Multiple sequence alignment - TraesCS2D01G299800

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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 TraesCS2D01G299800 chr2D 100.000 4938 0 0 1 4938 382167202 382172139 0.000000e+00 9119.0
1 TraesCS2D01G299800 chr2D 94.186 172 8 1 635 804 382167669 382167840 1.360000e-65 261.0
2 TraesCS2D01G299800 chr2D 94.186 172 8 1 468 639 382167836 382168005 1.360000e-65 261.0
3 TraesCS2D01G299800 chr2D 86.826 167 19 2 4774 4938 3731805 3731970 3.040000e-42 183.0
4 TraesCS2D01G299800 chr2A 94.293 4170 165 34 765 4878 516392705 516396857 0.000000e+00 6314.0
5 TraesCS2D01G299800 chr2A 86.882 587 61 9 3 582 516392141 516392718 1.160000e-180 643.0
6 TraesCS2D01G299800 chr2B 95.148 3421 112 27 830 4220 453016607 453020003 0.000000e+00 5349.0
7 TraesCS2D01G299800 chr2B 91.552 580 45 3 1 579 453015345 453015921 0.000000e+00 797.0
8 TraesCS2D01G299800 chr2B 87.372 681 55 12 4267 4934 453020013 453020675 0.000000e+00 752.0
9 TraesCS2D01G299800 chr2B 91.195 159 12 1 4774 4930 780870045 780869887 1.080000e-51 215.0
10 TraesCS2D01G299800 chr2B 95.000 40 2 0 765 804 453015911 453015950 4.130000e-06 63.9
11 TraesCS2D01G299800 chr6B 88.889 162 16 1 4774 4933 106518520 106518359 1.080000e-46 198.0
12 TraesCS2D01G299800 chr6B 94.737 38 1 1 510 546 290718574 290718611 1.920000e-04 58.4
13 TraesCS2D01G299800 chr5D 88.095 168 17 2 4774 4938 538669084 538668917 3.900000e-46 196.0
14 TraesCS2D01G299800 chr5D 92.857 42 2 1 506 546 452848659 452848700 5.340000e-05 60.2
15 TraesCS2D01G299800 chr4B 87.195 164 17 3 4774 4934 317160894 317161056 3.040000e-42 183.0
16 TraesCS2D01G299800 chr3A 86.747 166 20 2 4774 4937 746685602 746685437 3.040000e-42 183.0
17 TraesCS2D01G299800 chr3A 94.737 38 1 1 677 713 595102069 595102106 1.920000e-04 58.4
18 TraesCS2D01G299800 chr6D 86.391 169 19 3 4773 4938 47186923 47186756 1.090000e-41 182.0
19 TraesCS2D01G299800 chr4D 85.632 174 17 4 4766 4934 272999281 272999451 5.080000e-40 176.0
20 TraesCS2D01G299800 chr4D 85.246 61 4 4 487 546 378257304 378257360 1.920000e-04 58.4
21 TraesCS2D01G299800 chrUn 85.465 172 20 4 4771 4938 342496390 342496560 1.830000e-39 174.0
22 TraesCS2D01G299800 chr5A 94.872 39 1 1 677 714 674636053 674636091 5.340000e-05 60.2
23 TraesCS2D01G299800 chr5A 94.737 38 1 1 510 546 325378653 325378690 1.920000e-04 58.4
24 TraesCS2D01G299800 chr1B 94.872 39 1 1 510 547 165763536 165763498 5.340000e-05 60.2
25 TraesCS2D01G299800 chr1D 94.737 38 1 1 510 546 113208639 113208676 1.920000e-04 58.4
26 TraesCS2D01G299800 chr7A 96.970 33 1 0 677 709 710841445 710841413 6.910000e-04 56.5


