Multiple sequence alignment - TraesCS6B01G120600

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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 TraesCS6B01G120600 chr6B 100.000 2634 0 0 1 2634 115697487 115700120 0.000000e+00 4865
1 TraesCS6B01G120600 chr6B 87.799 1631 100 46 1039 2618 115573246 115574828 0.000000e+00 1818
2 TraesCS6B01G120600 chr6B 94.108 611 27 7 1 606 49359771 49360377 0.000000e+00 920
3 TraesCS6B01G120600 chr6B 89.720 214 17 2 1727 1939 115338357 115338566 4.320000e-68 268
4 TraesCS6B01G120600 chr6B 89.671 213 16 3 1728 1939 115086103 115086310 1.550000e-67 267
5 TraesCS6B01G120600 chr6B 89.302 215 18 2 1726 1939 115297720 115297930 5.590000e-67 265
6 TraesCS6B01G120600 chr6B 89.252 214 18 4 1727 1939 115105518 115105727 2.010000e-66 263
7 TraesCS6B01G120600 chr6B 89.252 214 16 6 1727 1939 115333455 115333662 7.230000e-66 261
8 TraesCS6B01G120600 chr6B 88.785 214 19 2 1727 1939 115295265 115295474 9.350000e-65 257
9 TraesCS6B01G120600 chr6B 88.785 214 19 4 1727 1939 115334277 115334486 9.350000e-65 257
10 TraesCS6B01G120600 chr6B 88.889 207 20 3 2345 2549 115295664 115295869 4.350000e-63 252
11 TraesCS6B01G120600 chr6B 88.406 207 21 3 2345 2549 115104269 115104474 2.020000e-61 246
12 TraesCS6B01G120600 chr6B 80.387 362 40 11 616 965 115572802 115573144 2.020000e-61 246
13 TraesCS6B01G120600 chr6B 82.847 274 26 8 616 882 678828317 678828576 2.640000e-55 226
14 TraesCS6B01G120600 chr6B 87.065 201 23 3 2351 2549 115110046 115110245 9.490000e-55 224
15 TraesCS6B01G120600 chr6B 83.146 267 24 8 616 875 678849114 678849366 9.490000e-55 224
16 TraesCS6B01G120600 chr6B 81.752 274 29 8 616 882 72314037 72314296 2.660000e-50 209
17 TraesCS6B01G120600 chr6B 87.719 171 12 5 744 911 115572456 115572620 9.620000e-45 191
18 TraesCS6B01G120600 chr6B 84.507 142 14 3 616 750 115540513 115540653 1.640000e-27 134
19 TraesCS6B01G120600 chr6D 87.696 959 66 20 616 1567 46625689 46626602 0.000000e+00 1070
20 TraesCS6B01G120600 chr6D 90.775 542 32 7 1039 1567 46845499 46846035 0.000000e+00 708
21 TraesCS6B01G120600 chr6D 92.541 362 21 3 2273 2632 46627088 46627445 5.030000e-142 514
22 TraesCS6B01G120600 chr6D 88.053 452 28 11 2205 2634 46846556 46847003 1.810000e-141 512
23 TraesCS6B01G120600 chr6D 90.000 390 26 4 1006 1389 46813387 46813769 2.360000e-135 492
24 TraesCS6B01G120600 chr6D 87.714 350 20 9 2273 2618 46839415 46839745 1.140000e-103 387
