Multiple sequence alignment - TraesCS7B01G272200

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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 TraesCS7B01G272200 chr7B 100.000 2719 0 0 1 2719 498969488 498972206 0.000000e+00 5022
1 TraesCS7B01G272200 chr7D 91.097 2763 169 29 1 2716 475185656 475188388 0.000000e+00 3668
2 TraesCS7B01G272200 chr7A 91.712 736 50 8 1 730 520832961 520832231 0.000000e+00 1011
3 TraesCS7B01G272200 chr7A 78.443 1169 183 41 922 2054 520799475 520798340 0.000000e+00 699
4 TraesCS7B01G272200 chr3B 97.931 145 3 0 1380 1524 32496040 32495896 4.490000e-63 252
5 TraesCS7B01G272200 chr3B 97.931 145 3 0 1380 1524 32564914 32564770 4.490000e-63 252


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 TraesCS7B01G272200 chr7B 498969488 498972206 2718 False 5022 5022 100.000 1 2719 1 chr7B.!!$F1 2718
1 TraesCS7B01G272200 chr7D 475185656 475188388 2732 False 3668 3668 91.097 1 2716 1 chr7D.!!$F1 2715
2 TraesCS7B01G272200 chr7A 520832231 520832961 730 True 1011 1011 91.712 1 730 1 chr7A.!!$R2 729
3 TraesCS7B01G272200 chr7A 520798340 520799475 1135 True 699 699 78.443 922 2054 1 chr7A.!!$R1 1132

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
782 789 0.248866 AAGCAACGAAACCGCCAAAG 60.249 50.0 0.0 0.0 0.0 2.77 F
1523 1555 0.035317 TCATGCTCAACGTCAAGGCT 59.965 50.0 0.0 0.0 0.0 4.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1664 1701 1.039068 TGCCAGAAACCACCAACATG 58.961 50.000 0.0 0.0 0.00 3.21 R
2614 2690 6.761242 GCTTTAAATCACCTTGGTTTTTGACT 59.239 34.615 7.4 0.0 32.22 3.41 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
151 152 4.509737 GCGAGCACCTCCGGGTAC 62.510 72.222 0.00 0.00 45.41 3.34
154 155 3.352338 GAGCACCTCCGGGTACGTG 62.352 68.421 0.00 4.13 45.41 4.49
488 489 4.148825 GCTCCATCGGCAGGTCGT 62.149 66.667 0.00 0.00 0.00 4.34
510 511 1.656818 CGCGTTTCTGGCATGGGATT 61.657 55.000 0.00 0.00 0.00 3.01
594 595 3.059982 CCGTGGGAGAAGACTGCA 58.940 61.111 0.00 0.00 36.18 4.41
670 674 2.798847 GCTCCGTCAAGTTAACTTTCGT 59.201 45.455 26.44 6.78 33.11 3.85
690 694 2.827921 GTTTCAATCTTGGGTGCCTGAT 59.172 45.455 0.00 0.00 0.00 2.90
712 719 3.027412 CTGCAGGAGTACTACAGACCAT 58.973 50.000 8.10 0.00 42.22 3.55
720 727 5.326200 AGTACTACAGACCATTTCTTCCG 57.674 43.478 0.00 0.00 28.96 4.30
727 734 2.498078 AGACCATTTCTTCCGAGTCTCC 59.502 50.000 0.00 0.00 28.69 3.71
730 737 1.134965 CATTTCTTCCGAGTCTCCGCT 60.135 52.381 0.00 0.00 0.00 5.52