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 TraesCS2D01G299800 chr2D 382167202 382172139 4937 False 9119.000 9119 100.0000 1 4938 1 chr2D.!!$F2 4937
1 TraesCS2D01G299800 chr2A 516392141 516396857 4716 False 3478.500 6314 90.5875 3 4878 2 chr2A.!!$F1 4875
2 TraesCS2D01G299800 chr2B 453015345 453020675 5330 False 1740.475 5349 92.2680 1 4934 4 chr2B.!!$F1 4933

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
155 156 1.278985 ACCGTGTGGACATGATGTGAT 59.721 47.619 1.23 0.0 39.21 3.06 F
1903 2421 0.948678 GCCACGGTTTCTTGTTGCTA 59.051 50.000 0.00 0.0 0.00 3.49 F
2823 3354 0.108585 TGGGGTTCTCAGTGCTGTTC 59.891 55.000 0.00 0.0 0.00 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1923 2441 0.108992 AAGATGCATTTGCCACGCAG 60.109 50.0 0.0 0.0 40.61 5.18 R
3383 3914 0.546122 ACAGCGGGGCATATTCAGAA 59.454 50.0 0.0 0.0 0.00 3.02 R
4119 4657 0.927537 TTCACAACGACACAAGCTCG 59.072 50.0 0.0 0.0 37.17 5.03 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
112 113 5.607477 CTTAGCTGGAATATGGTTAACCGA 58.393 41.667 19.65 10.64 39.43 4.69
145 146 3.343421 GGCAACGACCGTGTGGAC 61.343 66.667 0.00 0.00 39.21 4.02
155 156 1.278985 ACCGTGTGGACATGATGTGAT 59.721 47.619 1.23 0.00 39.21 3.06
294 298 1.676968 GGGCCCATGGTGTTTTTCC 59.323 57.895 19.95 0.00 0.00 3.13
313 317 1.606885 CCCTCAAAATGCCACGCCAT 61.607 55.000 0.00 0.00 0.00 4.40
437 441 1.555992 TCGGTGACCATATTTCGGGTT 59.444 47.619 1.11 0.00 37.57 4.11
458 462 2.093306 TGCAAAGGACGATCACGAAT 57.907 45.000 0.00 0.00 42.66 3.34
576 586 8.915871 CATGGAGTATGTAAATCAAAACTTGG 57.084 34.615 0.00 0.00 31.92 3.61
577 587 8.739039 CATGGAGTATGTAAATCAAAACTTGGA 58.261 33.333 0.00 0.00 31.92 3.53
578 588 8.698973 TGGAGTATGTAAATCAAAACTTGGAA 57.301 30.769 0.00 0.00 0.00 3.53
579 589 8.792633 TGGAGTATGTAAATCAAAACTTGGAAG 58.207 33.333 0.00 0.00 0.00 3.46
580 590 9.010029 GGAGTATGTAAATCAAAACTTGGAAGA 57.990 33.333 0.00 0.00 0.00 2.87
635 645 4.286297 TGATGACAAAGAAACCGAGGAT 57.714 40.909 0.00 0.00 0.00 3.24
640 650 5.617252 TGACAAAGAAACCGAGGATTTAGT 58.383 37.500 0.00 0.00 0.00 2.24
641 651 5.468746 TGACAAAGAAACCGAGGATTTAGTG 59.531 40.000 0.00 0.00 0.00 2.74
642 652 5.617252 ACAAAGAAACCGAGGATTTAGTGA 58.383 37.500 0.00 0.00 0.00 3.41
644 654 5.485209 AAGAAACCGAGGATTTAGTGACT 57.515 39.130 0.00 0.00 0.00 3.41
646 656 2.674796 ACCGAGGATTTAGTGACTGC 57.325 50.000 0.00 0.00 0.00 4.40
647 657 1.899814 ACCGAGGATTTAGTGACTGCA 59.100 47.619 0.00 0.00 0.00 4.41
648 658 2.301870 ACCGAGGATTTAGTGACTGCAA 59.698 45.455 0.00 0.00 0.00 4.08
649 659 2.932614 CCGAGGATTTAGTGACTGCAAG 59.067 50.000 0.00 0.00 42.29 4.01
