Multiple sequence alignment - TraesCS1B01G125700

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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 TraesCS1B01G125700 chr1B 100.000 5654 0 0 1 5654 152802372 152796719 0.000000e+00 10442.0
1 TraesCS1B01G125700 chr1D 95.234 4826 184 25 1 4811 99665978 99670772 0.000000e+00 7596.0
2 TraesCS1B01G125700 chr1D 93.388 605 39 1 5050 5654 99673454 99674057 0.000000e+00 894.0
3 TraesCS1B01G125700 chr1D 89.474 247 13 5 4803 5046 99671631 99671867 3.310000e-77 300.0
4 TraesCS1B01G125700 chr1A 94.426 3050 109 13 1 3016 95058103 95061125 0.000000e+00 4634.0
5 TraesCS1B01G125700 chr1A 95.403 1849 75 8 3015 4860 95061207 95063048 0.000000e+00 2935.0
6 TraesCS1B01G125700 chr1A 93.294 343 23 0 5043 5385 95071165 95071507 1.820000e-139 507.0
7 TraesCS1B01G125700 chr1A 91.844 282 21 2 5374 5654 95072784 95073064 5.310000e-105 392.0
8 TraesCS1B01G125700 chr1A 93.229 192 12 1 4856 5046 95070278 95070469 1.200000e-71 281.0
9 TraesCS1B01G125700 chr4B 78.589 411 80 8 5132 5535 639121576 639121985 1.210000e-66 265.0
10 TraesCS1B01G125700 chr4B 82.514 183 25 7 1130 1309 659165883 659165705 2.730000e-33 154.0
11 TraesCS1B01G125700 chr4B 86.614 127 14 2 5403 5528 106821805 106821929 2.750000e-28 137.0
12 TraesCS1B01G125700 chrUn 76.359 423 75 18 5130 5534 19061983 19062398 2.670000e-48 204.0
13 TraesCS1B01G125700 chr5A 83.889 180 22 7 1130 1306 694983152 694982977 1.260000e-36 165.0
14 TraesCS1B01G125700 chr5A 75.585 299 62 11 5246 5535 702498780 702498484 2.750000e-28 137.0
15 TraesCS1B01G125700 chr4D 83.333 180 23 7 1130 1306 508695077 508694902 5.860000e-35 159.0
16 TraesCS1B01G125700 chr7D 90.141 71 7 0 5044 5114 452258395 452258465 6.030000e-15 93.5
17 TraesCS1B01G125700 chr3A 81.609 87 16 0 5043 5129 586070866 586070780 7.860000e-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 TraesCS1B01G125700 chr1B 152796719 152802372 5653 True 10442.000000 10442 100.000000 1 5654 1 chr1B.!!$R1 5653
1 TraesCS1B01G125700 chr1D 99665978 99674057 8079 False 2930.000000 7596 92.698667 1 5654 3 chr1D.!!$F1 5653
2 TraesCS1B01G125700 chr1A 95058103 95063048 4945 False 3784.500000 4634 94.914500 1 4860 2 chr1A.!!$F1 4859
3 TraesCS1B01G125700 chr1A 95070278 95073064 2786 False 393.333333 507 92.789000 4856 5654 3 chr1A.!!$F2 798

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
225 226 2.630889 TCTCAGTCCTCTTGATGGGT 57.369 50.000 0.00 0.0 0.0 4.51 F