734 741 1.743958 TCTTCCGAGTCTCCGCTAAAG 59.256 52.381 0.00 0.00 0.00 1.85
735 742 1.743958 CTTCCGAGTCTCCGCTAAAGA 59.256 52.381 0.00 0.00 0.00 2.52
736 743 1.830279 TCCGAGTCTCCGCTAAAGAA 58.170 50.000 0.00 0.00 0.00 2.52
739 746 3.194968 TCCGAGTCTCCGCTAAAGAAAAT 59.805 43.478 0.00 0.00 0.00 1.82
746 753 4.630069 TCTCCGCTAAAGAAAATTCTTCCG 59.370 41.667 8.74 11.09 46.22 4.30
747 754 3.687698 TCCGCTAAAGAAAATTCTTCCGG 59.312 43.478 22.79 22.79 46.22 5.14
748 755 3.439129 CCGCTAAAGAAAATTCTTCCGGT 59.561 43.478 21.64 8.03 46.22 5.28
749 756 4.403453 CGCTAAAGAAAATTCTTCCGGTG 58.597 43.478 8.74 5.68 46.22 4.94
750 757 4.153475 CGCTAAAGAAAATTCTTCCGGTGA 59.847 41.667 8.74 0.00 46.22 4.02
751 758 5.391449 GCTAAAGAAAATTCTTCCGGTGAC 58.609 41.667 8.74 0.00 46.22 3.67
752 759 5.048991 GCTAAAGAAAATTCTTCCGGTGACA 60.049 40.000 8.74 0.00 46.22 3.58
755 762 2.200373 AAATTCTTCCGGTGACAGGG 57.800 50.000 0.00 0.00 0.00 4.45
756 763 1.064825 AATTCTTCCGGTGACAGGGT 58.935 50.000 0.00 0.00 0.00 4.34
770 777 0.515564 CAGGGTTAACCGAAGCAACG 59.484 55.000 18.39 0.00 46.96 4.10
773 780 1.603326 GGGTTAACCGAAGCAACGAAA 59.397 47.619 18.39 0.00 37.27 3.46
782 789 0.248866 AAGCAACGAAACCGCCAAAG 60.249 50.000 0.00 0.00 0.00 2.77
784 791 0.933047 GCAACGAAACCGCCAAAGTC 60.933 55.000 0.00 0.00 0.00 3.01
808 815 1.945354 GCGGATCGGTCTCCACTTGA 61.945 60.000 0.00 0.00 34.78 3.02
812 819 2.035321 GGATCGGTCTCCACTTGATCTC 59.965 54.545 0.00 0.00 35.96 2.75
818 825 2.676839 GTCTCCACTTGATCTCGACGTA 59.323 50.000 0.00 0.00 0.00 3.57
819 826 3.126514 GTCTCCACTTGATCTCGACGTAA 59.873 47.826 0.00 0.00 0.00 3.18
821 828 2.815503 TCCACTTGATCTCGACGTAACA 59.184 45.455 0.00 0.00 0.00 2.41
822 829 3.253921 TCCACTTGATCTCGACGTAACAA 59.746 43.478 0.00 0.00 0.00 2.83
823 830 3.985279 CCACTTGATCTCGACGTAACAAA 59.015 43.478 0.00 0.00 0.00 2.83
824 831 4.143389 CCACTTGATCTCGACGTAACAAAC 60.143 45.833 0.00 0.00 0.00 2.93
825 832 4.680110 CACTTGATCTCGACGTAACAAACT 59.320 41.667 0.00 0.00 0.00 2.66
826 833 5.854866 CACTTGATCTCGACGTAACAAACTA 59.145 40.000 0.00 0.00 0.00 2.24
827 834 6.361481 CACTTGATCTCGACGTAACAAACTAA 59.639 38.462 0.00 0.00 0.00 2.24
828 835 6.581542 ACTTGATCTCGACGTAACAAACTAAG 59.418 38.462 0.00 0.00 0.00 2.18
829 836 4.855388 TGATCTCGACGTAACAAACTAAGC 59.145 41.667 0.00 0.00 0.00 3.09
830 837 3.568538 TCTCGACGTAACAAACTAAGCC 58.431 45.455 0.00 0.00 0.00 4.35
