Multiple sequence alignment - TraesCS2B01G553800

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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 TraesCS2B01G553800 chr2B 100.000 2685 0 0 1 2685 749140215 749137531 0.000000e+00 4959.0
1 TraesCS2B01G553800 chr2B 81.757 740 61 35 1093 1793 749148011 749147307 3.910000e-153 551.0
2 TraesCS2B01G553800 chr2B 83.645 428 45 8 1082 1488 749181521 749181098 1.950000e-101 379.0
3 TraesCS2B01G553800 chr2B 90.421 261 14 4 763 1015 749148362 749148105 1.540000e-87 333.0
4 TraesCS2B01G553800 chr2B 97.170 106 3 0 765 870 749183398 749183293 2.120000e-41 180.0
5 TraesCS2B01G553800 chr2B 91.406 128 6 3 891 1015 749183302 749183177 1.280000e-38 171.0
6 TraesCS2B01G553800 chr2D 93.506 1894 78 20 815 2685 614805148 614803277 0.000000e+00 2774.0
7 TraesCS2B01G553800 chr2D 88.145 717 50 12 28 741 614807285 614806601 0.000000e+00 821.0
8 TraesCS2B01G553800 chr2D 82.627 731 67 29 764 1447 614819895 614819178 2.300000e-165 592.0
9 TraesCS2B01G553800 chr2D 82.500 560 54 19 1244 1793 614811693 614811168 4.080000e-123 451.0
10 TraesCS2B01G553800 chr2D 79.934 603 91 18 54 638 614812945 614812355 1.490000e-112 416.0
11 TraesCS2B01G553800 chr2D 81.223 458 42 24 778 1210 614812197 614811759 1.990000e-86 329.0
12 TraesCS2B01G553800 chr2D 78.458 441 60 18 1094 1503 614735181 614734745 3.430000e-64 255.0
13 TraesCS2B01G553800 chr2D 96.774 93 3 0 739 831 614806567 614806475 3.580000e-34 156.0
14 TraesCS2B01G553800 chr2A 85.824 1298 91 47 739 1964 745093227 745091951 0.000000e+00 1291.0
15 TraesCS2B01G553800 chr2A 90.456 723 61 7 28 746 745093974 745093256 0.000000e+00 946.0
16 TraesCS2B01G553800 chr2A 80.864 1019 109 45 537 1488 745112751 745111752 0.000000e+00 723.0
17 TraesCS2B01G553800 chr2A 79.763 929 86 54 930 1793 745097279 745096388 4.980000e-162 580.0
18 TraesCS2B01G553800 chr2A 83.793 580 64 18 1396 1960 745091472 745090908 8.520000e-145 523.0
19 TraesCS2B01G553800 chr2A 75.667 637 86 41 911 1501 745067125 745066512 1.230000e-63 254.0
20 TraesCS2B01G553800 chr2A 78.177 417 62 19 52 448 745098363 745097956 3.450000e-59 239.0
21 TraesCS2B01G553800 chr2A 82.123 179 15 5 584 746 745097662 745097485 1.300000e-28 137.0
22 TraesCS2B01G553800 chr2A 92.453 53 4 0 763 815 745097425 745097373 2.870000e-10 76.8
23 TraesCS2B01G553800 chr2A 97.619 42 1 0 765 806 745112790 745112749 3.710000e-09 73.1