682 988 8.554835 TTTTTATCCACGATATCACTGTCAAA 57.445 30.769 3.12 0.00 0.00 2.69
683 989 8.554835 TTTTATCCACGATATCACTGTCAAAA 57.445 30.769 3.12 0.27 0.00 2.44
684 990 8.554835 TTTATCCACGATATCACTGTCAAAAA 57.445 30.769 3.12 0.00 0.00 1.94
685 991 8.731275 TTATCCACGATATCACTGTCAAAAAT 57.269 30.769 3.12 0.00 0.00 1.82
686 992 6.421377 TCCACGATATCACTGTCAAAAATG 57.579 37.500 3.12 0.00 0.00 2.32
687 993 5.937540 TCCACGATATCACTGTCAAAAATGT 59.062 36.000 3.12 0.00 0.00 2.71
688 994 6.429692 TCCACGATATCACTGTCAAAAATGTT 59.570 34.615 3.12 0.00 0.00 2.71
689 995 6.742718 CCACGATATCACTGTCAAAAATGTTC 59.257 38.462 3.12 0.00 0.00 3.18
691 997 8.017373 CACGATATCACTGTCAAAAATGTTCTT 58.983 33.333 3.12 0.00 0.00 2.52
692 998 9.214957 ACGATATCACTGTCAAAAATGTTCTTA 57.785 29.630 3.12 0.00 0.00 2.10
720 1208 6.805016 ATGAGATGAAGGAGTAGTTGACAT 57.195 37.500 0.00 0.00 0.00 3.06
721 1209 5.970592 TGAGATGAAGGAGTAGTTGACATG 58.029 41.667 0.00 0.00 0.00 3.21
724 1212 4.808414 TGAAGGAGTAGTTGACATGGAG 57.192 45.455 0.00 0.00 0.00 3.86
727 1215 5.958380 TGAAGGAGTAGTTGACATGGAGTAT 59.042 40.000 0.00 0.00 0.00 2.12
728 1216 5.860941 AGGAGTAGTTGACATGGAGTATG 57.139 43.478 0.00 0.00 42.68 2.39
744 1232 9.703892 CATGGAGTATGTAAAACAAAATTTGGA 57.296 29.630 10.71 0.00 31.39 3.53
746 1234 9.757227 TGGAGTATGTAAAACAAAATTTGGAAG 57.243 29.630 10.71 0.00 34.12 3.46
802 1290 3.553828 TGACAAAGAAACCGAGGAGTT 57.446 42.857 0.00 0.00 0.00 3.01
803 1291 4.675976 TGACAAAGAAACCGAGGAGTTA 57.324 40.909 0.00 0.00 0.00 2.24
1345 1852 1.755380 AGTGGCACGGGTTAGTATCTC 59.245 52.381 12.71 0.00 0.00 2.75
1393 1900 5.070313 TCCTTGGAACATGCTTTAGCTTTTT 59.930 36.000 0.00 0.00 42.66 1.94
1394 1901 5.406477 CCTTGGAACATGCTTTAGCTTTTTC 59.594 40.000 0.00 5.77 42.66 2.29
1509 2016 8.668510 TGATATCCTTTTCAGATGTTTCTAGC 57.331 34.615 0.00 0.00 0.00 3.42
1514 2021 3.319137 TTCAGATGTTTCTAGCGTGCT 57.681 42.857 0.00 0.00 0.00 4.40
1529 2036 1.402325 CGTGCTGTTCGTGTCAGGATA 60.402 52.381 0.00 0.00 35.88 2.59
1618 2125 3.263425 TGTCTTGGAGTAGGGGTTTGATC 59.737 47.826 0.00 0.00 0.00 2.92
1676 2183 6.019237 CGGAGAATTAGACTTGTCATGACATG 60.019 42.308 30.13 30.13 41.52 3.21
1743 2250 4.021981 CAGTTTGGGGGATCTTGAAGAAAC 60.022 45.833 0.00 0.00 0.00 2.78
1779 2286 6.489022 GGTAGACCAAACCTAGAAAATGTTGT 59.511 38.462 0.00 0.00 33.97 3.32
1873 2391 5.099042 AGTGTGTTAAGTGAACCTTGTCT 57.901 39.130 0.00 0.00 37.22 3.41
1886 2404 6.806739 GTGAACCTTGTCTATTAATTGTTGCC 59.193 38.462 0.00 0.00 0.00 4.52
1891 2409 4.328536 TGTCTATTAATTGTTGCCACGGT 58.671 39.130 0.00 0.00 0.00 4.83
1903 2421 0.948678 GCCACGGTTTCTTGTTGCTA 59.051 50.000 0.00 0.00 0.00 3.49
1954 2474 3.641434 ATGCATCTTTGTGTAGCCTCT 57.359 42.857 0.00 0.00 0.00 3.69
