Multiple sequence alignment - TraesCS7A01G249600

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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 TraesCS7A01G249600 chr7A 100.000 4538 0 0 1 4538 232373691 232378228 0.000000e+00 8381.0
1 TraesCS7A01G249600 chr7B 96.326 4028 132 10 516 4538 179924775 179920759 0.000000e+00 6604.0
2 TraesCS7A01G249600 chr7B 94.444 36 2 0 672 707 545045875 545045910 6.340000e-04 56.5
3 TraesCS7A01G249600 chr7D 96.751 3355 82 10 666 4002 219827843 219831188 0.000000e+00 5566.0
4 TraesCS7A01G249600 chr7D 96.512 516 11 5 4024 4538 219831181 219831690 0.000000e+00 846.0
5 TraesCS7A01G249600 chr7D 90.577 520 43 6 3 520 561454482 561453967 0.000000e+00 684.0
6 TraesCS7A01G249600 chr7D 97.059 102 3 0 516 617 219827747 219827848 6.040000e-39 172.0
7 TraesCS7A01G249600 chr5A 89.103 1872 183 12 1792 3652 36373689 36371828 0.000000e+00 2307.0
8 TraesCS7A01G249600 chr5A 87.597 387 42 1 1457 1837 36374069 36373683 1.160000e-120 444.0
9 TraesCS7A01G249600 chr5B 89.800 1598 131 21 1891 3466 45823892 45822305 0.000000e+00 2019.0
10 TraesCS7A01G249600 chr5B 88.550 1214 86 24 2409 3613 45650531 45649362 0.000000e+00 1423.0
11 TraesCS7A01G249600 chr5B 87.265 903 98 9 1456 2356 45651412 45650525 0.000000e+00 1014.0
12 TraesCS7A01G249600 chr5B 89.382 518 46 7 4 512 606750399 606750916 1.060000e-180 643.0
13 TraesCS7A01G249600 chr5B 87.402 381 34 3 1464 1844 45824263 45823897 4.200000e-115 425.0
14 TraesCS7A01G249600 chr3A 94.737 513 24 3 1 512 28563903 28564413 0.000000e+00 795.0
15 TraesCS7A01G249600 chr3A 86.873 518 56 9 3 516 698745228 698744719 1.830000e-158 569.0
16 TraesCS7A01G249600 chr3A 81.778 225 23 11 4308 4514 732483538 732483314 6.040000e-39 172.0
17 TraesCS7A01G249600 chr4D 93.359 527 32 3 3 528 482726133 482726657 0.000000e+00 776.0
18 TraesCS7A01G249600 chr5D 87.829 608 61 4 1456 2061 45601344 45600748 0.000000e+00 701.0
19 TraesCS7A01G249600 chr5D 92.229 489 28 6 2394 2874 45598901 45598415 0.000000e+00 684.0
20 TraesCS7A01G249600 chr5D 89.286 280 25 2 2065 2340 45599371 45599093 3.360000e-91 346.0
21 TraesCS7A01G249600 chr5D 89.000 100 2 1 2908 3007 45598411 45598321 1.030000e-21 115.0
22 TraesCS7A01G249600 chr5D 91.358 81 6 1 958 1038 45601422 45601343 4.800000e-20 110.0
23 TraesCS7A01G249600 chr6B 89.808 520 43 9 3 513 515192862 515193380 0.000000e+00 658.0
