Multiple sequence alignment - TraesCS7B01G390200

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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 TraesCS7B01G390200 chr7B 100.000 2467 0 0 1 2467 656519138 656521604 0.000000e+00 4556
1 TraesCS7B01G390200 chr7D 90.909 1056 70 14 539 1583 586492745 586493785 0.000000e+00 1395
2 TraesCS7B01G390200 chr7D 97.380 458 8 2 1 458 586492264 586492717 0.000000e+00 776
3 TraesCS7B01G390200 chr7D 82.342 555 73 21 1685 2220 586495222 586495770 2.240000e-125 459
4 TraesCS7B01G390200 chr7D 92.079 101 6 2 2285 2384 586495758 586495857 9.200000e-30 141
5 TraesCS7B01G390200 chr7A 94.011 885 41 7 1 874 677701519 677702402 0.000000e+00 1330
6 TraesCS7B01G390200 chr7A 82.382 1209 102 31 1270 2417 677703031 677704189 0.000000e+00 950
7 TraesCS7B01G390200 chr7A 88.915 424 29 10 859 1280 677702605 677703012 7.870000e-140 507


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 TraesCS7B01G390200 chr7B 656519138 656521604 2466 False 4556.00 4556 100.0000 1 2467 1 chr7B.!!$F1 2466
1 TraesCS7B01G390200 chr7D 586492264 586495857 3593 False 692.75 1395 90.6775 1 2384 4 chr7D.!!$F1 2383
2 TraesCS7B01G390200 chr7A 677701519 677704189 2670 False 929.00 1330 88.4360 1 2417 3 chr7A.!!$F1 2416

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
316 317 0.036732 AGAAACTGGCGAGGCATTGA 59.963 50.0 0.0 0.0 0.0 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1931 3551 0.244994 GTCAGCAGAGCTTTCGGAGA 59.755 55.0 0.0 0.0 36.4 3.71 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
316 317 0.036732 AGAAACTGGCGAGGCATTGA 59.963 50.000 0.00 0.00 0.00 2.57
499 504 3.350833 CAAGAAGAATCAAGGACCTGGG 58.649 50.000 0.00 0.00 0.00 4.45
507 512 5.672194 AGAATCAAGGACCTGGGTATACATT 59.328 40.000 5.01 0.00 0.00 2.71
605 612 6.212955 TCTTGCAGTAAAATAAAGCCACAAC 58.787 36.000 0.00 0.00 0.00 3.32
606 613 5.521906 TGCAGTAAAATAAAGCCACAACA 57.478 34.783 0.00 0.00 0.00 3.33
607 614 6.095432 TGCAGTAAAATAAAGCCACAACAT 57.905 33.333 0.00 0.00 0.00 2.71
662 669 8.731605 AGCATATCTTCTGCATTTAATCTGATG 58.268 33.333 0.00 0.00 42.15 3.07
705 713 7.379529 GCATTTTCCCAATTATCAACGTATCTG 59.620 37.037 0.00 0.00 0.00 2.90
725 733 6.030548 TCTGTCTCTGATTTACACTTCAGG 57.969 41.667 0.00 0.00 39.84 3.86
734 742 4.911514 TTTACACTTCAGGAAAAGCACC 57.088 40.909 0.00 0.00 0.00 5.01
741 749 3.255969 TCAGGAAAAGCACCGGTATAC 57.744 47.619 6.87 0.00 0.00 1.47
742 750 2.568062 TCAGGAAAAGCACCGGTATACA 59.432 45.455 6.87 0.00 0.00 2.29
758 769 8.266473 ACCGGTATACATTCCAGTACAATAAAA 58.734 33.333 4.49 0.00 0.00 1.52