1980 2500 9.681692 TGTCTGTCAAGTTTTATTTCAATCATG 57.318 29.630 0.00 0.00 0.00 3.07
2206 2726 2.426842 ACAAAGGGGCATCTAGAAGC 57.573 50.000 11.51 11.51 0.00 3.86
2209 2729 3.135530 ACAAAGGGGCATCTAGAAGCTAG 59.864 47.826 18.63 6.21 0.00 3.42
2212 2732 1.051812 GGGCATCTAGAAGCTAGGCA 58.948 55.000 18.63 0.00 0.00 4.75
2226 2746 2.284190 CTAGGCAGCTAAGAAAGGCAC 58.716 52.381 0.00 0.00 0.00 5.01
2290 2810 1.815003 CTGAGCATTGGTGTTTCCTCC 59.185 52.381 0.00 0.00 37.07 4.30
2403 2923 3.152341 CATTAGATGGCAAGATGGGACC 58.848 50.000 0.00 0.00 0.00 4.46
2454 2975 6.234920 TCAGCTAATTGTAACTGCCTTTGTA 58.765 36.000 0.00 0.00 0.00 2.41
2506 3027 5.360591 AGATCATGGTTCGGTCATACTTTC 58.639 41.667 0.00 0.00 0.00 2.62
2524 3045 4.450419 ACTTTCGCTCTCATTGTCAAGAAG 59.550 41.667 0.00 0.00 0.00 2.85
2549 3070 6.047231 AGAGTTGCAGTACTTACGAACTTTT 58.953 36.000 0.00 0.00 0.00 2.27
2552 3073 8.374327 AGTTGCAGTACTTACGAACTTTTAAT 57.626 30.769 0.00 0.00 0.00 1.40
2823 3354 0.108585 TGGGGTTCTCAGTGCTGTTC 59.891 55.000 0.00 0.00 0.00 3.18
2838 3369 1.469703 CTGTTCGATTGCATCAAGGCA 59.530 47.619 0.00 0.00 43.19 4.75
2887 3418 0.605319 GTTCACCATGGCAGTCGGAA 60.605 55.000 13.04 3.66 0.00 4.30
2934 3465 4.299586 TGGTACAATTCTTCCATCTGCA 57.700 40.909 0.00 0.00 31.92 4.41
2955 3486 2.203394 CCTTGGTGTGCTGCAGGT 60.203 61.111 17.12 0.00 0.00 4.00
3383 3914 6.003950 ACTTTTCTGTGTTACAGCACCATAT 58.996 36.000 4.14 0.00 45.54 1.78
3457 3988 7.310113 CCACCACTTCCAATCTAGGATCTATAC 60.310 44.444 0.00 0.00 37.56 1.47
3537 4068 1.149361 TCGACCTGTTTCACACGCAC 61.149 55.000 0.00 0.00 0.00 5.34
3631 4162 1.999735 CGTGAACGGCATCATTACACT 59.000 47.619 0.00 0.00 35.37 3.55
3769 4300 0.317603 GCAGGCTAATTCATGCAGCG 60.318 55.000 0.00 0.00 38.54 5.18
3962 4493 6.620877 TTCAGTTGCTAGAATCCCTTAGAA 57.379 37.500 0.00 0.00 0.00 2.10
4133 4671 1.859080 GTCTTTCGAGCTTGTGTCGTT 59.141 47.619 0.00 0.00 38.60 3.85
4228 4767 2.622942 TGAACATGGCAGTTGAACTTCC 59.377 45.455 7.08 7.08 31.85 3.46
4237 4776 2.290641 CAGTTGAACTTCCCAAACTCCG 59.709 50.000 0.00 0.00 0.00 4.63
4399 4938 6.519679 TCTAACTCAACGCTAAGAACCATA 57.480 37.500 0.00 0.00 0.00 2.74
4454 4996 6.622833 AAAATTGCAAGGAAGAACCATTTG 57.377 33.333 4.94 0.00 42.04 2.32
4461 5003 6.095860 TGCAAGGAAGAACCATTTGATATGAG 59.904 38.462 0.00 0.00 42.04 2.90
4474 5016 8.357402 CCATTTGATATGAGCATTGAGATTCAA 58.643 33.333 0.00 0.00 41.09 2.69
4574 5117 5.211266 TCATGTTGGCGATACGTAAAAAG 57.789 39.130 0.00 0.00 0.00 2.27
4624 5167 8.208903 ACTAGAGAGAGAGTACAATCTAAGGAC 58.791 40.741 0.00 0.00 0.00 3.85
4641 5184 3.617284 AGGACGGTTCTTTGTTTGTCTT 58.383 40.909 0.00 0.00 0.00 3.01