25 TraesCS6B01G120600 chr6D 78.680 591 77 30 640 1216 292686786 292687341 5.400000e-92 348
26 TraesCS6B01G120600 chr6D 82.885 409 43 19 1736 2137 46846080 46846468 2.510000e-90 342
27 TraesCS6B01G120600 chr6D 80.312 320 30 19 616 910 46812989 46813300 7.390000e-51 211
28 TraesCS6B01G120600 chr6D 76.860 242 29 13 688 927 46845172 46845388 7.710000e-21 111
29 TraesCS6B01G120600 chr1B 94.435 611 26 6 1 606 42169719 42170326 0.000000e+00 933
30 TraesCS6B01G120600 chr2B 94.417 609 27 5 3 606 57689410 57690016 0.000000e+00 929
31 TraesCS6B01G120600 chr4A 94.167 600 30 4 1 595 625226728 625227327 0.000000e+00 909
32 TraesCS6B01G120600 chr4A 79.126 618 77 31 616 1216 2622350 2621768 1.910000e-101 379
33 TraesCS6B01G120600 chr6A 92.997 614 36 4 1 609 605881726 605882337 0.000000e+00 889
34 TraesCS6B01G120600 chr6A 89.744 429 32 7 2208 2632 60430724 60431144 2.980000e-149 538
35 TraesCS6B01G120600 chr6A 83.117 539 52 18 616 1145 60428579 60429087 3.090000e-124 455
36 TraesCS6B01G120600 chr6A 89.892 277 24 2 2273 2549 60380499 60380771 1.160000e-93 353
37 TraesCS6B01G120600 chr6A 92.771 83 6 0 1207 1289 60429444 60429526 1.280000e-23 121
38 TraesCS6B01G120600 chr5A 92.962 611 35 6 1 606 648506035 648505428 0.000000e+00 883
39 TraesCS6B01G120600 chr5A 92.822 613 36 6 1 609 567754824 567754216 0.000000e+00 881
40 TraesCS6B01G120600 chr7D 93.388 605 24 11 1 594 562890060 562889461 0.000000e+00 881
41 TraesCS6B01G120600 chr5D 92.038 628 36 6 1 615 493821865 493821239 0.000000e+00 870
42 TraesCS6B01G120600 chrUn 78.803 618 69 33 621 1216 69799910 69800487 2.490000e-95 359
43 TraesCS6B01G120600 chr7A 78.120 617 82 31 616 1215 619251857 619252437 2.510000e-90 342
44 TraesCS6B01G120600 chr7B 83.051 295 28 11 616 896 703577809 703577523 5.630000e-62 248


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 TraesCS6B01G120600 chr6B 115697487 115700120 2633 False 4865.000000 4865 100.000000 1 2634 1 chr6B.!!$F6 2633
1 TraesCS6B01G120600 chr6B 49359771 49360377 606 False 920.000000 920 94.108000 1 606 1 chr6B.!!$F1 605
2 TraesCS6B01G120600 chr6B 115572456 115574828 2372 False 751.666667 1818 85.301667 616 2618 3 chr6B.!!$F12 2002
3 TraesCS6B01G120600 chr6B 115333455 115338566 5111 False 262.000000 268 89.252333 1727 1939 3 chr6B.!!$F11 212
4 TraesCS6B01G120600 chr6B 115295265 115297930 2665 False 258.000000 265 88.992000 1726 2549 3 chr6B.!!$F10 823