831 838 2.665052 CTCGACGTAACAAACTAAGCCC 59.335 50.000 0.00 0.00 0.00 5.19
832 839 1.387756 CGACGTAACAAACTAAGCCCG 59.612 52.381 0.00 0.00 0.00 6.13
862 869 1.831106 TCCTGCCTATTCTTTCGCTCA 59.169 47.619 0.00 0.00 0.00 4.26
866 873 1.795286 GCCTATTCTTTCGCTCATCCG 59.205 52.381 0.00 0.00 0.00 4.18
872 879 0.737367 CTTTCGCTCATCCGCTCACA 60.737 55.000 0.00 0.00 0.00 3.58
879 897 1.411977 CTCATCCGCTCACAATCCTCT 59.588 52.381 0.00 0.00 0.00 3.69
887 905 2.095053 GCTCACAATCCTCTTCTTTCGC 59.905 50.000 0.00 0.00 0.00 4.70
897 915 2.755655 CTCTTCTTTCGCTACTCCCTCA 59.244 50.000 0.00 0.00 0.00 3.86
912 930 3.973973 CTCCCTCACCCTATAAACCATGA 59.026 47.826 0.00 0.00 0.00 3.07
914 932 3.494398 CCCTCACCCTATAAACCATGACG 60.494 52.174 0.00 0.00 0.00 4.35
916 934 2.158871 TCACCCTATAAACCATGACGCC 60.159 50.000 0.00 0.00 0.00 5.68
918 936 1.202604 CCCTATAAACCATGACGCCGT 60.203 52.381 0.00 0.00 0.00 5.68
920 938 2.286833 CCTATAAACCATGACGCCGTTG 59.713 50.000 0.00 0.00 0.00 4.10
936 954 1.227409 TTGTGCACATCCACGTCGT 60.227 52.632 22.39 0.00 38.55 4.34
948 966 3.722295 CGTCGTGCCCGCAAACAT 61.722 61.111 0.00 0.00 0.00 2.71
955 974 1.807742 GTGCCCGCAAACATTGTAGTA 59.192 47.619 0.00 0.00 0.00 1.82
964 983 6.183360 CCGCAAACATTGTAGTAATCAGTCAT 60.183 38.462 0.00 0.00 0.00 3.06
971 990 7.495934 ACATTGTAGTAATCAGTCATAAGCCAC 59.504 37.037 0.00 0.00 0.00 5.01
972 991 5.914033 TGTAGTAATCAGTCATAAGCCACC 58.086 41.667 0.00 0.00 0.00 4.61
994 1016 7.255590 CCACCAAGTGTTCATTAAGTTCTGATT 60.256 37.037 0.00 0.00 0.00 2.57
995 1017 7.592533 CACCAAGTGTTCATTAAGTTCTGATTG 59.407 37.037 0.00 0.00 0.00 2.67
1016 1038 2.172372 CGATGGCTCAGCTGCTCAC 61.172 63.158 9.47 0.00 0.00 3.51
1017 1039 1.221293 GATGGCTCAGCTGCTCACT 59.779 57.895 9.47 0.00 0.00 3.41
1027 1049 3.070734 TCAGCTGCTCACTTTCTTCTTCT 59.929 43.478 9.47 0.00 0.00 2.85
1039 1061 5.535406 ACTTTCTTCTTCTTCCTACTCGTCA 59.465 40.000 0.00 0.00 0.00 4.35
1043 1065 3.752665 TCTTCTTCCTACTCGTCACTGT 58.247 45.455 0.00 0.00 0.00 3.55
1125 1147 3.122250 GAGGTACATCGTCGGCGCT 62.122 63.158 3.52 0.00 38.14 5.92
1224 1254 2.500098 CGAGGACTCCATTGGTAAGGAA 59.500 50.000 1.86 0.00 32.57 3.36
1236 1266 5.672421 TTGGTAAGGAAGACTAACTAGGC 57.328 43.478 0.00 0.00 0.00 3.93
1246 1276 7.228906 AGGAAGACTAACTAGGCAAAAAGAAAC 59.771 37.037 0.00 0.00 32.29 2.78
1271 1303 4.875544 TTAATCTACCTGCGTGCATTTC 57.124 40.909 0.00 0.00 0.00 2.17
1273 1305 0.037697 TCTACCTGCGTGCATTTCGT 60.038 50.000 0.00 0.00 0.00 3.85
