Multiple sequence alignment - TraesCS7A01G274600

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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 TraesCS7A01G274600 chr7A 100.000 2714 0 0 1 2714 287551344 287554057 0.000000e+00 5012
1 TraesCS7A01G274600 chr7A 83.002 1106 149 28 880 1969 287848769 287849851 0.000000e+00 965
2 TraesCS7A01G274600 chr7D 95.110 1186 47 6 1194 2373 264082486 264083666 0.000000e+00 1858
3 TraesCS7A01G274600 chr7D 82.906 1053 149 22 931 1969 264319948 264320983 0.000000e+00 918
4 TraesCS7A01G274600 chr7D 81.352 976 147 25 902 1857 264315295 264316255 0.000000e+00 761
5 TraesCS7A01G274600 chr7D 95.513 468 19 1 1 468 264074005 264074470 0.000000e+00 747
6 TraesCS7A01G274600 chr7D 82.382 403 16 11 2367 2714 264083743 264084145 1.580000e-77 300
7 TraesCS7A01G274600 chr7D 77.995 409 65 18 1 391 264315855 264316256 1.620000e-57 233
8 TraesCS7A01G274600 chr7D 96.296 135 3 2 467 601 264074556 264074688 1.270000e-53 220
9 TraesCS7A01G274600 chr7D 89.535 172 8 3 710 880 264076316 264076478 2.740000e-50 209
10 TraesCS7A01G274600 chr7B 94.093 1202 42 9 1464 2643 244426561 244427755 0.000000e+00 1799
11 TraesCS7A01G274600 chr7B 82.531 1059 133 37 880 1910 244635798 244636832 0.000000e+00 883
12 TraesCS7A01G274600 chr7B 96.809 470 14 1 1 470 244425452 244425920 0.000000e+00 784
13 TraesCS7A01G274600 chr7B 91.860 430 18 7 467 880 244426022 244426450 3.890000e-163 584
14 TraesCS7A01G274600 chr7B 78.240 409 63 17 1 391 244632142 244632542 3.490000e-59 239
15 TraesCS7A01G274600 chr3D 81.566 1188 184 27 898 2072 583169887 583168722 0.000000e+00 948
16 TraesCS7A01G274600 chr3D 80.898 1136 181 28 892 2008 583187413 583186295 0.000000e+00 863
17 TraesCS7A01G274600 chr3D 80.868 1129 182 26 898 2009 583181416 583180305 0.000000e+00 857
18 TraesCS7A01G274600 chr3D 80.967 972 147 29 898 1855 583162072 583161125 0.000000e+00 736
19 TraesCS7A01G274600 chr3B 81.634 1138 179 23 892 2014 780301868 780300746 0.000000e+00 917
20 TraesCS7A01G274600 chr3B 81.348 1083 170 25 898 1971 780315955 780314896 0.000000e+00 852
21 TraesCS7A01G274600 chr3B 81.348 1083 170 25 898 1971 780321329 780320270 0.000000e+00 852
22 TraesCS7A01G274600 chr3B 81.348 1083 170 25 898 1971 780325934 780324875 0.000000e+00 852
23 TraesCS7A01G274600 chr6B 79.491 1219 192 32 898 2082 62692774 62691580 0.000000e+00 813
24 TraesCS7A01G274600 chr6B 79.208 1212 202 29 898 2082 62635961 62634773 0.000000e+00 797
25 TraesCS7A01G274600 chr6B 81.857 926 139 16 879 1794 62676247 62675341 0.000000e+00 752
26 TraesCS7A01G274600 chr6B 81.862 838 126 14 879 1706 62680794 62679973 0.000000e+00 682
27 TraesCS7A01G274600 chr6B 81.862 838 126 14 879 1706 62685413 62684592 0.000000e+00 682
28 TraesCS7A01G274600 chrUn 81.534 991 144 25 879 1855 41699122 41700087 0.000000e+00 780
29 TraesCS7A01G274600 chrUn 80.908 969 147 23 902 1853 101984098 101983151 0.000000e+00 730
