Multiple sequence alignment - TraesCS4D01G274500

Loading Multiple Alignment...

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 TraesCS4D01G274500 chr4D 100.000 3134 0 0 1 3134 444875220 444872087 0.000000e+00 5788
1 TraesCS4D01G274500 chr4D 82.051 624 85 16 4 614 444874660 444875269 1.000000e-139 507
2 TraesCS4D01G274500 chr4A 92.482 2607 145 15 4 2598 22077766 22075199 0.000000e+00 3681
3 TraesCS4D01G274500 chr4A 91.776 535 36 7 2586 3115 22075172 22074641 0.000000e+00 737
4 TraesCS4D01G274500 chr4A 80.383 627 95 18 4 614 22077205 22077819 4.770000e-123 451
5 TraesCS4D01G274500 chr4B 90.954 2023 142 14 1 2017 555219400 555221387 0.000000e+00 2684
6 TraesCS4D01G274500 chr4B 95.353 581 23 3 2011 2588 555547331 555547910 0.000000e+00 920
7 TraesCS4D01G274500 chr4B 94.310 580 28 2 2011 2588 555225031 555225607 0.000000e+00 883
8 TraesCS4D01G274500 chr4B 92.572 552 37 4 2586 3134 555547949 555548499 0.000000e+00 789
9 TraesCS4D01G274500 chr4B 91.798 317 25 1 2818 3134 555297507 555297822 1.030000e-119 440
10 TraesCS4D01G274500 chr4B 94.142 239 12 1 2586 2822 555225646 555225884 2.300000e-96 363
11 TraesCS4D01G274500 chr5D 88.797 241 25 2 2896 3134 362428013 362428253 8.500000e-76 294
12 TraesCS4D01G274500 chr2D 88.017 242 27 2 2895 3134 457852850 457852609 5.120000e-73 285
13 TraesCS4D01G274500 chr1D 87.967 241 27 2 2896 3134 283625282 283625522 1.840000e-72 283
14 TraesCS4D01G274500 chr7D 87.967 241 26 3 2896 3133 429801453 429801693 6.620000e-72 281
15 TraesCS4D01G274500 chr1A 86.307 241 30 3 2896 3134 472747362 472747123 3.100000e-65 259
16 TraesCS4D01G274500 chr1B 84.519 239 37 0 2896 3134 498336905 498336667 1.450000e-58 237


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 TraesCS4D01G274500 chr4D 444872087 444875220 3133 True 5788.0 5788 100.000000 1 3134 1 chr4D.!!$R1 3133
1 TraesCS4D01G274500 chr4D 444874660 444875269 609 False 507.0 507 82.051000 4 614 1 chr4D.!!$F1 610
2 TraesCS4D01G274500 chr4A 22074641 22077766 3125 True 2209.0 3681 92.129000 4 3115 2 chr4A.!!$R1 3111
3 TraesCS4D01G274500 chr4A 22077205 22077819 614 False 451.0 451 80.383000 4 614 1 chr4A.!!$F1 610
4 TraesCS4D01G274500 chr4B 555219400 555225884 6484 False 1310.0 2684 93.135333 1 2822 3 chr4B.!!$F2 2821
5 TraesCS4D01G274500 chr4B 555547331 555548499 1168 False 854.5 920 93.962500 2011 3134 2 chr4B.!!$F3 1123

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
782 832 0.108804 CCCACTGCGTACTACTGGTG 60.109 60.0 0.00 0.0 0.00 4.17 F
