Multiple sequence alignment - TraesCS2B01G537400

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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 TraesCS2B01G537400 chr2B 100.000 2300 0 0 1 2300 732840826 732838527 0.000000e+00 4248
1 TraesCS2B01G537400 chr2A 90.762 1364 93 17 1 1341 735091430 735090077 0.000000e+00 1790
2 TraesCS2B01G537400 chr2A 86.184 152 7 6 1714 1851 735063596 735063445 3.960000e-33 152
3 TraesCS2B01G537400 chr2D 88.421 760 52 16 795 1533 602636307 602635563 0.000000e+00 883
4 TraesCS2B01G537400 chr2D 87.573 684 57 14 1 680 602637101 602636442 0.000000e+00 767
5 TraesCS2B01G537400 chr2D 88.511 618 50 6 1695 2300 602620664 602620056 0.000000e+00 728
6 TraesCS2B01G537400 chr2D 90.000 90 7 2 1613 1700 602634490 602634401 5.190000e-22 115
7 TraesCS2B01G537400 chrUn 88.915 433 45 3 1869 2300 33061530 33061100 4.350000e-147 531
8 TraesCS2B01G537400 chr3B 87.872 437 50 3 1865 2300 750415600 750415166 5.670000e-141 510
9 TraesCS2B01G537400 chr3B 87.500 432 51 3 1870 2300 25481808 25481379 1.590000e-136 496
10 TraesCS2B01G537400 chr7D 87.760 433 48 5 1870 2300 462140089 462139660 3.410000e-138 501
11 TraesCS2B01G537400 chr3D 87.731 432 50 3 1870 2300 15102980 15103409 3.410000e-138 501
12 TraesCS2B01G537400 chr3D 87.731 432 50 3 1870 2300 373997772 373998201 3.410000e-138 501
13 TraesCS2B01G537400 chr3D 87.356 435 52 3 1867 2300 105688220 105687788 1.590000e-136 496
14 TraesCS2B01G537400 chr7B 87.097 434 53 3 1868 2300 93650363 93649932 2.660000e-134 488


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 TraesCS2B01G537400 chr2B 732838527 732840826 2299 True 4248.000000 4248 100.000000 1 2300 1 chr2B.!!$R1 2299
1 TraesCS2B01G537400 chr2A 735090077 735091430 1353 True 1790.000000 1790 90.762000 1 1341 1 chr2A.!!$R2 1340
2 TraesCS2B01G537400 chr2D 602620056 602620664 608 True 728.000000 728 88.511000 1695 2300 1 chr2D.!!$R1 605
3 TraesCS2B01G537400 chr2D 602634401 602637101 2700 True 588.333333 883 88.664667 1 1700 3 chr2D.!!$R2 1699

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
277 280 0.60864 ACACTAGGCAAACCTCGAGG 59.391 55.0 30.11 30.11 46.34 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2133 3282 0.538057 CTGCAAAGGCTGAGGGACAA 60.538 55.0 0.0 0.0 41.06 3.18 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