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 TraesCS2B01G553800 chr2B 749137531 749140215 2684 True 4959.000000 4959 100.000000 1 2685 1 chr2B.!!$R1 2684
1 TraesCS2B01G553800 chr2B 749147307 749148362 1055 True 442.000000 551 86.089000 763 1793 2 chr2B.!!$R2 1030
2 TraesCS2B01G553800 chr2B 749181098 749183398 2300 True 243.333333 379 90.740333 765 1488 3 chr2B.!!$R3 723
3 TraesCS2B01G553800 chr2D 614803277 614812945 9668 True 824.500000 2774 87.013667 28 2685 6 chr2D.!!$R3 2657
4 TraesCS2B01G553800 chr2D 614819178 614819895 717 True 592.000000 592 82.627000 764 1447 1 chr2D.!!$R2 683
5 TraesCS2B01G553800 chr2A 745090908 745098363 7455 True 541.828571 1291 84.655571 28 1964 7 chr2A.!!$R2 1936
6 TraesCS2B01G553800 chr2A 745111752 745112790 1038 True 398.050000 723 89.241500 537 1488 2 chr2A.!!$R3 951
7 TraesCS2B01G553800 chr2A 745066512 745067125 613 True 254.000000 254 75.667000 911 1501 1 chr2A.!!$R1 590

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
359 6017 0.320247 GCTACGCTGATCCATCCCAG 60.32 60.0 0.0 0.0 0.0 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2096 16397 0.040514 CGTCGCTTTTTGATGTGCCA 60.041 50.0 0.0 0.0 0.0 4.92 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 6.817765 AAATTCGTCAATCACCATAACAGT 57.182 33.333 0.00 0.00 0.00 3.55
25 26 5.605564 TTCGTCAATCACCATAACAGTTG 57.394 39.130 0.00 0.00 0.00 3.16
26 27 4.637276 TCGTCAATCACCATAACAGTTGT 58.363 39.130 0.00 0.00 0.00 3.32
28 29 6.403049 TCGTCAATCACCATAACAGTTGTAT 58.597 36.000 0.00 0.00 0.00 2.29
29 30 6.876789 TCGTCAATCACCATAACAGTTGTATT 59.123 34.615 0.00 0.00 0.00 1.89
68 5725 9.824534 GAAACACATCAAACAGTTTTTCAAAAT 57.175 25.926 0.00 0.00 35.56 1.82
139 5797 8.950208 ATAAATGGAGAAAAACGGAAACAAAA 57.050 26.923 0.00 0.00 0.00 2.44
140 5798 7.674471 AAATGGAGAAAAACGGAAACAAAAA 57.326 28.000 0.00 0.00 0.00 1.94
141 5799 7.857734 AATGGAGAAAAACGGAAACAAAAAT 57.142 28.000 0.00 0.00 0.00 1.82
142 5800 6.654793 TGGAGAAAAACGGAAACAAAAATG 57.345 33.333 0.00 0.00 0.00 2.32
143 5801 6.166982 TGGAGAAAAACGGAAACAAAAATGT 58.833 32.000 0.00 0.00 0.00 2.71
144 5802 6.091441 TGGAGAAAAACGGAAACAAAAATGTG 59.909 34.615 0.00 0.00 0.00 3.21
145 5803 6.311690 GGAGAAAAACGGAAACAAAAATGTGA 59.688 34.615 0.00 0.00 0.00 3.58
146 5804 7.148557 GGAGAAAAACGGAAACAAAAATGTGAA 60.149 33.333 0.00 0.00 0.00 3.18
161 5819 9.357652 CAAAAATGTGAAGAAAAGTCAGAAAGA 57.642 29.630 0.00 0.00 0.00 2.52
164 5822 6.106877 TGTGAAGAAAAGTCAGAAAGAACG 57.893 37.500 0.00 0.00 0.00 3.95