30 TraesCS7A01G274600 chr6A 80.054 742 108 30 1184 1907 34276852 34276133 5.180000e-142 514


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 TraesCS7A01G274600 chr7A 287551344 287554057 2713 False 5012.000000 5012 100.000000 1 2714 1 chr7A.!!$F1 2713
1 TraesCS7A01G274600 chr7A 287848769 287849851 1082 False 965.000000 965 83.002000 880 1969 1 chr7A.!!$F2 1089
2 TraesCS7A01G274600 chr7D 264082486 264084145 1659 False 1079.000000 1858 88.746000 1194 2714 2 chr7D.!!$F2 1520
3 TraesCS7A01G274600 chr7D 264315295 264320983 5688 False 637.333333 918 80.751000 1 1969 3 chr7D.!!$F3 1968
4 TraesCS7A01G274600 chr7D 264074005 264076478 2473 False 392.000000 747 93.781333 1 880 3 chr7D.!!$F1 879
5 TraesCS7A01G274600 chr7B 244425452 244427755 2303 False 1055.666667 1799 94.254000 1 2643 3 chr7B.!!$F1 2642
6 TraesCS7A01G274600 chr7B 244632142 244636832 4690 False 561.000000 883 80.385500 1 1910 2 chr7B.!!$F2 1909
7 TraesCS7A01G274600 chr3D 583168722 583169887 1165 True 948.000000 948 81.566000 898 2072 1 chr3D.!!$R2 1174
8 TraesCS7A01G274600 chr3D 583186295 583187413 1118 True 863.000000 863 80.898000 892 2008 1 chr3D.!!$R4 1116
9 TraesCS7A01G274600 chr3D 583180305 583181416 1111 True 857.000000 857 80.868000 898 2009 1 chr3D.!!$R3 1111
10 TraesCS7A01G274600 chr3D 583161125 583162072 947 True 736.000000 736 80.967000 898 1855 1 chr3D.!!$R1 957
11 TraesCS7A01G274600 chr3B 780300746 780301868 1122 True 917.000000 917 81.634000 892 2014 1 chr3B.!!$R1 1122
12 TraesCS7A01G274600 chr3B 780314896 780315955 1059 True 852.000000 852 81.348000 898 1971 1 chr3B.!!$R2 1073
13 TraesCS7A01G274600 chr3B 780320270 780325934 5664 True 852.000000 852 81.348000 898 1971 2 chr3B.!!$R3 1073
14 TraesCS7A01G274600 chr6B 62691580 62692774 1194 True 813.000000 813 79.491000 898 2082 1 chr6B.!!$R2 1184
15 TraesCS7A01G274600 chr6B 62634773 62635961 1188 True 797.000000 797 79.208000 898 2082 1 chr6B.!!$R1 1184
16 TraesCS7A01G274600 chr6B 62675341 62685413 10072 True 705.333333 752 81.860333 879 1794 3 chr6B.!!$R3 915
17 TraesCS7A01G274600 chrUn 41699122 41700087 965 False 780.000000 780 81.534000 879 1855 1 chrUn.!!$F1 976
18 TraesCS7A01G274600 chrUn 101983151 101984098 947 True 730.000000 730 80.908000 902 1853 1 chrUn.!!$R1 951
19 TraesCS7A01G274600 chr6A 34276133 34276852 719 True 514.000000 514 80.054000 1184 1907 1 chr6A.!!$R1 723

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
801 3147 0.03213 TCACGTCCAGCAACAGACTC 59.968 55.0 0.0 0.0 0.0 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2651 22381 0.18135 ATGGGCCGAGTCAGAATTCC 59.819 55.0 0.65 0.0 0.0 3.01 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
187 754 1.138661 GATCTTGAGAGTGGAGCAGGG 59.861 57.143 0.00 0.00 0.00 4.45
190 757 2.116983 TTGAGAGTGGAGCAGGGCAC 62.117 60.000 0.00 0.00 0.00 5.01
255 822 7.701539 ACATACTTAGCTCATAGATCTCCAG 57.298 40.000 0.00 0.00 0.00 3.86
290 857 6.431852 CACTCATATCATGTTATTGGCATCCA 59.568 38.462 0.00 0.00 0.00 3.41