24 TraesCS7A01G249600 chr6B 88.952 525 46 11 3 517 702298180 702298702 4.950000e-179 638.0
25 TraesCS7A01G249600 chr6B 100.000 30 0 0 678 707 44923302 44923273 6.340000e-04 56.5
26 TraesCS7A01G249600 chr4B 89.883 514 48 2 3 512 31480208 31479695 0.000000e+00 658.0
27 TraesCS7A01G249600 chr3B 88.213 526 51 8 2 519 743338986 743338464 6.450000e-173 617.0
28 TraesCS7A01G249600 chr3B 87.597 129 15 1 4387 4514 810282997 810282869 1.020000e-31 148.0
29 TraesCS7A01G249600 chr3B 94.000 50 2 1 625 673 708025197 708025148 1.750000e-09 75.0
30 TraesCS7A01G249600 chr3D 81.778 225 23 10 4308 4514 603590324 603590548 6.040000e-39 172.0
31 TraesCS7A01G249600 chr6D 80.531 226 25 11 4308 4514 455720994 455720769 6.080000e-34 156.0
32 TraesCS7A01G249600 chr2B 83.735 166 22 4 4006 4166 93039790 93039625 7.860000e-33 152.0
33 TraesCS7A01G249600 chr6A 79.556 225 28 10 4308 4514 590781026 590781250 1.320000e-30 145.0


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 TraesCS7A01G249600 chr7A 232373691 232378228 4537 False 8381.000000 8381 100.0000 1 4538 1 chr7A.!!$F1 4537
1 TraesCS7A01G249600 chr7B 179920759 179924775 4016 True 6604.000000 6604 96.3260 516 4538 1 chr7B.!!$R1 4022
2 TraesCS7A01G249600 chr7D 219827747 219831690 3943 False 2194.666667 5566 96.7740 516 4538 3 chr7D.!!$F1 4022
3 TraesCS7A01G249600 chr7D 561453967 561454482 515 True 684.000000 684 90.5770 3 520 1 chr7D.!!$R1 517
4 TraesCS7A01G249600 chr5A 36371828 36374069 2241 True 1375.500000 2307 88.3500 1457 3652 2 chr5A.!!$R1 2195
5 TraesCS7A01G249600 chr5B 45822305 45824263 1958 True 1222.000000 2019 88.6010 1464 3466 2 chr5B.!!$R2 2002
6 TraesCS7A01G249600 chr5B 45649362 45651412 2050 True 1218.500000 1423 87.9075 1456 3613 2 chr5B.!!$R1 2157
7 TraesCS7A01G249600 chr5B 606750399 606750916 517 False 643.000000 643 89.3820 4 512 1 chr5B.!!$F1 508
8 TraesCS7A01G249600 chr3A 28563903 28564413 510 False 795.000000 795 94.7370 1 512 1 chr3A.!!$F1 511
9 TraesCS7A01G249600 chr3A 698744719 698745228 509 True 569.000000 569 86.8730 3 516 1 chr3A.!!$R1 513
10 TraesCS7A01G249600 chr4D 482726133 482726657 524 False 776.000000 776 93.3590 3 528 1 chr4D.!!$F1 525
11 TraesCS7A01G249600 chr5D 45598321 45601422 3101 True 391.200000 701 89.9404 958 3007 5 chr5D.!!$R1 2049