794 805 4.035675 GGCATTGTACTGCTGTAAATCTCC 59.964 45.833 4.88 7.47 41.95 3.71
908 1137 2.415090 GCTCTTTAATGCACACTGCCTG 60.415 50.000 0.00 0.00 44.23 4.85
919 1148 3.181497 GCACACTGCCTGTATAAACATGG 60.181 47.826 0.00 0.00 37.42 3.66
981 1210 4.932200 ACTTCTGCTTAATTTCCAGAGACG 59.068 41.667 0.00 0.00 36.99 4.18
984 1213 6.222038 TCTGCTTAATTTCCAGAGACGTAT 57.778 37.500 0.00 0.00 32.30 3.06
995 1224 3.487042 CCAGAGACGTATGTAGACAACGG 60.487 52.174 16.21 1.00 40.81 4.44
1041 1270 4.828939 TCTGTCATTTGCAAGATCCTTGTT 59.171 37.500 0.00 0.00 0.00 2.83
1050 1279 6.381481 TGCAAGATCCTTGTTATTGCTATG 57.619 37.500 12.90 0.00 44.99 2.23
1083 1312 4.712476 CCCTCCTTTTCTCATCAGGTATG 58.288 47.826 0.00 0.00 36.88 2.39
1084 1313 4.445448 CCCTCCTTTTCTCATCAGGTATGG 60.445 50.000 0.00 0.00 36.15 2.74
1090 1319 5.378230 TTTCTCATCAGGTATGGATGCTT 57.622 39.130 0.00 0.00 41.46 3.91
1091 1320 4.613925 TCTCATCAGGTATGGATGCTTC 57.386 45.455 0.00 0.00 41.46 3.86
1092 1321 4.229639 TCTCATCAGGTATGGATGCTTCT 58.770 43.478 0.00 0.00 41.46 2.85
1095 1326 5.397360 TCATCAGGTATGGATGCTTCTCTA 58.603 41.667 0.00 0.00 41.46 2.43
1118 1349 4.021719 ACTCCATCCAAATCTGCTTTTGTG 60.022 41.667 6.60 1.26 35.30 3.33
1141 1372 8.579006 TGTGAATCTAAGATCAGCACAATTTTT 58.421 29.630 0.00 0.00 32.54 1.94
1159 1390 8.784043 ACAATTTTTCATCTGTACAACCTCTAC 58.216 33.333 0.00 0.00 0.00 2.59
1169 1400 8.880991 TCTGTACAACCTCTACTCTTAAATCT 57.119 34.615 0.00 0.00 0.00 2.40
1172 1403 9.524496 TGTACAACCTCTACTCTTAAATCTGTA 57.476 33.333 0.00 0.00 0.00 2.74
1203 1434 5.673818 GCTGTAACTGGTTAAATGCACTAGC 60.674 44.000 0.00 0.00 42.57 3.42
1217 1448 2.740256 GCACTAGCCCTCAGAAGTTAGC 60.740 54.545 0.00 0.00 33.58 3.09
1245 1476 6.596888 CACTTCTCATCCAAATACACACATCT 59.403 38.462 0.00 0.00 0.00 2.90
1337 1595 1.133199 AGGGTTTTGGATGCAGGAACA 60.133 47.619 14.36 0.00 0.00 3.18
1391 1649 1.466856 TACCCGACTGCGACAACTAT 58.533 50.000 0.00 0.00 40.82 2.12
1457 1715 0.692476 TCCACCATTACTGCTGCTGT 59.308 50.000 16.37 16.37 0.00 4.40
1474 1732 2.679930 GCTGTTACATTTAGCGGGGTCT 60.680 50.000 0.00 0.00 0.00 3.85
1501 1764 1.533711 CCGCCTCTTTCCCCATGAT 59.466 57.895 0.00 0.00 0.00 2.45
1526 1789 5.676532 TTTTGTTATCGGTCGTTGATTGT 57.323 34.783 0.00 0.00 0.00 2.71
1527 1790 4.655440 TTGTTATCGGTCGTTGATTGTG 57.345 40.909 0.00 0.00 0.00 3.33
1528 1791 3.915536 TGTTATCGGTCGTTGATTGTGA 58.084 40.909 0.00 0.00 0.00 3.58
1543 1806 4.035909 TGATTGTGAAATCGATGGCATCTG 59.964 41.667 23.97 17.16 31.94 2.90
1594 3183 2.851195 TGGGAACTCAGAACTTTGCTC 58.149 47.619 0.00 0.00 0.00 4.26
