Multiple sequence alignment - TraesCS6A01G170800

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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 TraesCS6A01G170800 chr6A 100.000 3699 0 0 1 3699 181511247 181514945 0.000000e+00 6831.0
1 TraesCS6A01G170800 chr6D 90.328 1954 125 25 918 2829 138898480 138900411 0.000000e+00 2503.0
2 TraesCS6A01G170800 chr6D 94.541 751 37 4 1 750 138897645 138898392 0.000000e+00 1157.0
3 TraesCS6A01G170800 chr6B 89.145 1345 104 15 1525 2861 238160807 238162117 0.000000e+00 1637.0
4 TraesCS6A01G170800 chr6B 96.459 819 29 0 2881 3699 527580153 527579335 0.000000e+00 1352.0
5 TraesCS6A01G170800 chr6B 93.735 415 23 3 356 769 238157737 238158149 1.460000e-173 619.0
6 TraesCS6A01G170800 chr6B 95.389 347 15 1 12 357 238157270 238157616 5.400000e-153 551.0
7 TraesCS6A01G170800 chr6B 92.063 252 11 5 1284 1533 238159117 238159361 2.730000e-91 346.0
8 TraesCS6A01G170800 chr6B 87.662 154 9 4 840 993 238158327 238158470 1.770000e-38 171.0
9 TraesCS6A01G170800 chr7B 99.881 839 1 0 2861 3699 504492657 504491819 0.000000e+00 1544.0
10 TraesCS6A01G170800 chr4B 99.522 836 4 0 2864 3699 140202752 140203587 0.000000e+00 1522.0
11 TraesCS6A01G170800 chr3A 95.933 836 33 1 2864 3699 60240834 60240000 0.000000e+00 1354.0
12 TraesCS6A01G170800 chr3A 95.187 831 40 0 2869 3699 601613383 601614213 0.000000e+00 1314.0
13 TraesCS6A01G170800 chr1A 95.579 837 37 0 2863 3699 45498052 45498888 0.000000e+00 1341.0
14 TraesCS6A01G170800 chr1A 81.553 103 15 3 507 609 471264665 471264567 8.510000e-12 82.4
15 TraesCS6A01G170800 chr1D 94.146 837 49 0 2863 3699 476900763 476899927 0.000000e+00 1275.0
16 TraesCS6A01G170800 chr2A 94.019 836 49 1 2864 3699 371723646 371722812 0.000000e+00 1266.0
17 TraesCS6A01G170800 chr3B 93.421 836 55 0 2862 3697 752804027 752804862 0.000000e+00 1240.0


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 TraesCS6A01G170800 chr6A 181511247 181514945 3698 False 6831.0 6831 100.0000 1 3699 1 chr6A.!!$F1 3698
1 TraesCS6A01G170800 chr6D 138897645 138900411 2766 False 1830.0 2503 92.4345 1 2829 2 chr6D.!!$F1 2828
2 TraesCS6A01G170800 chr6B 527579335 527580153 818 True 1352.0 1352 96.4590 2881 3699 1 chr6B.!!$R1 818
3 TraesCS6A01G170800 chr6B 238157270 238162117 4847 False 664.8 1637 91.5988 12 2861 5 chr6B.!!$F1 2849
4 TraesCS6A01G170800 chr7B 504491819 504492657 838 True 1544.0 1544 99.8810 2861 3699 1 chr7B.!!$R1 838
5 TraesCS6A01G170800 chr4B 140202752 140203587 835 False 1522.0 1522 99.5220 2864 3699 1 chr4B.!!$F1 835