12 TraesCS7A01G249600 chr6B 515192862 515193380 518 False 658.000000 658 89.8080 3 513 1 chr6B.!!$F1 510
13 TraesCS7A01G249600 chr6B 702298180 702298702 522 False 638.000000 638 88.9520 3 517 1 chr6B.!!$F2 514
14 TraesCS7A01G249600 chr4B 31479695 31480208 513 True 658.000000 658 89.8830 3 512 1 chr4B.!!$R1 509
15 TraesCS7A01G249600 chr3B 743338464 743338986 522 True 617.000000 617 88.2130 2 519 1 chr3B.!!$R2 517


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
272 279 1.067142 GGACATCGCTGGACTGTGTTA 60.067 52.381 0.0 0.0 0.0 2.41 F
2036 2116 0.313672 GCCGCCTACAGAGAGATGAG 59.686 60.000 0.0 0.0 0.0 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2111 3564 0.372679 CTGCTCATGTGCTAAGTGCG 59.627 55.0 19.6 0.0 46.63 5.34 R
3760 5401 0.177141 GCAGTAGATGGTGCCCGTTA 59.823 55.0 0.0 0.0 33.29 3.18 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
89 90 4.113815 CCAGGGGCGAAGATGGCA 62.114 66.667 0.00 0.00 35.84 4.92
109 110 5.470437 TGGCAAAGTATACGATGTGTTTTGA 59.530 36.000 12.94 0.00 0.00 2.69
189 190 4.260011 GCGCTACTTCTCTGATGTTTAAGC 60.260 45.833 0.00 0.00 0.00 3.09
207 208 1.898154 CCTACTGGACCACCGAAGG 59.102 63.158 0.00 0.00 46.76 3.46
272 279 1.067142 GGACATCGCTGGACTGTGTTA 60.067 52.381 0.00 0.00 0.00 2.41
395 410 4.080695 AGTCTAAAACCCCGTTTCCTATCC 60.081 45.833 0.00 0.00 34.43 2.59
486 503 4.569015 GCTTTCTATAAAGTTGGGGTGGGA 60.569 45.833 2.92 0.00 43.44 4.37
551 568 7.623999 AATCCATATGTGAATAGTGTCTCCT 57.376 36.000 1.24 0.00 0.00 3.69
616 633 6.891361 TCAAATCCATATGTGAATGGTGTCTT 59.109 34.615 1.24 0.00 45.67 3.01
625 642 3.192001 GTGAATGGTGTCTTCATGTGCAT 59.808 43.478 0.00 0.00 35.26 3.96
627 644 4.281435 TGAATGGTGTCTTCATGTGCATTT 59.719 37.500 0.00 0.00 0.00 2.32
631 648 4.281435 TGGTGTCTTCATGTGCATTTTGAT 59.719 37.500 0.00 0.00 0.00 2.57
640 658 7.179927 TCATGTGCATTTTGATTTTGACTTG 57.820 32.000 0.00 0.00 0.00 3.16
642 660 7.494952 TCATGTGCATTTTGATTTTGACTTGAA 59.505 29.630 0.00 0.00 0.00 2.69
779 797 8.532186 AAAATCATAATGTGCCAACCTACATA 57.468 30.769 0.00 0.00 36.56 2.29
885 903 4.080582 TCCATCTTGAATCCAACGGTACAT 60.081 41.667 0.00 0.00 0.00 2.29
920 938 3.316308 GGCATCATGTTCATAGTCAACCC 59.684 47.826 0.00 0.00 0.00 4.11
922 940 4.441792 CATCATGTTCATAGTCAACCCGA 58.558 43.478 0.00 0.00 0.00 5.14
1724 1763 2.064434 TTGCTTGGTGTCATGTGGAA 57.936 45.000 0.00 0.00 0.00 3.53