1272 1324 0.035343 TCGACCACGAGTCTGATCCT 60.035 55.0 8.34 0.0 43.91 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1661 1713 0.106918 AAACAACAGCAGGGAACGGA 60.107 50.0 0.0 0.0 0.0 4.69 R
2971 6727 0.179233 GACGACCGAAAAACATCGCC 60.179 55.0 0.0 0.0 41.4 5.54 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
100 105 2.943653 GTGTACACTTGTGGCCGC 59.056 61.111 18.92 10.11 0.00 6.53
318 353 2.135664 AGAACTGCACGACACTGTAC 57.864 50.000 0.00 0.00 0.00 2.90
319 354 1.137513 GAACTGCACGACACTGTACC 58.862 55.000 0.00 0.00 0.00 3.34
356 391 3.815401 CTCATTCCAACGAGTTTTGTCCT 59.185 43.478 0.00 0.00 0.00 3.85
375 410 2.448736 TGGCCACCACCTACCACA 60.449 61.111 0.00 0.00 0.00 4.17
513 559 2.877691 GGTAGCAAAAGGCCAGCG 59.122 61.111 5.01 0.00 46.50 5.18
541 587 2.359850 GCCCCGCACTCATTGACA 60.360 61.111 0.00 0.00 0.00 3.58
574 621 7.227314 TCTGATCATTGCAAAGCTAATCGTAAT 59.773 33.333 1.71 0.00 0.00 1.89
595 642 4.705110 TTGGAGATGAAAACCTCACTCA 57.295 40.909 0.00 0.00 36.69 3.41
639 686 3.812156 TCGAATTACCCGTCATGTCAT 57.188 42.857 0.00 0.00 0.00 3.06
644 691 5.353394 AATTACCCGTCATGTCATAGTGT 57.647 39.130 0.00 0.00 0.00 3.55
645 692 2.961526 ACCCGTCATGTCATAGTGTC 57.038 50.000 0.00 0.00 0.00 3.67
646 693 2.176045 ACCCGTCATGTCATAGTGTCA 58.824 47.619 0.00 0.00 0.00 3.58
647 694 2.094182 ACCCGTCATGTCATAGTGTCAC 60.094 50.000 0.00 0.00 0.00 3.67
648 695 2.094234 CCCGTCATGTCATAGTGTCACA 60.094 50.000 5.62 0.00 0.00 3.58
649 696 3.430790 CCCGTCATGTCATAGTGTCACAT 60.431 47.826 5.62 0.00 0.00 3.21
650 697 3.798878 CCGTCATGTCATAGTGTCACATC 59.201 47.826 5.62 0.00 0.00 3.06
651 698 4.423732 CGTCATGTCATAGTGTCACATCA 58.576 43.478 5.62 0.00 0.00 3.07
652 699 4.266265 CGTCATGTCATAGTGTCACATCAC 59.734 45.833 5.62 0.00 38.46 3.06
653 700 5.170748 GTCATGTCATAGTGTCACATCACA 58.829 41.667 5.62 2.92 40.37 3.58
654 701 5.062683 GTCATGTCATAGTGTCACATCACAC 59.937 44.000 5.62 0.00 46.13 3.82
661 708 2.719798 GTGTCACATCACACACAAAGC 58.280 47.619 0.00 0.00 45.25 3.51
662 709 2.355756 GTGTCACATCACACACAAAGCT 59.644 45.455 0.00 0.00 45.25 3.74
663 710 3.559655 GTGTCACATCACACACAAAGCTA 59.440 43.478 0.00 0.00 45.25 3.32
664 711 4.035091 GTGTCACATCACACACAAAGCTAA 59.965 41.667 0.00 0.00 45.25 3.09
665 712 4.637977 TGTCACATCACACACAAAGCTAAA 59.362 37.500 0.00 0.00 0.00 1.85
666 713 5.124617 TGTCACATCACACACAAAGCTAAAA 59.875 36.000 0.00 0.00 0.00 1.52
667 714 6.033341 GTCACATCACACACAAAGCTAAAAA 58.967 36.000 0.00 0.00 0.00 1.94
668 715 6.020678 GTCACATCACACACAAAGCTAAAAAC 60.021 38.462 0.00 0.00 0.00 2.43