6 TraesCS6A01G170800 chr3A 60240000 60240834 834 True 1354.0 1354 95.9330 2864 3699 1 chr3A.!!$R1 835
7 TraesCS6A01G170800 chr3A 601613383 601614213 830 False 1314.0 1314 95.1870 2869 3699 1 chr3A.!!$F1 830
8 TraesCS6A01G170800 chr1A 45498052 45498888 836 False 1341.0 1341 95.5790 2863 3699 1 chr1A.!!$F1 836
9 TraesCS6A01G170800 chr1D 476899927 476900763 836 True 1275.0 1275 94.1460 2863 3699 1 chr1D.!!$R1 836
10 TraesCS6A01G170800 chr2A 371722812 371723646 834 True 1266.0 1266 94.0190 2864 3699 1 chr2A.!!$R1 835
11 TraesCS6A01G170800 chr3B 752804027 752804862 835 False 1240.0 1240 93.4210 2862 3697 1 chr3B.!!$F1 835

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
858 1153 1.941377 TCTTAAGTACGGGCCTTCCA 58.059 50.0 0.84 0.0 34.36 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2830 4976 0.029834 GCAGTTGCACCACAAGACTG 59.97 55.0 7.87 7.87 39.5 3.51 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
118 119 4.524802 TCTACGGTCCCATTAGGTAGAA 57.475 45.455 0.94 0.00 37.30 2.10
176 178 7.381948 TCATGTTTTGAAAATGTGACATGTAGC 59.618 33.333 15.31 0.00 42.83 3.58
180 182 3.188254 TGAAAATGTGACATGTAGCGTGG 59.812 43.478 0.00 0.00 0.00 4.94
274 277 7.285566 ACATAGTCTGAATTGTGCAATCCTAT 58.714 34.615 0.00 0.00 0.00 2.57
400 525 4.490743 ACCGCACAATTAAAATAGGTTGC 58.509 39.130 0.00 0.00 0.00 4.17
495 620 5.358160 GTGGCCTCTAAATAGCAATTCTGTT 59.642 40.000 3.32 0.00 0.00 3.16
496 621 5.357878 TGGCCTCTAAATAGCAATTCTGTTG 59.642 40.000 3.32 0.00 0.00 3.33
528 653 2.452600 AGGTCTCCTTTGGTTTGCAA 57.547 45.000 0.00 0.00 0.00 4.08
661 787 4.774200 CCATTCCCAGTTCAAGGAAAGAAT 59.226 41.667 0.00 0.00 45.03 2.40
663 789 6.239686 CCATTCCCAGTTCAAGGAAAGAATTT 60.240 38.462 0.00 0.00 45.03 1.82
776 1044 9.959749 TTTTTCTTGAGGTAAAACATACATGTC 57.040 29.630 0.00 0.00 40.80 3.06
777 1045 8.684386 TTTCTTGAGGTAAAACATACATGTCA 57.316 30.769 0.00 0.00 40.80 3.58
778 1046 8.862325 TTCTTGAGGTAAAACATACATGTCAT 57.138 30.769 0.00 0.00 40.80 3.06
779 1047 8.492673 TCTTGAGGTAAAACATACATGTCATC 57.507 34.615 0.00 0.00 40.80 2.92
780 1048 8.321353 TCTTGAGGTAAAACATACATGTCATCT 58.679 33.333 0.00 0.00 40.80 2.90
781 1049 7.848223 TGAGGTAAAACATACATGTCATCTG 57.152 36.000 0.00 0.00 40.80 2.90
782 1050 7.619965 TGAGGTAAAACATACATGTCATCTGA 58.380 34.615 0.00 0.00 40.80 3.27
783 1051 8.267183 TGAGGTAAAACATACATGTCATCTGAT 58.733 33.333 0.00 0.00 40.80 2.90
784 1052 9.113838 GAGGTAAAACATACATGTCATCTGATT 57.886 33.333 0.00 0.00 40.80 2.57
785 1053 9.466497 AGGTAAAACATACATGTCATCTGATTT 57.534 29.630 0.00 6.40 40.80 2.17
786 1054 9.722056 GGTAAAACATACATGTCATCTGATTTC 57.278 33.333 0.00 0.00 40.80 2.17