1609 3198 4.083643 ACTTTGCTCGTCTCATGAAACATG 60.084 41.667 0.00 5.51 0.00 3.21
1617 3206 5.050159 TCGTCTCATGAAACATGTTGTGAAG 60.050 40.000 12.82 9.01 0.00 3.02
1683 3300 2.669569 CAGCCACCGGGTCACTTG 60.670 66.667 6.32 0.00 36.17 3.16
1719 3336 3.213506 CACATGACCAAGGAACAGAACA 58.786 45.455 0.00 0.00 0.00 3.18
1720 3337 3.251729 CACATGACCAAGGAACAGAACAG 59.748 47.826 0.00 0.00 0.00 3.16
1722 3339 1.211703 TGACCAAGGAACAGAACAGCA 59.788 47.619 0.00 0.00 0.00 4.41
1742 3359 2.490685 GGTTCTCTCCTCGGCGAC 59.509 66.667 4.99 0.00 0.00 5.19
1759 3376 1.782028 GACGGCAAACAAGAACGGCT 61.782 55.000 0.00 0.00 0.00 5.52
1764 3381 1.308998 CAAACAAGAACGGCTGGTCT 58.691 50.000 7.47 7.47 27.80 3.85
1804 3424 2.946762 GCGTGCTTCCACCTTGAC 59.053 61.111 0.00 0.00 38.79 3.18
1807 3427 0.320374 CGTGCTTCCACCTTGACCTA 59.680 55.000 0.00 0.00 38.79 3.08
1811 3431 2.019156 GCTTCCACCTTGACCTATGGC 61.019 57.143 0.00 0.00 31.87 4.40
1854 3474 0.109086 CATGCCTCAGTTCGTCGACT 60.109 55.000 14.70 0.00 0.00 4.18
1856 3476 0.387929 TGCCTCAGTTCGTCGACTTT 59.612 50.000 14.70 0.00 0.00 2.66
1904 3524 4.296265 GGAGAAACCGTCGCCATT 57.704 55.556 0.00 0.00 45.20 3.16
1905 3525 2.551644 GGAGAAACCGTCGCCATTT 58.448 52.632 0.00 0.00 45.20 2.32
1931 3551 1.827399 ATGCCCGAGAAAGTCACCGT 61.827 55.000 0.00 0.00 0.00 4.83
1936 3556 0.454620 CGAGAAAGTCACCGTCTCCG 60.455 60.000 0.72 0.00 35.39 4.63
1944 3564 0.894184 TCACCGTCTCCGAAAGCTCT 60.894 55.000 0.00 0.00 35.63 4.09
1947 3567 1.214062 CGTCTCCGAAAGCTCTGCT 59.786 57.895 0.00 0.00 36.91 4.24
2043 3702 1.267806 GACGAACTCCGGTGTAAGACA 59.732 52.381 10.03 0.00 43.93 3.41
2050 3709 3.181458 ACTCCGGTGTAAGACAATGTTGT 60.181 43.478 7.54 0.00 45.65 3.32
2064 3723 4.176271 CAATGTTGTCGTAGAGATCAGCA 58.824 43.478 0.00 0.00 36.95 4.41
2093 3752 3.986006 GACGGTGGTGCTGTCCGA 61.986 66.667 9.75 0.00 45.46 4.55
2103 3762 2.482142 GGTGCTGTCCGAGAGAAATAGG 60.482 54.545 0.00 0.00 0.00 2.57
2137 3796 3.341043 CAGCTTGCACGCACGTCT 61.341 61.111 18.25 0.00 0.00 4.18
2138 3797 3.038417 AGCTTGCACGCACGTCTC 61.038 61.111 18.25 0.00 0.00 3.36
2146 3805 1.733041 ACGCACGTCTCCATCGTTG 60.733 57.895 0.00 0.00 39.55 4.10
2242 3902 3.411351 GTCATGAACGGCGTGCGT 61.411 61.111 15.70 11.12 33.39 5.24
2311 3971 4.243008 TCGAACGGCTGGCACCAA 62.243 61.111 1.08 0.00 0.00 3.67
2401 4061 1.296715 GCCGTGGATGAGGTTGTCT 59.703 57.895 0.00 0.00 0.00 3.41
2405 4065 1.673033 CGTGGATGAGGTTGTCTGTCC 60.673 57.143 0.00 0.00 33.56 4.02
2413 4073 3.303135 TTGTCTGTCCCGCTCGCT 61.303 61.111 0.00 0.00 0.00 4.93
2417 4077 3.506096 CTGTCCCGCTCGCTACGA 61.506 66.667 0.00 0.00 0.00 3.43
