Multiple sequence alignment - TraesCS6D01G098100

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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 TraesCS6D01G098100 chr6D 100.000 2341 0 0 1 2341 61753911 61756251 0.000000e+00 4324.0
1 TraesCS6D01G098100 chr6D 95.225 754 30 5 1592 2341 58444215 58443464 0.000000e+00 1188.0
2 TraesCS6D01G098100 chr6D 91.339 127 11 0 672 798 153184442 153184316 8.600000e-40 174.0
3 TraesCS6D01G098100 chr6D 87.681 138 14 2 666 800 469804621 469804758 8.660000e-35 158.0
4 TraesCS6D01G098100 chr6B 96.343 793 27 2 798 1589 135503947 135504738 0.000000e+00 1303.0
5 TraesCS6D01G098100 chr6B 95.154 681 30 3 1 680 135503274 135503952 0.000000e+00 1072.0
6 TraesCS6D01G098100 chr6B 89.399 283 23 7 1315 1593 135578493 135578772 1.330000e-92 350.0
7 TraesCS6D01G098100 chr6A 95.698 767 27 4 796 1557 79023049 79023814 0.000000e+00 1229.0
8 TraesCS6D01G098100 chr6A 91.990 412 30 2 1 409 79007212 79007623 2.020000e-160 575.0
9 TraesCS6D01G098100 chr6A 92.424 132 9 1 468 599 79022700 79022830 1.100000e-43 187.0
10 TraesCS6D01G098100 chr6A 93.590 78 4 1 597 674 79022953 79023029 5.290000e-22 115.0
11 TraesCS6D01G098100 chr6A 92.982 57 3 1 624 680 79023001 79023056 5.360000e-12 82.4
12 TraesCS6D01G098100 chr1D 95.225 754 30 5 1591 2341 393529352 393530102 0.000000e+00 1188.0
13 TraesCS6D01G098100 chr1D 95.340 751 26 5 1592 2341 387956369 387955627 0.000000e+00 1184.0
14 TraesCS6D01G098100 chr5B 95.080 752 30 5 1593 2341 448102975 448102228 0.000000e+00 1177.0
15 TraesCS6D01G098100 chr3D 94.954 753 33 4 1592 2341 608917425 608916675 0.000000e+00 1175.0
16 TraesCS6D01G098100 chr7D 94.814 752 35 4 1591 2341 536431620 536432368 0.000000e+00 1170.0
17 TraesCS6D01G098100 chr7D 94.695 754 33 6 1592 2341 97945137 97944387 0.000000e+00 1164.0
18 TraesCS6D01G098100 chr2D 94.821 753 33 4 1592 2341 398508849 398509598 0.000000e+00 1170.0
19 TraesCS6D01G098100 chr2D 90.769 130 10 1 670 797 446941883 446942012 3.090000e-39 172.0
20 TraesCS6D01G098100 chr5D 94.702 755 33 6 1591 2341 174315338 174314587 0.000000e+00 1166.0
21 TraesCS6D01G098100 chr1B 93.388 121 6 2 656 774 500967882 500968002 6.650000e-41 178.0
22 TraesCS6D01G098100 chr1B 89.922 129 9 4 649 774 118398839 118398966 1.860000e-36 163.0
23 TraesCS6D01G098100 chr5A 94.595 111 6 0 664 774 555280762 555280872 3.090000e-39 172.0
24 TraesCS6D01G098100 chr5A 80.000 125 24 1 159 282 615296035 615295911 8.910000e-15 91.6
25 TraesCS6D01G098100 chr1A 94.545 110 6 0 665 774 513213139 513213248 1.110000e-38 171.0
26 TraesCS6D01G098100 chr4B 92.437 119 5 4 658 774 57532424 57532540 1.440000e-37 167.0