1803 1838 0.105224 TGCCGAGTTCAACTTCCGAA 59.895 50.000 0.32 0.0 0.0 4.30 F
2616 2656 0.460459 GCTCGGCTTACCAGAGGTTC 60.460 60.000 0.00 0.0 37.2 3.62 F
3746 3877 1.955778 CAACCATTGCTTGTCTGACCA 59.044 47.619 5.17 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2031 2068 1.067354 CAGCAAGCATCAACCCTTTCC 60.067 52.381 0.0 0.0 0.0 3.13 R
3187 3310 0.320073 ACATACCAACGACCCACACG 60.320 55.000 0.0 0.0 0.0 4.49 R
3848 3983 0.740737 ACCAACAAGCTTGACAGTGC 59.259 50.000 32.5 0.0 0.0 4.40 R
5424 9304 1.097232 CACATCACAATCACGCCCAT 58.903 50.000 0.0 0.0 0.0 4.00 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
110 111 6.174049 AGGGAGTAATTAGTGTCAGCTTTTC 58.826 40.000 0.00 0.00 0.00 2.29
184 185 4.124238 CACCGGTTCTTCTTCTGTTACAA 58.876 43.478 2.97 0.00 0.00 2.41
225 226 2.630889 TCTCAGTCCTCTTGATGGGT 57.369 50.000 0.00 0.00 0.00 4.51
403 436 4.457603 TGTGCCAATTTGTGTACTCCATAC 59.542 41.667 0.00 0.00 0.00 2.39
438 472 3.963129 TGGTTATTCTGTTTGCCTAGGG 58.037 45.455 11.72 0.00 0.00 3.53
617 651 7.336931 TGAATTTGGGTAAATCTAGCTCAAGTC 59.663 37.037 0.00 0.00 35.50 3.01
820 854 3.508793 ACAGGCTGTGAATTCCAGAAATG 59.491 43.478 21.37 17.44 31.38 2.32
885 919 8.531146 TCAAATTTTGGATCAAAGGAATAGGAC 58.469 33.333 9.18 0.00 34.72 3.85
971 1005 7.810759 TCAAAGTATATCAAAAAGGAAAACGGC 59.189 33.333 0.00 0.00 0.00 5.68
1072 1106 9.766754 TTACACCCATTAAGGTCCGTATATATA 57.233 33.333 0.00 0.00 38.39 0.86
1122 1156 9.265901 GCTTCTTTAGAGAATATATGACTTGCA 57.734 33.333 0.00 0.00 40.93 4.08
1150 1184 5.874810 GGTGGCTAATTGATTTTCCTTTTCC 59.125 40.000 0.00 0.00 0.00 3.13
1166 1200 4.527944 CTTTTCCCCTTAGATTCCTCCAC 58.472 47.826 0.00 0.00 0.00 4.02
1435 1469 8.842358 AATGTTCCTTCATAAAGTAAACTCGA 57.158 30.769 0.00 0.00 32.00 4.04
1444 1478 9.701098 TTCATAAAGTAAACTCGACAGTATTGT 57.299 29.630 0.00 0.00 41.18 2.71
1561 1596 9.277565 GTATTACTGTGTTTGTTTATGCAGATG 57.722 33.333 0.00 0.00 0.00 2.90
1577 1612 4.923281 TGCAGATGTTATTACGATCCGATG 59.077 41.667 0.00 0.00 0.00 3.84
1803 1838 0.105224 TGCCGAGTTCAACTTCCGAA 59.895 50.000 0.32 0.00 0.00 4.30
1827 1862 8.830201 AATTCTCTCTGTTCTACATGATATGC 57.170 34.615 0.00 0.00 0.00 3.14
1868 1903 6.590292 TGGCTACTTCTAAAGTCAGAATTTCG 59.410 38.462 0.00 0.00 41.77 3.46
1882 1917 8.091449 AGTCAGAATTTCGCCTATATTTAGAGG 58.909 37.037 0.00 0.00 37.73 3.69
1933 1968 2.715737 TGGTTTGCATTTCGGCTAAC 57.284 45.000 0.00 0.00 44.88 2.34
1953 1988 5.586643 CTAACAGATAGAAAAGAGGGCAACC 59.413 44.000 0.00 0.00 46.44 3.77