165 5823 5.872617 TGTGAAGAAAAGTCAGAAAGAACGA 59.127 36.000 0.00 0.00 0.00 3.85
168 5826 5.830900 AGAAAAGTCAGAAAGAACGATCG 57.169 39.130 14.88 14.88 0.00 3.69
192 5850 3.695830 TGATTTTCACCGTAAGCTCCT 57.304 42.857 0.00 0.00 0.00 3.69
195 5853 3.764237 TTTTCACCGTAAGCTCCTCTT 57.236 42.857 0.00 0.00 38.79 2.85
214 5872 6.042552 TCCTCTTATTTTCACCATTTGCCAAA 59.957 34.615 0.00 0.00 0.00 3.28
263 5921 3.451178 AGAGGCTTTCCGTATGTGTGTAT 59.549 43.478 0.00 0.00 37.47 2.29
271 5929 4.131596 TCCGTATGTGTGTATCATCGAGA 58.868 43.478 0.00 0.00 0.00 4.04
278 5936 1.874231 GTGTATCATCGAGAGCTCCGA 59.126 52.381 23.38 23.38 40.53 4.55
280 5938 2.744741 TGTATCATCGAGAGCTCCGATC 59.255 50.000 26.88 19.37 43.93 3.69
281 5939 1.902938 ATCATCGAGAGCTCCGATCA 58.097 50.000 26.88 20.06 43.93 2.92
285 5943 3.189495 TCATCGAGAGCTCCGATCATAAC 59.811 47.826 26.88 0.00 43.93 1.89
295 5953 3.792401 TCCGATCATAACGACAAAGCAT 58.208 40.909 0.00 0.00 0.00 3.79
299 5957 1.396648 TCATAACGACAAAGCATGCGG 59.603 47.619 13.01 8.77 34.34 5.69
345 6003 3.320626 CATCATCATAGTGTGGGCTACG 58.679 50.000 0.00 0.00 0.00 3.51
359 6017 0.320247 GCTACGCTGATCCATCCCAG 60.320 60.000 0.00 0.00 0.00 4.45
436 6094 1.237285 ATGTGAACGTTCCTGGCTGC 61.237 55.000 24.78 7.40 0.00 5.25
438 6096 1.597854 TGAACGTTCCTGGCTGCTG 60.598 57.895 24.78 0.00 0.00 4.41
439 6097 1.598130 GAACGTTCCTGGCTGCTGT 60.598 57.895 17.68 0.00 0.00 4.40
440 6098 1.152963 AACGTTCCTGGCTGCTGTT 60.153 52.632 0.00 0.00 0.00 3.16
441 6099 1.166531 AACGTTCCTGGCTGCTGTTC 61.167 55.000 0.00 0.00 0.00 3.18
442 6100 2.328099 CGTTCCTGGCTGCTGTTCC 61.328 63.158 0.00 0.00 0.00 3.62
443 6101 2.032528 TTCCTGGCTGCTGTTCCG 59.967 61.111 0.00 0.00 0.00 4.30
444 6102 3.551496 TTCCTGGCTGCTGTTCCGG 62.551 63.158 0.00 0.00 0.00 5.14
446 6104 4.335647 CTGGCTGCTGTTCCGGGT 62.336 66.667 0.00 0.00 0.00 5.28
447 6105 4.641645 TGGCTGCTGTTCCGGGTG 62.642 66.667 0.00 0.00 0.00 4.61
449 6107 4.643387 GCTGCTGTTCCGGGTGGT 62.643 66.667 0.00 0.00 36.30 4.16
450 6108 2.358737 CTGCTGTTCCGGGTGGTC 60.359 66.667 0.00 0.00 36.30 4.02
451 6109 2.847234 TGCTGTTCCGGGTGGTCT 60.847 61.111 0.00 0.00 36.30 3.85
452 6110 1.534476 TGCTGTTCCGGGTGGTCTA 60.534 57.895 0.00 0.00 36.30 2.59
453 6111 1.079336 GCTGTTCCGGGTGGTCTAC 60.079 63.158 0.00 0.00 36.30 2.59
454 6112 1.214589 CTGTTCCGGGTGGTCTACG 59.785 63.158 0.00 0.00 36.30 3.51
494 6152 3.368220 CGATCTTGGGAGATAGGATGCTG 60.368 52.174 0.00 0.00 42.66 4.41