4729 5283 4.919774 TGTCTAGGGCCACTTTGATTTA 57.080 40.909 6.18 0.00 0.00 1.40
4737 5291 7.161715 AGGGCCACTTTGATTTATAGGATTA 57.838 36.000 6.18 0.00 0.00 1.75
4788 5344 2.093890 TGTACGAGTAGGGCATTTCGA 58.906 47.619 11.66 0.00 36.89 3.71
4789 5345 2.159338 TGTACGAGTAGGGCATTTCGAC 60.159 50.000 11.66 6.93 36.89 4.20
4820 5376 3.053991 TCCATGGAGGCCTTAATTTCGAA 60.054 43.478 11.44 0.00 37.29 3.71
4899 5455 4.688879 ACAAGGATGTAATGTGTACGTGTG 59.311 41.667 0.00 0.00 38.24 3.82
4904 5460 5.292345 GGATGTAATGTGTACGTGTGCATAA 59.708 40.000 0.00 0.00 0.00 1.90
4910 5466 5.276240 TGTGTACGTGTGCATAATTTCAG 57.724 39.130 0.00 0.00 0.00 3.02
4934 5490 7.337689 CAGGATGAAATACCTTGAATTGTGAGA 59.662 37.037 0.00 0.00 39.69 3.27
4935 5491 8.057623 AGGATGAAATACCTTGAATTGTGAGAT 58.942 33.333 0.00 0.00 31.95 2.75
4936 5492 8.133627 GGATGAAATACCTTGAATTGTGAGATG 58.866 37.037 0.00 0.00 0.00 2.90
4937 5493 6.855836 TGAAATACCTTGAATTGTGAGATGC 58.144 36.000 0.00 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 7.824779 ACTTAAACCACTTCAGAGACCATATTC 59.175 37.037 0.00 0.00 0.00 1.75
102 103 1.612199 GGCAGTTGGATCGGTTAACCA 60.612 52.381 24.14 11.77 35.14 3.67
112 113 4.770540 CCCATGTGGCAGTTGGAT 57.229 55.556 15.43 0.00 31.94 3.41
131 132 0.320374 ATCATGTCCACACGGTCGTT 59.680 50.000 0.00 0.00 0.00 3.85
134 135 1.078709 CACATCATGTCCACACGGTC 58.921 55.000 0.00 0.00 0.00 4.79
145 146 7.583860 TTTGTGTGCAAAATATCACATCATG 57.416 32.000 6.42 0.00 43.94 3.07
174 175 1.524621 GACAGATGGCCCACGATGG 60.525 63.158 0.00 0.00 37.25 3.51
176 177 0.977627 TCTGACAGATGGCCCACGAT 60.978 55.000 0.00 0.00 0.00 3.73
178 179 0.812811 CATCTGACAGATGGCCCACG 60.813 60.000 30.23 9.40 46.34 4.94
179 180 3.091318 CATCTGACAGATGGCCCAC 57.909 57.895 30.23 0.00 46.34 4.61
200 201 5.880332 CCGAGGGATGTTTTTATTTCTCTCA 59.120 40.000 0.00 0.00 35.81 3.27
294 298 1.606885 ATGGCGTGGCATTTTGAGGG 61.607 55.000 2.68 0.00 0.00 4.30
313 317 2.352225 GGCAACAACTGTGTGAACAACA 60.352 45.455 0.00 0.00 38.27 3.33
424 428 3.932089 CCTTTGCAAAACCCGAAATATGG 59.068 43.478 13.84 2.40 0.00 2.74
437 441 1.872388 TCGTGATCGTCCTTTGCAAA 58.128 45.000 12.14 12.14 38.33 3.68
458 462 2.156891 GCAGTCACTAAATTTGTCGCGA 59.843 45.455 3.71 3.71 0.00 5.87
538 548 5.721960 ACATACTCCATGTCAACTACTCCTT 59.278 40.000 0.00 0.00 44.99 3.36
598 608 9.101655 CTTTGTCATCAATTCTTCCAAGTTTTT 57.898 29.630 0.00 0.00 33.32 1.94
599 609 8.477256 TCTTTGTCATCAATTCTTCCAAGTTTT 58.523 29.630 0.00 0.00 33.32 2.43
600 610 8.010733 TCTTTGTCATCAATTCTTCCAAGTTT 57.989 30.769 0.00 0.00 33.32 2.66
601 611 7.587037 TCTTTGTCATCAATTCTTCCAAGTT 57.413 32.000 0.00 0.00 33.32 2.66
602 612 7.587037 TTCTTTGTCATCAATTCTTCCAAGT 57.413 32.000 0.00 0.00 33.32 3.16