2031 2068 3.944422 ACTATTTTTGCAGGCGTATCG 57.056 42.857 0.00 0.00 0.00 2.92
2100 2137 6.838198 CATAATTTGCATCAGTCCCATTTG 57.162 37.500 0.00 0.00 0.00 2.32
2212 2249 5.104776 TGGGACAATGGAGATTCTTAGTCTG 60.105 44.000 0.00 0.00 31.92 3.51
2371 2411 6.891388 TGTAGGTCTTGTTTAGGAACTTTGA 58.109 36.000 0.00 0.00 41.75 2.69
2449 2489 4.039124 AGTTGCGGGAAATCAAGATTTTGT 59.961 37.500 9.22 0.00 40.77 2.83
2450 2490 3.911868 TGCGGGAAATCAAGATTTTGTG 58.088 40.909 9.22 4.19 40.77 3.33
2527 2567 5.124936 AGGTTTGTTTTGTGTCCACTCTAAC 59.875 40.000 0.00 2.03 0.00 2.34
2547 2587 7.481642 TCTAACTATTGGCTTTAAGAGACTCG 58.518 38.462 0.00 0.00 33.09 4.18
2576 2616 7.730364 ATTGTTAACCTAGATATTGAAGCCG 57.270 36.000 2.48 0.00 0.00 5.52
2616 2656 0.460459 GCTCGGCTTACCAGAGGTTC 60.460 60.000 0.00 0.00 37.20 3.62
2857 2897 6.859112 ACTAGGAAGTAGATCTTTTCAGCA 57.141 37.500 16.77 5.22 36.40 4.41
2904 2944 4.175516 CAAATTCGATTGTCAACATGGGG 58.824 43.478 0.00 0.00 0.00 4.96
3079 3202 5.246307 AGTTTAGCGCCTTTAAACTCATCT 58.754 37.500 21.15 5.83 44.03 2.90
3081 3204 5.545658 TTAGCGCCTTTAAACTCATCTTG 57.454 39.130 2.29 0.00 0.00 3.02
3082 3205 3.412386 AGCGCCTTTAAACTCATCTTGT 58.588 40.909 2.29 0.00 0.00 3.16
3115 3238 9.331282 AGTGAAATTGTATGCCTAGTAGAATTC 57.669 33.333 0.00 0.00 28.45 2.17
3187 3310 5.643379 TTTGTCAAGAATTCTACATGGGC 57.357 39.130 8.75 2.04 0.00 5.36
3317 3444 3.768215 AGGGAGTACACTACTAAAGCCAC 59.232 47.826 0.00 0.00 39.59 5.01
3328 3455 2.093816 ACTAAAGCCACGTTAGTAGCCC 60.094 50.000 4.46 0.00 39.47 5.19
3371 3498 2.727123 ATGACCACAACACTTGTCCA 57.273 45.000 0.00 0.00 43.23 4.02
3380 3507 3.270027 CAACACTTGTCCAGTCACTTCA 58.730 45.455 0.00 0.00 30.92 3.02
3408 3535 9.507329 ACCACCAATTATATTAGTAGCTGATTG 57.493 33.333 0.00 0.00 0.00 2.67
3424 3551 4.439289 GCTGATTGTTTAGCCACCAATCTC 60.439 45.833 11.52 2.52 43.02 2.75
3556 3685 2.672098 ACACTCTGGAAGACTCACACT 58.328 47.619 0.00 0.00 38.67 3.55
3682 3811 8.040132 TGGCATCCCTTTATTTTCTTTGTATTG 58.960 33.333 0.00 0.00 0.00 1.90
3689 3818 9.696917 CCTTTATTTTCTTTGTATTGCACTTCT 57.303 29.630 0.00 0.00 0.00 2.85
3694 3823 8.677148 TTTTCTTTGTATTGCACTTCTAGTCT 57.323 30.769 0.00 0.00 0.00 3.24
3709 3838 8.704234 CACTTCTAGTCTTTGTGAGTTGTAATC 58.296 37.037 0.00 0.00 0.00 1.75
3716 3845 5.237127 TCTTTGTGAGTTGTAATCAGTGCAG 59.763 40.000 0.00 0.00 0.00 4.41
3746 3877 1.955778 CAACCATTGCTTGTCTGACCA 59.044 47.619 5.17 0.00 0.00 4.02
3848 3983 3.935203 ACTAGTCTGAAACCAATCATGCG 59.065 43.478 0.00 0.00 0.00 4.73