499 6157 1.271102 GGGAGATAGGATGCTGTCGTC 59.729 57.143 5.35 4.15 0.00 4.20
504 6162 2.592623 TAGGATGCTGTCGTCGTGCG 62.593 60.000 0.00 0.00 43.01 5.34
506 6164 3.059472 GATGCTGTCGTCGTGCGTG 62.059 63.158 6.97 0.00 42.13 5.34
514 6174 2.276123 CGTCGTGCGTGCACAAAAC 61.276 57.895 23.26 16.13 46.47 2.43
523 6183 2.973224 GCGTGCACAAAACAGAGTTATG 59.027 45.455 18.64 0.00 0.00 1.90
529 6189 4.209080 GCACAAAACAGAGTTATGCCAAAC 59.791 41.667 0.00 0.00 0.00 2.93
569 6229 2.967459 TGCAATTTGCTACACTGACG 57.033 45.000 21.19 0.00 45.31 4.35
646 6483 2.292794 TAGTCGCCTTGCATCGGTCC 62.293 60.000 4.67 0.00 0.00 4.46
654 6491 1.236616 TTGCATCGGTCCTGCTGTTG 61.237 55.000 4.85 0.00 40.34 3.33
662 6499 1.279271 GGTCCTGCTGTTGATAGTGGT 59.721 52.381 0.00 0.00 0.00 4.16
684 6521 1.251527 ATCGACAACTCTCCGTGGCT 61.252 55.000 0.00 0.00 0.00 4.75
806 10944 3.381045 CGATCGAGAAATTCCGATTCCA 58.619 45.455 10.26 0.00 44.40 3.53
1003 12545 0.969149 ATGACTCACTCAACAGCCGA 59.031 50.000 0.00 0.00 30.60 5.54
1084 14254 2.860735 CGGTAGCACAGTAGCTTGAATC 59.139 50.000 0.00 0.00 43.70 2.52
1406 14628 1.811860 GCAGGTCAACATGGATGGC 59.188 57.895 0.00 0.00 0.00 4.40
1418 14643 3.244353 ACATGGATGGCATGTAGAGCTAC 60.244 47.826 3.81 0.74 41.01 3.58
1468 14698 3.411351 CGGCCGTGTGGTTTCTCG 61.411 66.667 19.50 0.00 37.67 4.04
1509 15795 2.885676 CTGCTGGTGTGTGCGTGTC 61.886 63.158 0.00 0.00 0.00 3.67
1510 15796 3.649986 GCTGGTGTGTGCGTGTCC 61.650 66.667 0.00 0.00 0.00 4.02
1518 15812 1.540707 TGTGTGCGTGTCCGAGTAATA 59.459 47.619 0.00 0.00 35.63 0.98
1528 15822 6.693342 CGTGTCCGAGTAATATTTCAGTTTC 58.307 40.000 0.00 0.00 35.63 2.78
1532 15826 9.582431 TGTCCGAGTAATATTTCAGTTTCTTAG 57.418 33.333 0.00 0.00 0.00 2.18
1545 15839 7.827819 TCAGTTTCTTAGAATGTTGTATCGG 57.172 36.000 0.00 0.00 0.00 4.18
1554 15849 5.416947 AGAATGTTGTATCGGGTCTTGTAC 58.583 41.667 0.00 0.00 0.00 2.90
1558 15853 3.940209 TGTATCGGGTCTTGTACGTTT 57.060 42.857 0.00 0.00 0.00 3.60
1567 15862 6.365789 TCGGGTCTTGTACGTTTATTAACTTG 59.634 38.462 0.00 0.00 31.89 3.16
1568 15863 6.146021 CGGGTCTTGTACGTTTATTAACTTGT 59.854 38.462 0.00 0.00 31.89 3.16
1587 15882 7.259290 ACTTGTTGATCGAGTTTTATGTGTT 57.741 32.000 0.00 0.00 37.49 3.32
1653 15948 7.789273 TTTCTACCGATCAAGTGTTTGTTTA 57.211 32.000 0.00 0.00 35.73 2.01
1675 15970 9.438228 GTTTATTCTCCAAGCTTACTTTCTACT 57.562 33.333 0.00 0.00 32.29 2.57
1676 15971 9.436957 TTTATTCTCCAAGCTTACTTTCTACTG 57.563 33.333 0.00 0.00 32.29 2.74