27 TraesCS6D01G098100 chr4B 90.000 130 9 4 645 774 71600601 71600726 5.180000e-37 165.0


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 TraesCS6D01G098100 chr6D 61753911 61756251 2340 False 4324.00 4324 100.0000 1 2341 1 chr6D.!!$F1 2340
1 TraesCS6D01G098100 chr6D 58443464 58444215 751 True 1188.00 1188 95.2250 1592 2341 1 chr6D.!!$R1 749
2 TraesCS6D01G098100 chr6B 135503274 135504738 1464 False 1187.50 1303 95.7485 1 1589 2 chr6B.!!$F2 1588
3 TraesCS6D01G098100 chr6A 79022700 79023814 1114 False 403.35 1229 93.6735 468 1557 4 chr6A.!!$F2 1089
4 TraesCS6D01G098100 chr1D 393529352 393530102 750 False 1188.00 1188 95.2250 1591 2341 1 chr1D.!!$F1 750
5 TraesCS6D01G098100 chr1D 387955627 387956369 742 True 1184.00 1184 95.3400 1592 2341 1 chr1D.!!$R1 749
6 TraesCS6D01G098100 chr5B 448102228 448102975 747 True 1177.00 1177 95.0800 1593 2341 1 chr5B.!!$R1 748
7 TraesCS6D01G098100 chr3D 608916675 608917425 750 True 1175.00 1175 94.9540 1592 2341 1 chr3D.!!$R1 749
8 TraesCS6D01G098100 chr7D 536431620 536432368 748 False 1170.00 1170 94.8140 1591 2341 1 chr7D.!!$F1 750
9 TraesCS6D01G098100 chr7D 97944387 97945137 750 True 1164.00 1164 94.6950 1592 2341 1 chr7D.!!$R1 749
10 TraesCS6D01G098100 chr2D 398508849 398509598 749 False 1170.00 1170 94.8210 1592 2341 1 chr2D.!!$F1 749
11 TraesCS6D01G098100 chr5D 174314587 174315338 751 True 1166.00 1166 94.7020 1591 2341 1 chr5D.!!$R1 750

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
117 119 0.380378 ACAAACGTGTCACACATGGC 59.62 50.0 9.06 0.00 39.36 4.40 F
190 192 0.389757 GAGGATTCGAGGGCTACCAC 59.61 60.0 0.00 0.00 40.13 4.16 F
256 258 1.620413 CCGTTTCCGCGTGAGGTAAC 61.62 60.0 4.92 3.29 37.94 2.50 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1144 1296 0.530650 ACACAACTGTCGACCAGCAG 60.531 55.000 14.12 6.14 45.68 4.24 R
1227 1379 1.194781 TGAAGTCCTGCTGGGGTCTC 61.195 60.000 10.07 2.89 35.33 3.36 R
2070 2232 1.757118 TCGGCCTCGAGAATCAAGAAT 59.243 47.619 15.71 0.00 40.88 2.40 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
26 27 4.901868 AGCTTCATTTTGCCATTTCACAT 58.098 34.783 0.00 0.00 0.00 3.21
51 52 8.388319 TGACTTTCTTGTTGTACAATTTTTCG 57.612 30.769 12.26 1.38 37.48 3.46
52 53 8.024285 TGACTTTCTTGTTGTACAATTTTTCGT 58.976 29.630 12.26 4.51 37.48 3.85
55 56 9.670180 CTTTCTTGTTGTACAATTTTTCGTTTC 57.330 29.630 12.26 0.00 37.48 2.78
56 57 8.744008 TTCTTGTTGTACAATTTTTCGTTTCA 57.256 26.923 12.26 0.00 37.48 2.69
94 96 4.774660 AGATCTACGTCTCCCTACTGAA 57.225 45.455 0.00 0.00 0.00 3.02
117 119 0.380378 ACAAACGTGTCACACATGGC 59.620 50.000 9.06 0.00 39.36 4.40
137 139 4.226761 GGCCATTAGTCAACTGAAAAACG 58.773 43.478 0.00 0.00 0.00 3.60