3900 4035 3.326297 ACCATTGGTTTTATTGGGTGGTG 59.674 43.478 1.37 0.00 37.34 4.17
4002 4137 6.336566 ACAGTTTTGTGCATCAAACATTGTA 58.663 32.000 20.01 3.27 44.39 2.41
4044 4179 5.981315 AGTGAAAATCAGAGTTGCATGTTTG 59.019 36.000 0.00 0.00 0.00 2.93
4053 4188 5.008415 CAGAGTTGCATGTTTGAAGAAGACT 59.992 40.000 0.00 0.00 0.00 3.24
4057 4192 5.581126 TGCATGTTTGAAGAAGACTGTTT 57.419 34.783 0.00 0.00 0.00 2.83
4063 4198 7.496529 TGTTTGAAGAAGACTGTTTCTATGG 57.503 36.000 5.92 0.00 36.42 2.74
4108 4243 6.720748 TGCCAGCAATATTATTATGGACACAT 59.279 34.615 17.80 0.00 41.13 3.21
4127 4262 3.004734 ACATTGTTTGCTGACTACAAGCC 59.995 43.478 0.00 0.00 35.48 4.35
4193 4328 2.084546 GTCTCCCATTGCAACAGGTAC 58.915 52.381 16.21 11.81 0.00 3.34
4359 4494 2.139118 GAGAACTGGTCAGTGTTGCTC 58.861 52.381 4.22 6.20 41.58 4.26
4360 4495 0.861837 GAACTGGTCAGTGTTGCTCG 59.138 55.000 4.22 0.00 41.58 5.03
4458 4593 7.611213 ATTTCTGAGGTTTTATAGGAACACG 57.389 36.000 4.20 0.00 0.00 4.49
4490 4625 7.039504 ACACAGAATGGATAAATGCAAGAAACT 60.040 33.333 0.00 0.00 43.62 2.66
4670 4805 6.354130 TCAAGTAACTCCAGCTTTTGTACTT 58.646 36.000 0.00 0.00 0.00 2.24
4850 5849 6.618770 TTTTTGAAAATACGTGTGTGTGTG 57.381 33.333 0.00 0.00 0.00 3.82
4888 5887 4.120331 GTCATTGGCGCACCTGGC 62.120 66.667 10.83 0.00 36.63 4.85
5082 7674 3.309436 TTCTAGTGCATGGCGGCGT 62.309 57.895 9.37 0.00 36.28 5.68
5149 7741 1.792118 GACCCAGGTTGGTCGCAAAC 61.792 60.000 0.00 0.00 44.98 2.93
5206 7798 0.803740 GACCTTACAGACGACTCGCT 59.196 55.000 0.00 0.00 0.00 4.93
5239 7831 2.683933 AGCGGATCTTCCCACGGT 60.684 61.111 0.00 0.00 31.13 4.83
5246 7838 1.209747 GATCTTCCCACGGTAGGCTTT 59.790 52.381 0.00 0.00 0.00 3.51
5256 7848 2.140717 CGGTAGGCTTTTGACTCGTTT 58.859 47.619 0.00 0.00 39.50 3.60
5306 7898 0.036765 CACCCGCTTACTAGGCAACA 60.037 55.000 0.00 0.00 41.41 3.33
5315 7907 2.202878 TAGGCAACAGGATCGCGC 60.203 61.111 0.00 0.00 41.41 6.86
5385 9265 1.834896 TCCGTTTCATAGGGCTGCTTA 59.165 47.619 0.00 0.00 0.00 3.09
5396 9276 2.167900 AGGGCTGCTTAGTAGTTTACCG 59.832 50.000 0.00 0.00 0.00 4.02
5399 9279 2.603560 GCTGCTTAGTAGTTTACCGCTG 59.396 50.000 0.00 0.00 0.00 5.18
5424 9304 7.039363 TGGGTTCTGTTTCTTTTCTCTTTTTCA 60.039 33.333 0.00 0.00 0.00 2.69
5490 9370 4.440112 CGTGACTGATACTTGGCTGTATGA 60.440 45.833 8.09 0.80 33.74 2.15
5551 9431 4.156922 ACGAGAGAGGTGTCTTTGTATGAG 59.843 45.833 0.00 0.00 30.97 2.90
5560 9440 0.460284 CTTTGTATGAGCCGCCGTCT 60.460 55.000 0.00 0.00 0.00 4.18