2418 4078 3.047718 CTGTCCCGCTCGCTACGAA 62.048 63.158 0.00 0.00 34.74 3.85
2419 4079 2.278013 GTCCCGCTCGCTACGAAG 60.278 66.667 0.00 0.00 34.74 3.79
2420 4080 3.515286 TCCCGCTCGCTACGAAGG 61.515 66.667 0.00 4.71 34.74 3.46
2454 4114 4.139420 CGCTTGCTCGGCGTCAAG 62.139 66.667 27.16 27.16 46.37 3.02
2455 4115 2.738521 GCTTGCTCGGCGTCAAGA 60.739 61.111 31.86 6.90 41.50 3.02
2456 4116 2.317609 GCTTGCTCGGCGTCAAGAA 61.318 57.895 31.86 9.31 41.50 2.52
2457 4117 1.784062 CTTGCTCGGCGTCAAGAAG 59.216 57.895 27.34 11.61 41.50 2.85
2458 4118 0.946221 CTTGCTCGGCGTCAAGAAGT 60.946 55.000 27.34 0.00 41.50 3.01
2459 4119 0.531974 TTGCTCGGCGTCAAGAAGTT 60.532 50.000 6.85 0.00 0.00 2.66
2460 4120 0.315886 TGCTCGGCGTCAAGAAGTTA 59.684 50.000 6.85 0.00 0.00 2.24
2461 4121 1.269883 TGCTCGGCGTCAAGAAGTTAA 60.270 47.619 6.85 0.00 0.00 2.01
2462 4122 1.126296 GCTCGGCGTCAAGAAGTTAAC 59.874 52.381 6.85 0.00 0.00 2.01
2463 4123 1.385743 CTCGGCGTCAAGAAGTTAACG 59.614 52.381 6.85 0.00 38.13 3.18
2464 4124 0.437295 CGGCGTCAAGAAGTTAACGG 59.563 55.000 0.00 0.00 35.74 4.44
2465 4125 1.787012 GGCGTCAAGAAGTTAACGGA 58.213 50.000 0.00 0.00 35.74 4.69
2466 4126 1.458445 GGCGTCAAGAAGTTAACGGAC 59.542 52.381 0.00 4.09 35.74 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
316 317 2.736670 ACAGAGGTTGCTTGAGGTTT 57.263 45.000 0.00 0.00 0.00 3.27
462 467 3.950087 TCTTGCTAATTGCTATGTGCG 57.050 42.857 0.00 0.00 46.63 5.34
591 598 6.403866 TGTCTTCATGTTGTGGCTTTATTT 57.596 33.333 0.00 0.00 0.00 1.40
607 614 9.665719 TGATATTAAAGCAGTACAATGTCTTCA 57.334 29.630 0.00 0.00 0.00 3.02
680 688 8.405531 ACAGATACGTTGATAATTGGGAAAATG 58.594 33.333 0.00 0.00 0.00 2.32
705 713 7.572168 GCTTTTCCTGAAGTGTAAATCAGAGAC 60.572 40.741 4.43 0.00 44.64 3.36
725 733 3.942748 TGGAATGTATACCGGTGCTTTTC 59.057 43.478 19.93 13.16 0.00 2.29
734 742 8.553696 GGTTTTATTGTACTGGAATGTATACCG 58.446 37.037 0.00 0.00 0.00 4.02
741 749 7.922278 CCATCATGGTTTTATTGTACTGGAATG 59.078 37.037 0.00 0.00 31.35 2.67
742 750 7.069826 CCCATCATGGTTTTATTGTACTGGAAT 59.930 37.037 2.07 0.00 35.17 3.01
758 769 1.007479 ACAATGCCTTCCCATCATGGT 59.993 47.619 2.07 0.00 35.17 3.55
794 805 6.291067 TCAGATTAAATGCAAGATACGCTG 57.709 37.500 0.00 0.00 0.00 5.18
869 882 7.707624 AAAGAGCATAAGATTTGGTCAATCA 57.292 32.000 5.77 0.00 43.63 2.57
873 886 7.122501 TGCATTAAAGAGCATAAGATTTGGTCA 59.877 33.333 5.77 0.00 42.58 4.02
874 887 7.433425 GTGCATTAAAGAGCATAAGATTTGGTC 59.567 37.037 0.00 0.00 43.44 4.02
875 888 7.093814 TGTGCATTAAAGAGCATAAGATTTGGT 60.094 33.333 0.00 0.00 43.44 3.67