787 1055 9.722056 GTAAAACATACATGTCATCTGATTTCC 57.278 33.333 0.00 0.00 40.80 3.13
788 1056 6.949352 AACATACATGTCATCTGATTTCCC 57.051 37.500 0.00 0.00 40.80 3.97
789 1057 6.005066 ACATACATGTCATCTGATTTCCCA 57.995 37.500 0.00 0.00 35.87 4.37
790 1058 6.425735 ACATACATGTCATCTGATTTCCCAA 58.574 36.000 0.00 0.00 35.87 4.12
791 1059 6.891361 ACATACATGTCATCTGATTTCCCAAA 59.109 34.615 0.00 0.00 35.87 3.28
792 1060 7.396907 ACATACATGTCATCTGATTTCCCAAAA 59.603 33.333 0.00 0.00 35.87 2.44
793 1061 6.669125 ACATGTCATCTGATTTCCCAAAAA 57.331 33.333 0.00 0.00 0.00 1.94
858 1153 1.941377 TCTTAAGTACGGGCCTTCCA 58.059 50.000 0.84 0.00 34.36 3.53
871 1166 4.231273 GGGCCTTCCATTTTATATTGGGT 58.769 43.478 0.84 0.00 33.62 4.51
1117 1428 4.500116 GCGAGCTCCAGGTCCGTC 62.500 72.222 8.47 0.00 39.23 4.79
1118 1429 3.827898 CGAGCTCCAGGTCCGTCC 61.828 72.222 8.47 0.00 39.23 4.79
1119 1430 2.680352 GAGCTCCAGGTCCGTCCA 60.680 66.667 0.87 0.00 39.02 4.02
1120 1431 2.039624 AGCTCCAGGTCCGTCCAT 59.960 61.111 0.00 0.00 39.02 3.41
1121 1432 2.022240 GAGCTCCAGGTCCGTCCATC 62.022 65.000 0.87 0.00 39.02 3.51
1149 1460 2.971598 CGAGCCCACCCCTCACAAT 61.972 63.158 0.00 0.00 0.00 2.71
1167 1478 4.794648 CCCCGCGGCATCTCCAAA 62.795 66.667 22.85 0.00 34.01 3.28
1180 1491 0.721718 CTCCAAAGCTTTAGACGGCG 59.278 55.000 12.25 4.80 0.00 6.46
1228 1539 0.870393 CTCAGCTGTCGTGTGCAAAT 59.130 50.000 14.67 0.00 0.00 2.32
1288 1955 6.925165 ACTGTTTGGTGTTGATTTGATGATTC 59.075 34.615 0.00 0.00 0.00 2.52
1361 2028 2.157085 GTGGTCGTTCGTTCAGATTTCC 59.843 50.000 0.00 0.00 0.00 3.13
1385 2052 0.179004 TTGGACTGGTGCACGGATTT 60.179 50.000 11.45 0.00 0.00 2.17
1386 2053 0.179004 TGGACTGGTGCACGGATTTT 60.179 50.000 11.45 0.00 0.00 1.82
1433 2100 2.047939 ACGGGGGCTTCGTTAACG 60.048 61.111 21.85 21.85 37.61 3.18
1480 2148 2.557056 TCAGTTCGAAGGACTGGTAGTG 59.443 50.000 14.18 0.00 43.61 2.74
1533 3655 6.375455 AGTGCTAAAGTGGATTTTCTACCATG 59.625 38.462 0.00 0.00 38.48 3.66
1536 3658 6.377146 GCTAAAGTGGATTTTCTACCATGGAA 59.623 38.462 21.47 1.18 38.48 3.53
1578 3700 1.817099 GTCCGCTGCATTCTCTGGG 60.817 63.158 0.00 0.00 0.00 4.45
1652 3774 1.063912 TCATTTATGCTTGAAGGCGCG 59.936 47.619 0.00 0.00 34.52 6.86
1743 3867 2.612212 TGTGCTCGGTTCTTTGTTTCTC 59.388 45.455 0.00 0.00 0.00 2.87
1749 3873 2.152016 GGTTCTTTGTTTCTCGAGGGG 58.848 52.381 13.56 0.00 0.00 4.79
1760 3884 3.726557 TCTCGAGGGGTTGAGTACTTA 57.273 47.619 13.56 0.00 33.88 2.24
1786 3911 1.805943 GGGCCAAAAATGCATCACAAC 59.194 47.619 4.39 0.00 0.00 3.32
1792 3917 5.475719 CCAAAAATGCATCACAACTCAGAT 58.524 37.500 0.00 0.00 0.00 2.90