144 146 8.843733 CATTAGTCAACTGAAAAACGATTCATG 58.156 33.333 0.00 0.00 38.55 3.07
146 148 4.975502 GTCAACTGAAAAACGATTCATGCA 59.024 37.500 0.00 0.00 38.55 3.96
152 154 2.880822 AAACGATTCATGCACAGTCG 57.119 45.000 9.95 9.95 38.21 4.18
190 192 0.389757 GAGGATTCGAGGGCTACCAC 59.610 60.000 0.00 0.00 40.13 4.16
209 211 5.454966 ACCACACCTTTTTCTACCTTCATT 58.545 37.500 0.00 0.00 0.00 2.57
211 213 5.534654 CCACACCTTTTTCTACCTTCATTCA 59.465 40.000 0.00 0.00 0.00 2.57
212 214 6.040391 CCACACCTTTTTCTACCTTCATTCAA 59.960 38.462 0.00 0.00 0.00 2.69
256 258 1.620413 CCGTTTCCGCGTGAGGTAAC 61.620 60.000 4.92 3.29 37.94 2.50
274 276 2.295253 ACTTCCTCGCGTGGATAAAG 57.705 50.000 28.65 23.99 35.83 1.85
289 291 7.360438 GCGTGGATAAAGGTGAGATTAATGATC 60.360 40.741 0.00 0.00 34.83 2.92
342 344 7.939782 TGTTGTATTTGAGAAGAAAATGCTCA 58.060 30.769 0.00 0.00 36.92 4.26
418 420 2.139917 CCAAACTACTTGCACAGCGTA 58.860 47.619 0.00 0.00 33.27 4.42
423 425 3.057734 ACTACTTGCACAGCGTAGTTTC 58.942 45.455 10.02 0.00 40.49 2.78
430 432 3.625764 TGCACAGCGTAGTTTCTCTTTTT 59.374 39.130 0.00 0.00 0.00 1.94
442 444 6.299922 AGTTTCTCTTTTTAGGCTACTTGCT 58.700 36.000 0.00 0.00 42.39 3.91
496 498 2.037136 CCCAACTCAGCCAAGCTCG 61.037 63.158 0.00 0.00 36.40 5.03
505 507 2.555547 GCCAAGCTCGCCACAAACT 61.556 57.895 0.00 0.00 0.00 2.66
540 542 5.423015 CAGGCTATCAAACGCATCCTATAT 58.577 41.667 0.00 0.00 0.00 0.86
542 544 7.041721 CAGGCTATCAAACGCATCCTATATAA 58.958 38.462 0.00 0.00 0.00 0.98
543 545 7.549134 CAGGCTATCAAACGCATCCTATATAAA 59.451 37.037 0.00 0.00 0.00 1.40
673 821 9.530633 AATACAGGATCTACGAAAATCAACTAC 57.469 33.333 0.00 0.00 0.00 2.73
674 822 7.171630 ACAGGATCTACGAAAATCAACTACT 57.828 36.000 0.00 0.00 0.00 2.57
675 823 7.259161 ACAGGATCTACGAAAATCAACTACTC 58.741 38.462 0.00 0.00 0.00 2.59
676 824 6.697892 CAGGATCTACGAAAATCAACTACTCC 59.302 42.308 0.00 0.00 0.00 3.85
677 825 5.984323 GGATCTACGAAAATCAACTACTCCC 59.016 44.000 0.00 0.00 0.00 4.30
678 826 6.183360 GGATCTACGAAAATCAACTACTCCCT 60.183 42.308 0.00 0.00 0.00 4.20
679 827 6.205101 TCTACGAAAATCAACTACTCCCTC 57.795 41.667 0.00 0.00 0.00 4.30
680 828 4.203654 ACGAAAATCAACTACTCCCTCC 57.796 45.455 0.00 0.00 0.00 4.30
681 829 3.187700 CGAAAATCAACTACTCCCTCCG 58.812 50.000 0.00 0.00 0.00 4.63
682 830 3.368116 CGAAAATCAACTACTCCCTCCGT 60.368 47.826 0.00 0.00 0.00 4.69
683 831 4.576879 GAAAATCAACTACTCCCTCCGTT 58.423 43.478 0.00 0.00 0.00 4.44
684 832 4.635699 AAATCAACTACTCCCTCCGTTT 57.364 40.909 0.00 0.00 0.00 3.60
685 833 3.889520 ATCAACTACTCCCTCCGTTTC 57.110 47.619 0.00 0.00 0.00 2.78
686 834 2.885616 TCAACTACTCCCTCCGTTTCT 58.114 47.619 0.00 0.00 0.00 2.52