235 238 5.414144 TCGACAAAGATGCATCATTACCAAA 59.586 36.000 27.81 5.79 0.00 3.28
277 280 0.608640 ACACTAGGCAAACCTCGAGG 59.391 55.000 30.11 30.11 46.34 4.63
340 343 3.367932 ACTCGACAATGACTATGTTTGCG 59.632 43.478 0.00 0.00 0.00 4.85
392 395 3.305744 GGCAAAGAAGCATTTTCCCGTAA 60.306 43.478 0.00 0.00 35.83 3.18
394 397 5.393678 GGCAAAGAAGCATTTTCCCGTAATA 60.394 40.000 0.00 0.00 35.83 0.98
490 496 8.007821 AGAACATCGTAGAAACATATAATGCG 57.992 34.615 0.00 0.00 43.58 4.73
536 543 3.131577 ACGTTGAGGTCTGTCTTTGTACA 59.868 43.478 0.00 0.00 0.00 2.90
541 548 3.926616 AGGTCTGTCTTTGTACATTCGG 58.073 45.455 0.00 0.00 0.00 4.30
672 679 7.277760 GGCATTGTATAATTTCAGGGTCAAAAC 59.722 37.037 0.00 0.00 0.00 2.43
684 806 7.120923 TCAGGGTCAAAACTGGTACTATATC 57.879 40.000 0.00 0.00 35.47 1.63
727 849 7.719483 ACATAATCAACCAATCCTATTTGCAG 58.281 34.615 0.00 0.00 0.00 4.41
735 857 4.576463 CCAATCCTATTTGCAGGTACTCAC 59.424 45.833 0.00 0.00 34.60 3.51
787 909 5.929415 GCTAAGCTAGTCATCCTTATCCAAC 59.071 44.000 0.00 0.00 0.00 3.77
788 910 6.239458 GCTAAGCTAGTCATCCTTATCCAACT 60.239 42.308 0.00 0.00 0.00 3.16
790 912 7.676683 AAGCTAGTCATCCTTATCCAACTAA 57.323 36.000 0.00 0.00 0.00 2.24
791 913 7.056844 AGCTAGTCATCCTTATCCAACTAAC 57.943 40.000 0.00 0.00 0.00 2.34
837 959 5.211201 GCATATTATAATCCCAGGGCCAAT 58.789 41.667 6.18 0.00 0.00 3.16
839 961 6.265422 GCATATTATAATCCCAGGGCCAATAC 59.735 42.308 6.18 0.00 0.00 1.89
861 983 9.753674 AATACTGGTACCATATTTAATGGATGG 57.246 33.333 16.75 5.46 44.84 3.51
903 1025 1.279271 GAAGGAGTAAAGGCTGCCTGA 59.721 52.381 24.16 10.95 32.13 3.86
904 1026 1.589414 AGGAGTAAAGGCTGCCTGAT 58.411 50.000 24.16 16.78 32.13 2.90
908 1047 4.166919 AGGAGTAAAGGCTGCCTGATTATT 59.833 41.667 24.16 14.40 32.13 1.40
922 1061 5.461526 CCTGATTATTAATCTGAGCGACGA 58.538 41.667 19.32 0.00 38.64 4.20
927 1066 6.399459 GATTATTAATCTGAGCGACGAGCTTG 60.399 42.308 11.00 0.00 44.74 4.01
961 1100 3.788227 TGCCATACAAACTTGAGAGGT 57.212 42.857 0.00 0.00 0.00 3.85
968 1107 6.183360 CCATACAAACTTGAGAGGTTTTGTGT 60.183 38.462 8.45 0.08 35.09 3.72
969 1108 5.059404 ACAAACTTGAGAGGTTTTGTGTG 57.941 39.130 0.00 0.00 35.09 3.82
981 1120 5.941788 AGGTTTTGTGTGTTTAGAGAGGAT 58.058 37.500 0.00 0.00 0.00 3.24
990 1129 4.997395 GTGTTTAGAGAGGATTTGCAGTCA 59.003 41.667 3.94 0.00 0.00 3.41