877 890 7.972277 AGTGTGCATTAAAGAGCATAAGATTTG 59.028 33.333 0.00 0.00 43.44 2.32
878 891 7.972277 CAGTGTGCATTAAAGAGCATAAGATTT 59.028 33.333 0.00 0.00 43.44 2.17
908 1137 4.931661 TCTCGTCTCCCCATGTTTATAC 57.068 45.455 0.00 0.00 0.00 1.47
919 1148 0.671251 CTGCTGGTATCTCGTCTCCC 59.329 60.000 0.00 0.00 0.00 4.30
981 1210 4.360563 CCATCTCACCGTTGTCTACATAC 58.639 47.826 0.00 0.00 0.00 2.39
984 1213 1.067142 GCCATCTCACCGTTGTCTACA 60.067 52.381 0.00 0.00 0.00 2.74
995 1224 2.294233 TGAAAAGTTGCAGCCATCTCAC 59.706 45.455 0.00 0.00 0.00 3.51
1041 1270 2.426738 GGCAGCACAAACCATAGCAATA 59.573 45.455 0.00 0.00 0.00 1.90
1050 1279 1.115326 AAAGGAGGGCAGCACAAACC 61.115 55.000 0.00 0.00 0.00 3.27
1083 1312 2.968574 TGGATGGAGTAGAGAAGCATCC 59.031 50.000 0.00 0.00 38.01 3.51
1084 1313 4.679373 TTGGATGGAGTAGAGAAGCATC 57.321 45.455 0.00 0.00 0.00 3.91
1090 1319 4.293494 AGCAGATTTGGATGGAGTAGAGA 58.707 43.478 0.00 0.00 0.00 3.10
1091 1320 4.686191 AGCAGATTTGGATGGAGTAGAG 57.314 45.455 0.00 0.00 0.00 2.43
1092 1321 5.441718 AAAGCAGATTTGGATGGAGTAGA 57.558 39.130 0.00 0.00 0.00 2.59
1095 1326 4.021719 CACAAAAGCAGATTTGGATGGAGT 60.022 41.667 12.37 0.00 43.10 3.85
1118 1349 9.798994 ATGAAAAATTGTGCTGATCTTAGATTC 57.201 29.630 0.00 0.00 0.00 2.52
1141 1372 8.645814 TTTAAGAGTAGAGGTTGTACAGATGA 57.354 34.615 0.00 0.00 0.00 2.92
1159 1390 9.856488 TTACAGCTTACACTACAGATTTAAGAG 57.144 33.333 0.00 0.00 0.00 2.85
1169 1400 5.540400 AACCAGTTACAGCTTACACTACA 57.460 39.130 0.00 0.00 0.00 2.74
1172 1403 6.072673 GCATTTAACCAGTTACAGCTTACACT 60.073 38.462 0.00 0.00 0.00 3.55
1203 1434 1.277557 AGTGCTGCTAACTTCTGAGGG 59.722 52.381 0.00 0.00 0.00 4.30
1217 1448 4.696877 TGTGTATTTGGATGAGAAGTGCTG 59.303 41.667 0.00 0.00 0.00 4.41
1245 1476 7.757941 TGAATGATGTTTTATCAGGTCACAA 57.242 32.000 0.00 0.00 0.00 3.33
1262 1493 9.911788 AAAGTAACAAGATATGTCCTGAATGAT 57.088 29.630 0.00 0.00 42.99 2.45
1337 1595 1.371337 CCATGCACATGTACTGCGCT 61.371 55.000 9.73 0.00 37.46 5.92
1391 1649 0.468226 ACACTCCCTTCGTCTTGCAA 59.532 50.000 0.00 0.00 0.00 4.08
1457 1715 2.169769 CCTCAGACCCCGCTAAATGTAA 59.830 50.000 0.00 0.00 0.00 2.41
1482 1740 2.631012 ATCATGGGGAAAGAGGCGGC 62.631 60.000 0.00 0.00 0.00 6.53
1507 1770 3.915536 TCACAATCAACGACCGATAACA 58.084 40.909 0.00 0.00 0.00 2.41
1514 1777 4.334443 CATCGATTTCACAATCAACGACC 58.666 43.478 0.00 0.00 39.14 4.79
1520 1783 4.035909 CAGATGCCATCGATTTCACAATCA 59.964 41.667 0.00 0.00 39.14 2.57
1524 1787 3.264998 TCAGATGCCATCGATTTCACA 57.735 42.857 0.00 0.00 0.00 3.58
1526 1789 6.940831 TTTATTCAGATGCCATCGATTTCA 57.059 33.333 0.00 0.00 0.00 2.69