5588 9468 9.056306 CGTTTGACATACTCTATATGAGAATCG 57.944 37.037 8.56 1.73 45.39 3.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 8.264347 ACAAATAAAAAGGAAAGAGCTTTTGGA 58.736 29.630 0.00 0.00 32.11 3.53
53 54 6.028146 TGCAACTTCAGTATGCATTTGATT 57.972 33.333 3.54 0.00 44.52 2.57
61 62 4.627611 ACATGATGCAACTTCAGTATGC 57.372 40.909 0.00 7.00 40.45 3.14
110 111 7.745620 ATTACTCCCGCTAATAATCCAAAAG 57.254 36.000 0.00 0.00 0.00 2.27
143 144 3.495100 GGTGCTCAAAGAAGGAGAGTTCA 60.495 47.826 0.00 0.00 34.24 3.18
403 436 6.655003 ACAGAATAACCAATTGTACAGGTCTG 59.345 38.462 13.40 13.40 33.74 3.51
438 472 9.639601 AAGTTTGCAAATATAAAAGTTCCTAGC 57.360 29.630 16.21 0.00 0.00 3.42
468 502 3.739300 ACAATCAGTCGAACTTGTTACGG 59.261 43.478 0.00 0.00 0.00 4.02
474 508 3.130633 TGGACACAATCAGTCGAACTTG 58.869 45.455 0.00 0.00 36.87 3.16
608 642 2.919228 AGTTTCAAACCGACTTGAGCT 58.081 42.857 0.00 0.00 36.69 4.09
617 651 3.367607 TCGCATTCAAAGTTTCAAACCG 58.632 40.909 0.00 0.00 0.00 4.44
655 689 8.737168 TCATTTTATACCCAAGATCTGAACTG 57.263 34.615 0.00 0.00 0.00 3.16
684 718 7.959651 CACTTACAATTCTGAAGAGAAATTCCG 59.040 37.037 0.00 0.00 41.64 4.30
820 854 3.926058 TCTGCTCCTTACATAAACCCC 57.074 47.619 0.00 0.00 0.00 4.95
1122 1156 5.032170 AGGAAAATCAATTAGCCACCCAAT 58.968 37.500 0.00 0.00 0.00 3.16
1150 1184 4.778213 TTCATGTGGAGGAATCTAAGGG 57.222 45.455 0.00 0.00 0.00 3.95
1166 1200 5.824904 AAGATCTTGGTCCGAATTTCATG 57.175 39.130 7.30 0.00 0.00 3.07
1444 1478 9.542462 GTATGTAGCTTTCAGTATTTCCATGTA 57.458 33.333 0.00 0.00 0.00 2.29
1531 1566 8.841300 TGCATAAACAAACACAGTAATACTTGA 58.159 29.630 8.73 0.00 0.00 3.02
1541 1576 8.746922 AATAACATCTGCATAAACAAACACAG 57.253 30.769 0.00 0.00 0.00 3.66
1561 1596 9.953825 GATTTGATAACATCGGATCGTAATAAC 57.046 33.333 0.00 0.00 0.00 1.89
1577 1612 5.545658 TCGCCTGAACAAGATTTGATAAC 57.454 39.130 0.00 0.00 0.00 1.89
1660 1695 4.141620 CCATCTACATAAGTGCTTGGGTCT 60.142 45.833 0.00 0.00 0.00 3.85
1725 1760 6.291743 CGCCAATTATGTCACAAAATGCATAC 60.292 38.462 0.00 0.00 31.32 2.39
1728 1763 3.925299 CGCCAATTATGTCACAAAATGCA 59.075 39.130 0.00 0.00 0.00 3.96
1803 1838 7.235193 AGGCATATCATGTAGAACAGAGAGAAT 59.765 37.037 0.00 0.00 0.00 2.40
1827 1862 2.807676 AGCCATCCAAAACAAGGTAGG 58.192 47.619 0.00 0.00 0.00 3.18
1868 1903 8.919777 ACACCAATAAACCTCTAAATATAGGC 57.080 34.615 0.00 0.00 36.24 3.93
1882 1917 8.986477 ATGAGAATTGCTAAACACCAATAAAC 57.014 30.769 0.00 0.00 0.00 2.01
1933 1968 2.939103 CGGTTGCCCTCTTTTCTATCTG 59.061 50.000 0.00 0.00 0.00 2.90
1953 1988 8.833976 TTTGACATGTTTGTAATATATGCACG 57.166 30.769 0.00 0.00 35.79 5.34