996 1135 5.507637 AGAGAGGATTTGCAGTCATCAAAT 58.492 37.500 15.22 1.14 44.19 2.32
1127 1266 2.154462 CAATCCAGCGGTCAAGAAAGT 58.846 47.619 0.00 0.00 0.00 2.66
1176 1318 4.082523 CTCCGGGCGCAAGAAGGA 62.083 66.667 10.83 9.01 43.02 3.36
1188 1330 1.487976 CAAGAAGGATGCCTCTGCCTA 59.512 52.381 0.00 0.00 36.33 3.93
1378 1520 2.171003 ACATGCCCCTAGTTTGCTTTC 58.829 47.619 0.00 0.00 0.00 2.62
1384 1527 3.440522 GCCCCTAGTTTGCTTTCTTAGTG 59.559 47.826 0.00 0.00 0.00 2.74
1398 1541 8.682710 TGCTTTCTTAGTGTGTTGTCTTTTAAT 58.317 29.630 0.00 0.00 0.00 1.40
1484 1627 4.021544 TCATCTATTTTGTGGTTTGTGGGC 60.022 41.667 0.00 0.00 0.00 5.36
1507 1650 2.093764 CCCTTTGCCTTTGTGTTGACAA 60.094 45.455 0.00 0.00 40.45 3.18
1510 1653 1.846007 TGCCTTTGTGTTGACAAGGT 58.154 45.000 0.00 0.00 43.03 3.50
1521 1664 6.358178 TGTGTTGACAAGGTTTTGGTATAGA 58.642 36.000 0.00 0.00 38.66 1.98
1525 1668 8.356657 TGTTGACAAGGTTTTGGTATAGATTTG 58.643 33.333 0.00 0.00 38.66 2.32
1534 1677 9.135843 GGTTTTGGTATAGATTTGTGTTTTAGC 57.864 33.333 0.00 0.00 0.00 3.09
1535 1678 9.135843 GTTTTGGTATAGATTTGTGTTTTAGCC 57.864 33.333 0.00 0.00 0.00 3.93
1536 1679 8.410673 TTTGGTATAGATTTGTGTTTTAGCCA 57.589 30.769 0.00 0.00 0.00 4.75
1537 1680 7.385778 TGGTATAGATTTGTGTTTTAGCCAC 57.614 36.000 0.00 0.00 0.00 5.01
1538 1681 7.172342 TGGTATAGATTTGTGTTTTAGCCACT 58.828 34.615 0.00 0.00 33.92 4.00
1539 1682 7.668052 TGGTATAGATTTGTGTTTTAGCCACTT 59.332 33.333 0.00 0.00 33.92 3.16
1560 2648 0.394216 TGTGTTGAGTGCCACTGCTT 60.394 50.000 0.00 0.00 38.71 3.91
1564 2652 2.618241 TGTTGAGTGCCACTGCTTTTAG 59.382 45.455 0.00 0.00 38.71 1.85
1566 2654 1.142870 TGAGTGCCACTGCTTTTAGGT 59.857 47.619 0.00 0.00 38.71 3.08
1586 2704 0.034896 ACGTGACCATGGGACTTCAC 59.965 55.000 18.09 18.49 35.93 3.18
1590 2708 0.605319 GACCATGGGACTTCACGCAA 60.605 55.000 18.09 0.00 36.41 4.85
1591 2709 0.889186 ACCATGGGACTTCACGCAAC 60.889 55.000 18.09 0.00 36.41 4.17
1600 2718 3.485743 GGACTTCACGCAACAAAAATCAC 59.514 43.478 0.00 0.00 0.00 3.06
1601 2719 3.443976 ACTTCACGCAACAAAAATCACC 58.556 40.909 0.00 0.00 0.00 4.02
1602 2720 2.500509 TCACGCAACAAAAATCACCC 57.499 45.000 0.00 0.00 0.00 4.61
1603 2721 1.067821 TCACGCAACAAAAATCACCCC 59.932 47.619 0.00 0.00 0.00 4.95
1605 2723 0.665972 CGCAACAAAAATCACCCCGG 60.666 55.000 0.00 0.00 0.00 5.73
1615 2733 4.740822 CACCCCGGGCCCTCAAAG 62.741 72.222 22.43 2.86 0.00 2.77