1813 1854 0.969409 AGGGGATGCTTTTGAGCTGC 60.969 55.000 0.00 0.00 35.49 5.25
1897 1977 2.472059 CGGTGCCGTGATGGGAATG 61.472 63.158 1.93 0.00 41.26 2.67
2036 2116 0.313672 GCCGCCTACAGAGAGATGAG 59.686 60.000 0.00 0.00 0.00 2.90
2063 3516 1.683943 GGATTGCTGCCAGATTGCTA 58.316 50.000 0.00 0.00 0.00 3.49
2111 3564 3.821841 CATACAAGTTTGGAAAGACCGC 58.178 45.455 0.00 0.00 42.61 5.68
2176 3629 5.007430 GGTTCACAGATATCAGCAGACAATG 59.993 44.000 5.32 0.00 0.00 2.82
2232 3689 1.076118 ATTGGATGATGCCCGGCAA 60.076 52.632 18.00 0.04 43.62 4.52
2327 3785 2.165234 GCAAGGAGGGATTTGAAGAAGC 59.835 50.000 0.00 0.00 0.00 3.86
2346 3929 8.885494 AAGAAGCAGCTCTTGAGTTATATAAG 57.115 34.615 0.00 0.00 34.31 1.73
2560 4158 4.321750 CCTTGAAATGCTGGGATGATATGC 60.322 45.833 0.00 0.00 0.00 3.14
2722 4329 4.867047 ACAACTCTCTGATATCTGCGTTTG 59.133 41.667 3.98 8.95 0.00 2.93
2723 4330 4.727507 ACTCTCTGATATCTGCGTTTGT 57.272 40.909 3.98 0.00 0.00 2.83
2752 4359 3.058160 ATGTGGCCGAAGCACTGC 61.058 61.111 0.00 0.00 42.56 4.40
2833 4441 5.125100 TCTGATTGATGGTTTTTGCAGAC 57.875 39.130 0.00 0.00 0.00 3.51
2842 4457 2.473816 GTTTTTGCAGACAAGGAAGGC 58.526 47.619 0.00 0.00 37.04 4.35
3318 4951 7.230108 AGAGAAGATTCTGTTGCTTTTGATGAA 59.770 33.333 0.00 0.00 37.73 2.57
3480 5117 4.037923 CCAAAGTTTAGACATGTGCCTGTT 59.962 41.667 1.15 0.00 0.00 3.16
3502 5139 3.519107 TGAGACAGTTATTGATCCTGCCA 59.481 43.478 0.00 0.00 0.00 4.92
3503 5140 4.019411 TGAGACAGTTATTGATCCTGCCAA 60.019 41.667 0.00 0.00 0.00 4.52
3642 5280 2.289631 TGAAGATGACACAATGGTCGCT 60.290 45.455 0.00 0.00 40.72 4.93
3687 5325 2.839486 TATCAATTAGCCGGCCAGAG 57.161 50.000 26.15 10.18 0.00 3.35
3691 5330 2.091541 CAATTAGCCGGCCAGAGAAAA 58.908 47.619 26.15 6.70 0.00 2.29
3692 5331 2.044123 ATTAGCCGGCCAGAGAAAAG 57.956 50.000 26.15 0.00 0.00 2.27
3693 5332 0.981183 TTAGCCGGCCAGAGAAAAGA 59.019 50.000 26.15 0.00 0.00 2.52
3694 5333 0.537188 TAGCCGGCCAGAGAAAAGAG 59.463 55.000 26.15 0.00 0.00 2.85
3695 5334 1.194781 AGCCGGCCAGAGAAAAGAGA 61.195 55.000 26.15 0.00 0.00 3.10
3696 5335 0.742635 GCCGGCCAGAGAAAAGAGAG 60.743 60.000 18.11 0.00 0.00 3.20
3697 5336 0.610687 CCGGCCAGAGAAAAGAGAGT 59.389 55.000 2.24 0.00 0.00 3.24
3743 5384 2.507110 AATCGGTCAGGGCGTGTGAG 62.507 60.000 7.12 0.24 0.00 3.51
3864 5505 5.085920 CCTCCTATGTCTCTCATCTCCATT 58.914 45.833 0.00 0.00 37.91 3.16