1274 1306 0.796312 CTACCTGCGTGCATTTCGTT 59.204 50.000 0.00 0.00 0.00 3.85
1308 1340 7.980742 ATCGTTAAAAACTCCAGTTTGTTTC 57.019 32.000 5.46 0.00 46.47 2.78
1310 1342 6.072064 TCGTTAAAAACTCCAGTTTGTTTCCA 60.072 34.615 5.46 0.00 46.47 3.53
1389 1421 0.670546 CTACCACTGCAACTGGACGG 60.671 60.000 15.55 0.74 32.55 4.79
1523 1555 0.035317 TCATGCTCAACGTCAAGGCT 59.965 50.000 0.00 0.00 0.00 4.58
1524 1556 1.275010 TCATGCTCAACGTCAAGGCTA 59.725 47.619 0.00 0.00 0.00 3.93
1525 1557 1.662629 CATGCTCAACGTCAAGGCTAG 59.337 52.381 0.00 0.00 0.00 3.42
1527 1560 0.037232 GCTCAACGTCAAGGCTAGGT 60.037 55.000 0.00 0.00 0.00 3.08
1627 1663 3.573491 GCCGGTAATGGACAGCGC 61.573 66.667 1.90 0.00 35.66 5.92
1723 1760 1.819208 CGATTCGGGCCTGAATGCA 60.819 57.895 38.70 15.39 38.65 3.96
1731 1768 1.226491 GCCTGAATGCATGCGTGAC 60.226 57.895 14.40 11.42 0.00 3.67
1744 1781 2.606961 CGTGACACACAATGCGGCT 61.607 57.895 6.37 0.00 33.40 5.52
1767 1804 3.259876 TGGCATTGTAGGTCGTCTAGTTT 59.740 43.478 0.00 0.00 0.00 2.66
1777 1814 8.242053 TGTAGGTCGTCTAGTTTAGATTCTTTG 58.758 37.037 0.00 0.00 37.13 2.77
1778 1815 7.463961 AGGTCGTCTAGTTTAGATTCTTTGA 57.536 36.000 0.00 0.00 37.13 2.69
1801 1838 6.128391 TGACATGGTTAATTTCTTAGTCGCAC 60.128 38.462 0.00 0.00 0.00 5.34
1814 1851 2.202557 CGCACATCGAGCCGTACA 60.203 61.111 0.00 0.00 41.67 2.90
2103 2156 2.969628 ACATTGAGGAGGTCTTAGCG 57.030 50.000 0.00 0.00 0.00 4.26
2105 2158 2.832129 ACATTGAGGAGGTCTTAGCGAA 59.168 45.455 0.00 0.00 0.00 4.70
2195 2249 8.940952 GGCTATTAGCATATAGGTCTTTTTCTG 58.059 37.037 17.11 0.00 44.75 3.02
2368 2442 5.230942 AGAACAATATCCCGCGAGATAAAG 58.769 41.667 14.55 11.85 32.61 1.85
2376 2450 1.130373 CCGCGAGATAAAGCAAGCAAA 59.870 47.619 8.23 0.00 0.00 3.68
2429 2503 8.718734 ACTAGAACTATGTTTCATTTCGGTTTC 58.281 33.333 0.00 0.00 0.00 2.78
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
101 102 3.483587 GGAGAGGTTCCACCAGCA 58.516 61.111 0.00 0.00 46.01 4.41
380 381 4.648626 GCTGCAGCACCACCTCCA 62.649 66.667 33.36 0.00 41.59 3.86
488 489 2.331893 CCATGCCAGAAACGCGGAA 61.332 57.895 12.47 0.00 0.00 4.30
524 525 3.493830 TTACATAGCCGCTCGCCCG 62.494 63.158 0.00 0.00 38.78 6.13
562 563 1.301716 ACGGCACTCAACGCATCTT 60.302 52.632 0.00 0.00 0.00 2.40
594 595 1.472662 CCCCCGTAATCCTCATCGCT 61.473 60.000 0.00 0.00 0.00 4.93
615 616 1.673665 CCTGCGAGCTTTGCTTCCT 60.674 57.895 12.38 0.00 39.88 3.36