1620 2756 1.532604 CCCGGGCCCTCAAAGAAAAC 61.533 60.000 22.43 0.00 0.00 2.43
1625 2761 3.257127 CGGGCCCTCAAAGAAAACAATTA 59.743 43.478 22.43 0.00 0.00 1.40
1676 2813 7.964604 TCTGATGATGCTTTATTCATCTCTG 57.035 36.000 12.56 5.24 40.59 3.35
1684 2821 4.880696 GCTTTATTCATCTCTGTCCTTGCT 59.119 41.667 0.00 0.00 0.00 3.91
1697 2834 1.004277 TCCTTGCTATTTTGCCCGTCT 59.996 47.619 0.00 0.00 0.00 4.18
1707 2844 0.037326 TTGCCCGTCTTGCTCACTAG 60.037 55.000 0.00 0.00 0.00 2.57
1710 2847 1.469423 GCCCGTCTTGCTCACTAGTAC 60.469 57.143 0.00 0.00 0.00 2.73
1711 2848 2.093106 CCCGTCTTGCTCACTAGTACT 58.907 52.381 0.00 0.00 0.00 2.73
1712 2849 3.276857 CCCGTCTTGCTCACTAGTACTA 58.723 50.000 1.89 1.89 0.00 1.82
1716 2853 5.583854 CCGTCTTGCTCACTAGTACTAACTA 59.416 44.000 3.76 0.00 37.15 2.24
1717 2854 6.260493 CCGTCTTGCTCACTAGTACTAACTAT 59.740 42.308 3.76 0.00 37.57 2.12
1775 2917 2.100197 TCGAACTCCCTGTATCACCTG 58.900 52.381 0.00 0.00 0.00 4.00
1779 2921 0.747255 CTCCCTGTATCACCTGGACG 59.253 60.000 0.00 0.00 0.00 4.79
1801 2943 0.957888 GAAGCTCAAAGCCTCGCCTT 60.958 55.000 0.00 0.00 43.77 4.35
1802 2944 1.239968 AAGCTCAAAGCCTCGCCTTG 61.240 55.000 0.00 0.00 43.77 3.61
1803 2945 1.672356 GCTCAAAGCCTCGCCTTGA 60.672 57.895 0.00 0.00 36.76 3.02
1841 2990 0.952010 GCTTCCTCGCCAACGGTAAA 60.952 55.000 0.00 0.00 40.63 2.01
1930 3079 7.592938 TCAAGGTAATACAACTGCATTGAAAG 58.407 34.615 13.53 0.00 41.23 2.62
1934 3083 9.461312 AGGTAATACAACTGCATTGAAAGAATA 57.539 29.630 13.53 0.00 41.23 1.75
1937 3086 7.944729 ATACAACTGCATTGAAAGAATACCT 57.055 32.000 13.53 0.00 41.23 3.08
1938 3087 6.017400 ACAACTGCATTGAAAGAATACCTG 57.983 37.500 13.53 0.00 41.23 4.00
1939 3088 5.769662 ACAACTGCATTGAAAGAATACCTGA 59.230 36.000 13.53 0.00 41.23 3.86
1954 3103 1.948138 CTGACCTCTGCATAGCGCG 60.948 63.158 0.00 0.00 46.97 6.86
1982 3131 3.056891 CACAACCAACAAGTCCAACAAGT 60.057 43.478 0.00 0.00 0.00 3.16
1983 3132 3.576550 ACAACCAACAAGTCCAACAAGTT 59.423 39.130 0.00 0.00 0.00 2.66
1985 3134 5.244178 ACAACCAACAAGTCCAACAAGTTTA 59.756 36.000 0.00 0.00 0.00 2.01
1990 3139 7.880713 ACCAACAAGTCCAACAAGTTTAAAAAT 59.119 29.630 0.00 0.00 0.00 1.82
2037 3186 0.909610 TCAGTCAAGCCTAGGTGGGG 60.910 60.000 11.31 0.00 36.00 4.96
2050 3199 4.603610 CCTAGGTGGGGAAAATCCTATCAT 59.396 45.833 0.00 0.00 36.57 2.45
2058 3207 7.391833 GTGGGGAAAATCCTATCATGAGATTAC 59.608 40.741 8.60 6.82 36.57 1.89