1770 16068 6.595326 TGAAAAGACGATTGCATCTAATGAGT 59.405 34.615 0.00 0.00 0.00 3.41
1919 16220 8.380099 TCAACAAGTGGAGTATAAAACATAGGT 58.620 33.333 0.00 0.00 0.00 3.08
1991 16292 6.170506 AGACAACCTTTTCTACAATATCGCA 58.829 36.000 0.00 0.00 0.00 5.10
2032 16333 4.426416 TCCTTATTACCACATTGTCGACG 58.574 43.478 11.62 0.00 0.00 5.12
2118 16419 1.334599 GCACATCAAAAAGCGACGGAA 60.335 47.619 0.00 0.00 0.00 4.30
2156 16457 5.949735 AGCCAAACAAATAATTAGGTGTCG 58.050 37.500 4.72 1.13 0.00 4.35
2165 16466 8.287503 ACAAATAATTAGGTGTCGAAGTTTGTC 58.712 33.333 0.00 0.00 32.50 3.18
2224 16527 0.961019 TGCAGGTGTTTTGAGGATGC 59.039 50.000 0.00 0.00 0.00 3.91
2247 16550 5.674525 CCATGGATCTTGTAGAGCTTACAA 58.325 41.667 5.56 15.83 36.20 2.41
2252 16555 6.818644 TGGATCTTGTAGAGCTTACAACATTC 59.181 38.462 13.87 10.55 34.21 2.67
2266 16569 2.958355 CAACATTCAGGGGTGAACTTGT 59.042 45.455 0.00 0.00 0.00 3.16
2318 16621 2.071778 ATTGTTGTGGAGCTGGTTGT 57.928 45.000 0.00 0.00 0.00 3.32
2345 16648 6.585416 ACCCTTCAATCATTTTTATGGATGC 58.415 36.000 0.00 0.00 0.00 3.91
2575 16880 8.412456 CACCTGCCATTTATATGTGAATTACAA 58.588 33.333 0.00 0.00 43.77 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 5.060506 ACAACTGTTATGGTGATTGACGAA 58.939 37.500 0.00 0.00 0.00 3.85
4 5 4.637276 ACAACTGTTATGGTGATTGACGA 58.363 39.130 0.00 0.00 0.00 4.20
5 6 6.662414 ATACAACTGTTATGGTGATTGACG 57.338 37.500 0.00 0.00 0.00 4.35
115 5773 8.773404 TTTTTGTTTCCGTTTTTCTCCATTTA 57.227 26.923 0.00 0.00 0.00 1.40
128 5786 6.871492 ACTTTTCTTCACATTTTTGTTTCCGT 59.129 30.769 0.00 0.00 0.00 4.69
129 5787 7.062839 TGACTTTTCTTCACATTTTTGTTTCCG 59.937 33.333 0.00 0.00 0.00 4.30
130 5788 8.250538 TGACTTTTCTTCACATTTTTGTTTCC 57.749 30.769 0.00 0.00 0.00 3.13
131 5789 9.139174 TCTGACTTTTCTTCACATTTTTGTTTC 57.861 29.630 0.00 0.00 0.00 2.78
133 5791 9.487790 TTTCTGACTTTTCTTCACATTTTTGTT 57.512 25.926 0.00 0.00 0.00 2.83
134 5792 9.143631 CTTTCTGACTTTTCTTCACATTTTTGT 57.856 29.630 0.00 0.00 0.00 2.83
135 5793 9.357652 TCTTTCTGACTTTTCTTCACATTTTTG 57.642 29.630 0.00 0.00 0.00 2.44
136 5794 9.927668 TTCTTTCTGACTTTTCTTCACATTTTT 57.072 25.926 0.00 0.00 0.00 1.94
137 5795 9.358872 GTTCTTTCTGACTTTTCTTCACATTTT 57.641 29.630 0.00 0.00 0.00 1.82
138 5796 7.698130 CGTTCTTTCTGACTTTTCTTCACATTT 59.302 33.333 0.00 0.00 0.00 2.32
139 5797 7.065803 TCGTTCTTTCTGACTTTTCTTCACATT 59.934 33.333 0.00 0.00 0.00 2.71
140 5798 6.538742 TCGTTCTTTCTGACTTTTCTTCACAT 59.461 34.615 0.00 0.00 0.00 3.21