670 674 2.673775 TCAGGCACCCAAGATTGAAA 57.326 45.000 0.00 0.00 0.00 2.69
697 701 5.125097 TCGGAAGAAATGGTCTGTAGTACTC 59.875 44.000 0.00 0.00 36.40 2.59
702 706 4.158764 AGACTCGGAAGAAATGGTCTGTAG 59.841 45.833 0.00 0.00 39.51 2.74
712 719 1.830279 TAGCGGAGACTCGGAAGAAA 58.170 50.000 13.80 0.00 41.32 2.52
720 727 6.183360 GGAAGAATTTTCTTTAGCGGAGACTC 60.183 42.308 6.98 0.00 46.84 3.36
727 734 4.153475 TCACCGGAAGAATTTTCTTTAGCG 59.847 41.667 9.46 0.00 46.84 4.26
730 737 5.472137 CCTGTCACCGGAAGAATTTTCTTTA 59.528 40.000 9.46 0.00 46.84 1.85
734 741 2.488153 CCCTGTCACCGGAAGAATTTTC 59.512 50.000 9.46 0.00 0.00 2.29
735 742 2.158519 ACCCTGTCACCGGAAGAATTTT 60.159 45.455 9.46 0.00 0.00 1.82
736 743 1.423921 ACCCTGTCACCGGAAGAATTT 59.576 47.619 9.46 0.00 0.00 1.82
739 746 1.719529 TAACCCTGTCACCGGAAGAA 58.280 50.000 9.46 0.00 0.00 2.52
746 753 1.804601 CTTCGGTTAACCCTGTCACC 58.195 55.000 19.09 0.00 0.00 4.02
747 754 1.154197 GCTTCGGTTAACCCTGTCAC 58.846 55.000 19.09 0.45 0.00 3.67
748 755 0.759959 TGCTTCGGTTAACCCTGTCA 59.240 50.000 19.09 9.28 0.00 3.58
749 756 1.534163 GTTGCTTCGGTTAACCCTGTC 59.466 52.381 19.09 6.83 0.00 3.51
750 757 1.601166 GTTGCTTCGGTTAACCCTGT 58.399 50.000 19.09 0.00 0.00 4.00
751 758 0.515564 CGTTGCTTCGGTTAACCCTG 59.484 55.000 19.09 10.00 0.00 4.45
752 759 0.393820 TCGTTGCTTCGGTTAACCCT 59.606 50.000 19.09 0.00 0.00 4.34
755 762 2.642995 GGTTTCGTTGCTTCGGTTAAC 58.357 47.619 0.00 0.00 0.00 2.01
756 763 1.261089 CGGTTTCGTTGCTTCGGTTAA 59.739 47.619 1.90 0.00 0.00 2.01
770 777 1.658114 GGTGGACTTTGGCGGTTTC 59.342 57.895 0.00 0.00 0.00 2.78
797 804 1.469308 ACGTCGAGATCAAGTGGAGAC 59.531 52.381 0.00 0.00 0.00 3.36
808 815 4.171754 GGCTTAGTTTGTTACGTCGAGAT 58.828 43.478 0.00 0.00 0.00 2.75
812 819 1.387756 CGGGCTTAGTTTGTTACGTCG 59.612 52.381 0.00 0.00 0.00 5.12
818 825 1.574702 GCGAGCGGGCTTAGTTTGTT 61.575 55.000 0.00 0.00 0.00 2.83
819 826 2.033194 GCGAGCGGGCTTAGTTTGT 61.033 57.895 0.00 0.00 0.00 2.83
821 828 2.813908 CGCGAGCGGGCTTAGTTT 60.814 61.111 9.90 0.00 35.56 2.66
862 869 2.114616 AGAAGAGGATTGTGAGCGGAT 58.885 47.619 0.00 0.00 0.00 4.18
866 873 2.095053 GCGAAAGAAGAGGATTGTGAGC 59.905 50.000 0.00 0.00 0.00 4.26
872 879 3.133183 GGGAGTAGCGAAAGAAGAGGATT 59.867 47.826 0.00 0.00 0.00 3.01
879 897 1.549170 GGTGAGGGAGTAGCGAAAGAA 59.451 52.381 0.00 0.00 0.00 2.52
887 905 4.553678 TGGTTTATAGGGTGAGGGAGTAG 58.446 47.826 0.00 0.00 0.00 2.57