2063 3212 6.672266 AATCCTATCATGAGATTACACCGT 57.328 37.500 0.09 0.00 35.67 4.83
2071 3220 4.753516 TGAGATTACACCGTCATCCATT 57.246 40.909 0.00 0.00 0.00 3.16
2093 3242 3.312736 TGGAAGAAAATATCCCTGGCC 57.687 47.619 0.00 0.00 34.68 5.36
2101 3250 1.362224 ATATCCCTGGCCGTATGCTT 58.638 50.000 0.00 0.00 40.92 3.91
2106 3255 2.511373 TGGCCGTATGCTTCAGCG 60.511 61.111 0.00 0.00 45.83 5.18
2115 3264 0.608130 ATGCTTCAGCGGTGTAGACA 59.392 50.000 23.14 19.07 45.83 3.41
2120 3269 3.525537 CTTCAGCGGTGTAGACATCATT 58.474 45.455 15.23 0.00 0.00 2.57
2142 3291 8.167392 TCATTATAAAAAGGTCTTTGTCCCTCA 58.833 33.333 0.00 0.00 32.36 3.86
2166 3315 1.128200 TTGCAGGATAGGCCACGTAT 58.872 50.000 5.01 0.00 40.02 3.06
2167 3316 0.392706 TGCAGGATAGGCCACGTATG 59.607 55.000 5.01 0.00 40.02 2.39
2202 3351 1.739466 ACGCATGAATAACCTGCACAG 59.261 47.619 0.00 0.00 39.49 3.66
2243 3392 9.703892 TTATTGTTAAAAACCACATCATTCCTG 57.296 29.630 0.00 0.00 0.00 3.86
2244 3393 6.095432 TGTTAAAAACCACATCATTCCTGG 57.905 37.500 0.00 0.00 0.00 4.45
2248 3397 6.739331 AAAAACCACATCATTCCTGGTAAA 57.261 33.333 0.00 0.00 37.30 2.01
2262 3411 1.689273 TGGTAAACCACAATGCCCAAC 59.311 47.619 0.00 0.00 42.01 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
235 238 4.918810 ACACTCGGAAAAAGAAAAGCAT 57.081 36.364 0.00 0.00 0.00 3.79
340 343 1.749258 GTCTTCCCACGGGCATTCC 60.749 63.158 0.00 0.00 34.68 3.01
490 496 8.788813 CGTGAACATGAGCACTATTTATTTTTC 58.211 33.333 16.46 0.00 32.98 2.29
502 508 1.195448 CCTCAACGTGAACATGAGCAC 59.805 52.381 8.40 6.17 39.36 4.40
506 512 2.102420 ACAGACCTCAACGTGAACATGA 59.898 45.455 0.00 0.00 0.00 3.07
651 658 7.007723 ACCAGTTTTGACCCTGAAATTATACA 58.992 34.615 0.00 0.00 0.00 2.29
706 828 5.025453 ACCTGCAAATAGGATTGGTTGATT 58.975 37.500 0.00 0.00 40.42 2.57
708 830 4.046286 ACCTGCAAATAGGATTGGTTGA 57.954 40.909 0.00 0.00 40.42 3.18
710 832 5.193099 AGTACCTGCAAATAGGATTGGTT 57.807 39.130 0.00 0.00 40.42 3.67
743 865 2.703416 CTGAGCACCTGCATTACTCAA 58.297 47.619 9.32 0.00 45.16 3.02
744 866 1.676916 GCTGAGCACCTGCATTACTCA 60.677 52.381 0.00 8.14 45.16 3.41
745 867 1.012841 GCTGAGCACCTGCATTACTC 58.987 55.000 0.00 0.00 45.16 2.59
753 875 1.480137 ACTAGCTTAGCTGAGCACCTG 59.520 52.381 29.73 18.35 45.12 4.00
758 880 2.627699 AGGATGACTAGCTTAGCTGAGC 59.372 50.000 22.18 22.18 40.10 4.26