141 5799 5.872617 TCGTTCTTTCTGACTTTTCTTCACA 59.127 36.000 0.00 0.00 0.00 3.58
142 5800 6.345920 TCGTTCTTTCTGACTTTTCTTCAC 57.654 37.500 0.00 0.00 0.00 3.18
143 5801 6.074302 CGATCGTTCTTTCTGACTTTTCTTCA 60.074 38.462 7.03 0.00 0.00 3.02
144 5802 6.292873 CGATCGTTCTTTCTGACTTTTCTTC 58.707 40.000 7.03 0.00 0.00 2.87
145 5803 5.333416 GCGATCGTTCTTTCTGACTTTTCTT 60.333 40.000 17.81 0.00 0.00 2.52
146 5804 4.150804 GCGATCGTTCTTTCTGACTTTTCT 59.849 41.667 17.81 0.00 0.00 2.52
161 5819 2.161609 GGTGAAAATCAAGGCGATCGTT 59.838 45.455 17.81 0.39 31.11 3.85
164 5822 1.737793 ACGGTGAAAATCAAGGCGATC 59.262 47.619 0.00 0.00 31.11 3.69
165 5823 1.821216 ACGGTGAAAATCAAGGCGAT 58.179 45.000 0.00 0.00 35.12 4.58
168 5826 2.488153 AGCTTACGGTGAAAATCAAGGC 59.512 45.455 0.00 0.00 0.00 4.35
192 5850 6.481644 GTGTTTGGCAAATGGTGAAAATAAGA 59.518 34.615 16.74 0.00 0.00 2.10
195 5853 5.923204 AGTGTTTGGCAAATGGTGAAAATA 58.077 33.333 16.74 0.00 0.00 1.40
214 5872 7.926555 CCGGTCTAGATTTACATAATGAAGTGT 59.073 37.037 0.00 0.00 0.00 3.55
263 5921 1.902938 ATGATCGGAGCTCTCGATGA 58.097 50.000 31.45 26.60 45.81 2.92
271 5929 3.448686 CTTTGTCGTTATGATCGGAGCT 58.551 45.455 0.00 0.00 0.00 4.09
278 5936 2.032054 CCGCATGCTTTGTCGTTATGAT 59.968 45.455 17.13 0.00 0.00 2.45
280 5938 1.396648 TCCGCATGCTTTGTCGTTATG 59.603 47.619 17.13 0.00 0.00 1.90
281 5939 1.732941 TCCGCATGCTTTGTCGTTAT 58.267 45.000 17.13 0.00 0.00 1.89
285 5943 0.043053 CGTATCCGCATGCTTTGTCG 60.043 55.000 17.13 11.08 0.00 4.35
295 5953 0.663269 GACGCATGATCGTATCCGCA 60.663 55.000 0.00 0.00 43.42 5.69
319 5977 2.483538 CCCACACTATGATGATGCGTGA 60.484 50.000 4.04 0.00 0.00 4.35
345 6003 0.036022 GCCTACTGGGATGGATCAGC 59.964 60.000 0.00 0.00 37.23 4.26
350 6008 1.692749 GGGTGCCTACTGGGATGGA 60.693 63.158 0.00 0.00 35.69 3.41
382 6040 2.676121 TTTGCATGCGTGGAGGGG 60.676 61.111 14.09 0.00 0.00 4.79
391 6049 0.248417 TGTGTGACACGTTTGCATGC 60.248 50.000 11.82 11.82 37.14 4.06
430 6088 4.641645 CACCCGGAACAGCAGCCA 62.642 66.667 0.73 0.00 0.00 4.75
433 6091 1.541310 TAGACCACCCGGAACAGCAG 61.541 60.000 0.73 0.00 35.59 4.24
436 6094 1.214589 CGTAGACCACCCGGAACAG 59.785 63.158 0.73 0.00 35.59 3.16
438 6096 2.575461 CCGTAGACCACCCGGAAC 59.425 66.667 0.73 0.00 44.41 3.62
439 6097 2.148723 TACCCGTAGACCACCCGGAA 62.149 60.000 0.73 0.00 44.41 4.30
440 6098 2.611505 TACCCGTAGACCACCCGGA 61.612 63.158 0.73 0.00 44.41 5.14
441 6099 2.044053 TACCCGTAGACCACCCGG 60.044 66.667 0.00 0.00 41.37 5.73