448 1030 4.314522 TGGTTGAGATCCTTATTTGCCA 57.685 40.909 0.00 0.00 0.00 4.92
539 1223 7.636259 TGTGAAAATTACAAATTACTGCAGC 57.364 32.000 15.27 0.00 0.00 5.25
559 1734 6.991531 TGCAGCAAAAACTAAATCTCCATTTT 59.008 30.769 0.00 0.00 33.95 1.82
576 1751 7.840716 TCTCCATTTTGAAATCAATATCTGGGT 59.159 33.333 0.00 0.00 35.55 4.51
577 1752 9.135189 CTCCATTTTGAAATCAATATCTGGGTA 57.865 33.333 0.00 0.00 35.55 3.69
578 1753 9.659135 TCCATTTTGAAATCAATATCTGGGTAT 57.341 29.630 0.00 0.00 35.55 2.73
589 1764 8.441311 TCAATATCTGGGTATTGAAGCTATCT 57.559 34.615 12.26 0.00 44.07 1.98
590 1765 9.547279 TCAATATCTGGGTATTGAAGCTATCTA 57.453 33.333 12.26 0.00 44.07 1.98
624 1799 8.511604 TCATCTCTCCTTGATAAAAACAATCC 57.488 34.615 0.00 0.00 0.00 3.01
625 1800 8.331740 TCATCTCTCCTTGATAAAAACAATCCT 58.668 33.333 0.00 0.00 0.00 3.24
626 1801 8.964772 CATCTCTCCTTGATAAAAACAATCCTT 58.035 33.333 0.00 0.00 0.00 3.36
658 2859 7.671495 AAAATGGTGTAATTTGAAATGGAGC 57.329 32.000 0.00 0.00 30.21 4.70
661 2862 4.220382 TGGTGTAATTTGAAATGGAGCTGG 59.780 41.667 0.00 0.00 0.00 4.85
664 2865 6.071616 GGTGTAATTTGAAATGGAGCTGGTAA 60.072 38.462 0.00 0.00 0.00 2.85
665 2866 6.806739 GTGTAATTTGAAATGGAGCTGGTAAC 59.193 38.462 0.00 0.00 0.00 2.50
667 2868 2.507407 TGAAATGGAGCTGGTAACCC 57.493 50.000 0.00 0.00 0.00 4.11
669 2870 0.335019 AAATGGAGCTGGTAACCCCC 59.665 55.000 0.00 0.00 0.00 5.40
695 2896 2.895865 CTGCATGCGAGGCCTCTG 60.896 66.667 29.73 21.79 0.00 3.35
698 2899 2.203167 CATGCGAGGCCTCTGCAT 60.203 61.111 37.38 37.38 44.29 3.96
699 2900 2.110627 ATGCGAGGCCTCTGCATC 59.889 61.111 37.38 21.45 44.61 3.91
704 2905 3.318191 AGGCCTCTGCATCACTCC 58.682 61.111 0.00 0.00 40.13 3.85
705 2906 2.191641 GGCCTCTGCATCACTCCC 59.808 66.667 0.00 0.00 40.13 4.30
706 2907 2.202987 GCCTCTGCATCACTCCCG 60.203 66.667 0.00 0.00 37.47 5.14
707 2908 3.023949 GCCTCTGCATCACTCCCGT 62.024 63.158 0.00 0.00 37.47 5.28
708 2909 1.599047 CCTCTGCATCACTCCCGTT 59.401 57.895 0.00 0.00 0.00 4.44
709 2910 0.742281 CCTCTGCATCACTCCCGTTG 60.742 60.000 0.00 0.00 0.00 4.10
710 2911 0.742281 CTCTGCATCACTCCCGTTGG 60.742 60.000 0.00 0.00 0.00 3.77
711 2912 1.746615 CTGCATCACTCCCGTTGGG 60.747 63.158 0.00 0.00 46.11 4.12
712 2913 2.351276 GCATCACTCCCGTTGGGT 59.649 61.111 1.04 0.00 44.74 4.51
713 2914 1.303317 GCATCACTCCCGTTGGGTT 60.303 57.895 1.04 0.00 44.74 4.11
714 2915 0.035820 GCATCACTCCCGTTGGGTTA 60.036 55.000 1.04 0.00 44.74 2.85
715 2916 1.734163 CATCACTCCCGTTGGGTTAC 58.266 55.000 1.04 0.00 44.74 2.50
719 2920 1.375013 CTCCCGTTGGGTTACACCG 60.375 63.158 1.04 0.00 44.74 4.94
722 2923 3.416382 CGTTGGGTTACACCGGCG 61.416 66.667 0.00 0.00 39.83 6.46
723 2924 3.051479 GTTGGGTTACACCGGCGG 61.051 66.667 27.06 27.06 39.83 6.13
724 2925 3.558276 TTGGGTTACACCGGCGGT 61.558 61.111 28.83 28.83 39.83 5.68
741 2942 1.959848 GTGAAACCCTTGCAGAGGC 59.040 57.895 8.85 0.00 44.85 4.70
757 2958 4.247380 GCATCAGCCCCTCCCTCG 62.247 72.222 0.00 0.00 33.58 4.63