680 727 3.581755 AGCTAAAAACTCATCGTACGCA 58.418 40.909 11.24 0.00 0.00 5.24
682 729 4.032900 AGCTAAAAACTCATCGTACGCATG 59.967 41.667 11.24 14.70 0.00 4.06
694 741 3.058224 TCGTACGCATGAATCGATCAGAT 60.058 43.478 11.24 0.00 42.53 2.90
724 771 4.265556 GTGATCTCACAAATCGTAGAACCG 59.734 45.833 5.46 0.00 45.75 4.44
730 777 0.738412 AAATCGTAGAACCGCGGTGG 60.738 55.000 34.95 18.49 43.58 4.61
769 816 1.000283 GATCAGATCCGCTACCCACTG 60.000 57.143 0.00 0.00 0.00 3.66
782 832 0.108804 CCCACTGCGTACTACTGGTG 60.109 60.000 0.00 0.00 0.00 4.17
825 875 3.259123 GTCCATCATTTTGTCCCAAGCTT 59.741 43.478 0.00 0.00 0.00 3.74
858 908 5.335348 CCAAATTCTGGTGTACTTTTACCGG 60.335 44.000 0.00 0.00 43.31 5.28
860 910 5.743636 ATTCTGGTGTACTTTTACCGGTA 57.256 39.130 11.16 11.16 42.67 4.02
881 931 7.815068 CCGGTATTGTAATAAATCTCTCTCCTG 59.185 40.741 0.00 0.00 0.00 3.86
882 932 7.329717 CGGTATTGTAATAAATCTCTCTCCTGC 59.670 40.741 0.00 0.00 0.00 4.85
893 944 1.677637 CTCTCCTGCGGTTCTACCCC 61.678 65.000 0.00 0.00 33.75 4.95
895 946 1.229400 TCCTGCGGTTCTACCCCTT 60.229 57.895 0.00 0.00 33.75 3.95
896 947 1.078426 CCTGCGGTTCTACCCCTTG 60.078 63.158 0.00 0.00 33.75 3.61
897 948 1.677552 CTGCGGTTCTACCCCTTGT 59.322 57.895 0.00 0.00 33.75 3.16
898 949 0.673644 CTGCGGTTCTACCCCTTGTG 60.674 60.000 0.00 0.00 33.75 3.33
899 950 1.122632 TGCGGTTCTACCCCTTGTGA 61.123 55.000 0.00 0.00 33.75 3.58
922 974 1.884235 ATATAAACAGGGCAGCGAGC 58.116 50.000 0.00 0.00 44.65 5.03
942 994 2.159960 GCGAACACAAGACATCTTCGAC 60.160 50.000 4.53 0.00 36.65 4.20
950 1002 7.320399 ACACAAGACATCTTCGACATTATACA 58.680 34.615 0.00 0.00 33.11 2.29
955 1007 6.975197 AGACATCTTCGACATTATACACACAG 59.025 38.462 0.00 0.00 0.00 3.66
1020 1072 3.118334 CCATGAGCAACATCTCTCCTTCT 60.118 47.826 0.00 0.00 37.07 2.85
1085 1137 2.507110 TTCTTTCCTCTCGCCGGCAG 62.507 60.000 28.98 21.96 0.00 4.85
1123 1175 2.330209 ATCCCCTCTACCCGTCCCA 61.330 63.158 0.00 0.00 0.00 4.37
1135 1187 1.048724 CCGTCCCAAGCCTCCTATGA 61.049 60.000 0.00 0.00 0.00 2.15
1144 1196 0.106708 GCCTCCTATGAACCGCATCA 59.893 55.000 0.00 0.00 38.44 3.07
1178 1230 7.416022 CACTTCATCAATTTCAAGCTAGATCC 58.584 38.462 0.00 0.00 0.00 3.36
1194 1246 0.393808 ATCCCGCCGCAAACAACTAT 60.394 50.000 0.00 0.00 0.00 2.12
1208 1260 0.608130 AACTATGCTCAGTGGACGCA 59.392 50.000 5.40 5.40 38.14 5.24
1242 1294 4.441634 GCTATCCTCACCAAATACGACTGT 60.442 45.833 0.00 0.00 0.00 3.55
1272 1324 0.035343 TCGACCACGAGTCTGATCCT 60.035 55.000 8.34 0.00 43.91 3.24