1984 2021 2.894731 AGAAGAGTCAGACCATGGACA 58.105 47.619 21.47 0.00 36.50 4.02
2031 2068 1.067354 CAGCAAGCATCAACCCTTTCC 60.067 52.381 0.00 0.00 0.00 3.13
2100 2137 8.850156 AGCAATCCCAAATAACATGTTATAGAC 58.150 33.333 27.15 12.35 34.90 2.59
2212 2249 4.213059 GGCTTTGTATAGATCTCAGCAAGC 59.787 45.833 0.00 8.14 0.00 4.01
2332 2372 9.601217 ACAAGACCTACATTCATAAAGACATAC 57.399 33.333 0.00 0.00 0.00 2.39
2371 2411 1.277842 TGGTATGTTCTGCATCCACGT 59.722 47.619 0.00 0.00 38.94 4.49
2422 2462 2.552315 TCTTGATTTCCCGCAACTTCAC 59.448 45.455 0.00 0.00 0.00 3.18
2449 2489 2.957680 ACATGCACAACATCTTTCACCA 59.042 40.909 0.00 0.00 36.64 4.17
2450 2490 3.648339 ACATGCACAACATCTTTCACC 57.352 42.857 0.00 0.00 36.64 4.02
2527 2567 5.012328 ACCGAGTCTCTTAAAGCCAATAG 57.988 43.478 0.00 0.00 0.00 1.73
2576 2616 3.243670 GCCGAGTTAGTAGAACATACCCC 60.244 52.174 0.00 0.00 0.00 4.95
2629 2669 4.985538 ACCAAGTAGGCTCAAATGAGAAA 58.014 39.130 14.43 0.00 43.67 2.52
2631 2671 5.488341 GTTACCAAGTAGGCTCAAATGAGA 58.512 41.667 14.43 0.00 43.67 3.27
2724 2764 3.980646 TGTTGTTGTGGATTTTCCTCG 57.019 42.857 0.00 0.00 37.46 4.63
2857 2897 1.156736 GTGCCACAAACGCTACTCAT 58.843 50.000 0.00 0.00 0.00 2.90
2955 2995 2.171659 TGGGGCGAACATAGCTCAAATA 59.828 45.455 0.00 0.00 36.67 1.40
3115 3238 8.128582 TGCTAGTTGTGTGATTTGAGTAAAAAG 58.871 33.333 0.00 0.00 0.00 2.27
3139 3262 6.486248 TGCTATGTTCGAACTTTATTCATGC 58.514 36.000 27.32 17.02 0.00 4.06
3187 3310 0.320073 ACATACCAACGACCCACACG 60.320 55.000 0.00 0.00 0.00 4.49
3317 3444 5.485620 AGTTTTCTTTAGGGGCTACTAACG 58.514 41.667 2.48 2.00 32.97 3.18
3371 3498 3.297134 AATTGGTGGTGTGAAGTGACT 57.703 42.857 0.00 0.00 0.00 3.41
3380 3507 8.029782 TCAGCTACTAATATAATTGGTGGTGT 57.970 34.615 0.00 0.00 0.00 4.16
3408 3535 1.448985 TGCGAGATTGGTGGCTAAAC 58.551 50.000 0.00 0.00 0.00 2.01
3682 3811 4.811557 ACAACTCACAAAGACTAGAAGTGC 59.188 41.667 0.00 0.00 0.00 4.40
3689 3818 6.423905 GCACTGATTACAACTCACAAAGACTA 59.576 38.462 0.00 0.00 0.00 2.59
3694 3823 5.122519 TCTGCACTGATTACAACTCACAAA 58.877 37.500 0.00 0.00 0.00 2.83
3709 3838 5.375417 TGGTTGATAAACAATCTGCACTG 57.625 39.130 0.00 0.00 40.02 3.66
3716 3845 7.062605 CAGACAAGCAATGGTTGATAAACAATC 59.937 37.037 28.77 14.33 42.72 2.67
3746 3877 8.061857 CACGCGAAAATAATAAGTATGTGATGT 58.938 33.333 15.93 0.00 0.00 3.06
3848 3983 0.740737 ACCAACAAGCTTGACAGTGC 59.259 50.000 32.50 0.00 0.00 4.40
4002 4137 4.533815 TCACTCTCCCGTAATATGTCACT 58.466 43.478 0.00 0.00 0.00 3.41