3914 5555 0.690192 TTTCCTCGCCAGATGTTCCA 59.310 50.000 0.00 0.00 0.00 3.53
3990 5631 1.030457 GCCCTGCCTCAATCTTCATG 58.970 55.000 0.00 0.00 0.00 3.07
4002 5673 7.246311 CCTCAATCTTCATGTTGTTATGTGTC 58.754 38.462 0.00 0.00 0.00 3.67
4003 5674 7.120285 CCTCAATCTTCATGTTGTTATGTGTCT 59.880 37.037 0.00 0.00 0.00 3.41
4004 5675 8.032952 TCAATCTTCATGTTGTTATGTGTCTC 57.967 34.615 0.00 0.00 0.00 3.36
4005 5676 6.992063 ATCTTCATGTTGTTATGTGTCTCC 57.008 37.500 0.00 0.00 0.00 3.71
4006 5677 5.863965 TCTTCATGTTGTTATGTGTCTCCA 58.136 37.500 0.00 0.00 0.00 3.86
4007 5678 6.475504 TCTTCATGTTGTTATGTGTCTCCAT 58.524 36.000 0.00 0.00 0.00 3.41
4008 5679 6.372381 TCTTCATGTTGTTATGTGTCTCCATG 59.628 38.462 0.00 0.00 0.00 3.66
4009 5680 5.559770 TCATGTTGTTATGTGTCTCCATGT 58.440 37.500 0.00 0.00 32.40 3.21
4010 5681 6.003326 TCATGTTGTTATGTGTCTCCATGTT 58.997 36.000 0.00 0.00 32.40 2.71
4011 5682 5.687770 TGTTGTTATGTGTCTCCATGTTG 57.312 39.130 0.00 0.00 0.00 3.33
4012 5683 4.023279 TGTTGTTATGTGTCTCCATGTTGC 60.023 41.667 0.00 0.00 0.00 4.17
4013 5684 3.081061 TGTTATGTGTCTCCATGTTGCC 58.919 45.455 0.00 0.00 0.00 4.52
4014 5685 3.081061 GTTATGTGTCTCCATGTTGCCA 58.919 45.455 0.00 0.00 0.00 4.92
4015 5686 2.519771 ATGTGTCTCCATGTTGCCAT 57.480 45.000 0.00 0.00 0.00 4.40
4016 5687 1.825090 TGTGTCTCCATGTTGCCATC 58.175 50.000 0.00 0.00 0.00 3.51
4017 5688 1.073603 TGTGTCTCCATGTTGCCATCA 59.926 47.619 0.00 0.00 0.00 3.07
4018 5689 2.291089 TGTGTCTCCATGTTGCCATCAT 60.291 45.455 0.00 0.00 0.00 2.45
4019 5690 3.054508 TGTGTCTCCATGTTGCCATCATA 60.055 43.478 0.00 0.00 0.00 2.15
4020 5691 3.562973 GTGTCTCCATGTTGCCATCATAG 59.437 47.826 0.00 0.00 0.00 2.23
4021 5692 3.200605 TGTCTCCATGTTGCCATCATAGT 59.799 43.478 0.00 0.00 0.00 2.12
4022 5693 4.202441 GTCTCCATGTTGCCATCATAGTT 58.798 43.478 0.00 0.00 0.00 2.24
4023 5694 4.641989 GTCTCCATGTTGCCATCATAGTTT 59.358 41.667 0.00 0.00 0.00 2.66
4024 5695 5.126061 GTCTCCATGTTGCCATCATAGTTTT 59.874 40.000 0.00 0.00 0.00 2.43
4025 5696 6.318648 GTCTCCATGTTGCCATCATAGTTTTA 59.681 38.462 0.00 0.00 0.00 1.52
4026 5697 6.318648 TCTCCATGTTGCCATCATAGTTTTAC 59.681 38.462 0.00 0.00 0.00 2.01
4027 5698 6.186957 TCCATGTTGCCATCATAGTTTTACT 58.813 36.000 0.00 0.00 0.00 2.24
4028 5699 6.095300 TCCATGTTGCCATCATAGTTTTACTG 59.905 38.462 0.00 0.00 0.00 2.74
4029 5700 6.127647 CCATGTTGCCATCATAGTTTTACTGT 60.128 38.462 0.00 0.00 0.00 3.55