687 835 4.038271 TCAACTACTCCCTCCGTTTCTA 57.962 45.455 0.00 0.00 0.00 2.10
688 836 4.410099 TCAACTACTCCCTCCGTTTCTAA 58.590 43.478 0.00 0.00 0.00 2.10
689 837 4.834496 TCAACTACTCCCTCCGTTTCTAAA 59.166 41.667 0.00 0.00 0.00 1.85
690 838 5.482878 TCAACTACTCCCTCCGTTTCTAAAT 59.517 40.000 0.00 0.00 0.00 1.40
691 839 6.664816 TCAACTACTCCCTCCGTTTCTAAATA 59.335 38.462 0.00 0.00 0.00 1.40
692 840 7.343833 TCAACTACTCCCTCCGTTTCTAAATAT 59.656 37.037 0.00 0.00 0.00 1.28
693 841 7.672122 ACTACTCCCTCCGTTTCTAAATATT 57.328 36.000 0.00 0.00 0.00 1.28
694 842 8.087303 ACTACTCCCTCCGTTTCTAAATATTT 57.913 34.615 5.89 5.89 0.00 1.40
695 843 7.985752 ACTACTCCCTCCGTTTCTAAATATTTG 59.014 37.037 11.05 1.65 0.00 2.32
696 844 6.718294 ACTCCCTCCGTTTCTAAATATTTGT 58.282 36.000 11.05 0.00 0.00 2.83
697 845 7.173032 ACTCCCTCCGTTTCTAAATATTTGTT 58.827 34.615 11.05 0.00 0.00 2.83
698 846 7.668469 ACTCCCTCCGTTTCTAAATATTTGTTT 59.332 33.333 11.05 0.00 0.00 2.83
699 847 7.822658 TCCCTCCGTTTCTAAATATTTGTTTG 58.177 34.615 11.05 0.00 0.00 2.93
700 848 7.449086 TCCCTCCGTTTCTAAATATTTGTTTGT 59.551 33.333 11.05 0.00 0.00 2.83
701 849 7.753580 CCCTCCGTTTCTAAATATTTGTTTGTC 59.246 37.037 11.05 0.00 0.00 3.18
702 850 8.512138 CCTCCGTTTCTAAATATTTGTTTGTCT 58.488 33.333 11.05 0.00 0.00 3.41
718 866 9.868277 TTTGTTTGTCTAGACATTTCAACAAAT 57.132 25.926 35.38 0.00 44.52 2.32
733 881 6.403333 TCAACAAATGACTACATACGAAGC 57.597 37.500 0.00 0.00 35.50 3.86
734 882 5.929415 TCAACAAATGACTACATACGAAGCA 59.071 36.000 0.00 0.00 35.50 3.91
735 883 6.425417 TCAACAAATGACTACATACGAAGCAA 59.575 34.615 0.00 0.00 35.50 3.91
736 884 6.795098 ACAAATGACTACATACGAAGCAAA 57.205 33.333 0.00 0.00 35.50 3.68
737 885 7.197071 ACAAATGACTACATACGAAGCAAAA 57.803 32.000 0.00 0.00 35.50 2.44
738 886 7.816640 ACAAATGACTACATACGAAGCAAAAT 58.183 30.769 0.00 0.00 35.50 1.82
739 887 7.750458 ACAAATGACTACATACGAAGCAAAATG 59.250 33.333 0.00 0.00 35.50 2.32
740 888 7.609760 AATGACTACATACGAAGCAAAATGA 57.390 32.000 0.00 0.00 35.50 2.57
741 889 6.647212 TGACTACATACGAAGCAAAATGAG 57.353 37.500 0.00 0.00 0.00 2.90
742 890 6.163476 TGACTACATACGAAGCAAAATGAGT 58.837 36.000 0.00 0.00 0.00 3.41
743 891 6.090763 TGACTACATACGAAGCAAAATGAGTG 59.909 38.462 0.00 0.00 0.00 3.51
744 892 6.163476 ACTACATACGAAGCAAAATGAGTGA 58.837 36.000 0.00 0.00 0.00 3.41
745 893 5.940192 ACATACGAAGCAAAATGAGTGAA 57.060 34.783 0.00 0.00 0.00 3.18
746 894 6.500684 ACATACGAAGCAAAATGAGTGAAT 57.499 33.333 0.00 0.00 0.00 2.57
747 895 6.546395 ACATACGAAGCAAAATGAGTGAATC 58.454 36.000 0.00 0.00 0.00 2.52
748 896 6.372659 ACATACGAAGCAAAATGAGTGAATCT 59.627 34.615 0.00 0.00 0.00 2.40