767 2968 4.787280 CTCCCTCGCCCCTCCACT 62.787 72.222 0.00 0.00 0.00 4.00
768 2969 3.352748 TCCCTCGCCCCTCCACTA 61.353 66.667 0.00 0.00 0.00 2.74
769 2970 2.122813 CCCTCGCCCCTCCACTAT 60.123 66.667 0.00 0.00 0.00 2.12
770 2971 2.210711 CCCTCGCCCCTCCACTATC 61.211 68.421 0.00 0.00 0.00 2.08
771 2972 1.152440 CCTCGCCCCTCCACTATCT 60.152 63.158 0.00 0.00 0.00 1.98
772 2973 0.112606 CCTCGCCCCTCCACTATCTA 59.887 60.000 0.00 0.00 0.00 1.98
774 2975 2.530701 CTCGCCCCTCCACTATCTAAT 58.469 52.381 0.00 0.00 0.00 1.73
775 2976 3.563697 CCTCGCCCCTCCACTATCTAATA 60.564 52.174 0.00 0.00 0.00 0.98
776 2977 3.697045 CTCGCCCCTCCACTATCTAATAG 59.303 52.174 0.00 0.00 38.81 1.73
777 2978 3.075582 TCGCCCCTCCACTATCTAATAGT 59.924 47.826 0.00 0.00 46.56 2.12
801 3147 0.032130 TCACGTCCAGCAACAGACTC 59.968 55.000 0.00 0.00 0.00 3.36
802 3148 0.249447 CACGTCCAGCAACAGACTCA 60.249 55.000 0.00 0.00 0.00 3.41
803 3149 0.032678 ACGTCCAGCAACAGACTCAG 59.967 55.000 0.00 0.00 0.00 3.35
810 3156 0.815213 GCAACAGACTCAGCCACACA 60.815 55.000 0.00 0.00 0.00 3.72
814 3160 0.669932 CAGACTCAGCCACACAGCTC 60.670 60.000 0.00 0.00 42.61 4.09
815 3161 1.117749 AGACTCAGCCACACAGCTCA 61.118 55.000 0.00 0.00 42.61 4.26
830 3176 3.008835 AGCTCATTCTTGCTGCCAATA 57.991 42.857 0.00 0.00 38.21 1.90
848 3194 5.920193 CAATAGTTGGAACATGGGAATGT 57.080 39.130 0.00 0.00 39.30 2.71
852 3198 4.419282 AGTTGGAACATGGGAATGTGATT 58.581 39.130 0.00 0.00 39.30 2.57
862 3208 2.547211 GGGAATGTGATTGCTCATCTCG 59.453 50.000 0.00 0.00 32.98 4.04
864 3210 3.247173 GGAATGTGATTGCTCATCTCGAC 59.753 47.826 0.00 0.00 32.98 4.20
867 3213 2.094752 TGTGATTGCTCATCTCGACGAA 60.095 45.455 0.00 0.00 32.98 3.85
891 3362 2.677524 TGGCATGCCACTGCTTCC 60.678 61.111 35.59 6.59 41.89 3.46
896 3367 1.151221 ATGCCACTGCTTCCACACA 59.849 52.632 0.00 0.00 38.71 3.72
900 3371 1.446907 CCACTGCTTCCACACATCTC 58.553 55.000 0.00 0.00 0.00 2.75
911 3382 7.071196 TGCTTCCACACATCTCTATAAATAGGT 59.929 37.037 0.00 0.00 0.00 3.08
915 3386 7.175119 TCCACACATCTCTATAAATAGGTCTCG 59.825 40.741 0.00 0.00 0.00 4.04
933 3404 1.204704 TCGGCAGAATGGTAGACACAG 59.795 52.381 0.00 0.00 35.86 3.66
950 11320 6.555315 AGACACAGCAAACTAAAAGTTTCTG 58.445 36.000 19.22 19.22 44.47 3.02
964 11350 4.535526 AGTTTCTGCTTTCTCCTCTCTC 57.464 45.455 0.00 0.00 0.00 3.20
979 11369 4.020218 TCCTCTCTCCAACCACAATACAAG 60.020 45.833 0.00 0.00 0.00 3.16
1007 11397 7.747155 AATCTTCAAGATCAGATATGGCTTG 57.253 36.000 0.00 13.98 32.89 4.01
1020 11417 0.991146 TGGCTTGCCACCTAAGATCA 59.009 50.000 10.65 0.00 0.00 2.92
1056 11453 4.492604 CCTCTAGCTAGCGAGGCT 57.507 61.111 22.62 1.74 40.27 4.58
1105 11502 1.209990 AGGCAAGCATCTCTTCCTCTG 59.790 52.381 0.00 0.00 31.20 3.35
1119 11516 0.538584 CCTCTGCTACCATCAGCACA 59.461 55.000 0.00 0.00 46.41 4.57
1182 11579 4.574013 GGTGTTGAAGAGATTATCTGCCTG 59.426 45.833 0.00 0.00 38.67 4.85
1331 11728 3.988976 AGATCTGCAAGTGGCTCTAAA 57.011 42.857 0.00 0.00 45.15 1.85