4030 5701 6.252967 TGTTGCCATCATAGTTTTACTGTG 57.747 37.500 0.00 0.00 38.49 3.66
4031 5702 5.767665 TGTTGCCATCATAGTTTTACTGTGT 59.232 36.000 3.96 0.00 38.32 3.72
4032 5703 5.878332 TGCCATCATAGTTTTACTGTGTG 57.122 39.130 3.96 2.80 38.32 3.82
4096 5767 1.336131 AGCTGTGCTCTGTTCTCTCA 58.664 50.000 0.00 0.00 30.62 3.27
4155 5826 2.948979 TCTAGTGTTTTGGGCTGTTGTG 59.051 45.455 0.00 0.00 0.00 3.33
4168 5839 2.417933 GCTGTTGTGATGGTCTGTGATC 59.582 50.000 0.00 0.00 0.00 2.92
4304 5975 6.438741 TCACTGAGAGATAGATTGTGTTCCTT 59.561 38.462 0.00 0.00 0.00 3.36
4432 6103 2.233566 AGGTTCATCAGGCTGCCCA 61.234 57.895 16.57 2.09 0.00 5.36
4461 6132 2.672651 CACCCAAGCCATGTCGCA 60.673 61.111 0.00 0.00 0.00 5.10
4467 6138 1.744368 AAGCCATGTCGCAGAGCAG 60.744 57.895 0.00 0.00 36.95 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 0.931005 GGTAGCAGCAGTAACGATGC 59.069 55.000 0.00 0.00 44.18 3.91
89 90 7.227910 ACAGGTTCAAAACACATCGTATACTTT 59.772 33.333 0.56 0.00 0.00 2.66
189 190 1.614241 CCCTTCGGTGGTCCAGTAGG 61.614 65.000 0.00 0.00 0.00 3.18
207 208 1.688735 GCAATCCTAAGCAATTCCCCC 59.311 52.381 0.00 0.00 0.00 5.40
264 269 8.848474 AGAATTGTAAACTAGCATAACACAGT 57.152 30.769 0.00 0.00 0.00 3.55
292 299 5.560724 TGCCAGCTTACTTAAGATCAAAGT 58.439 37.500 10.09 15.32 40.25 2.66
395 410 2.103143 CGGAGAGTAGCTGCCACG 59.897 66.667 0.00 0.00 0.00 4.94
551 568 8.557864 CAATGTTTATTTTGAGGAAATGCACAA 58.442 29.630 0.00 0.00 38.40 3.33
616 633 6.985059 TCAAGTCAAAATCAAAATGCACATGA 59.015 30.769 0.00 0.00 0.00 3.07
663 681 3.685139 ACAGAGGGTGTACAAGACATG 57.315 47.619 0.00 0.00 41.14 3.21
668 686 7.712797 ACATTTAAAAACAGAGGGTGTACAAG 58.287 34.615 0.00 0.00 39.03 3.16
734 752 3.438297 TCCTAGAAACATAGAGCACGC 57.562 47.619 0.00 0.00 0.00 5.34
816 834 3.036084 CGTGCGTCGCTTCAAGGT 61.036 61.111 19.50 0.00 0.00 3.50
885 903 3.261643 ACATGATGCCAACTCACTCACTA 59.738 43.478 0.00 0.00 0.00 2.74
920 938 1.631072 CGCGCACTTGAGGTATTCG 59.369 57.895 8.75 0.00 0.00 3.34
922 940 0.036765 TTCCGCGCACTTGAGGTATT 60.037 50.000 8.75 0.00 0.00 1.89
1314 1346 2.190578 GGGGACAAGATGGCGAGG 59.809 66.667 0.00 0.00 0.00 4.63
1724 1763 2.357154 GCATCAGGGGTAACATGGAACT 60.357 50.000 0.00 0.00 39.74 3.01
1736 1775 2.671370 ATAGCTGCACGCATCAGGGG 62.671 60.000 1.02 0.00 42.61 4.79
1897 1977 2.352805 CCTCCTTGCCTCCACCAC 59.647 66.667 0.00 0.00 0.00 4.16