442 6100 2.764314 CGTACCCGTAGACCACCCG 61.764 68.421 0.00 0.00 0.00 5.28
443 6101 2.418083 CCGTACCCGTAGACCACCC 61.418 68.421 0.00 0.00 0.00 4.61
444 6102 2.418083 CCCGTACCCGTAGACCACC 61.418 68.421 0.00 0.00 0.00 4.61
445 6103 1.378514 TCCCGTACCCGTAGACCAC 60.379 63.158 0.00 0.00 0.00 4.16
446 6104 1.378514 GTCCCGTACCCGTAGACCA 60.379 63.158 0.00 0.00 32.36 4.02
447 6105 0.965363 TTGTCCCGTACCCGTAGACC 60.965 60.000 0.00 0.00 35.65 3.85
448 6106 0.171231 GTTGTCCCGTACCCGTAGAC 59.829 60.000 0.00 0.00 36.52 2.59
449 6107 0.965363 GGTTGTCCCGTACCCGTAGA 60.965 60.000 0.00 0.00 0.00 2.59
450 6108 1.512694 GGTTGTCCCGTACCCGTAG 59.487 63.158 0.00 0.00 0.00 3.51
451 6109 1.981853 GGGTTGTCCCGTACCCGTA 60.982 63.158 0.00 0.00 44.25 4.02
452 6110 3.313524 GGGTTGTCCCGTACCCGT 61.314 66.667 0.00 0.00 44.25 5.28
472 6130 2.830923 AGCATCCTATCTCCCAAGATCG 59.169 50.000 0.00 0.00 41.46 3.69
476 6134 2.288702 CGACAGCATCCTATCTCCCAAG 60.289 54.545 0.00 0.00 0.00 3.61
504 6162 3.243367 TGGCATAACTCTGTTTTGTGCAC 60.243 43.478 10.75 10.75 41.45 4.57
506 6164 3.641437 TGGCATAACTCTGTTTTGTGC 57.359 42.857 0.00 0.00 39.59 4.57
508 6166 5.852282 AGTTTGGCATAACTCTGTTTTGT 57.148 34.783 8.59 0.00 33.12 2.83
514 6174 5.529060 GGATTCCTAGTTTGGCATAACTCTG 59.471 44.000 15.15 10.91 39.08 3.35
523 6183 1.751351 GCTTGGGATTCCTAGTTTGGC 59.249 52.381 3.25 0.00 38.03 4.52
529 6189 2.317040 TCGTAGGCTTGGGATTCCTAG 58.683 52.381 2.01 0.00 38.63 3.02
607 6427 4.518970 ACTATTGAACGACCAAATTGCACT 59.481 37.500 0.00 0.00 0.00 4.40
646 6483 3.308053 CGATTGACCACTATCAACAGCAG 59.692 47.826 0.00 0.00 41.29 4.24
662 6499 1.067846 CCACGGAGAGTTGTCGATTGA 60.068 52.381 0.00 0.00 0.00 2.57
684 6521 2.483877 CAGCTACAAGAAAATGCACCGA 59.516 45.455 0.00 0.00 0.00 4.69
741 6616 1.590792 GCATAGTACACCCGCGTCC 60.591 63.158 4.92 0.00 0.00 4.79
806 10944 0.472471 ACCCGCGTTATTGGATGGAT 59.528 50.000 4.92 0.00 0.00 3.41
1003 12545 1.945394 CTTGCTTTGAGCTGTGAGTGT 59.055 47.619 0.00 0.00 42.97 3.55
1074 12684 1.340017 GGTGCTGGGTGATTCAAGCTA 60.340 52.381 9.56 0.00 0.00 3.32
1248 14456 2.259618 ACACACACGTAGCGAATCATC 58.740 47.619 0.00 0.00 0.00 2.92
1406 14628 4.698304 GTAGAGGCTAGGTAGCTCTACATG 59.302 50.000 24.99 0.00 45.88 3.21
1418 14643 1.947760 GCCGTACGTAGAGGCTAGG 59.052 63.158 26.14 10.43 46.83 3.02
1468 14698 1.373570 GCACACCATCTTGAGGCTAC 58.626 55.000 0.00 0.00 0.00 3.58
1504 15790 6.530534 AGAAACTGAAATATTACTCGGACACG 59.469 38.462 3.46 0.00 42.74 4.49