897 915 1.202604 CGGCGTCATGGTTTATAGGGT 60.203 52.381 0.00 0.00 0.00 4.34
912 930 3.353836 GGATGTGCACAACGGCGT 61.354 61.111 25.72 6.77 36.28 5.68
914 932 2.255252 GTGGATGTGCACAACGGC 59.745 61.111 25.72 13.18 0.00 5.68
916 934 1.204062 GACGTGGATGTGCACAACG 59.796 57.895 30.75 30.75 0.00 4.10
918 936 1.227409 ACGACGTGGATGTGCACAA 60.227 52.632 25.72 4.24 0.00 3.33
920 938 2.853210 CACGACGTGGATGTGCAC 59.147 61.111 20.26 10.75 0.00 4.57
936 954 2.186532 TACTACAATGTTTGCGGGCA 57.813 45.000 0.00 0.00 0.00 5.36
948 966 6.070481 TGGTGGCTTATGACTGATTACTACAA 60.070 38.462 0.00 0.00 0.00 2.41
955 974 4.012374 CACTTGGTGGCTTATGACTGATT 58.988 43.478 0.00 0.00 0.00 2.57
964 983 5.381757 ACTTAATGAACACTTGGTGGCTTA 58.618 37.500 2.75 0.00 37.94 3.09
971 990 7.874940 TCAATCAGAACTTAATGAACACTTGG 58.125 34.615 0.00 0.00 0.00 3.61
972 991 9.552114 GATCAATCAGAACTTAATGAACACTTG 57.448 33.333 0.00 0.00 0.00 3.16
994 1016 1.227468 GCAGCTGAGCCATCGATCA 60.227 57.895 20.43 0.00 0.00 2.92
995 1017 0.945265 GAGCAGCTGAGCCATCGATC 60.945 60.000 20.43 0.00 34.23 3.69
1016 1038 5.859648 GTGACGAGTAGGAAGAAGAAGAAAG 59.140 44.000 0.00 0.00 0.00 2.62
1017 1039 5.535406 AGTGACGAGTAGGAAGAAGAAGAAA 59.465 40.000 0.00 0.00 0.00 2.52
1027 1049 1.000506 GGCAACAGTGACGAGTAGGAA 59.999 52.381 0.00 0.00 0.00 3.36
1039 1061 2.029073 CACGGACTCGGCAACAGT 59.971 61.111 0.00 0.00 41.39 3.55
1071 1093 4.754667 GGAACGAGCCCGACACCC 62.755 72.222 0.00 0.00 39.50 4.61
1098 1120 3.363772 CGACGATGTACCTCTTACCGATC 60.364 52.174 0.00 0.00 0.00 3.69
1224 1254 7.280356 TCAGTTTCTTTTTGCCTAGTTAGTCT 58.720 34.615 0.00 0.00 0.00 3.24
1236 1266 9.346725 GCAGGTAGATTAATCAGTTTCTTTTTG 57.653 33.333 17.56 3.64 0.00 2.44
1246 1276 3.457234 TGCACGCAGGTAGATTAATCAG 58.543 45.455 17.56 3.43 0.00 2.90
1288 1320 9.508642 AAAATGGAAACAAACTGGAGTTTTTAA 57.491 25.926 1.90 0.00 45.07 1.52
1291 1323 7.334171 CAGAAAATGGAAACAAACTGGAGTTTT 59.666 33.333 1.90 0.00 45.07 2.43
1298 1330 8.652810 ATTCTTCAGAAAATGGAAACAAACTG 57.347 30.769 0.00 0.00 40.11 3.16
1299 1331 9.317936 GAATTCTTCAGAAAATGGAAACAAACT 57.682 29.630 0.00 0.00 40.11 2.66
1303 1335 8.423349 ACATGAATTCTTCAGAAAATGGAAACA 58.577 29.630 7.05 0.00 44.63 2.83
1308 1340 9.350357 CTTGTACATGAATTCTTCAGAAAATGG 57.650 33.333 7.05 0.00 43.98 3.16
1350 1382 1.981533 GTACGCGTACTTGTTCACCTC 59.018 52.381 35.66 10.39 33.45 3.85
1421 1453 3.207778 GTCTAAGAGGAAGAGCGAGCTA 58.792 50.000 0.00 0.00 0.00 3.32