1793 3918 6.623486 CCAAAAATGCATCACAACTCAGATA 58.377 36.000 0.00 0.00 0.00 1.98
1794 3919 6.750501 CCAAAAATGCATCACAACTCAGATAG 59.249 38.462 0.00 0.00 0.00 2.08
1795 3920 7.310664 CAAAAATGCATCACAACTCAGATAGT 58.689 34.615 0.00 0.00 41.49 2.12
1837 3962 6.868339 TCACAGATGACACATTTATATAGGCG 59.132 38.462 0.00 0.00 0.00 5.52
1856 3981 2.650297 GCGTTGCTTCGTTTAACATGAC 59.350 45.455 0.00 0.00 0.00 3.06
1861 3986 3.880490 TGCTTCGTTTAACATGACAAGGT 59.120 39.130 0.00 0.00 0.00 3.50
1865 3990 6.128391 GCTTCGTTTAACATGACAAGGTATCA 60.128 38.462 0.00 0.00 0.00 2.15
1882 4007 5.948162 AGGTATCACTGAAGTGCATGAATTT 59.052 36.000 5.55 0.00 45.25 1.82
1895 4020 4.049186 GCATGAATTTAGATTGGCAGCAG 58.951 43.478 0.00 0.00 0.00 4.24
1901 4026 2.299993 TAGATTGGCAGCAGAAGTCG 57.700 50.000 0.00 0.00 0.00 4.18
1978 4103 2.620115 ACATTGACAGACCTTTGCACAG 59.380 45.455 0.00 0.00 0.00 3.66
2004 4130 1.047801 GCCATCCACTTGGTTTGGTT 58.952 50.000 16.43 0.00 39.82 3.67
2005 4131 1.000843 GCCATCCACTTGGTTTGGTTC 59.999 52.381 16.43 3.41 39.82 3.62
2016 4142 3.561143 TGGTTTGGTTCTTGTGCTATGT 58.439 40.909 0.00 0.00 0.00 2.29
2029 4155 2.091588 GTGCTATGTCGTGTACCAAACG 59.908 50.000 0.00 0.00 42.36 3.60
2036 4162 0.111001 CGTGTACCAAACGGCTTTCG 60.111 55.000 0.00 0.00 45.88 3.46
2049 4175 2.164219 CGGCTTTCGGGTACTGTACTAA 59.836 50.000 16.79 7.23 35.30 2.24
2090 4216 8.674263 ATTATTTTCATGTTTGCCAACAAAGA 57.326 26.923 7.52 6.30 46.17 2.52
2099 4225 7.532682 TGTTTGCCAACAAAGAGTTATTTTC 57.467 32.000 0.00 0.00 46.17 2.29
2142 4268 5.388408 ACTTCTAGTCTAGTTTTGACGGG 57.612 43.478 6.77 0.00 39.24 5.28
2146 4272 3.041508 AGTCTAGTTTTGACGGGAAGC 57.958 47.619 0.00 0.00 39.24 3.86
2208 4334 6.976934 AACTTCACCAAACCATGTAGATTT 57.023 33.333 0.00 0.00 0.00 2.17
2335 4467 2.486472 AGGTCAACTCTCCATTGCTG 57.514 50.000 0.00 0.00 0.00 4.41
2338 4470 2.681848 GGTCAACTCTCCATTGCTGATG 59.318 50.000 0.00 0.00 35.42 3.07
2346 4478 5.022282 TCTCCATTGCTGATGTTTATCGA 57.978 39.130 0.00 0.00 36.04 3.59
2347 4479 5.614308 TCTCCATTGCTGATGTTTATCGAT 58.386 37.500 2.16 2.16 36.04 3.59
2350 4482 6.524734 TCCATTGCTGATGTTTATCGATAGT 58.475 36.000 5.09 0.00 36.04 2.12
2358 4490 7.648112 GCTGATGTTTATCGATAGTGTTACTGA 59.352 37.037 5.09 0.00 36.04 3.41
2362 4494 8.906636 TGTTTATCGATAGTGTTACTGACTTC 57.093 34.615 5.09 0.00 37.40 3.01
2365 4497 5.562506 TCGATAGTGTTACTGACTTCTGG 57.437 43.478 0.00 0.00 37.40 3.86
2374 4506 6.366332 GTGTTACTGACTTCTGGTGTTATCAG 59.634 42.308 0.00 0.00 39.56 2.90
2479 4611 4.749245 AAAGATGAATCAACGTGTGACC 57.251 40.909 0.00 0.00 39.72 4.02