5 TraesCS6B01G120600 chr6B 115104269 115105727 1458 False 254.500000 263 88.829000 1727 2549 2 chr6B.!!$F9 822
6 TraesCS6B01G120600 chr6D 46625689 46627445 1756 False 792.000000 1070 90.118500 616 2632 2 chr6D.!!$F3 2016
7 TraesCS6B01G120600 chr6D 46845172 46847003 1831 False 418.250000 708 84.643250 688 2634 4 chr6D.!!$F5 1946
8 TraesCS6B01G120600 chr6D 46812989 46813769 780 False 351.500000 492 85.156000 616 1389 2 chr6D.!!$F4 773
9 TraesCS6B01G120600 chr6D 292686786 292687341 555 False 348.000000 348 78.680000 640 1216 1 chr6D.!!$F2 576
10 TraesCS6B01G120600 chr1B 42169719 42170326 607 False 933.000000 933 94.435000 1 606 1 chr1B.!!$F1 605
11 TraesCS6B01G120600 chr2B 57689410 57690016 606 False 929.000000 929 94.417000 3 606 1 chr2B.!!$F1 603
12 TraesCS6B01G120600 chr4A 625226728 625227327 599 False 909.000000 909 94.167000 1 595 1 chr4A.!!$F1 594
13 TraesCS6B01G120600 chr4A 2621768 2622350 582 True 379.000000 379 79.126000 616 1216 1 chr4A.!!$R1 600
14 TraesCS6B01G120600 chr6A 605881726 605882337 611 False 889.000000 889 92.997000 1 609 1 chr6A.!!$F2 608
15 TraesCS6B01G120600 chr6A 60428579 60431144 2565 False 371.333333 538 88.544000 616 2632 3 chr6A.!!$F3 2016
16 TraesCS6B01G120600 chr5A 648505428 648506035 607 True 883.000000 883 92.962000 1 606 1 chr5A.!!$R2 605
17 TraesCS6B01G120600 chr5A 567754216 567754824 608 True 881.000000 881 92.822000 1 609 1 chr5A.!!$R1 608
18 TraesCS6B01G120600 chr7D 562889461 562890060 599 True 881.000000 881 93.388000 1 594 1 chr7D.!!$R1 593
19 TraesCS6B01G120600 chr5D 493821239 493821865 626 True 870.000000 870 92.038000 1 615 1 chr5D.!!$R1 614
20 TraesCS6B01G120600 chrUn 69799910 69800487 577 False 359.000000 359 78.803000 621 1216 1 chrUn.!!$F1 595
21 TraesCS6B01G120600 chr7A 619251857 619252437 580 False 342.000000 342 78.120000 616 1215 1 chr7A.!!$F1 599

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
929 991 1.133458 GCCGAAGAAGCTTCTTGCG 59.867 57.895 39.32 34.81 46.84 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1785 2647 0.108615 GGTCGTCACATCTCCACCTG 60.109 60.0 0.0 0.0 0.0 4.0 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
103 104 1.681229 TCCTGGATAGGCCCAAAAGT 58.319 50.000 0.00 0.00 44.22 2.66
396 398 3.559384 GCTATATAAACAGAGGTGGGGGC 60.559 52.174 0.00 0.00 0.00 5.80
438 442 2.288642 ATCGCTGCCACAATCCCCAT 62.289 55.000 0.00 0.00 0.00 4.00
602 621 4.323638 GGATCTACTAGCCTACTCCGATCA 60.324 50.000 0.00 0.00 0.00 2.92