749 897 7.549134 ACATACGAAGCAAAATGAGTGAATCTA 59.451 33.333 0.00 0.00 0.00 1.98
750 898 6.170675 ACGAAGCAAAATGAGTGAATCTAC 57.829 37.500 0.00 0.00 0.00 2.59
751 899 5.700832 ACGAAGCAAAATGAGTGAATCTACA 59.299 36.000 0.00 0.00 0.00 2.74
752 900 6.017933 CGAAGCAAAATGAGTGAATCTACAC 58.982 40.000 0.00 0.00 40.60 2.90
795 943 9.936329 ATACAAATATTTAGGAACATTGGGAGT 57.064 29.630 0.00 0.00 0.00 3.85
820 968 2.045926 AGGCTGTGGGCGATTGTC 60.046 61.111 0.00 0.00 42.94 3.18
835 983 3.733337 GATTGTCTCATGCCCGTATCTT 58.267 45.455 0.00 0.00 0.00 2.40
909 1058 9.846248 AATATAGGAATAATTCTGCGATTTTGC 57.154 29.630 0.00 0.00 0.00 3.68
916 1065 1.909700 TCTGCGATTTTGCTTTCCCT 58.090 45.000 0.00 0.00 35.36 4.20
1116 1268 7.948034 ATATCCCTCCTATTAGTTTCTCTCG 57.052 40.000 0.00 0.00 0.00 4.04
1144 1296 7.120285 GCGTATCCTTTATCCCTTAAATTACCC 59.880 40.741 0.00 0.00 0.00 3.69
1227 1379 1.810030 GTACCCGAGAAAGCCTGCG 60.810 63.158 0.00 0.00 0.00 5.18
1250 1402 2.743718 CCAGCAGGACTTCACGGT 59.256 61.111 0.00 0.00 36.89 4.83
1311 1463 2.877097 TGAGGATAAAAGCCACTGCA 57.123 45.000 0.00 0.00 41.13 4.41
1512 1665 8.668510 TGATCTATATGTCTTCCTTCTTTTGC 57.331 34.615 0.00 0.00 0.00 3.68
1516 1669 3.963383 TGTCTTCCTTCTTTTGCGAAC 57.037 42.857 0.00 0.00 0.00 3.95
1558 1711 6.191657 AGCCCTCCAATCAAAAGAAAAATT 57.808 33.333 0.00 0.00 0.00 1.82
1575 1728 9.447157 AAGAAAAATTGAACAAACCTTTGATGA 57.553 25.926 4.77 0.00 40.55 2.92
1589 1742 3.885724 TTGATGACTATGAAGCACCGA 57.114 42.857 0.00 0.00 0.00 4.69
1682 1836 0.688487 TTTTGGTACCTCCTCCCACG 59.312 55.000 14.36 0.00 37.07 4.94
1746 1906 4.378978 CCACTTCATCGGTTTATTTTCGCA 60.379 41.667 0.00 0.00 0.00 5.10
1760 1920 0.904649 TTCGCATCACCCTCTCACAT 59.095 50.000 0.00 0.00 0.00 3.21
1995 2156 6.985645 TCAATCTCCAAACAAAGGAAACAATG 59.014 34.615 0.00 0.00 34.08 2.82
2007 2168 1.672881 GAAACAATGCATCGAGGGAGG 59.327 52.381 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 8.024285 ACGAAAAATTGTACAACAAGAAAGTCA 58.976 29.630 11.22 0.00 41.94 3.41
50 51 2.182825 CCGTCTCCGATAGTTGAAACG 58.817 52.381 0.00 0.00 35.63 3.60
51 52 2.094338 ACCCGTCTCCGATAGTTGAAAC 60.094 50.000 0.00 0.00 35.63 2.78
52 53 2.173519 ACCCGTCTCCGATAGTTGAAA 58.826 47.619 0.00 0.00 35.63 2.69
55 56 2.569059 TCTACCCGTCTCCGATAGTTG 58.431 52.381 0.00 0.00 35.63 3.16
56 57 3.072768 AGATCTACCCGTCTCCGATAGTT 59.927 47.826 0.00 0.00 35.63 2.24
94 96 3.249799 CCATGTGTGACACGTTTGTACAT 59.750 43.478 7.87 1.32 34.21 2.29
117 119 7.359595 TGAATCGTTTTTCAGTTGACTAATGG 58.640 34.615 0.00 0.00 32.07 3.16
137 139 1.929836 GAGACCGACTGTGCATGAATC 59.070 52.381 0.00 0.00 0.00 2.52
144 146 1.729838 GTCACGAGACCGACTGTGC 60.730 63.158 1.01 0.00 38.89 4.57