1391 11788 2.325583 TATACCCGCTTGGCAAAGAG 57.674 50.000 4.56 0.11 37.83 2.85
1435 11833 0.828762 ATGCAACAAGGCTGCTTCCA 60.829 50.000 0.00 0.00 40.59 3.53
1436 11834 0.828762 TGCAACAAGGCTGCTTCCAT 60.829 50.000 0.00 0.00 40.59 3.41
1437 11835 0.108945 GCAACAAGGCTGCTTCCATC 60.109 55.000 0.00 0.00 36.84 3.51
1620 16643 3.009473 AGGAGCAATTGCAGGAGTTAGAA 59.991 43.478 30.89 0.00 45.16 2.10
1676 21246 5.065731 GCCATCTGTTCAGGAAATTAGTCTG 59.934 44.000 0.00 0.00 0.00 3.51
1799 21382 4.264460 TGGTACAATTTTCCCAACATGC 57.736 40.909 0.00 0.00 31.92 4.06
1892 21481 4.915158 TGAAGATGTGTTTTGTGATGCA 57.085 36.364 0.00 0.00 0.00 3.96
1930 21519 6.320434 TGACAATTATGGTTGGTGGATCTA 57.680 37.500 0.00 0.00 33.40 1.98
1937 21526 1.373570 GTTGGTGGATCTAGCTGTGC 58.626 55.000 9.79 0.00 0.00 4.57
2093 21688 6.683974 ATTCTTGTTTCAGAACGGATATGG 57.316 37.500 0.00 0.00 38.65 2.74
2257 21853 2.029380 TCTGAGAAAGATTCGGTCGCAA 60.029 45.455 0.00 0.00 34.02 4.85
2305 21901 8.437360 TCGCTTGTTTTCATATCATTCTACAT 57.563 30.769 0.00 0.00 0.00 2.29
2306 21902 8.337532 TCGCTTGTTTTCATATCATTCTACATG 58.662 33.333 0.00 0.00 0.00 3.21
2307 21903 7.112565 CGCTTGTTTTCATATCATTCTACATGC 59.887 37.037 0.00 0.00 34.23 4.06
2308 21904 7.916977 GCTTGTTTTCATATCATTCTACATGCA 59.083 33.333 0.00 0.00 36.23 3.96
2309 21905 9.447040 CTTGTTTTCATATCATTCTACATGCAG 57.553 33.333 0.00 0.00 0.00 4.41
2330 21931 4.155099 CAGTAACGCCAATGGATGTTGTAA 59.845 41.667 17.05 0.00 0.00 2.41
2331 21932 4.762765 AGTAACGCCAATGGATGTTGTAAA 59.237 37.500 17.05 0.00 0.00 2.01
2424 22115 4.998979 GCAATTGCGCAACTTATTAGTC 57.001 40.909 27.64 4.94 31.99 2.59
2516 22219 0.796312 GCGCATCTTCCGTTTCTTCA 59.204 50.000 0.30 0.00 0.00 3.02
2564 22269 3.475566 TTCCTCTTTCCTCTGTGTGTG 57.524 47.619 0.00 0.00 0.00 3.82
2565 22270 2.398588 TCCTCTTTCCTCTGTGTGTGT 58.601 47.619 0.00 0.00 0.00 3.72
2566 22271 2.103094 TCCTCTTTCCTCTGTGTGTGTG 59.897 50.000 0.00 0.00 0.00 3.82
2651 22381 6.973229 TGAATACACAATCAGTCTGACATG 57.027 37.500 10.88 10.02 0.00 3.21
2652 22382 5.876460 TGAATACACAATCAGTCTGACATGG 59.124 40.000 17.41 10.98 0.00 3.66
2653 22383 5.682234 ATACACAATCAGTCTGACATGGA 57.318 39.130 17.41 9.02 0.00 3.41
2654 22384 4.356405 ACACAATCAGTCTGACATGGAA 57.644 40.909 17.41 0.00 0.00 3.53
2655 22385 4.914983 ACACAATCAGTCTGACATGGAAT 58.085 39.130 17.41 0.00 0.00 3.01
2657 22387 5.413833 ACACAATCAGTCTGACATGGAATTC 59.586 40.000 17.41 0.00 0.00 2.17
2658 22388 5.646793 CACAATCAGTCTGACATGGAATTCT 59.353 40.000 17.41 0.00 0.00 2.40
2659 22389 5.646793 ACAATCAGTCTGACATGGAATTCTG 59.353 40.000 17.41 0.00 0.00 3.02
2690 22431 4.098960 CCATGAGCAGCATCCAAACTAAAT 59.901 41.667 0.00 0.00 34.15 1.40
2699 22440 5.920273 AGCATCCAAACTAAATTGACAAACG 59.080 36.000 0.00 0.00 31.84 3.60
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
187 754 3.181490 GGATTAATTTCCGGAACAGGTGC 60.181 47.826 18.64 5.55 0.00 5.01
190 757 4.523083 TCTGGATTAATTTCCGGAACAGG 58.477 43.478 18.64 4.43 46.04 4.00