603 622 4.005487 TCTACTAGCCTACTCCGATCAC 57.995 50.000 0.00 0.00 0.00 3.06
606 625 3.362706 ACTAGCCTACTCCGATCACAAA 58.637 45.455 0.00 0.00 0.00 2.83
607 626 2.969628 AGCCTACTCCGATCACAAAG 57.030 50.000 0.00 0.00 0.00 2.77
609 628 1.941325 CCTACTCCGATCACAAAGCC 58.059 55.000 0.00 0.00 0.00 4.35
610 629 1.482593 CCTACTCCGATCACAAAGCCT 59.517 52.381 0.00 0.00 0.00 4.58
611 630 2.693591 CCTACTCCGATCACAAAGCCTA 59.306 50.000 0.00 0.00 0.00 3.93
613 632 3.460857 ACTCCGATCACAAAGCCTATC 57.539 47.619 0.00 0.00 0.00 2.08
614 633 2.766263 ACTCCGATCACAAAGCCTATCA 59.234 45.455 0.00 0.00 0.00 2.15
793 826 6.824305 AGTTCACTTCATAATTGTTCTGGG 57.176 37.500 0.00 0.00 0.00 4.45
929 991 1.133458 GCCGAAGAAGCTTCTTGCG 59.867 57.895 39.32 34.81 46.84 4.85
1037 1144 4.410555 AGAGGAAGAACAAGAACCAGAAGT 59.589 41.667 0.00 0.00 0.00 3.01
1164 1274 1.869503 CGTTCTGCAAATGCTACGTG 58.130 50.000 6.97 0.00 42.66 4.49
1363 1774 2.125147 CGGAGGATTGCCGCAAGA 60.125 61.111 12.16 0.00 42.55 3.02
1367 1778 1.918253 AGGATTGCCGCAAGATCCT 59.082 52.632 18.73 18.73 43.67 3.24
1393 1804 0.673333 CATGCACGGTTAGAGCCACA 60.673 55.000 0.00 0.00 35.49 4.17
1408 1826 1.463553 CCACAGGCTTTGGGGTTGAC 61.464 60.000 11.99 0.00 46.01 3.18
1459 1887 7.581213 AATAACTTGAAATGTGAGTGTTGGA 57.419 32.000 0.00 0.00 0.00 3.53
1479 1924 4.949856 TGGAAGTAAAAGGCAATGGAGATC 59.050 41.667 0.00 0.00 0.00 2.75
1482 1927 0.734889 AAAAGGCAATGGAGATCGCG 59.265 50.000 0.00 0.00 0.00 5.87
1497 2205 6.264067 TGGAGATCGCGAATCATATATGAGAT 59.736 38.462 15.24 15.50 40.64 2.75
1512 2220 1.339610 TGAGATTTTGGTTGGTTGGCG 59.660 47.619 0.00 0.00 0.00 5.69
1525 2238 3.454587 TTGGCGCTCGGTTCAGTGT 62.455 57.895 7.64 0.00 0.00 3.55
1534 2247 4.435121 CGCTCGGTTCAGTGTAATTTTACC 60.435 45.833 0.00 0.00 32.72 2.85
1560 2273 7.582679 CGTGTTCTTTGTGAAATGTTGTAGTAG 59.417 37.037 0.00 0.00 36.30 2.57
1566 2279 8.951787 TTTGTGAAATGTTGTAGTAGTACACT 57.048 30.769 10.01 0.00 38.95 3.55
1568 2281 9.687210 TTGTGAAATGTTGTAGTAGTACACTAG 57.313 33.333 10.01 0.00 40.48 2.57
1569 2282 8.853126 TGTGAAATGTTGTAGTAGTACACTAGT 58.147 33.333 10.01 0.00 40.48 2.57
1594 2312 7.716768 ACTACACTGAAGAAAGCTTAGTTTC 57.283 36.000 0.00 5.03 36.79 2.78
1598 2316 6.481644 ACACTGAAGAAAGCTTAGTTTCAGAG 59.518 38.462 32.39 28.86 44.58 3.35
1609 2327 5.061560 GCTTAGTTTCAGAGATGTGAGAACG 59.938 44.000 0.00 0.00 0.00 3.95
1631 2353 5.066505 ACGAGCAAAGAAATGTTCAGTTCTT 59.933 36.000 18.26 18.26 44.11 2.52