2491 4623 1.641577 GTGTGACCGAGGAATACAGC 58.358 55.000 0.00 0.00 0.00 4.40
2494 4626 2.236146 TGTGACCGAGGAATACAGCAAT 59.764 45.455 0.00 0.00 0.00 3.56
2497 4629 5.057149 GTGACCGAGGAATACAGCAATTAT 58.943 41.667 0.00 0.00 0.00 1.28
2503 4635 5.406780 CGAGGAATACAGCAATTATGGAGAC 59.593 44.000 0.00 0.00 0.00 3.36
2509 4641 2.091152 GCAATTATGGAGACGTTGCG 57.909 50.000 0.00 0.00 36.27 4.85
2524 4656 4.719369 GCGTCCGGTCTGCGAGTT 62.719 66.667 0.00 0.00 0.00 3.01
2536 4668 4.034742 GGTCTGCGAGTTTTTGTAGAACAA 59.965 41.667 0.00 0.00 37.17 2.83
2557 4689 5.124776 ACAACTGAATGAGAAAAACCAACGA 59.875 36.000 0.00 0.00 0.00 3.85
2569 4701 5.934935 AAAACCAACGATTTGACGAGTAT 57.065 34.783 0.00 0.00 34.24 2.12
2692 4824 1.265095 GCATATCACATTGCTCCCACG 59.735 52.381 0.00 0.00 35.95 4.94
2704 4836 1.268896 GCTCCCACGCAATGATTCATG 60.269 52.381 0.00 0.00 0.00 3.07
2711 4843 2.159338 ACGCAATGATTCATGTCCAAGC 60.159 45.455 0.00 0.00 0.00 4.01
2722 4868 2.061509 TGTCCAAGCATCCCATCATG 57.938 50.000 0.00 0.00 0.00 3.07
2724 4870 1.952296 GTCCAAGCATCCCATCATGTC 59.048 52.381 0.00 0.00 0.00 3.06
2789 4935 1.616159 ACACGTTTGGATGGGGAAAG 58.384 50.000 0.00 0.00 0.00 2.62
2829 4975 5.923733 TGTTTCCACCATTGTTGTACTTT 57.076 34.783 0.00 0.00 0.00 2.66
2830 4976 5.897050 TGTTTCCACCATTGTTGTACTTTC 58.103 37.500 0.00 0.00 0.00 2.62
2839 4985 6.183360 ACCATTGTTGTACTTTCAGTCTTGTG 60.183 38.462 0.00 0.00 0.00 3.33
3355 5501 0.241213 CCATCCGCGACGTATGAGAT 59.759 55.000 8.23 0.00 0.00 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 1.819288 TCGGTGTTTGCCTTTTTCACA 59.181 42.857 0.00 0.00 0.00 3.58
20 21 2.719354 GTTTGCGGCTCGGTGTTT 59.281 55.556 0.00 0.00 0.00 2.83
25 26 2.511600 CCTAGGTTTGCGGCTCGG 60.512 66.667 0.00 0.00 0.00 4.63
60 61 0.249868 TGTGGCCACAAGAGAAGACG 60.250 55.000 36.10 0.00 38.56 4.18
149 151 9.247126 CTACATGTCACATTTTCAAAACATGAA 57.753 29.630 15.67 2.46 46.22 2.57
180 182 1.062587 GACACCATTGATAGCACGCAC 59.937 52.381 0.00 0.00 0.00 5.34
274 277 2.739287 CGCTATGGTAAACGGTGCCTTA 60.739 50.000 0.00 0.00 32.04 2.69
374 499 7.309920 CAACCTATTTTAATTGTGCGGTAAGT 58.690 34.615 0.00 0.00 0.00 2.24
377 502 5.642686 GCAACCTATTTTAATTGTGCGGTA 58.357 37.500 0.00 0.00 0.00 4.02
495 620 5.416271 AGGAGACCTAAGCGTTTTTATCA 57.584 39.130 0.00 0.00 28.47 2.15
496 621 6.403309 CCAAAGGAGACCTAAGCGTTTTTATC 60.403 42.308 0.00 0.00 31.13 1.75
750 1018 9.959749 GACATGTATGTTTTACCTCAAGAAAAA 57.040 29.630 0.00 0.00 41.95 1.94
751 1019 9.126151 TGACATGTATGTTTTACCTCAAGAAAA 57.874 29.630 0.00 0.00 41.95 2.29
752 1020 8.684386 TGACATGTATGTTTTACCTCAAGAAA 57.316 30.769 0.00 0.00 41.95 2.52