1527 1790 7.327761 CCATTTTATTCAGATGCCATCGATTTC 59.672 37.037 0.00 0.00 0.00 2.17
1528 1791 7.014518 TCCATTTTATTCAGATGCCATCGATTT 59.985 33.333 0.00 0.00 0.00 2.17
1574 1837 2.806745 CGAGCAAAGTTCTGAGTTCCCA 60.807 50.000 0.00 0.00 0.00 4.37
1583 1846 3.667497 TCATGAGACGAGCAAAGTTCT 57.333 42.857 0.00 0.00 0.00 3.01
1584 1847 4.024893 TGTTTCATGAGACGAGCAAAGTTC 60.025 41.667 11.41 0.00 0.00 3.01
1585 1848 3.876914 TGTTTCATGAGACGAGCAAAGTT 59.123 39.130 11.41 0.00 0.00 2.66
1587 1850 4.083643 ACATGTTTCATGAGACGAGCAAAG 60.084 41.667 15.25 0.00 0.00 2.77
1594 3183 4.730600 TCACAACATGTTTCATGAGACG 57.269 40.909 8.77 1.41 0.00 4.18
1635 3227 5.006552 CACGAACAAAATCCAAACAGCAATT 59.993 36.000 0.00 0.00 0.00 2.32
1672 3289 1.517832 CTCTAGCCAAGTGACCCGG 59.482 63.158 0.00 0.00 0.00 5.73
1683 3300 2.435805 TCATGTGGTGAATCCTCTAGCC 59.564 50.000 0.00 0.00 37.07 3.93
1719 3336 2.344203 CGAGGAGAGAACCGGTGCT 61.344 63.158 17.45 17.45 34.73 4.40
1720 3337 2.182030 CGAGGAGAGAACCGGTGC 59.818 66.667 8.52 5.95 34.73 5.01
1722 3339 3.069318 GCCGAGGAGAGAACCGGT 61.069 66.667 0.00 0.00 43.51 5.28
1731 3348 4.735132 TTTGCCGTCGCCGAGGAG 62.735 66.667 8.59 0.00 35.63 3.69
1742 3359 1.370414 CAGCCGTTCTTGTTTGCCG 60.370 57.895 0.00 0.00 0.00 5.69
1746 3363 1.308998 CAGACCAGCCGTTCTTGTTT 58.691 50.000 0.00 0.00 0.00 2.83
1764 3381 0.394216 CTCCGGTGGATTTCATGGCA 60.394 55.000 0.00 0.00 0.00 4.92
1769 3386 2.674754 GGCCTCCGGTGGATTTCA 59.325 61.111 26.61 0.00 0.00 2.69
1785 3402 3.726517 CAAGGTGGAAGCACGCGG 61.727 66.667 12.47 0.00 36.26 6.46
1786 3403 2.664851 TCAAGGTGGAAGCACGCG 60.665 61.111 3.53 3.53 36.26 6.01
1788 3405 0.320374 TAGGTCAAGGTGGAAGCACG 59.680 55.000 0.00 0.00 36.26 5.34
1789 3406 2.359900 CATAGGTCAAGGTGGAAGCAC 58.640 52.381 0.00 0.00 36.26 4.40
1790 3407 1.281867 CCATAGGTCAAGGTGGAAGCA 59.718 52.381 0.00 0.00 36.26 3.91
1791 3408 2.019156 GCCATAGGTCAAGGTGGAAGC 61.019 57.143 0.00 0.00 33.53 3.86
1792 3409 1.408822 GGCCATAGGTCAAGGTGGAAG 60.409 57.143 0.00 0.00 33.53 3.46
1834 3454 0.388649 GTCGACGAACTGAGGCATGT 60.389 55.000 0.00 0.00 0.00 3.21
1837 3457 0.387929 AAAGTCGACGAACTGAGGCA 59.612 50.000 10.46 0.00 0.00 4.75
1838 3458 0.784778 CAAAGTCGACGAACTGAGGC 59.215 55.000 10.46 0.00 0.00 4.70
1839 3459 2.417339 TCAAAGTCGACGAACTGAGG 57.583 50.000 10.46 0.00 0.00 3.86
1845 3465 1.790755 CCACCATCAAAGTCGACGAA 58.209 50.000 10.46 0.00 0.00 3.85
1854 3474 2.917713 ACCATAAGGCCACCATCAAA 57.082 45.000 5.01 0.00 39.06 2.69
1856 3476 2.092646 GTGTACCATAAGGCCACCATCA 60.093 50.000 5.01 0.00 39.06 3.07