790 912 8.037758 TGCCAAATTACATTTCGATTAATTGGT 58.962 29.630 2.78 0.00 0.00 3.67
791 913 8.417780 TGCCAAATTACATTTCGATTAATTGG 57.582 30.769 2.78 0.00 0.00 3.16
819 941 4.044065 CCAGTATTGGCCCTGGGATTATAA 59.956 45.833 19.27 3.49 43.74 0.98
837 959 8.513139 TCCATCCATTAAATATGGTACCAGTA 57.487 34.615 21.41 12.78 40.88 2.74
839 961 8.704849 TTTCCATCCATTAAATATGGTACCAG 57.295 34.615 21.41 3.57 40.88 4.00
882 1004 0.250513 AGGCAGCCTTTACTCCTTCG 59.749 55.000 8.70 0.00 0.00 3.79
894 1016 4.155644 GCTCAGATTAATAATCAGGCAGCC 59.844 45.833 14.63 1.84 40.42 4.85
895 1017 4.142945 CGCTCAGATTAATAATCAGGCAGC 60.143 45.833 14.63 13.03 40.42 5.25
922 1061 2.508526 CAAGGTAAGTGAAGCCAAGCT 58.491 47.619 0.00 0.00 42.56 3.74
927 1066 1.839424 ATGGCAAGGTAAGTGAAGCC 58.161 50.000 0.00 0.00 42.32 4.35
961 1100 6.096141 TGCAAATCCTCTCTAAACACACAAAA 59.904 34.615 0.00 0.00 0.00 2.44
968 1107 5.227569 TGACTGCAAATCCTCTCTAAACA 57.772 39.130 0.00 0.00 0.00 2.83
969 1108 5.877012 TGATGACTGCAAATCCTCTCTAAAC 59.123 40.000 0.00 0.00 0.00 2.01
981 1120 5.361571 AGCCATGATATTTGATGACTGCAAA 59.638 36.000 0.00 0.00 39.31 3.68
990 1129 6.236409 CACTGTCCTAGCCATGATATTTGAT 58.764 40.000 0.00 0.00 0.00 2.57
996 1135 1.694150 GCCACTGTCCTAGCCATGATA 59.306 52.381 0.00 0.00 0.00 2.15
1070 1209 3.009115 GGGGGCACTGTGGCTCTA 61.009 66.667 29.87 0.00 43.83 2.43
1176 1318 1.770658 TGCAAGTATAGGCAGAGGCAT 59.229 47.619 0.00 0.00 43.71 4.40
1188 1330 1.112113 ACCTCGGATCGTGCAAGTAT 58.888 50.000 0.00 0.00 0.00 2.12
1234 1376 1.648467 GAGGTGATTGTCTTGCCGGC 61.648 60.000 22.73 22.73 0.00 6.13
1455 1598 9.689976 CACAAACCACAAAATAGATGAACAATA 57.310 29.630 0.00 0.00 0.00 1.90
1484 1627 1.480137 TCAACACAAAGGCAAAGGGTG 59.520 47.619 0.00 0.00 35.66 4.61
1492 1635 2.959507 AACCTTGTCAACACAAAGGC 57.040 45.000 0.62 0.00 42.13 4.35
1510 1653 8.861086 TGGCTAAAACACAAATCTATACCAAAA 58.139 29.630 0.00 0.00 0.00 2.44
1535 1678 6.607977 GCAGTGGCACTCAACACATAAGTG 62.608 50.000 19.13 3.65 45.19 3.16
1536 1679 3.141398 CAGTGGCACTCAACACATAAGT 58.859 45.455 19.13 0.00 39.99 2.24
1537 1680 2.095567 GCAGTGGCACTCAACACATAAG 60.096 50.000 19.13 3.42 39.99 1.73
1538 1681 1.879380 GCAGTGGCACTCAACACATAA 59.121 47.619 19.13 0.00 39.99 1.90
1539 1682 1.072173 AGCAGTGGCACTCAACACATA 59.928 47.619 19.13 0.00 44.61 2.29
1566 2654 1.274167 GTGAAGTCCCATGGTCACGTA 59.726 52.381 15.22 0.79 31.84 3.57