2036 2116 2.194326 GCAGCAATCCCCTCTCCC 59.806 66.667 0.00 0.00 0.00 4.30
2063 3516 4.037208 CAGCAGAAAGAATGTTGAAGGTGT 59.963 41.667 0.00 0.00 0.00 4.16
2111 3564 0.372679 CTGCTCATGTGCTAAGTGCG 59.627 55.000 19.60 0.00 46.63 5.34
2176 3629 6.503589 AAGCCTACAGATCGTCATATCTAC 57.496 41.667 0.00 0.00 34.40 2.59
2232 3689 2.013400 TCGATTGCACAACACACAAGT 58.987 42.857 0.00 0.00 0.00 3.16
2327 3785 9.920133 TCATAAGCTTATATAACTCAAGAGCTG 57.080 33.333 18.45 2.78 38.83 4.24
2346 3929 4.215185 GCAAGGCCTATCTCTTTCATAAGC 59.785 45.833 5.16 0.00 0.00 3.09
2560 4158 1.662044 GCTGCCCACCAACTTTCAG 59.338 57.895 0.00 0.00 0.00 3.02
2722 4329 2.578683 CCACATGGCCAACCCTAAC 58.421 57.895 10.96 0.00 33.59 2.34
2752 4359 3.118847 TGCCTCATCTTCTGCTCTAGTTG 60.119 47.826 0.00 0.00 0.00 3.16
2833 4441 2.173356 TCACCATATCCAGCCTTCCTTG 59.827 50.000 0.00 0.00 0.00 3.61
3318 4951 7.220030 CCCAGTCAAGTATATTCATTGTAGCT 58.780 38.462 0.00 0.00 0.00 3.32
3480 5117 3.519107 TGGCAGGATCAATAACTGTCTCA 59.481 43.478 0.00 0.00 37.70 3.27
3687 5325 5.265989 TCTTCCTCCTCCTACTCTCTTTTC 58.734 45.833 0.00 0.00 0.00 2.29
3691 5330 4.116113 TCTTCTTCCTCCTCCTACTCTCT 58.884 47.826 0.00 0.00 0.00 3.10
3692 5331 4.513406 TCTTCTTCCTCCTCCTACTCTC 57.487 50.000 0.00 0.00 0.00 3.20
3693 5332 4.542525 TCTTCTTCTTCCTCCTCCTACTCT 59.457 45.833 0.00 0.00 0.00 3.24
3694 5333 4.643334 GTCTTCTTCTTCCTCCTCCTACTC 59.357 50.000 0.00 0.00 0.00 2.59
3695 5334 4.606210 GTCTTCTTCTTCCTCCTCCTACT 58.394 47.826 0.00 0.00 0.00 2.57
3696 5335 3.379057 CGTCTTCTTCTTCCTCCTCCTAC 59.621 52.174 0.00 0.00 0.00 3.18
3697 5336 3.266254 TCGTCTTCTTCTTCCTCCTCCTA 59.734 47.826 0.00 0.00 0.00 2.94
3760 5401 0.177141 GCAGTAGATGGTGCCCGTTA 59.823 55.000 0.00 0.00 33.29 3.18
3787 5428 2.743928 CAGGGTTGGAGTCGCAGC 60.744 66.667 0.00 0.00 0.00 5.25
3798 5439 3.010144 CTGGGCATAGGCAGGGTT 58.990 61.111 0.15 0.00 43.71 4.11
3864 5505 9.713684 ATGAATAAAAATGGAGAAGGGATGTAA 57.286 29.630 0.00 0.00 0.00 2.41
3914 5555 2.939261 GCCTTGCCATGCTTGCAGT 61.939 57.895 0.87 0.00 40.35 4.40
3965 5606 3.984193 ATTGAGGCAGGGCGCTGTC 62.984 63.158 26.46 26.46 41.91 3.51
4008 5679 6.086222 CACACAGTAAAACTATGATGGCAAC 58.914 40.000 0.00 0.00 0.00 4.17
4009 5680 5.335583 GCACACAGTAAAACTATGATGGCAA 60.336 40.000 0.00 0.00 0.00 4.52
4010 5681 4.155826 GCACACAGTAAAACTATGATGGCA 59.844 41.667 0.00 0.00 0.00 4.92