753 1021 8.862325 ATGACATGTATGTTTTACCTCAAGAA 57.138 30.769 0.00 0.00 41.95 2.52
754 1022 8.321353 AGATGACATGTATGTTTTACCTCAAGA 58.679 33.333 0.00 0.00 41.95 3.02
755 1023 8.393366 CAGATGACATGTATGTTTTACCTCAAG 58.607 37.037 0.00 0.00 41.95 3.02
756 1024 8.100164 TCAGATGACATGTATGTTTTACCTCAA 58.900 33.333 0.00 0.00 41.95 3.02
757 1025 7.619965 TCAGATGACATGTATGTTTTACCTCA 58.380 34.615 0.00 0.00 41.95 3.86
758 1026 8.668510 ATCAGATGACATGTATGTTTTACCTC 57.331 34.615 0.00 0.00 41.95 3.85
759 1027 9.466497 AAATCAGATGACATGTATGTTTTACCT 57.534 29.630 0.00 0.00 41.95 3.08
760 1028 9.722056 GAAATCAGATGACATGTATGTTTTACC 57.278 33.333 0.00 0.00 41.95 2.85
761 1029 9.722056 GGAAATCAGATGACATGTATGTTTTAC 57.278 33.333 0.00 1.27 41.95 2.01
762 1030 8.902806 GGGAAATCAGATGACATGTATGTTTTA 58.097 33.333 0.00 0.00 41.95 1.52
763 1031 7.396907 TGGGAAATCAGATGACATGTATGTTTT 59.603 33.333 0.00 3.80 41.95 2.43
764 1032 6.891361 TGGGAAATCAGATGACATGTATGTTT 59.109 34.615 0.00 0.39 41.95 2.83
765 1033 6.425735 TGGGAAATCAGATGACATGTATGTT 58.574 36.000 0.00 0.00 41.95 2.71
766 1034 6.005066 TGGGAAATCAGATGACATGTATGT 57.995 37.500 0.00 0.00 45.16 2.29
767 1035 6.947644 TTGGGAAATCAGATGACATGTATG 57.052 37.500 0.00 0.00 0.00 2.39
768 1036 7.959658 TTTTGGGAAATCAGATGACATGTAT 57.040 32.000 0.00 0.00 0.00 2.29
769 1037 7.773489 TTTTTGGGAAATCAGATGACATGTA 57.227 32.000 0.00 0.00 0.00 2.29
770 1038 6.669125 TTTTTGGGAAATCAGATGACATGT 57.331 33.333 0.00 0.00 0.00 3.21
804 1072 9.460019 AAGAATTTTTGGGAAATTTGTCTCAAA 57.540 25.926 0.00 0.00 44.41 2.69
836 1104 4.032310 TGGAAGGCCCGTACTTAAGAATA 58.968 43.478 10.09 0.00 37.93 1.75
837 1105 2.841881 TGGAAGGCCCGTACTTAAGAAT 59.158 45.455 10.09 0.00 37.93 2.40
838 1106 2.259012 TGGAAGGCCCGTACTTAAGAA 58.741 47.619 10.09 0.00 37.93 2.52
851 1146 4.283467 GGGACCCAATATAAAATGGAAGGC 59.717 45.833 5.33 0.00 39.12 4.35
858 1153 6.434028 CGTCATGATGGGACCCAATATAAAAT 59.566 38.462 19.58 0.00 36.95 1.82
871 1166 2.690510 TGGGCCGTCATGATGGGA 60.691 61.111 30.75 4.17 37.95 4.37
911 1206 2.750166 CTGAGAACTTCTCTGTCCGCTA 59.250 50.000 17.81 0.00 43.73 4.26
1036 1347 2.756025 CGGCGAGCTCGTCTCTCTT 61.756 63.158 34.99 0.00 42.59 2.85
1113 1424 4.082523 AGTGTGGCGGATGGACGG 62.083 66.667 0.00 0.00 0.00 4.79
1117 1428 2.202797 CTCGAGTGTGGCGGATGG 60.203 66.667 3.62 0.00 0.00 3.51
1118 1429 2.887568 GCTCGAGTGTGGCGGATG 60.888 66.667 15.13 0.00 0.00 3.51
1119 1430 4.148825 GGCTCGAGTGTGGCGGAT 62.149 66.667 15.13 0.00 0.00 4.18
1138 1449 3.728373 GCGGGGATTGTGAGGGGT 61.728 66.667 0.00 0.00 0.00 4.95
1167 1478 1.641577 GTGATTCGCCGTCTAAAGCT 58.358 50.000 0.00 0.00 0.00 3.74