190 192 6.447162 GGTTGAATGAAGGTAGAAAAAGGTG 58.553 40.000 0.00 0.00 0.00 4.00
209 211 3.973973 TGAAGGAAGAAGAGAAGGGTTGA 59.026 43.478 0.00 0.00 0.00 3.18
211 213 3.244735 GCTGAAGGAAGAAGAGAAGGGTT 60.245 47.826 0.00 0.00 0.00 4.11
212 214 2.304470 GCTGAAGGAAGAAGAGAAGGGT 59.696 50.000 0.00 0.00 0.00 4.34
256 258 1.134788 ACCTTTATCCACGCGAGGAAG 60.135 52.381 28.76 20.48 41.92 3.46
262 264 2.225068 ATCTCACCTTTATCCACGCG 57.775 50.000 3.53 3.53 0.00 6.01
263 265 5.758296 TCATTAATCTCACCTTTATCCACGC 59.242 40.000 0.00 0.00 0.00 5.34
274 276 4.626042 ACGCTCAGATCATTAATCTCACC 58.374 43.478 0.00 0.00 43.13 4.02
289 291 1.126846 CTTTTGCTTCCGTACGCTCAG 59.873 52.381 10.49 5.99 0.00 3.35
342 344 9.436957 AAGAAACACACACGATTATTTCTCTAT 57.563 29.630 0.00 0.00 35.81 1.98
353 355 2.802816 GCTGAGAAGAAACACACACGAT 59.197 45.455 0.00 0.00 0.00 3.73
418 420 6.561737 GCAAGTAGCCTAAAAAGAGAAACT 57.438 37.500 0.00 0.00 37.23 2.66
496 498 3.373439 TGCAACATTTTCAAGTTTGTGGC 59.627 39.130 0.00 0.00 39.08 5.01
505 507 5.465532 TTGATAGCCTGCAACATTTTCAA 57.534 34.783 0.00 0.00 0.00 2.69
543 545 9.468532 GCTTGAAGACAAAAACATCTCTTAAAT 57.531 29.630 0.00 0.00 35.49 1.40
673 821 7.625828 AACAAATATTTAGAAACGGAGGGAG 57.374 36.000 0.00 0.00 0.00 4.30
674 822 7.449086 ACAAACAAATATTTAGAAACGGAGGGA 59.551 33.333 0.00 0.00 0.00 4.20
675 823 7.599171 ACAAACAAATATTTAGAAACGGAGGG 58.401 34.615 0.00 0.00 0.00 4.30
676 824 8.512138 AGACAAACAAATATTTAGAAACGGAGG 58.488 33.333 0.00 0.00 0.00 4.30
691 839 9.868277 TTTGTTGAAATGTCTAGACAAACAAAT 57.132 25.926 35.38 19.57 44.52 2.32
693 841 9.299963 CATTTGTTGAAATGTCTAGACAAACAA 57.700 29.630 31.26 31.26 45.41 2.83
694 842 8.681806 TCATTTGTTGAAATGTCTAGACAAACA 58.318 29.630 28.43 27.05 45.98 2.83
695 843 8.958043 GTCATTTGTTGAAATGTCTAGACAAAC 58.042 33.333 28.43 25.08 45.98 2.93
696 844 8.902806 AGTCATTTGTTGAAATGTCTAGACAAA 58.097 29.630 28.43 15.69 45.98 2.83
697 845 8.450578 AGTCATTTGTTGAAATGTCTAGACAA 57.549 30.769 28.43 10.25 45.98 3.18
698 846 8.988934 GTAGTCATTTGTTGAAATGTCTAGACA 58.011 33.333 27.07 27.07 44.10 3.41
699 847 8.988934 TGTAGTCATTTGTTGAAATGTCTAGAC 58.011 33.333 16.32 16.32 44.10 2.59
700 848 9.725019 ATGTAGTCATTTGTTGAAATGTCTAGA 57.275 29.630 11.99 11.61 44.10 2.43
703 851 8.443160 CGTATGTAGTCATTTGTTGAAATGTCT 58.557 33.333 10.61 10.61 45.98 3.41
704 852 8.440059 TCGTATGTAGTCATTTGTTGAAATGTC 58.560 33.333 7.25 2.94 45.98 3.06
705 853 8.317891 TCGTATGTAGTCATTTGTTGAAATGT 57.682 30.769 7.25 0.00 45.98 2.71
706 854 9.265938 CTTCGTATGTAGTCATTTGTTGAAATG 57.734 33.333 0.00 0.00 46.84 2.32
707 855 7.962918 GCTTCGTATGTAGTCATTTGTTGAAAT 59.037 33.333 0.00 0.00 35.70 2.17