255 822 3.827008 TGATATGAGTGACAAGGCTCC 57.173 47.619 0.00 0.00 0.00 4.70
436 1018 6.267471 ACAAAACAAGATCTGGCAAATAAGGA 59.733 34.615 0.00 0.00 0.00 3.36
448 1030 7.283127 ACACTTCATGTACACAAAACAAGATCT 59.717 33.333 0.00 0.00 40.88 2.75
559 1734 8.000709 AGCTTCAATACCCAGATATTGATTTCA 58.999 33.333 8.58 0.00 46.12 2.69
564 1739 8.441311 AGATAGCTTCAATACCCAGATATTGA 57.559 34.615 0.00 4.48 45.53 2.57
598 1773 8.960591 GGATTGTTTTTATCAAGGAGAGATGAA 58.039 33.333 0.00 0.00 0.00 2.57
599 1774 8.331740 AGGATTGTTTTTATCAAGGAGAGATGA 58.668 33.333 0.00 0.00 0.00 2.92
600 1775 8.517062 AGGATTGTTTTTATCAAGGAGAGATG 57.483 34.615 0.00 0.00 0.00 2.90
603 1778 9.454859 ACTAAGGATTGTTTTTATCAAGGAGAG 57.545 33.333 0.00 0.00 0.00 3.20
604 1779 9.807921 AACTAAGGATTGTTTTTATCAAGGAGA 57.192 29.630 0.00 0.00 0.00 3.71
632 2833 9.213799 GCTCCATTTCAAATTACACCATTTTAA 57.786 29.630 0.00 0.00 0.00 1.52
634 2835 7.388500 CAGCTCCATTTCAAATTACACCATTTT 59.612 33.333 0.00 0.00 0.00 1.82
635 2836 6.875195 CAGCTCCATTTCAAATTACACCATTT 59.125 34.615 0.00 0.00 0.00 2.32
642 2843 6.330278 GGTTACCAGCTCCATTTCAAATTAC 58.670 40.000 0.00 0.00 0.00 1.89
647 2848 2.556559 GGGGTTACCAGCTCCATTTCAA 60.557 50.000 2.98 0.00 39.85 2.69
677 2878 4.172512 AGAGGCCTCGCATGCAGG 62.173 66.667 26.95 23.86 34.09 4.85
678 2879 2.895865 CAGAGGCCTCGCATGCAG 60.896 66.667 26.95 13.66 34.09 4.41
681 2882 2.203167 ATGCAGAGGCCTCGCATG 60.203 61.111 39.72 29.58 43.01 4.06
682 2883 2.110627 GATGCAGAGGCCTCGCAT 59.889 61.111 40.34 40.34 45.23 4.73
683 2884 3.393106 TGATGCAGAGGCCTCGCA 61.393 61.111 36.75 36.75 40.90 5.10
684 2885 2.894387 GTGATGCAGAGGCCTCGC 60.894 66.667 30.47 30.47 37.47 5.03
685 2886 1.227205 GAGTGATGCAGAGGCCTCG 60.227 63.158 26.95 21.40 37.47 4.63
686 2887 1.145819 GGAGTGATGCAGAGGCCTC 59.854 63.158 26.22 26.22 40.13 4.70
688 2889 2.191641 GGGAGTGATGCAGAGGCC 59.808 66.667 0.00 0.00 40.13 5.19
689 2890 2.202987 CGGGAGTGATGCAGAGGC 60.203 66.667 0.00 0.00 41.68 4.70
690 2891 0.742281 CAACGGGAGTGATGCAGAGG 60.742 60.000 0.00 0.00 46.69 3.69
691 2892 0.742281 CCAACGGGAGTGATGCAGAG 60.742 60.000 0.00 0.00 46.69 3.35
692 2893 1.296392 CCAACGGGAGTGATGCAGA 59.704 57.895 0.00 0.00 46.69 4.26
693 2894 3.895025 CCAACGGGAGTGATGCAG 58.105 61.111 0.00 0.00 46.69 4.41
719 2920 2.909965 TGCAAGGGTTTCACCGCC 60.910 61.111 0.00 0.00 39.83 6.13
722 2923 1.527433 GCCTCTGCAAGGGTTTCACC 61.527 60.000 14.32 0.00 46.32 4.02
723 2924 0.823356 TGCCTCTGCAAGGGTTTCAC 60.823 55.000 14.32 1.04 46.66 3.18
724 2925 1.536180 TGCCTCTGCAAGGGTTTCA 59.464 52.632 14.32 3.94 46.66 2.69
725 2926 4.500265 TGCCTCTGCAAGGGTTTC 57.500 55.556 14.32 1.87 46.66 2.78
741 2942 4.247380 GCGAGGGAGGGGCTGATG 62.247 72.222 0.00 0.00 0.00 3.07
750 2951 2.664835 ATAGTGGAGGGGCGAGGGAG 62.665 65.000 0.00 0.00 0.00 4.30
753 2954 0.112606 TAGATAGTGGAGGGGCGAGG 59.887 60.000 0.00 0.00 0.00 4.63
754 2955 1.996798 TTAGATAGTGGAGGGGCGAG 58.003 55.000 0.00 0.00 0.00 5.03