603 613 7.383300 GGTTTCTTTGTCATCAATTCTTCCAAG 59.617 37.037 0.00 0.00 33.32 3.61
604 614 7.209475 GGTTTCTTTGTCATCAATTCTTCCAA 58.791 34.615 0.00 0.00 33.32 3.53
605 615 6.514870 CGGTTTCTTTGTCATCAATTCTTCCA 60.515 38.462 0.00 0.00 33.32 3.53
606 616 5.858581 CGGTTTCTTTGTCATCAATTCTTCC 59.141 40.000 0.00 0.00 33.32 3.46
661 967 7.768582 ACATTTTTGACAGTGATATCGTGGATA 59.231 33.333 0.00 0.00 0.00 2.59
665 971 7.521529 AGAACATTTTTGACAGTGATATCGTG 58.478 34.615 0.00 0.87 0.00 4.35
694 1000 8.311395 TGTCAACTACTCCTTCATCTCATAAT 57.689 34.615 0.00 0.00 0.00 1.28
697 1003 6.407865 CCATGTCAACTACTCCTTCATCTCAT 60.408 42.308 0.00 0.00 0.00 2.90
700 1006 5.026121 TCCATGTCAACTACTCCTTCATCT 58.974 41.667 0.00 0.00 0.00 2.90
701 1007 5.105146 ACTCCATGTCAACTACTCCTTCATC 60.105 44.000 0.00 0.00 0.00 2.92
702 1008 4.780021 ACTCCATGTCAACTACTCCTTCAT 59.220 41.667 0.00 0.00 0.00 2.57
703 1009 4.160329 ACTCCATGTCAACTACTCCTTCA 58.840 43.478 0.00 0.00 0.00 3.02
704 1010 4.810191 ACTCCATGTCAACTACTCCTTC 57.190 45.455 0.00 0.00 0.00 3.46
705 1011 5.721960 ACATACTCCATGTCAACTACTCCTT 59.278 40.000 0.00 0.00 44.99 3.36
706 1012 5.273208 ACATACTCCATGTCAACTACTCCT 58.727 41.667 0.00 0.00 44.99 3.69
709 1015 8.372459 TGTTTTACATACTCCATGTCAACTACT 58.628 33.333 11.00 0.00 44.99 2.57
710 1016 8.542497 TGTTTTACATACTCCATGTCAACTAC 57.458 34.615 11.00 0.00 44.99 2.73
711 1017 9.562408 TTTGTTTTACATACTCCATGTCAACTA 57.438 29.630 11.00 4.45 44.99 2.24
712 1018 8.458573 TTTGTTTTACATACTCCATGTCAACT 57.541 30.769 11.00 0.00 44.99 3.16
713 1019 9.691362 ATTTTGTTTTACATACTCCATGTCAAC 57.309 29.630 0.00 0.49 44.99 3.18
718 1206 9.703892 TCCAAATTTTGTTTTACATACTCCATG 57.296 29.630 8.26 0.00 40.78 3.66
720 1208 9.757227 CTTCCAAATTTTGTTTTACATACTCCA 57.243 29.630 8.26 0.00 0.00 3.86
721 1209 9.974980 TCTTCCAAATTTTGTTTTACATACTCC 57.025 29.630 8.26 0.00 0.00 3.85
763 1251 9.101655 CTTTGTCATCAATTCTTCCAAGTTTTT 57.898 29.630 0.00 0.00 33.32 1.94
764 1252 8.477256 TCTTTGTCATCAATTCTTCCAAGTTTT 58.523 29.630 0.00 0.00 33.32 2.43
765 1253 8.010733 TCTTTGTCATCAATTCTTCCAAGTTT 57.989 30.769 0.00 0.00 33.32 2.66
766 1254 7.587037 TCTTTGTCATCAATTCTTCCAAGTT 57.413 32.000 0.00 0.00 33.32 2.66
767 1255 7.587037 TTCTTTGTCATCAATTCTTCCAAGT 57.413 32.000 0.00 0.00 33.32 3.16
768 1256 7.383300 GGTTTCTTTGTCATCAATTCTTCCAAG 59.617 37.037 0.00 0.00 33.32 3.61
769 1257 7.209475 GGTTTCTTTGTCATCAATTCTTCCAA 58.791 34.615 0.00 0.00 33.32 3.53
770 1258 6.514870 CGGTTTCTTTGTCATCAATTCTTCCA 60.515 38.462 0.00 0.00 33.32 3.53
771 1259 5.858581 CGGTTTCTTTGTCATCAATTCTTCC 59.141 40.000 0.00 0.00 33.32 3.46