708 856 7.041712 TGCTTCGTATGTAGTCATTTGTTGAAA 60.042 33.333 0.00 0.00 35.70 2.69
709 857 6.425417 TGCTTCGTATGTAGTCATTTGTTGAA 59.575 34.615 0.00 0.00 35.70 2.69
710 858 5.929415 TGCTTCGTATGTAGTCATTTGTTGA 59.071 36.000 0.00 0.00 35.70 3.18
711 859 6.164408 TGCTTCGTATGTAGTCATTTGTTG 57.836 37.500 0.00 0.00 35.70 3.33
712 860 6.795098 TTGCTTCGTATGTAGTCATTTGTT 57.205 33.333 0.00 0.00 35.70 2.83
713 861 6.795098 TTTGCTTCGTATGTAGTCATTTGT 57.205 33.333 0.00 0.00 35.70 2.83
714 862 7.962373 TCATTTTGCTTCGTATGTAGTCATTTG 59.038 33.333 0.00 0.00 35.70 2.32
715 863 8.039603 TCATTTTGCTTCGTATGTAGTCATTT 57.960 30.769 0.00 0.00 35.70 2.32
716 864 7.334421 ACTCATTTTGCTTCGTATGTAGTCATT 59.666 33.333 0.00 0.00 35.70 2.57
717 865 6.818644 ACTCATTTTGCTTCGTATGTAGTCAT 59.181 34.615 0.00 0.00 38.00 3.06
718 866 6.090763 CACTCATTTTGCTTCGTATGTAGTCA 59.909 38.462 0.00 0.00 0.00 3.41
719 867 6.310467 TCACTCATTTTGCTTCGTATGTAGTC 59.690 38.462 0.00 0.00 0.00 2.59
720 868 6.163476 TCACTCATTTTGCTTCGTATGTAGT 58.837 36.000 0.00 0.00 0.00 2.73
721 869 6.647212 TCACTCATTTTGCTTCGTATGTAG 57.353 37.500 0.00 0.00 0.00 2.74
722 870 7.549134 AGATTCACTCATTTTGCTTCGTATGTA 59.451 33.333 0.00 0.00 0.00 2.29
723 871 5.940192 TTCACTCATTTTGCTTCGTATGT 57.060 34.783 0.00 0.00 0.00 2.29
724 872 6.779117 AGATTCACTCATTTTGCTTCGTATG 58.221 36.000 0.00 0.00 0.00 2.39
725 873 6.992063 AGATTCACTCATTTTGCTTCGTAT 57.008 33.333 0.00 0.00 0.00 3.06
726 874 6.871492 TGTAGATTCACTCATTTTGCTTCGTA 59.129 34.615 0.00 0.00 0.00 3.43
727 875 5.700832 TGTAGATTCACTCATTTTGCTTCGT 59.299 36.000 0.00 0.00 0.00 3.85
728 876 6.017933 GTGTAGATTCACTCATTTTGCTTCG 58.982 40.000 0.00 0.00 35.68 3.79
729 877 7.138692 AGTGTAGATTCACTCATTTTGCTTC 57.861 36.000 0.00 0.00 44.07 3.86
769 917 9.936329 ACTCCCAATGTTCCTAAATATTTGTAT 57.064 29.630 11.05 0.00 0.00 2.29
771 919 9.936329 ATACTCCCAATGTTCCTAAATATTTGT 57.064 29.630 11.05 0.00 0.00 2.83
774 922 9.574516 GTGATACTCCCAATGTTCCTAAATATT 57.425 33.333 0.00 0.00 0.00 1.28
775 923 8.949421 AGTGATACTCCCAATGTTCCTAAATAT 58.051 33.333 0.00 0.00 0.00 1.28
776 924 8.331931 AGTGATACTCCCAATGTTCCTAAATA 57.668 34.615 0.00 0.00 0.00 1.40
777 925 7.092444 TGAGTGATACTCCCAATGTTCCTAAAT 60.092 37.037 6.52 0.00 44.44 1.40
778 926 6.214615 TGAGTGATACTCCCAATGTTCCTAAA 59.785 38.462 6.52 0.00 44.44 1.85
779 927 5.724370 TGAGTGATACTCCCAATGTTCCTAA 59.276 40.000 6.52 0.00 44.44 2.69
780 928 5.277250 TGAGTGATACTCCCAATGTTCCTA 58.723 41.667 6.52 0.00 44.44 2.94
781 929 4.104086 TGAGTGATACTCCCAATGTTCCT 58.896 43.478 6.52 0.00 44.44 3.36
782 930 4.446371 CTGAGTGATACTCCCAATGTTCC 58.554 47.826 6.52 0.00 44.44 3.62