781 2982 0.032678 AGTCTGTTGCTGGACGTGAG 59.967 55.000 0.00 0.00 37.52 3.51
782 2983 0.032130 GAGTCTGTTGCTGGACGTGA 59.968 55.000 0.00 0.00 37.52 4.35
783 2984 0.249447 TGAGTCTGTTGCTGGACGTG 60.249 55.000 0.00 0.00 37.52 4.49
785 2986 1.287730 GCTGAGTCTGTTGCTGGACG 61.288 60.000 0.00 0.00 37.52 4.79
787 2988 1.372683 GGCTGAGTCTGTTGCTGGA 59.627 57.895 0.00 0.00 0.00 3.86
788 2989 1.071987 TGGCTGAGTCTGTTGCTGG 59.928 57.895 0.00 0.00 0.00 4.85
789 2990 0.533531 TGTGGCTGAGTCTGTTGCTG 60.534 55.000 0.00 0.00 0.00 4.41
790 2991 0.533755 GTGTGGCTGAGTCTGTTGCT 60.534 55.000 0.00 0.00 0.00 3.91
791 2992 0.815213 TGTGTGGCTGAGTCTGTTGC 60.815 55.000 0.00 0.00 0.00 4.17
792 2993 1.224075 CTGTGTGGCTGAGTCTGTTG 58.776 55.000 0.00 0.00 0.00 3.33
793 2994 0.533755 GCTGTGTGGCTGAGTCTGTT 60.534 55.000 0.00 0.00 0.00 3.16
794 2995 1.070445 GCTGTGTGGCTGAGTCTGT 59.930 57.895 0.00 0.00 0.00 3.41
801 3147 1.199327 CAAGAATGAGCTGTGTGGCTG 59.801 52.381 0.00 0.00 43.20 4.85
802 3148 1.531423 CAAGAATGAGCTGTGTGGCT 58.469 50.000 0.00 0.00 46.11 4.75
803 3149 0.109412 GCAAGAATGAGCTGTGTGGC 60.109 55.000 0.00 0.00 0.00 5.01
810 3156 1.848652 ATTGGCAGCAAGAATGAGCT 58.151 45.000 0.00 0.00 42.94 4.09
814 3160 3.777478 CCAACTATTGGCAGCAAGAATG 58.223 45.455 0.00 0.00 45.17 2.67
826 3172 5.418524 TCACATTCCCATGTTCCAACTATTG 59.581 40.000 0.00 0.00 41.16 1.90
827 3173 5.579047 TCACATTCCCATGTTCCAACTATT 58.421 37.500 0.00 0.00 41.16 1.73
830 3176 3.524095 TCACATTCCCATGTTCCAACT 57.476 42.857 0.00 0.00 41.16 3.16
842 3188 3.247173 GTCGAGATGAGCAATCACATTCC 59.753 47.826 0.00 0.00 37.81 3.01
843 3189 3.060674 CGTCGAGATGAGCAATCACATTC 60.061 47.826 0.00 0.00 37.81 2.67
847 3193 2.194800 TCGTCGAGATGAGCAATCAC 57.805 50.000 0.00 0.00 37.81 3.06
848 3194 2.939460 TTCGTCGAGATGAGCAATCA 57.061 45.000 0.00 0.00 37.81 2.57
852 3198 1.982612 CACTTTCGTCGAGATGAGCA 58.017 50.000 0.00 0.00 0.00 4.26
862 3208 3.317608 CATGCCATGCACTTTCGTC 57.682 52.632 0.00 0.00 43.04 4.20
877 3348 1.174078 TGTGTGGAAGCAGTGGCATG 61.174 55.000 0.00 0.00 44.61 4.06
882 3353 2.469274 AGAGATGTGTGGAAGCAGTG 57.531 50.000 0.00 0.00 0.00 3.66
890 3361 7.309177 CGAGACCTATTTATAGAGATGTGTGG 58.691 42.308 0.00 0.00 32.05 4.17
891 3362 7.309177 CCGAGACCTATTTATAGAGATGTGTG 58.691 42.308 0.00 0.00 32.05 3.82
896 3367 6.486056 TCTGCCGAGACCTATTTATAGAGAT 58.514 40.000 0.00 0.00 32.05 2.75
900 3371 6.102663 CCATTCTGCCGAGACCTATTTATAG 58.897 44.000 0.00 0.00 0.00 1.31
911 3382 1.476891 GTGTCTACCATTCTGCCGAGA 59.523 52.381 0.00 0.00 0.00 4.04
915 3386 1.339055 TGCTGTGTCTACCATTCTGCC 60.339 52.381 0.00 0.00 0.00 4.85
947 11317 2.564947 GTTGGAGAGAGGAGAAAGCAGA 59.435 50.000 0.00 0.00 0.00 4.26
950 11320 1.625818 TGGTTGGAGAGAGGAGAAAGC 59.374 52.381 0.00 0.00 0.00 3.51
964 11350 5.540911 AGATTTTGCTTGTATTGTGGTTGG 58.459 37.500 0.00 0.00 0.00 3.77
979 11369 6.862090 GCCATATCTGATCTTGAAGATTTTGC 59.138 38.462 9.35 0.00 34.53 3.68
1007 11397 4.798574 CAAACTTGTTGATCTTAGGTGGC 58.201 43.478 0.00 0.00 0.00 5.01