1523 1555 2.978824 GGAACTGGCGCTGACCTA 59.021 61.111 7.64 0.00 0.00 3.08
1524 1556 4.379243 CGGAACTGGCGCTGACCT 62.379 66.667 7.64 0.00 0.00 3.85
1525 1557 4.681978 ACGGAACTGGCGCTGACC 62.682 66.667 7.64 9.12 0.00 4.02
1527 1560 3.158537 TTGACGGAACTGGCGCTGA 62.159 57.895 7.64 0.00 0.00 4.26
1535 1568 5.122396 GCTTGAAATATCAGTTGACGGAACT 59.878 40.000 0.00 0.00 46.52 3.01
1627 1663 4.087892 AGGCTAGTGCTGCGGTGG 62.088 66.667 0.00 0.00 39.59 4.61
1640 1676 4.457496 CGCCCATGTGACGAGGCT 62.457 66.667 8.39 0.00 43.48 4.58
1664 1701 1.039068 TGCCAGAAACCACCAACATG 58.961 50.000 0.00 0.00 0.00 3.21
1723 1760 1.207339 CGCATTGTGTGTCACGCAT 59.793 52.632 19.43 7.67 38.53 4.73
1731 1768 2.431260 GCCAAGCCGCATTGTGTG 60.431 61.111 0.00 0.00 0.00 3.82
1744 1781 2.829720 ACTAGACGACCTACAATGCCAA 59.170 45.455 0.00 0.00 0.00 4.52
1777 1814 6.128391 TGTGCGACTAAGAAATTAACCATGTC 60.128 38.462 0.00 0.00 0.00 3.06
1778 1815 5.703592 TGTGCGACTAAGAAATTAACCATGT 59.296 36.000 0.00 0.00 0.00 3.21
1801 1838 1.337071 ACCATACTGTACGGCTCGATG 59.663 52.381 0.23 0.96 0.00 3.84
1814 1851 6.154534 TGCACACATTCTCTAACTACCATACT 59.845 38.462 0.00 0.00 0.00 2.12
2065 2117 9.643693 CTCAATGTTAATTTGGCTAATTTGAGT 57.356 29.630 17.37 1.77 37.60 3.41
2066 2118 9.090692 CCTCAATGTTAATTTGGCTAATTTGAG 57.909 33.333 18.10 18.10 37.60 3.02
2068 2120 9.090692 CTCCTCAATGTTAATTTGGCTAATTTG 57.909 33.333 11.93 4.78 37.60 2.32
2103 2156 1.450642 GGAGGTAATCCCGCCCTTC 59.549 63.158 0.00 0.00 47.00 3.46
2125 2178 8.755696 ATTTTGCTTATGCTTCAACGATTTTA 57.244 26.923 1.96 0.00 40.48 1.52
2130 2183 4.922692 CCAATTTTGCTTATGCTTCAACGA 59.077 37.500 1.96 0.00 40.48 3.85
2131 2184 4.434593 GCCAATTTTGCTTATGCTTCAACG 60.435 41.667 1.96 0.00 40.48 4.10
2132 2185 4.692155 AGCCAATTTTGCTTATGCTTCAAC 59.308 37.500 1.96 0.00 40.48 3.18
2403 2477 8.617290 AAACCGAAATGAAACATAGTTCTAGT 57.383 30.769 0.00 0.00 0.00 2.57
2404 2478 8.717821 TGAAACCGAAATGAAACATAGTTCTAG 58.282 33.333 0.00 0.00 0.00 2.43
2436 2510 9.642327 TCATGGATGTTTGTTTTGAAATAGATG 57.358 29.630 0.00 0.00 0.00 2.90
2472 2546 7.941238 CCACCTATTTTGAGATATGTGGAATCT 59.059 37.037 11.54 0.00 44.45 2.40
2614 2690 6.761242 GCTTTAAATCACCTTGGTTTTTGACT 59.239 34.615 7.40 0.00 32.22 3.41
2623 2699 8.831715 ACTATTTTTGCTTTAAATCACCTTGG 57.168 30.769 0.00 0.00 0.00 3.61


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

AutoCloner maintained by Alex Coulton.