772 1260 6.668323 TCGGTTTCTTTGTCATCAATTCTTC 58.332 36.000 0.00 0.00 33.32 2.87
773 1261 6.294176 CCTCGGTTTCTTTGTCATCAATTCTT 60.294 38.462 0.00 0.00 33.32 2.52
774 1262 5.182001 CCTCGGTTTCTTTGTCATCAATTCT 59.818 40.000 0.00 0.00 33.32 2.40
775 1263 5.181245 TCCTCGGTTTCTTTGTCATCAATTC 59.819 40.000 0.00 0.00 33.32 2.17
776 1264 5.070001 TCCTCGGTTTCTTTGTCATCAATT 58.930 37.500 0.00 0.00 33.32 2.32
777 1265 4.651778 TCCTCGGTTTCTTTGTCATCAAT 58.348 39.130 0.00 0.00 33.32 2.57
778 1266 4.065088 CTCCTCGGTTTCTTTGTCATCAA 58.935 43.478 0.00 0.00 0.00 2.57
779 1267 3.071023 ACTCCTCGGTTTCTTTGTCATCA 59.929 43.478 0.00 0.00 0.00 3.07
780 1268 3.665190 ACTCCTCGGTTTCTTTGTCATC 58.335 45.455 0.00 0.00 0.00 2.92
781 1269 3.771577 ACTCCTCGGTTTCTTTGTCAT 57.228 42.857 0.00 0.00 0.00 3.06
782 1270 3.553828 AACTCCTCGGTTTCTTTGTCA 57.446 42.857 0.00 0.00 0.00 3.58
785 1273 6.803154 AATCTTAACTCCTCGGTTTCTTTG 57.197 37.500 0.00 0.00 0.00 2.77
802 1290 4.329638 TCCAAATGCCCCTCAAATCTTA 57.670 40.909 0.00 0.00 0.00 2.10
803 1291 3.188880 TCCAAATGCCCCTCAAATCTT 57.811 42.857 0.00 0.00 0.00 2.40
839 1346 0.762842 TATCACACCTCCATCGGGGG 60.763 60.000 0.00 0.00 37.22 5.40
1345 1852 1.621672 GCTCCCTCCTGAGTTCCCAG 61.622 65.000 0.00 0.00 34.74 4.45
1393 1900 0.602638 ATTCGCGACCAAACAGCTGA 60.603 50.000 23.35 0.00 0.00 4.26
1394 1901 0.238289 AATTCGCGACCAAACAGCTG 59.762 50.000 9.15 13.48 0.00 4.24
1455 1962 6.538021 AGCATCATAAACAAAAACAAGCACAA 59.462 30.769 0.00 0.00 0.00 3.33
1456 1963 6.047870 AGCATCATAAACAAAAACAAGCACA 58.952 32.000 0.00 0.00 0.00 4.57
1490 1997 4.670221 GCACGCTAGAAACATCTGAAAAGG 60.670 45.833 0.00 0.00 0.00 3.11
1509 2016 0.667487 ATCCTGACACGAACAGCACG 60.667 55.000 0.00 0.00 34.47 5.34
1514 2021 5.828328 AGATCATACTATCCTGACACGAACA 59.172 40.000 0.00 0.00 0.00 3.18
1529 2036 9.401058 CAAAAAGTAATCCTCCAAGATCATACT 57.599 33.333 0.00 0.00 0.00 2.12
1568 2075 5.351740 GCCTTTCTGATACAAACTACTCCAC 59.648 44.000 0.00 0.00 0.00 4.02
1570 2077 4.567159 CGCCTTTCTGATACAAACTACTCC 59.433 45.833 0.00 0.00 0.00 3.85
1618 2125 2.632377 AGCCATTATCCACACTCAACG 58.368 47.619 0.00 0.00 0.00 4.10
1676 2183 5.529060 CAGCCCTCTCCAAGATAACAATTAC 59.471 44.000 0.00 0.00 0.00 1.89
1714 2221 0.681243 GATCCCCCAAACTGCAGTCC 60.681 60.000 21.95 0.00 0.00 3.85
1743 2250 9.379791 CTAGGTTTGGTCTACCTACAAAATAAG 57.620 37.037 0.02 0.00 44.11 1.73
1903 2421 7.809331 CACGCAGCATTCACCAAAATTATATAT 59.191 33.333 0.00 0.00 0.00 0.86
1923 2441 0.108992 AAGATGCATTTGCCACGCAG 60.109 50.000 0.00 0.00 40.61 5.18
1954 2474 9.681692 CATGATTGAAATAAAACTTGACAGACA 57.318 29.630 0.00 0.00 0.00 3.41
1980 2500 5.469479 CAATGACCAATAACCCACAGAAAC 58.531 41.667 0.00 0.00 0.00 2.78