1575 2663 1.686355 TTTGTTGCGTGAAGTCCCAT 58.314 45.000 0.00 0.00 0.00 4.00
1580 2668 3.443976 GGTGATTTTTGTTGCGTGAAGT 58.556 40.909 0.00 0.00 0.00 3.01
1581 2669 2.794350 GGGTGATTTTTGTTGCGTGAAG 59.206 45.455 0.00 0.00 0.00 3.02
1582 2670 2.482142 GGGGTGATTTTTGTTGCGTGAA 60.482 45.455 0.00 0.00 0.00 3.18
1583 2671 1.067821 GGGGTGATTTTTGTTGCGTGA 59.932 47.619 0.00 0.00 0.00 4.35
1586 2704 0.665972 CCGGGGTGATTTTTGTTGCG 60.666 55.000 0.00 0.00 0.00 4.85
1590 2708 1.911269 GGCCCGGGGTGATTTTTGT 60.911 57.895 25.28 0.00 0.00 2.83
1591 2709 2.655073 GGGCCCGGGGTGATTTTTG 61.655 63.158 25.28 0.00 0.00 2.44
1600 2718 2.723464 TTTTCTTTGAGGGCCCGGGG 62.723 60.000 25.28 9.31 0.00 5.73
1601 2719 1.228737 TTTTCTTTGAGGGCCCGGG 60.229 57.895 19.09 19.09 0.00 5.73
1602 2720 0.825840 TGTTTTCTTTGAGGGCCCGG 60.826 55.000 18.44 5.76 0.00 5.73
1603 2721 1.036707 TTGTTTTCTTTGAGGGCCCG 58.963 50.000 18.44 0.58 0.00 6.13
1605 2723 4.631377 GCATAATTGTTTTCTTTGAGGGCC 59.369 41.667 0.00 0.00 0.00 5.80
1612 2730 8.907222 ACTCCAAATGCATAATTGTTTTCTTT 57.093 26.923 0.00 0.00 0.00 2.52
1614 2732 8.907222 AAACTCCAAATGCATAATTGTTTTCT 57.093 26.923 0.00 0.00 0.00 2.52
1615 2733 8.992073 AGAAACTCCAAATGCATAATTGTTTTC 58.008 29.630 0.00 9.91 0.00 2.29
1620 2756 7.277098 CCAGAAGAAACTCCAAATGCATAATTG 59.723 37.037 0.00 1.30 0.00 2.32
1625 2761 4.410099 TCCAGAAGAAACTCCAAATGCAT 58.590 39.130 0.00 0.00 0.00 3.96
1659 2795 5.298777 GCAAGGACAGAGATGAATAAAGCAT 59.701 40.000 0.00 0.00 0.00 3.79
1676 2813 1.132453 GACGGGCAAAATAGCAAGGAC 59.868 52.381 0.00 0.00 35.83 3.85
1684 2821 1.810151 GTGAGCAAGACGGGCAAAATA 59.190 47.619 0.00 0.00 0.00 1.40
1707 2844 7.309073 GGTGGGCTCATACAGTATAGTTAGTAC 60.309 44.444 0.00 0.00 0.00 2.73
1710 2847 5.775701 AGGTGGGCTCATACAGTATAGTTAG 59.224 44.000 0.00 0.00 0.00 2.34
1711 2848 5.712752 AGGTGGGCTCATACAGTATAGTTA 58.287 41.667 0.00 0.00 0.00 2.24
1712 2849 4.557705 AGGTGGGCTCATACAGTATAGTT 58.442 43.478 0.00 0.00 0.00 2.24
1716 2853 2.090494 AGGAGGTGGGCTCATACAGTAT 60.090 50.000 0.00 0.00 0.00 2.12
1717 2854 1.291033 AGGAGGTGGGCTCATACAGTA 59.709 52.381 0.00 0.00 0.00 2.74
1724 2861 3.615811 AGGGAGGAGGTGGGCTCA 61.616 66.667 0.00 0.00 0.00 4.26
1775 2917 1.578206 GGCTTTGAGCTTCACCGTCC 61.578 60.000 0.00 0.00 41.99 4.79