1712 2440 9.890629 ATCTGATTAATCTGCAGTAGTAACAAA 57.109 29.630 14.67 0.00 0.00 2.83
1715 2443 7.880713 TGATTAATCTGCAGTAGTAACAAACCA 59.119 33.333 14.67 3.11 0.00 3.67
1724 2452 6.581166 GCAGTAGTAACAAACCAGCAATTAAC 59.419 38.462 0.00 0.00 0.00 2.01
1725 2453 7.081976 CAGTAGTAACAAACCAGCAATTAACC 58.918 38.462 0.00 0.00 0.00 2.85
1726 2454 6.773685 AGTAGTAACAAACCAGCAATTAACCA 59.226 34.615 0.00 0.00 0.00 3.67
1727 2455 6.472686 AGTAACAAACCAGCAATTAACCAA 57.527 33.333 0.00 0.00 0.00 3.67
1729 2457 7.331791 AGTAACAAACCAGCAATTAACCAAAA 58.668 30.769 0.00 0.00 0.00 2.44
1734 2594 5.213891 ACCAGCAATTAACCAAAAGAAGG 57.786 39.130 0.00 0.00 0.00 3.46
1784 2646 6.153851 TGCTCAATTTCACCTGATGATTCATT 59.846 34.615 0.00 0.00 37.11 2.57
1785 2647 6.696148 GCTCAATTTCACCTGATGATTCATTC 59.304 38.462 0.00 0.00 37.11 2.67
1786 2648 7.629866 GCTCAATTTCACCTGATGATTCATTCA 60.630 37.037 0.00 0.42 37.11 2.57
1787 2649 7.768240 TCAATTTCACCTGATGATTCATTCAG 58.232 34.615 14.27 14.27 37.89 3.02
1821 3505 0.546122 ACCCAAGTTGTCACTGAGCA 59.454 50.000 1.45 0.00 31.60 4.26
1838 3523 4.591929 TGAGCATTTCATCATCACAAGGA 58.408 39.130 0.00 0.00 0.00 3.36
1859 3545 4.403734 GACAATTTTAGGTGGGGTGAGAA 58.596 43.478 0.00 0.00 0.00 2.87
1926 3614 3.289704 TACGCGCTAGCCAACTGCA 62.290 57.895 5.73 0.00 44.83 4.41
1939 3627 2.282462 CTGCACCACCACCCCTTC 60.282 66.667 0.00 0.00 0.00 3.46
1943 3631 2.204889 ACCACCACCCCTTCGGTA 59.795 61.111 0.00 0.00 46.14 4.02
1965 3656 6.145696 GGTATATAATCAGCCAAACGTCAGAC 59.854 42.308 0.00 0.00 0.00 3.51
1972 3667 2.027192 AGCCAAACGTCAGACCATATGT 60.027 45.455 1.24 0.00 0.00 2.29
1974 3669 3.936453 GCCAAACGTCAGACCATATGTTA 59.064 43.478 1.24 0.00 0.00 2.41
1980 3675 6.716934 ACGTCAGACCATATGTTAATCTCT 57.283 37.500 1.24 0.00 0.00 3.10
1982 3677 8.234136 ACGTCAGACCATATGTTAATCTCTTA 57.766 34.615 1.24 0.00 0.00 2.10
1984 3679 8.568794 CGTCAGACCATATGTTAATCTCTTAGA 58.431 37.037 1.24 0.00 0.00 2.10
2007 3703 6.314896 AGAATTCAGATAAAGCAAAGGACGAG 59.685 38.462 8.44 0.00 0.00 4.18
2097 3812 6.631962 AGAGAAAGGAACTACAGAAATACCG 58.368 40.000 0.00 0.00 38.49 4.02
2139 3854 6.381801 CCTGCGACTTCTGAAAACAAAATAT 58.618 36.000 0.00 0.00 0.00 1.28
2142 3857 7.077605 TGCGACTTCTGAAAACAAAATATCTG 58.922 34.615 0.00 0.00 0.00 2.90
2156 3871 8.991243 ACAAAATATCTGGACATGTTTTGATG 57.009 30.769 17.72 5.24 42.82 3.07
2157 3872 8.587608 ACAAAATATCTGGACATGTTTTGATGT 58.412 29.630 17.72 9.60 42.82 3.06
2174 3889 4.874970 TGATGTCATGTCAGATACATCCG 58.125 43.478 16.17 0.00 46.15 4.18