1180 1491 1.084370 CCTCGTGAAGGCCGTGATTC 61.084 60.000 0.00 0.00 38.67 2.52
1194 1505 2.444895 GAGATCAGGGGGCCTCGT 60.445 66.667 0.84 0.00 0.00 4.18
1200 1511 1.828768 GACAGCTGAGATCAGGGGG 59.171 63.158 23.35 0.00 43.94 5.40
1205 1516 0.389037 GCACACGACAGCTGAGATCA 60.389 55.000 23.35 0.00 0.00 2.92
1228 1539 2.743636 ATCGCTCTTCTTTTCGTCCA 57.256 45.000 0.00 0.00 0.00 4.02
1361 2028 1.016130 CGTGCACCAGTCCAAGCTAG 61.016 60.000 12.15 0.00 0.00 3.42
1386 2053 8.577296 CGTATCAGATCCAGAAAATACCTAGAA 58.423 37.037 0.00 0.00 0.00 2.10
1408 2075 3.081409 AAGCCCCCGTGAGCGTAT 61.081 61.111 0.00 0.00 36.15 3.06
1433 2100 1.875996 CGAAACCAAATGGGGGCAAAC 60.876 52.381 4.17 0.00 42.91 2.93
1480 2148 1.471684 CAGTGATTGCTTTCCTCTGCC 59.528 52.381 0.00 0.00 0.00 4.85
1553 3675 2.478134 GAGAATGCAGCGGACATGTATC 59.522 50.000 0.00 0.00 0.00 2.24
1565 3687 1.001764 TGGTGCCCAGAGAATGCAG 60.002 57.895 0.00 0.00 35.33 4.41
1652 3774 4.679654 CACAAATAAAGCCAACCGAGTTTC 59.320 41.667 0.00 0.00 0.00 2.78
1743 3867 4.441634 CCTGAATAAGTACTCAACCCCTCG 60.442 50.000 0.00 0.00 0.00 4.63
1749 3873 3.054655 TGGCCCCTGAATAAGTACTCAAC 60.055 47.826 0.00 0.00 0.00 3.18
1760 3884 1.360185 TGCATTTTTGGCCCCTGAAT 58.640 45.000 0.00 0.00 0.00 2.57
1837 3962 4.675114 CCTTGTCATGTTAAACGAAGCAAC 59.325 41.667 0.00 0.00 0.00 4.17
1865 3990 6.626623 GCCAATCTAAATTCATGCACTTCAGT 60.627 38.462 0.00 0.00 0.00 3.41
1882 4007 1.740380 GCGACTTCTGCTGCCAATCTA 60.740 52.381 0.00 0.00 0.00 1.98
1895 4020 3.605486 GCAAATCAATGTTCTGCGACTTC 59.395 43.478 0.00 0.00 0.00 3.01
1901 4026 8.693542 ATTAAGTAAGCAAATCAATGTTCTGC 57.306 30.769 0.00 0.00 0.00 4.26
1946 4071 5.649395 AGGTCTGTCAATGTCAATACCATTG 59.351 40.000 11.86 6.76 46.72 2.82
1967 4092 1.065126 GGCCTCTATCTGTGCAAAGGT 60.065 52.381 3.47 0.00 0.00 3.50
1978 4103 1.771255 ACCAAGTGGATGGCCTCTATC 59.229 52.381 3.32 0.00 44.75 2.08
2004 4130 2.559231 TGGTACACGACATAGCACAAGA 59.441 45.455 0.00 0.00 0.00 3.02
2005 4131 2.954316 TGGTACACGACATAGCACAAG 58.046 47.619 0.00 0.00 0.00 3.16
2016 4142 1.219646 GAAAGCCGTTTGGTACACGA 58.780 50.000 5.85 0.00 39.29 4.35
2029 4155 3.874392 TTAGTACAGTACCCGAAAGCC 57.126 47.619 7.13 0.00 0.00 4.35
2099 4225 8.246180 AGAAGTACACCATTTATTGCTCAAATG 58.754 33.333 0.00 9.77 41.16 2.32
2178 4304 7.589958 ACATGGTTTGGTGAAGTTATTTACA 57.410 32.000 0.00 0.00 0.00 2.41
2316 4448 1.980765 TCAGCAATGGAGAGTTGACCT 59.019 47.619 0.00 0.00 0.00 3.85
2320 4452 4.778534 AAACATCAGCAATGGAGAGTTG 57.221 40.909 4.39 0.00 39.90 3.16
2325 4457 5.936686 ATCGATAAACATCAGCAATGGAG 57.063 39.130 0.00 0.00 39.90 3.86