783 931 4.446371 CCTGAGTGATACTCCCAATGTTC 58.554 47.826 6.52 0.00 44.44 3.18
784 932 3.370953 GCCTGAGTGATACTCCCAATGTT 60.371 47.826 6.52 0.00 44.44 2.71
785 933 2.171448 GCCTGAGTGATACTCCCAATGT 59.829 50.000 6.52 0.00 44.44 2.71
786 934 2.437281 AGCCTGAGTGATACTCCCAATG 59.563 50.000 6.52 0.00 44.44 2.82
787 935 2.437281 CAGCCTGAGTGATACTCCCAAT 59.563 50.000 6.52 0.00 44.44 3.16
788 936 1.833630 CAGCCTGAGTGATACTCCCAA 59.166 52.381 6.52 0.00 44.44 4.12
789 937 1.273267 ACAGCCTGAGTGATACTCCCA 60.273 52.381 0.00 0.00 44.44 4.37
790 938 1.137872 CACAGCCTGAGTGATACTCCC 59.862 57.143 0.00 0.00 44.44 4.30
791 939 1.137872 CCACAGCCTGAGTGATACTCC 59.862 57.143 0.00 0.00 44.44 3.85
792 940 1.137872 CCCACAGCCTGAGTGATACTC 59.862 57.143 0.00 2.11 45.26 2.59
793 941 1.198713 CCCACAGCCTGAGTGATACT 58.801 55.000 0.00 0.00 39.30 2.12
794 942 0.462759 GCCCACAGCCTGAGTGATAC 60.463 60.000 0.00 0.00 39.30 2.24
795 943 1.907739 GCCCACAGCCTGAGTGATA 59.092 57.895 0.00 0.00 39.30 2.15
796 944 2.673523 GCCCACAGCCTGAGTGAT 59.326 61.111 0.00 0.00 39.30 3.06
820 968 2.509052 TTCGAAGATACGGGCATGAG 57.491 50.000 0.00 0.00 35.04 2.90
901 1050 8.836413 TGTTTATATAGAGGGAAAGCAAAATCG 58.164 33.333 0.00 0.00 0.00 3.34
909 1058 7.552687 TGTGCTGTTGTTTATATAGAGGGAAAG 59.447 37.037 0.00 0.00 0.00 2.62
916 1065 7.445096 CCATGGATGTGCTGTTGTTTATATAGA 59.555 37.037 5.56 0.00 0.00 1.98
1116 1268 7.981102 AATTTAAGGGATAAAGGATACGCTC 57.019 36.000 0.00 0.00 46.39 5.03
1144 1296 0.530650 ACACAACTGTCGACCAGCAG 60.531 55.000 14.12 6.14 45.68 4.24
1227 1379 1.194781 TGAAGTCCTGCTGGGGTCTC 61.195 60.000 10.07 2.89 35.33 3.36
1250 1402 3.138304 GTCAACCTTGCACACATAGTCA 58.862 45.455 0.00 0.00 0.00 3.41
1512 1665 6.468000 GCTAGGGAAAACAAATAAATCGTTCG 59.532 38.462 0.00 0.00 0.00 3.95
1516 1669 5.359860 AGGGCTAGGGAAAACAAATAAATCG 59.640 40.000 0.00 0.00 0.00 3.34
1558 1711 7.522073 GCTTCATAGTCATCAAAGGTTTGTTCA 60.522 37.037 2.49 0.00 39.18 3.18
1575 1728 4.744795 AGAGATTTCGGTGCTTCATAGT 57.255 40.909 0.00 0.00 0.00 2.12
1746 1906 6.566079 TCTTTCATTATGTGAGAGGGTGAT 57.434 37.500 0.00 0.00 39.06 3.06
1780 1940 4.142600 GCGCCAGTATGAAAAGTTCTGATT 60.143 41.667 0.00 0.00 39.69 2.57
1792 1952 5.424757 ACTAAATAACTTGCGCCAGTATGA 58.575 37.500 15.26 4.00 39.69 2.15
1995 2156 4.602340 TTATTTACTCCTCCCTCGATGC 57.398 45.455 0.00 0.00 0.00 3.91
2070 2232 1.757118 TCGGCCTCGAGAATCAAGAAT 59.243 47.619 15.71 0.00 40.88 2.40
2103 2265 4.351938 CCGTCGCGACCCAGTGAA 62.352 66.667 31.84 0.00 31.94 3.18
2180 2342 2.763902 CCCTTCTTCGCCCCCTTT 59.236 61.111 0.00 0.00 0.00 3.11


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

AutoCloner maintained by Alex Coulton.