1528 15822 6.106673 ACAAGACCCGATACAACATTCTAAG 58.893 40.000 0.00 0.00 0.00 2.18
1532 15826 4.266976 CGTACAAGACCCGATACAACATTC 59.733 45.833 0.00 0.00 0.00 2.67
1539 15833 7.702348 AGTTAATAAACGTACAAGACCCGATAC 59.298 37.037 0.00 0.00 40.73 2.24
1545 15839 8.550376 TCAACAAGTTAATAAACGTACAAGACC 58.450 33.333 0.00 0.00 40.73 3.85
1554 15849 8.928844 AAACTCGATCAACAAGTTAATAAACG 57.071 30.769 0.00 0.00 40.73 3.60
1567 15862 7.908193 ACAAAACACATAAAACTCGATCAAC 57.092 32.000 0.00 0.00 0.00 3.18
1568 15863 8.402472 AGAACAAAACACATAAAACTCGATCAA 58.598 29.630 0.00 0.00 0.00 2.57
1587 15882 3.936453 AGTTACAAGCACACGAGAACAAA 59.064 39.130 0.00 0.00 0.00 2.83
1653 15948 7.246171 TCAGTAGAAAGTAAGCTTGGAGAAT 57.754 36.000 9.86 0.00 34.71 2.40
1690 15988 4.402155 TCTTTCCTTTCGCCATGCATTTAT 59.598 37.500 0.00 0.00 0.00 1.40
1702 16000 4.656041 GAGCATTCATGTCTTTCCTTTCG 58.344 43.478 0.00 0.00 0.00 3.46
1770 16068 3.324846 ACATAAATGATAGCCTCGCCAGA 59.675 43.478 0.00 0.00 0.00 3.86
1807 16107 0.823769 GCCGGAGATTTCAATCCCCC 60.824 60.000 5.05 0.00 36.04 5.40
1964 16265 7.148474 GCGATATTGTAGAAAAGGTTGTCTTGA 60.148 37.037 0.00 0.00 35.55 3.02
1965 16266 6.961554 GCGATATTGTAGAAAAGGTTGTCTTG 59.038 38.462 0.00 0.00 35.55 3.02
2021 16322 0.885879 TAGCCAGACGTCGACAATGT 59.114 50.000 17.16 5.22 0.00 2.71
2024 16325 2.034939 TCTTTTAGCCAGACGTCGACAA 59.965 45.455 17.16 0.00 0.00 3.18
2032 16333 2.467962 GGCCGTCTTTTAGCCAGAC 58.532 57.895 0.00 0.00 46.34 3.51
2096 16397 0.040514 CGTCGCTTTTTGATGTGCCA 60.041 50.000 0.00 0.00 0.00 4.92
2118 16419 1.449246 GGCTCAGCTGCGATGAACT 60.449 57.895 9.47 0.00 0.00 3.01
2156 16457 4.058817 ACAATCAGTCGAGGACAAACTTC 58.941 43.478 0.00 0.00 34.60 3.01
2165 16466 7.437748 AGGATAAGATTTACAATCAGTCGAGG 58.562 38.462 0.00 0.00 0.00 4.63
2224 16527 5.282055 TGTAAGCTCTACAAGATCCATGG 57.718 43.478 4.97 4.97 0.00 3.66
2247 16550 2.958355 CAACAAGTTCACCCCTGAATGT 59.042 45.455 0.00 0.00 38.69 2.71
2252 16555 0.106217 ACCCAACAAGTTCACCCCTG 60.106 55.000 0.00 0.00 0.00 4.45
2266 16569 5.486063 TCTTGGCTAGTGAATAGTTACCCAA 59.514 40.000 0.00 0.00 32.34 4.12
2354 16657 3.131577 AGTTGTCTACACGTCAAGACCAA 59.868 43.478 19.18 12.68 41.19 3.67
2544 16849 3.118038 ACATATAAATGGCAGGTGTCGGT 60.118 43.478 0.00 0.00 37.43 4.69
2546 16851 4.126437 TCACATATAAATGGCAGGTGTCG 58.874 43.478 0.00 0.00 37.43 4.35


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

AutoCloner maintained by Alex Coulton.