1043 11440 1.135139 CAACTTCAGCCTCGCTAGCTA 59.865 52.381 13.93 0.00 38.95 3.32
1044 11441 0.108424 CAACTTCAGCCTCGCTAGCT 60.108 55.000 13.93 0.00 42.70 3.32
1105 11502 2.086869 ACACATTGTGCTGATGGTAGC 58.913 47.619 16.62 0.00 43.95 3.58
1119 11516 1.434188 TCCTCAGACCACCACACATT 58.566 50.000 0.00 0.00 0.00 2.71
1127 11524 0.615331 TCCAAGCATCCTCAGACCAC 59.385 55.000 0.00 0.00 0.00 4.16
1182 11579 0.961753 AGCTAACTTGGTTGCTTGGC 59.038 50.000 0.00 0.00 30.35 4.52
1255 11652 0.844660 ATGGTGCTGCAGAGATCCAT 59.155 50.000 20.43 19.69 32.71 3.41
1331 11728 1.747355 CGGCTGCATCATCTCCTTTTT 59.253 47.619 0.50 0.00 0.00 1.94
1391 11788 6.016276 TGTCTTCTTGAAATGTTTCTTAGCCC 60.016 38.462 6.99 0.00 38.02 5.19
1435 11833 3.461085 ACCATTCCATACTCTGCCTTGAT 59.539 43.478 0.00 0.00 0.00 2.57
1436 11834 2.846206 ACCATTCCATACTCTGCCTTGA 59.154 45.455 0.00 0.00 0.00 3.02
1437 11835 3.209410 GACCATTCCATACTCTGCCTTG 58.791 50.000 0.00 0.00 0.00 3.61
1620 16643 4.229639 TCTCAAGATCTCCCATACTGCAT 58.770 43.478 0.00 0.00 0.00 3.96
1676 21246 5.855045 TGTTAAGGAGAGAAACTCTGTTCC 58.145 41.667 6.00 2.30 41.35 3.62
1695 21265 9.026121 GGGAGTATCTATGAGCTAAGAATGTTA 57.974 37.037 0.00 0.00 33.73 2.41
1930 21519 3.426159 GCATGTTTAATGTACGCACAGCT 60.426 43.478 0.00 0.00 38.30 4.24
1937 21526 3.242284 CGACCTGGCATGTTTAATGTACG 60.242 47.826 0.00 0.00 0.00 3.67
2143 21738 6.874134 GGCTCTGGATTCGTAATAATGTACAT 59.126 38.462 1.41 1.41 0.00 2.29
2257 21853 4.584327 ATTTGACGCCTGCTAAAGTTTT 57.416 36.364 0.00 0.00 0.00 2.43
2305 21901 1.093972 CATCCATTGGCGTTACTGCA 58.906 50.000 0.00 0.00 36.28 4.41
2306 21902 1.094785 ACATCCATTGGCGTTACTGC 58.905 50.000 0.00 0.00 0.00 4.40
2307 21903 2.487762 ACAACATCCATTGGCGTTACTG 59.512 45.455 9.24 3.10 33.63 2.74
2308 21904 2.790433 ACAACATCCATTGGCGTTACT 58.210 42.857 9.24 0.00 33.63 2.24
2309 21905 4.688511 TTACAACATCCATTGGCGTTAC 57.311 40.909 9.24 0.00 33.63 2.50
2331 21932 9.956640 AGACATCTCTTCTTTCTTGTTTATCAT 57.043 29.630 0.00 0.00 0.00 2.45
2352 21953 4.158025 CGTGAGTACTTGTAAGGGAGACAT 59.842 45.833 0.00 0.00 0.00 3.06
2424 22115 1.102222 CCTCTACTCCCCGACCTTCG 61.102 65.000 0.00 0.00 40.07 3.79
2584 22314 2.886523 CTGGCCTCATCAAAACACAGAA 59.113 45.455 3.32 0.00 0.00 3.02
2651 22381 0.181350 ATGGGCCGAGTCAGAATTCC 59.819 55.000 0.65 0.00 0.00 3.01
2652 22382 1.134401 TCATGGGCCGAGTCAGAATTC 60.134 52.381 0.00 0.00 0.00 2.17
2653 22383 0.911769 TCATGGGCCGAGTCAGAATT 59.088 50.000 0.00 0.00 0.00 2.17
2654 22384 0.467384 CTCATGGGCCGAGTCAGAAT 59.533 55.000 0.00 0.00 0.00 2.40
2655 22385 1.900351 CTCATGGGCCGAGTCAGAA 59.100 57.895 0.00 0.00 0.00 3.02
2657 22387 2.202987 GCTCATGGGCCGAGTCAG 60.203 66.667 6.18 0.00 32.83 3.51
2658 22388 3.002583 TGCTCATGGGCCGAGTCA 61.003 61.111 16.70 0.00 32.83 3.41
2659 22389 2.202987 CTGCTCATGGGCCGAGTC 60.203 66.667 16.70 3.89 32.83 3.36
2690 22431 3.127721 TGCTTGTTCATGTCGTTTGTCAA 59.872 39.130 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.