1779 2921 1.916697 GCGAGGCTTTGAGCTTCACC 61.917 60.000 11.74 0.00 46.33 4.02
1801 2943 1.451927 GCTCGATGGGCCATTGTCA 60.452 57.895 28.81 13.28 0.00 3.58
1802 2944 0.749454 AAGCTCGATGGGCCATTGTC 60.749 55.000 28.81 21.76 0.00 3.18
1803 2945 1.033746 CAAGCTCGATGGGCCATTGT 61.034 55.000 28.81 11.13 0.00 2.71
1930 3079 3.658709 GCTATGCAGAGGTCAGGTATTC 58.341 50.000 10.92 0.00 0.00 1.75
1934 3083 1.819229 CGCTATGCAGAGGTCAGGT 59.181 57.895 10.92 0.00 0.00 4.00
1937 3086 1.738346 ATCGCGCTATGCAGAGGTCA 61.738 55.000 10.92 0.00 46.97 4.02
1938 3087 1.006805 ATCGCGCTATGCAGAGGTC 60.007 57.895 10.92 0.00 46.97 3.85
1939 3088 1.300465 CATCGCGCTATGCAGAGGT 60.300 57.895 10.92 0.00 46.97 3.85
1954 3103 2.543653 GGACTTGTTGGTTGTGTGCATC 60.544 50.000 0.00 0.00 0.00 3.91
1964 3113 5.986501 TTAAACTTGTTGGACTTGTTGGT 57.013 34.783 0.00 0.00 0.00 3.67
2008 3157 7.756722 CACCTAGGCTTGACTGATTTATTTTTG 59.243 37.037 9.30 0.00 0.00 2.44
2013 3162 4.141390 CCCACCTAGGCTTGACTGATTTAT 60.141 45.833 9.30 0.00 35.39 1.40
2037 3186 7.657761 ACGGTGTAATCTCATGATAGGATTTTC 59.342 37.037 12.38 8.23 32.78 2.29
2050 3199 4.753516 AATGGATGACGGTGTAATCTCA 57.246 40.909 0.00 0.00 0.00 3.27
2071 3220 4.030216 GGCCAGGGATATTTTCTTCCAAA 58.970 43.478 0.00 0.00 33.43 3.28
2076 3225 4.398319 CATACGGCCAGGGATATTTTCTT 58.602 43.478 2.24 0.00 0.00 2.52
2093 3242 1.200483 CTACACCGCTGAAGCATACG 58.800 55.000 2.79 0.00 42.21 3.06
2101 3250 4.937201 ATAATGATGTCTACACCGCTGA 57.063 40.909 0.00 0.00 0.00 4.26
2106 3255 9.614792 AGACCTTTTTATAATGATGTCTACACC 57.385 33.333 6.49 0.00 30.56 4.16
2115 3264 9.190317 GAGGGACAAAGACCTTTTTATAATGAT 57.810 33.333 0.00 0.00 37.18 2.45
2120 3269 5.944007 GCTGAGGGACAAAGACCTTTTTATA 59.056 40.000 0.00 0.00 37.18 0.98
2133 3282 0.538057 CTGCAAAGGCTGAGGGACAA 60.538 55.000 0.00 0.00 41.06 3.18
2177 3326 2.675844 GCAGGTTATTCATGCGTGTACA 59.324 45.455 5.68 0.00 43.67 2.90
2230 3379 3.696045 TGGTTTACCAGGAATGATGTGG 58.304 45.455 0.00 0.00 42.01 4.17
2243 3392 1.689273 TGTTGGGCATTGTGGTTTACC 59.311 47.619 0.00 0.00 0.00 2.85
2244 3393 3.676291 ATGTTGGGCATTGTGGTTTAC 57.324 42.857 0.00 0.00 33.14 2.01
2248 3397 2.178580 CCTTATGTTGGGCATTGTGGT 58.821 47.619 0.00 0.00 38.94 4.16
2272 3421 2.838225 ATCTACTCGTGGGGGCGG 60.838 66.667 0.00 0.00 0.00 6.13


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

AutoCloner maintained by Alex Coulton.