2219 3955 4.563140 TTTAGGACGGAGGCAATACTTT 57.437 40.909 0.00 0.00 0.00 2.66
2372 4984 2.237392 ACAGATCCTTCCTAGCACCAAC 59.763 50.000 0.00 0.00 0.00 3.77
2545 8415 6.463995 AGAACAGAAATTGGCACTTGTAAA 57.536 33.333 0.00 0.00 0.00 2.01
2546 8416 6.273071 AGAACAGAAATTGGCACTTGTAAAC 58.727 36.000 0.00 0.00 0.00 2.01
2547 8417 5.852282 ACAGAAATTGGCACTTGTAAACT 57.148 34.783 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
128 129 9.481340 GATAGAATCATTCAGCTACAACATACA 57.519 33.333 0.00 0.00 0.00 2.29
242 243 3.790408 ACATTCTCCCCCTTGATCTCAAT 59.210 43.478 0.00 0.00 35.02 2.57
396 398 3.695022 CTCGTAAGTCGTGCCCCGG 62.695 68.421 0.00 0.00 40.80 5.73
602 621 2.028476 TGTACGTGCTGATAGGCTTTGT 60.028 45.455 4.97 0.00 0.00 2.83
603 622 2.616960 TGTACGTGCTGATAGGCTTTG 58.383 47.619 4.97 0.00 0.00 2.77
606 625 3.615110 GCATATGTACGTGCTGATAGGCT 60.615 47.826 11.48 0.00 38.30 4.58
607 626 2.668457 GCATATGTACGTGCTGATAGGC 59.332 50.000 4.97 5.13 38.30 3.93
609 628 5.669602 GCAATGCATATGTACGTGCTGATAG 60.670 44.000 18.40 5.91 41.78 2.08
610 629 4.152223 GCAATGCATATGTACGTGCTGATA 59.848 41.667 18.40 0.00 41.78 2.15
611 630 3.058708 GCAATGCATATGTACGTGCTGAT 60.059 43.478 18.40 0.00 41.78 2.90
613 632 2.288729 AGCAATGCATATGTACGTGCTG 59.711 45.455 24.12 1.65 41.78 4.41
614 633 2.564771 AGCAATGCATATGTACGTGCT 58.435 42.857 21.08 21.08 41.78 4.40
778 811 5.178096 TGCTCTTCCCAGAACAATTATGA 57.822 39.130 0.00 0.00 0.00 2.15
782 815 4.015084 CAGATGCTCTTCCCAGAACAATT 58.985 43.478 0.00 0.00 28.79 2.32
783 816 3.265221 TCAGATGCTCTTCCCAGAACAAT 59.735 43.478 0.00 0.00 28.79 2.71
787 820 1.209019 GCTCAGATGCTCTTCCCAGAA 59.791 52.381 0.00 0.00 0.00 3.02
790 823 1.209019 GAAGCTCAGATGCTCTTCCCA 59.791 52.381 0.00 0.00 43.24 4.37
793 826 6.690530 ACATATAGAAGCTCAGATGCTCTTC 58.309 40.000 0.00 0.00 43.24 2.87
891 953 2.868839 GCTGCACATGCCATTGTTTCTT 60.869 45.455 0.49 0.00 41.18 2.52
913 975 0.718343 CTCCGCAAGAAGCTTCTTCG 59.282 55.000 33.73 32.60 45.23 3.79
929 991 2.870372 GCACACGGCATTGACTCC 59.130 61.111 0.00 0.00 43.97 3.85
1037 1144 2.509964 GCCTTCTTCTTCCCCTCCATTA 59.490 50.000 0.00 0.00 0.00 1.90
1164 1274 1.226831 GCAGTCGGAGTAGCAGCTC 60.227 63.158 0.00 0.00 34.89 4.09
1363 1774 1.452651 CGTGCATGGCCTTGAGGAT 60.453 57.895 22.21 0.00 37.39 3.24
1367 1778 0.676466 CTAACCGTGCATGGCCTTGA 60.676 55.000 25.30 4.87 0.00 3.02
1393 1804 0.609131 CATCGTCAACCCCAAAGCCT 60.609 55.000 0.00 0.00 0.00 4.58