2021 2541 5.072741 AGCATGGAGTAACAACAGTCAAAT 58.927 37.500 0.00 0.00 0.00 2.32
2057 2577 6.633856 ACAAGGCTGCAAAGGAATATTTTAG 58.366 36.000 0.50 0.00 0.00 1.85
2206 2726 2.284190 GTGCCTTTCTTAGCTGCCTAG 58.716 52.381 0.00 0.00 0.00 3.02
2209 2729 1.200948 CTTGTGCCTTTCTTAGCTGCC 59.799 52.381 0.00 0.00 0.00 4.85
2212 2732 2.276732 TGCTTGTGCCTTTCTTAGCT 57.723 45.000 0.00 0.00 38.71 3.32
2290 2810 9.064706 AGCTCATTTATGTAAATCAGATTGAGG 57.935 33.333 0.00 0.00 33.88 3.86
2322 2842 4.473444 CACAATGGGAGCATATTTAGGGT 58.527 43.478 0.00 0.00 0.00 4.34
2403 2923 4.201910 CCATGACCAAATAAACCTAGTGCG 60.202 45.833 0.00 0.00 0.00 5.34
2506 3027 3.842820 TCTCTTCTTGACAATGAGAGCG 58.157 45.455 17.10 3.48 31.24 5.03
2524 3045 4.796369 AGTTCGTAAGTACTGCAACTCTC 58.204 43.478 0.00 0.00 46.74 3.20
2574 3098 1.188863 GGGCAAGGAAATGAGTGCAT 58.811 50.000 0.00 0.00 38.78 3.96
2656 3187 6.094048 GGAGCAGCAGATCTGTTAAAACAATA 59.906 38.462 23.38 0.00 44.66 1.90
2838 3369 1.668826 TGGCTATTCCAAGACCAGGT 58.331 50.000 0.00 0.00 43.21 4.00
2887 3418 3.469863 TTGCCGTCCGAAGCAACCT 62.470 57.895 3.52 0.00 44.64 3.50
2934 3465 0.820891 CTGCAGCACACCAAGGTCTT 60.821 55.000 0.00 0.00 0.00 3.01
2946 3477 2.177394 TTTGATAACGACCTGCAGCA 57.823 45.000 8.66 0.00 0.00 4.41
2955 3486 3.537580 GTGCCCAGGTATTTGATAACGA 58.462 45.455 0.00 0.00 0.00 3.85
3383 3914 0.546122 ACAGCGGGGCATATTCAGAA 59.454 50.000 0.00 0.00 0.00 3.02
3537 4068 3.558746 CCAGCCTCCATAAGCTTCCTATG 60.559 52.174 0.00 0.79 37.18 2.23
4119 4657 0.927537 TTCACAACGACACAAGCTCG 59.072 50.000 0.00 0.00 37.17 5.03
4133 4671 2.434336 AGCAGGACTGTTACAGTTCACA 59.566 45.455 23.93 0.00 45.44 3.58
4228 4767 4.759782 AGAGACATGTAATCGGAGTTTGG 58.240 43.478 0.00 0.00 0.00 3.28
4371 4910 7.874016 TGGTTCTTAGCGTTGAGTTAGAAATTA 59.126 33.333 0.00 0.00 0.00 1.40
4434 4973 5.750352 ATCAAATGGTTCTTCCTTGCAAT 57.250 34.783 0.00 0.00 37.07 3.56
4574 5117 2.159517 ACGTATCGTGTACCCTCGAAAC 60.160 50.000 8.47 0.00 39.18 2.78
4603 5146 5.127491 CCGTCCTTAGATTGTACTCTCTCT 58.873 45.833 0.00 0.00 0.00 3.10
4624 5167 7.378728 GGATTTCTTAAGACAAACAAAGAACCG 59.621 37.037 4.18 0.00 37.61 4.44
4729 5283 8.157476 ACTATTCCTGCGTTTTGATAATCCTAT 58.843 33.333 0.00 0.00 0.00 2.57
4737 5291 4.323417 TGACACTATTCCTGCGTTTTGAT 58.677 39.130 0.00 0.00 0.00 2.57
4746 5300 4.478206 AGTGGACATGACACTATTCCTG 57.522 45.455 20.70 0.00 46.62 3.86
4788 5344 2.362503 TCCATGGAGCTCGGTCGT 60.363 61.111 11.44 0.00 0.00 4.34
4789 5345 2.415010 CTCCATGGAGCTCGGTCG 59.585 66.667 28.45 3.76 35.31 4.79
4910 5466 7.630242 TCTCACAATTCAAGGTATTTCATCC 57.370 36.000 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.