4044 4179 4.092091 CGCACCATAGAAACAGTCTTCTTC 59.908 45.833 4.08 0.00 37.84 2.87
4053 4188 3.067461 AGTTTTTGCGCACCATAGAAACA 59.933 39.130 11.12 0.00 0.00 2.83
4057 4192 4.257731 TCATAGTTTTTGCGCACCATAGA 58.742 39.130 11.12 0.00 0.00 1.98
4063 4198 3.429085 CATCCTCATAGTTTTTGCGCAC 58.571 45.455 11.12 0.00 0.00 5.34
4108 4243 2.649190 TGGCTTGTAGTCAGCAAACAA 58.351 42.857 0.00 0.00 0.00 2.83
4127 4262 9.442047 GATCTACATCTTTGGGGATAATAGTTG 57.558 37.037 0.00 0.00 0.00 3.16
4159 4294 4.079980 TGGGAGACTTCATCAACGAAAA 57.920 40.909 0.00 0.00 0.00 2.29
4164 4299 3.084039 TGCAATGGGAGACTTCATCAAC 58.916 45.455 0.00 0.00 0.00 3.18
4193 4328 2.034179 TGCGTCCCTATCACATACTTCG 59.966 50.000 0.00 0.00 0.00 3.79
4359 4494 7.697691 ACTCCTTCAGCAAAATGTTATATTCG 58.302 34.615 0.00 0.00 0.00 3.34
4360 4495 8.677300 TGACTCCTTCAGCAAAATGTTATATTC 58.323 33.333 0.00 0.00 0.00 1.75
4458 4593 4.439305 TTTATCCATTCTGTGTGCAAGC 57.561 40.909 0.00 0.00 0.00 4.01
4490 4625 4.583907 TGAAATCTCCAACATTCTGCAACA 59.416 37.500 0.00 0.00 0.00 3.33
4670 4805 6.876155 TCACACAGTTACCAGTTACACTTAA 58.124 36.000 0.00 0.00 0.00 1.85
4831 5830 2.285892 CGCACACACACACGTATTTTCA 60.286 45.455 0.00 0.00 0.00 2.69
5206 7798 8.450578 AAGATCCGCTCAATCAACATTTTATA 57.549 30.769 0.00 0.00 0.00 0.98
5239 7831 5.821516 TTGAAAAACGAGTCAAAAGCCTA 57.178 34.783 0.00 0.00 30.93 3.93
5246 7838 6.035542 GGCAAGAAATTTGAAAAACGAGTCAA 59.964 34.615 0.00 0.00 31.99 3.18
5256 7848 5.426504 TGCAAGAAGGCAAGAAATTTGAAA 58.573 33.333 0.00 0.00 41.65 2.69
5296 7888 1.141881 CGCGATCCTGTTGCCTAGT 59.858 57.895 0.00 0.00 33.31 2.57
5357 7949 2.093869 CCCTATGAAACGGAAAGACGGA 60.094 50.000 0.00 0.00 38.39 4.69
5369 7961 5.693769 AACTACTAAGCAGCCCTATGAAA 57.306 39.130 0.00 0.00 0.00 2.69
5385 9265 2.028385 CAGAACCCAGCGGTAAACTACT 60.028 50.000 0.00 0.00 43.71 2.57
5396 9276 3.885901 AGAGAAAAGAAACAGAACCCAGC 59.114 43.478 0.00 0.00 0.00 4.85
5399 9279 7.320399 TGAAAAAGAGAAAAGAAACAGAACCC 58.680 34.615 0.00 0.00 0.00 4.11
5424 9304 1.097232 CACATCACAATCACGCCCAT 58.903 50.000 0.00 0.00 0.00 4.00
5490 9370 9.700831 ACCCTCTTTATAGATAAAGCAAACATT 57.299 29.630 14.60 0.00 45.46 2.71
5512 9392 2.032620 CTCGTACTAGGCATTCACCCT 58.967 52.381 0.00 0.00 36.47 4.34
5516 9396 3.215151 CCTCTCTCGTACTAGGCATTCA 58.785 50.000 0.00 0.00 0.00 2.57
5551 9431 3.039588 TCAAACGAAGACGGCGGC 61.040 61.111 13.24 8.92 44.46 6.53


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

AutoCloner maintained by Alex Coulton.