1892 3512 1.512156 GGTGACAAATGGCGACGGTT 61.512 55.000 0.00 0.00 0.00 4.44
1893 3513 1.964373 GGTGACAAATGGCGACGGT 60.964 57.895 0.00 0.00 0.00 4.83
1931 3551 0.244994 GTCAGCAGAGCTTTCGGAGA 59.755 55.000 0.00 0.00 36.40 3.71
1936 3556 0.322975 TGGGAGTCAGCAGAGCTTTC 59.677 55.000 0.00 0.00 36.40 2.62
1944 3564 1.006400 TGAGAGAGATGGGAGTCAGCA 59.994 52.381 0.00 0.00 33.49 4.41
1947 3567 3.295093 GACATGAGAGAGATGGGAGTCA 58.705 50.000 0.00 0.00 0.00 3.41
2043 3702 4.456280 TGCTGATCTCTACGACAACATT 57.544 40.909 0.00 0.00 0.00 2.71
2050 3709 2.755103 TCAAGCTTGCTGATCTCTACGA 59.245 45.455 21.99 0.00 0.00 3.43
2093 3752 6.229733 GCATTCTACATGCTCCTATTTCTCT 58.770 40.000 0.00 0.00 41.52 3.10
2103 3762 0.585357 CTGCCGCATTCTACATGCTC 59.415 55.000 5.34 0.00 42.50 4.26
2120 3779 3.287121 GAGACGTGCGTGCAAGCTG 62.287 63.158 24.81 18.78 38.13 4.24
2121 3780 3.038417 GAGACGTGCGTGCAAGCT 61.038 61.111 24.81 5.30 38.13 3.74
2128 3787 1.733041 CAACGATGGAGACGTGCGT 60.733 57.895 0.00 0.00 43.16 5.24
2129 3788 1.282248 AACAACGATGGAGACGTGCG 61.282 55.000 0.00 0.00 43.16 5.34
2137 3796 1.674359 ACTGCAACAACAACGATGGA 58.326 45.000 0.00 0.00 0.00 3.41
2138 3797 2.548057 ACTACTGCAACAACAACGATGG 59.452 45.455 0.00 0.00 0.00 3.51
2146 3805 2.076863 CTGCCCTACTACTGCAACAAC 58.923 52.381 0.00 0.00 34.06 3.32
2249 3909 4.778415 CCACCTCGACGACGGCAG 62.778 72.222 7.55 0.00 40.21 4.85
2287 3947 4.351938 CAGCCGTTCGACCCGTCA 62.352 66.667 3.33 0.00 0.00 4.35
2296 3956 2.594592 ACTTGGTGCCAGCCGTTC 60.595 61.111 0.00 0.00 0.00 3.95
2384 4044 0.321671 ACAGACAACCTCATCCACGG 59.678 55.000 0.00 0.00 0.00 4.94
2401 4061 3.047718 CTTCGTAGCGAGCGGGACA 62.048 63.158 0.00 0.00 37.14 4.02
2438 4098 2.233007 CTTCTTGACGCCGAGCAAGC 62.233 60.000 15.78 0.00 40.89 4.01
2439 4099 0.946221 ACTTCTTGACGCCGAGCAAG 60.946 55.000 14.87 14.87 42.10 4.01
2440 4100 0.531974 AACTTCTTGACGCCGAGCAA 60.532 50.000 0.00 0.00 0.00 3.91
2441 4101 0.315886 TAACTTCTTGACGCCGAGCA 59.684 50.000 0.00 0.00 0.00 4.26
2442 4102 1.126296 GTTAACTTCTTGACGCCGAGC 59.874 52.381 0.00 0.00 0.00 5.03
2443 4103 1.385743 CGTTAACTTCTTGACGCCGAG 59.614 52.381 3.71 0.00 33.25 4.63
2444 4104 1.411394 CGTTAACTTCTTGACGCCGA 58.589 50.000 3.71 0.00 33.25 5.54
2445 4105 0.437295 CCGTTAACTTCTTGACGCCG 59.563 55.000 3.71 0.00 37.90 6.46
2446 4106 1.458445 GTCCGTTAACTTCTTGACGCC 59.542 52.381 3.71 0.00 37.90 5.68
2447 4107 2.850441 GTCCGTTAACTTCTTGACGC 57.150 50.000 3.71 0.00 37.90 5.19


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

AutoCloner maintained by Alex Coulton.