4011 5682 4.438744 GGCACACAGTAAAACTATGATGGC 60.439 45.833 0.00 0.00 28.69 4.40
4012 5683 4.943705 AGGCACACAGTAAAACTATGATGG 59.056 41.667 0.00 0.00 0.00 3.51
4013 5684 5.412594 ACAGGCACACAGTAAAACTATGATG 59.587 40.000 0.00 0.00 0.00 3.07
4014 5685 5.560724 ACAGGCACACAGTAAAACTATGAT 58.439 37.500 0.00 0.00 0.00 2.45
4015 5686 4.968259 ACAGGCACACAGTAAAACTATGA 58.032 39.130 0.00 0.00 0.00 2.15
4016 5687 5.470098 AGAACAGGCACACAGTAAAACTATG 59.530 40.000 0.00 0.00 0.00 2.23
4017 5688 5.621193 AGAACAGGCACACAGTAAAACTAT 58.379 37.500 0.00 0.00 0.00 2.12
4018 5689 5.031066 AGAACAGGCACACAGTAAAACTA 57.969 39.130 0.00 0.00 0.00 2.24
4019 5690 3.877508 GAGAACAGGCACACAGTAAAACT 59.122 43.478 0.00 0.00 0.00 2.66
4020 5691 3.877508 AGAGAACAGGCACACAGTAAAAC 59.122 43.478 0.00 0.00 0.00 2.43
4021 5692 3.876914 CAGAGAACAGGCACACAGTAAAA 59.123 43.478 0.00 0.00 0.00 1.52
4022 5693 3.118408 ACAGAGAACAGGCACACAGTAAA 60.118 43.478 0.00 0.00 0.00 2.01
4023 5694 2.434336 ACAGAGAACAGGCACACAGTAA 59.566 45.455 0.00 0.00 0.00 2.24
4024 5695 2.039418 ACAGAGAACAGGCACACAGTA 58.961 47.619 0.00 0.00 0.00 2.74
4025 5696 0.833287 ACAGAGAACAGGCACACAGT 59.167 50.000 0.00 0.00 0.00 3.55
4026 5697 1.202568 TCACAGAGAACAGGCACACAG 60.203 52.381 0.00 0.00 0.00 3.66
4027 5698 0.829990 TCACAGAGAACAGGCACACA 59.170 50.000 0.00 0.00 0.00 3.72
4028 5699 1.221414 GTCACAGAGAACAGGCACAC 58.779 55.000 0.00 0.00 0.00 3.82
4029 5700 0.829990 TGTCACAGAGAACAGGCACA 59.170 50.000 0.00 0.00 0.00 4.57
4030 5701 1.221414 GTGTCACAGAGAACAGGCAC 58.779 55.000 0.00 0.00 0.00 5.01
4031 5702 0.829990 TGTGTCACAGAGAACAGGCA 59.170 50.000 0.18 0.00 0.00 4.75
4032 5703 3.686622 TGTGTCACAGAGAACAGGC 57.313 52.632 0.18 0.00 0.00 4.85
4079 5750 2.001159 GCATGAGAGAACAGAGCACAG 58.999 52.381 0.00 0.00 0.00 3.66
4096 5767 0.848735 ACCATGGGCACATAGAGCAT 59.151 50.000 18.09 0.00 34.99 3.79
4155 5826 8.509690 CATTGTATATTTGGATCACAGACCATC 58.490 37.037 0.00 0.00 36.02 3.51
4304 5975 2.857186 TGCAGAGCAAACATGGACTA 57.143 45.000 0.00 0.00 34.76 2.59
4371 6042 3.887339 GAGAAGGCAAACTTGTCAGAC 57.113 47.619 0.00 0.00 45.95 3.51
4432 6103 1.212935 GCTTGGGTGGTAGATGGACAT 59.787 52.381 0.00 0.00 0.00 3.06
4461 6132 2.727103 GGAGTATCTCCGCTGCTCT 58.273 57.895 0.00 0.00 41.08 4.09



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

AutoCloner maintained by Alex Coulton.