2329 4461 7.792374 AACACTATCGATAAACATCAGCAAT 57.208 32.000 6.58 0.00 0.00 3.56
2335 4467 9.517609 AAGTCAGTAACACTATCGATAAACATC 57.482 33.333 6.58 0.00 0.00 3.06
2338 4470 9.011407 CAGAAGTCAGTAACACTATCGATAAAC 57.989 37.037 6.58 0.85 0.00 2.01
2346 4478 6.420913 AACACCAGAAGTCAGTAACACTAT 57.579 37.500 0.00 0.00 0.00 2.12
2347 4479 5.864418 AACACCAGAAGTCAGTAACACTA 57.136 39.130 0.00 0.00 0.00 2.74
2350 4482 6.413783 TGATAACACCAGAAGTCAGTAACA 57.586 37.500 0.00 0.00 0.00 2.41
2358 4490 5.072741 ACAAATGCTGATAACACCAGAAGT 58.927 37.500 0.00 0.00 33.65 3.01
2362 4494 8.623903 ACATATAACAAATGCTGATAACACCAG 58.376 33.333 0.00 0.00 34.88 4.00
2365 4497 9.655769 CTGACATATAACAAATGCTGATAACAC 57.344 33.333 0.00 0.00 0.00 3.32
2404 4536 6.881065 CCTGAAAAGGATGTGACATCTTAAGA 59.119 38.462 23.28 7.82 0.00 2.10
2473 4605 1.262417 TGCTGTATTCCTCGGTCACA 58.738 50.000 0.00 0.00 0.00 3.58
2479 4611 5.406780 GTCTCCATAATTGCTGTATTCCTCG 59.593 44.000 0.00 0.00 0.00 4.63
2509 4641 0.234884 CAAAAACTCGCAGACCGGAC 59.765 55.000 9.46 0.10 37.59 4.79
2521 4653 8.506168 TCTCATTCAGTTGTTCTACAAAAACT 57.494 30.769 0.00 0.00 40.27 2.66
2536 4668 6.391227 AATCGTTGGTTTTTCTCATTCAGT 57.609 33.333 0.00 0.00 0.00 3.41
2557 4689 4.740268 TCTGCGTTGTATACTCGTCAAAT 58.260 39.130 17.20 0.00 0.00 2.32
2569 4701 4.066769 GCGTCGATCTGCGTTGTA 57.933 55.556 0.00 0.00 41.80 2.41
2692 4824 3.513680 TGCTTGGACATGAATCATTGC 57.486 42.857 0.00 3.56 0.00 3.56
2704 4836 1.952296 GACATGATGGGATGCTTGGAC 59.048 52.381 0.00 0.00 0.00 4.02
2711 4843 3.136077 AGAGAACAGGACATGATGGGATG 59.864 47.826 0.00 0.00 0.00 3.51
2722 4868 7.625185 GCTCAATTATTGTGAAGAGAACAGGAC 60.625 40.741 10.68 0.00 0.00 3.85
2724 4870 6.149973 TGCTCAATTATTGTGAAGAGAACAGG 59.850 38.462 10.68 0.00 0.00 4.00
2753 4899 7.705325 CCAAACGTGTTTAGCTACTAGATACAT 59.295 37.037 0.00 0.00 0.00 2.29
2754 4900 7.031372 CCAAACGTGTTTAGCTACTAGATACA 58.969 38.462 0.00 0.00 0.00 2.29
2755 4901 7.253422 TCCAAACGTGTTTAGCTACTAGATAC 58.747 38.462 0.00 0.00 0.00 2.24
2756 4902 7.395190 TCCAAACGTGTTTAGCTACTAGATA 57.605 36.000 0.00 0.00 0.00 1.98
2757 4903 6.276832 TCCAAACGTGTTTAGCTACTAGAT 57.723 37.500 0.00 0.00 0.00 1.98
2789 4935 3.629142 ACATTAGGGCCAGAGTGTAAC 57.371 47.619 6.18 0.00 0.00 2.50
2829 4975 1.667236 CAGTTGCACCACAAGACTGA 58.333 50.000 6.60 0.00 38.78 3.41
2830 4976 0.029834 GCAGTTGCACCACAAGACTG 59.970 55.000 7.87 7.87 39.50 3.51
3355 5501 2.505407 ACAGGATTTGGACATCGGATCA 59.495 45.455 0.00 0.00 0.00 2.92


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

AutoCloner maintained by Alex Coulton.