1408 1826 2.385013 TCCACCACAAGACATCATCG 57.615 50.000 0.00 0.00 0.00 3.84
1440 1863 5.505173 ACTTCCAACACTCACATTTCAAG 57.495 39.130 0.00 0.00 0.00 3.02
1445 1868 5.221244 GCCTTTTACTTCCAACACTCACATT 60.221 40.000 0.00 0.00 0.00 2.71
1459 1887 3.378427 GCGATCTCCATTGCCTTTTACTT 59.622 43.478 0.00 0.00 33.62 2.24
1479 1924 7.065216 ACCAAAATCTCATATATGATTCGCG 57.935 36.000 15.71 0.00 36.02 5.87
1497 2205 1.439644 GAGCGCCAACCAACCAAAA 59.560 52.632 2.29 0.00 0.00 2.44
1512 2220 4.966249 GGTAAAATTACACTGAACCGAGC 58.034 43.478 5.74 0.00 35.37 5.03
1525 2238 9.239002 CATTTCACAAAGAACACGGTAAAATTA 57.761 29.630 0.00 0.00 35.56 1.40
1534 2247 6.255215 ACTACAACATTTCACAAAGAACACG 58.745 36.000 0.00 0.00 35.56 4.49
1560 2273 7.750014 GCTTTCTTCAGTGTAGTACTAGTGTAC 59.250 40.741 5.39 7.87 46.89 2.90
1566 2279 8.632906 ACTAAGCTTTCTTCAGTGTAGTACTA 57.367 34.615 3.20 0.00 34.17 1.82
1567 2280 7.527568 ACTAAGCTTTCTTCAGTGTAGTACT 57.472 36.000 3.20 0.00 35.36 2.73
1568 2281 8.590719 AAACTAAGCTTTCTTCAGTGTAGTAC 57.409 34.615 3.20 0.00 33.85 2.73
1569 2282 8.418662 TGAAACTAAGCTTTCTTCAGTGTAGTA 58.581 33.333 3.20 0.00 33.85 1.82
1570 2283 7.272978 TGAAACTAAGCTTTCTTCAGTGTAGT 58.727 34.615 3.20 0.00 33.85 2.73
1571 2284 7.653713 TCTGAAACTAAGCTTTCTTCAGTGTAG 59.346 37.037 27.06 15.36 42.27 2.74
1572 2285 7.497595 TCTGAAACTAAGCTTTCTTCAGTGTA 58.502 34.615 27.06 15.80 42.27 2.90
1573 2286 6.349300 TCTGAAACTAAGCTTTCTTCAGTGT 58.651 36.000 27.06 13.84 42.27 3.55
1574 2287 6.703607 TCTCTGAAACTAAGCTTTCTTCAGTG 59.296 38.462 27.06 25.44 42.27 3.66
1575 2288 6.821388 TCTCTGAAACTAAGCTTTCTTCAGT 58.179 36.000 27.06 15.29 42.27 3.41
1576 2289 7.387397 ACATCTCTGAAACTAAGCTTTCTTCAG 59.613 37.037 24.80 24.80 42.76 3.02
1594 2312 2.643933 TGCTCGTTCTCACATCTCTG 57.356 50.000 0.00 0.00 0.00 3.35
1598 2316 4.732285 TTTCTTTGCTCGTTCTCACATC 57.268 40.909 0.00 0.00 0.00 3.06
1609 2327 5.174579 GCAAGAACTGAACATTTCTTTGCTC 59.825 40.000 14.38 4.80 37.96 4.26
1651 2373 9.003658 GTTTTCTTTTGACCTTGAGATATGAGA 57.996 33.333 0.00 0.00 0.00 3.27
1654 2376 9.918630 ATTGTTTTCTTTTGACCTTGAGATATG 57.081 29.630 0.00 0.00 0.00 1.78
1685 2407 9.890629 TTGTTACTACTGCAGATTAATCAGATT 57.109 29.630 23.35 0.20 0.00 2.40
1706 2434 7.556844 TCTTTTGGTTAATTGCTGGTTTGTTA 58.443 30.769 0.00 0.00 0.00 2.41
1712 2440 4.898861 TCCTTCTTTTGGTTAATTGCTGGT 59.101 37.500 0.00 0.00 0.00 4.00
1750 2612 4.889409 AGGTGAAATTGAGCAACTCTGAAA 59.111 37.500 0.00 0.00 0.00 2.69
