTTGTATGTTGTACGAC 60.075 38.462 0.00 6.27 37.44 4.34
2191 2279 5.976534 ACTGTAAACGTTGTATGTTGTACGA 59.023 36.000 0.00 0.00 37.44 3.43
2192 2280 6.060150 CACTGTAAACGTTGTATGTTGTACG 58.940 40.000 0.00 0.00 39.71 3.67
2193 2281 5.842327 GCACTGTAAACGTTGTATGTTGTAC 59.158 40.000 0.00 0.00 0.00 2.90
2194 2282 5.522824 TGCACTGTAAACGTTGTATGTTGTA 59.477 36.000 0.00 0.00 0.00 2.41
2195 2283 4.333095 TGCACTGTAAACGTTGTATGTTGT 59.667 37.500 0.00 0.00 0.00 3.32
2196 2284 4.838681 TGCACTGTAAACGTTGTATGTTG 58.161 39.130 0.00 0.00 0.00 3.33
2197 2285 5.163744 TGTTGCACTGTAAACGTTGTATGTT 60.164 36.000 0.00 0.00 0.00 2.71
2198 2286 4.333095 TGTTGCACTGTAAACGTTGTATGT 59.667 37.500 0.00 0.00 0.00 2.29
2199 2287 4.838681 TGTTGCACTGTAAACGTTGTATG 58.161 39.130 0.00 0.00 0.00 2.39
2210 2334 5.550290 TCTTTGAGATCATGTTGCACTGTA 58.450 37.500 0.00 0.00 0.00 2.74
2239 2363 1.681327 AGGCCAATGCAAGCAGGAG 60.681 57.895 5.01 0.00 40.13 3.69
2261 2385 4.835678 TGCAGATAAGAGATTCAGCACAA 58.164 39.130 0.00 0.00 30.61 3.33
2262 2386 4.476628 TGCAGATAAGAGATTCAGCACA 57.523 40.909 0.00 0.00 30.61 4.57
2263 2387 5.333187 CGATTGCAGATAAGAGATTCAGCAC 60.333 44.000 0.00 0.00 34.63 4.40
2264 2388 4.748600 CGATTGCAGATAAGAGATTCAGCA 59.251 41.667 0.00 0.00 33.29 4.41
2265 2389 4.152045 CCGATTGCAGATAAGAGATTCAGC 59.848 45.833 0.00 0.00 0.00 4.26
2266 2390 5.295950 ACCGATTGCAGATAAGAGATTCAG 58.704 41.667 0.00 0.00 0.00 3.02
2267 2391 5.282055 ACCGATTGCAGATAAGAGATTCA 57.718 39.130 0.00 0.00 0.00 2.57
2268 2392 5.525378 ACAACCGATTGCAGATAAGAGATTC 59.475 40.000 0.00 0.00 39.66 2.52
2269 2393 5.295292 CACAACCGATTGCAGATAAGAGATT 59.705 40.000 0.00 0.00 39.66 2.40
2270 2394 4.813161 CACAACCGATTGCAGATAAGAGAT 59.187 41.667 0.00 0.00 39.66 2.75
2271 2395 4.183865 CACAACCGATTGCAGATAAGAGA 58.816 43.478 0.00 0.00 39.66 3.10
2272 2396 3.935203 ACACAACCGATTGCAGATAAGAG 59.065 43.478 0.00 0.00 39.66 2.85
2273 2397 3.937814 ACACAACCGATTGCAGATAAGA 58.062 40.909 0.00 0.00 39.66 2.10
2274 2398 4.870426 ACTACACAACCGATTGCAGATAAG 59.130 41.667 0.00 0.00 39.66 1.73
2275 2399 4.629634 CACTACACAACCGATTGCAGATAA 59.370 41.667 0.00 0.00 39.66 1.75
2276 2400 4.180817 CACTACACAACCGATTGCAGATA 58.819 43.478 0.00 0.00 39.66 1.98
2277 2401 3.002791 CACTACACAACCGATTGCAGAT 58.997 45.455 0.00 0.00 39.66 2.90
2278 2402 2.412870 CACTACACAACCGATTGCAGA 58.587 47.619 0.00 0.00 39.66 4.26
2279 2403 1.464608 CCACTACACAACCGATTGCAG 59.535 52.381 0.00 0.00 39.66 4.41
2286 2410 1.269413 ACGAAGACCACTACACAACCG 60.269 52.381 0.00 0.00 0.00 4.44
2299 2423 2.199236 ACCGACAAGTGAAACGAAGAC 58.801 47.619 0.00 0.00 45.86 3.01
2315 2439 1.237533 TACGAGCACTACACAACCGA 58.762 50.000 0.00 0.00 0.00 4.69
2316 2440 2.273370 ATACGAGCACTACACAACCG 57.727 50.000 0.00 0.00 0.00 4.44
2317 2441 4.990257 TCTAATACGAGCACTACACAACC 58.010 43.478 0.00 0.00 0.00 3.77
2318 2442 7.914346 ACTAATCTAATACGAGCACTACACAAC 59.086 37.037 0.00 0.00 0.00 3.32
2321 2445 7.863666 AGACTAATCTAATACGAGCACTACAC 58.136 38.462 0.00 0.00 31.46 2.90
2335 2475 4.844349 AGGCAAGGCAAGACTAATCTAA 57.156 40.909 0.00 0.00 33.57 2.10
2341 2481 2.949177 TCAAAGGCAAGGCAAGACTA 57.051 45.000 0.00 0.00 0.00 2.59
2344 2484 2.037511 CCAAATCAAAGGCAAGGCAAGA 59.962 45.455 0.00 0.00 0.00 3.02
2349 2489 3.306294 GGAAGACCAAATCAAAGGCAAGG 60.306 47.826 0.00 0.00 35.97 3.61
2367 2507 2.756760 AGGCAGCACACAAATATGGAAG 59.243 45.455 0.00 0.00 0.00 3.46


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

AutoCloner maintained by Alex Coulton.