1784 2646 0.888619 GTCGTCACATCTCCACCTGA 59.111 55.000 0.00 0.00 0.00 3.86
1785 2647 0.108615 GGTCGTCACATCTCCACCTG 60.109 60.000 0.00 0.00 0.00 4.00
1786 2648 1.258445 GGGTCGTCACATCTCCACCT 61.258 60.000 0.00 0.00 0.00 4.00
1787 2649 1.218316 GGGTCGTCACATCTCCACC 59.782 63.158 0.00 0.00 0.00 4.61
1788 2650 0.320374 TTGGGTCGTCACATCTCCAC 59.680 55.000 0.00 0.00 0.00 4.02
1791 3472 2.069273 CAACTTGGGTCGTCACATCTC 58.931 52.381 0.00 0.00 0.00 2.75
1816 3500 4.397103 GTCCTTGTGATGATGAAATGCTCA 59.603 41.667 0.00 0.00 38.81 4.26
1821 3505 9.865321 CTAAAATTGTCCTTGTGATGATGAAAT 57.135 29.630 0.00 0.00 0.00 2.17
1838 3523 4.463050 TTCTCACCCCACCTAAAATTGT 57.537 40.909 0.00 0.00 0.00 2.71
1859 3545 1.273886 GAGGTCAAGAGTTCGAGCCTT 59.726 52.381 0.00 0.00 0.00 4.35
1873 3559 1.177401 CGTGAGTGATCCTGAGGTCA 58.823 55.000 0.00 0.00 0.00 4.02
1939 3627 4.986034 TGACGTTTGGCTGATTATATACCG 59.014 41.667 0.00 0.00 0.00 4.02
1941 3629 6.145696 GGTCTGACGTTTGGCTGATTATATAC 59.854 42.308 1.07 0.00 0.00 1.47
1943 3631 5.057149 GGTCTGACGTTTGGCTGATTATAT 58.943 41.667 1.07 0.00 0.00 0.86
1980 3675 7.822334 TCGTCCTTTGCTTTATCTGAATTCTAA 59.178 33.333 7.05 0.00 0.00 2.10
1982 3677 6.173339 TCGTCCTTTGCTTTATCTGAATTCT 58.827 36.000 7.05 0.00 0.00 2.40
1984 3679 5.940470 ACTCGTCCTTTGCTTTATCTGAATT 59.060 36.000 0.00 0.00 0.00 2.17
1985 3680 5.491982 ACTCGTCCTTTGCTTTATCTGAAT 58.508 37.500 0.00 0.00 0.00 2.57
2007 3703 0.250166 AACCTGTGTCGCCTGGTTAC 60.250 55.000 8.57 0.00 42.68 2.50
2160 3875 9.078990 AGATTAGATTTACGGATGTATCTGACA 57.921 33.333 7.66 0.00 43.97 3.58
2201 3937 2.039879 ACAAAAGTATTGCCTCCGTCCT 59.960 45.455 0.00 0.00 0.00 3.85
2203 3939 5.616488 TTTACAAAAGTATTGCCTCCGTC 57.384 39.130 0.00 0.00 0.00 4.79
2219 3955 8.293867 GTGGACTGTAATGTGCTATTTTTACAA 58.706 33.333 0.00 0.00 34.98 2.41
2238 3974 2.967599 TCCATCTGATTCGTGGACTG 57.032 50.000 0.00 0.00 37.12 3.51
2283 4116 4.191544 TCAGTTAGCATGTTGTATGAGCC 58.808 43.478 0.00 0.00 0.00 4.70
2444 8313 5.464722 AGTTCTATCTGTATCAGCGCAAATG 59.535 40.000 11.47 0.00 0.00 2.32
2445 8314 5.605534 AGTTCTATCTGTATCAGCGCAAAT 58.394 37.500 11.47 4.77 0.00 2.32
2545 8415 6.013466 GCCTACCTGATCTACCTACTAGTAGT 60.013 46.154 24.84 16.41 40.56 2.73
2546 8416 6.013553 TGCCTACCTGATCTACCTACTAGTAG 60.014 46.154 21.11 21.11 40.98 2.57
2547 8417 5.848369 TGCCTACCTGATCTACCTACTAGTA 59.152 44.000 1.89 1.89 0.00 1.82


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

AutoCloner maintained by Alex Coulton.