1317 1369 2.736721 CAACGACGATCTGACCATTGTT 59.263 45.455 0.00 0.00 0.00 2.83
1389 1441 0.379669 CGGAGAACACCGCGTATACT 59.620 55.000 4.92 0.00 46.20 2.12
1470 1522 1.014564 GCGAAGAGTTAAGCGCCACT 61.015 55.000 2.29 3.49 43.33 4.00
1489 1541 0.390340 TGAGCAAGGAGACATGACGC 60.390 55.000 0.00 0.00 0.00 5.19
1524 1576 1.122019 ATCGGATTAAGGCCCTCGCT 61.122 55.000 0.00 0.00 34.44 4.93
1612 1664 0.667993 CAACAACCGCTTCCATGTGT 59.332 50.000 0.00 0.00 0.00 3.72
1672 1724 1.335132 TATCCAGGTCCGTTCCCTGC 61.335 60.000 6.71 0.00 46.73 4.85
1678 1730 1.227853 GTCCGTTCCCTGCTGTTGT 60.228 57.895 0.00 0.00 0.00 3.32
1680 1732 0.106918 TCCGTTCCCTGCTGTTGTTT 60.107 50.000 0.00 0.00 0.00 2.83
1757 1809 2.669569 CACCAACACCGGCTCCAG 60.670 66.667 0.00 0.00 0.00 3.86
1819 1871 2.390938 GCAACGCTTTTTCTAACACCC 58.609 47.619 0.00 0.00 0.00 4.61
1825 1877 1.810755 CTTTTTCTAACACCCGGCCTC 59.189 52.381 0.00 0.00 0.00 4.70
1830 1882 1.956629 CTAACACCCGGCCTCGACAT 61.957 60.000 0.00 0.00 39.00 3.06
2091 5794 3.194025 AAGCTCCACCCCTCCTCCA 62.194 63.158 0.00 0.00 0.00 3.86
2722 6478 7.320443 TCTCATTATTCCTGAACATTTTCCG 57.680 36.000 0.00 0.00 0.00 4.30
2733 6489 6.416750 CCTGAACATTTTCCGTTAGAAACAAC 59.583 38.462 0.00 0.00 44.20 3.32
2758 6514 5.825679 TCTGGTACAACTAACAACTTGCAAT 59.174 36.000 0.00 0.00 38.70 3.56
2766 6522 7.602265 ACAACTAACAACTTGCAATGTTTTCTT 59.398 29.630 20.28 9.13 40.14 2.52
2855 6611 0.692476 TCATGGGTCCCAACAGTCAG 59.308 55.000 16.55 0.00 36.95 3.51
2948 6704 4.500127 TCACTTGTGTCATGTATAACCCG 58.500 43.478 0.46 0.00 0.00 5.28
2954 6710 4.389382 TGTGTCATGTATAACCCGTTTTCG 59.611 41.667 0.00 0.00 43.67 3.46
2959 6715 5.521010 TCATGTATAACCCGTTTTCGTCATC 59.479 40.000 0.00 0.00 42.35 2.92
2988 6748 0.236187 TTGGCGATGTTTTTCGGTCG 59.764 50.000 0.00 0.00 39.49 4.79
3013 6773 2.434884 CACCATCACCGAAGCGCT 60.435 61.111 2.64 2.64 0.00 5.92
3033 6793 8.620533 AGCGCTGTCATAGAAAATAAAATTTC 57.379 30.769 10.39 0.00 39.16 2.17
3079 6839 3.242739 GCAAGTTGGCATATTAGGTGACG 60.243 47.826 4.75 0.00 0.00 4.35
3082 6842 3.199071 AGTTGGCATATTAGGTGACGGAA 59.801 43.478 0.00 0.00 0.00 4.30
3083 6843 3.188159 TGGCATATTAGGTGACGGAAC 57.812 47.619 0.00 0.00 0.00 3.62
3098 6859 2.223711 ACGGAACAAAAATGTCACCAGC 60.224 45.455 0.00 0.00 0.00 4.85
3108 6869 0.249699 TGTCACCAGCGATCGTGTTT 60.250 50.000 17.81 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
431 467 2.258286 GTTTGTGCGTCCATGCCC 59.742 61.111 0.00 0.00 0.00 5.36
438 474 2.935955 CGGGACAGTTTGTGCGTC 59.064 61.111 0.00 0.00 39.79 5.19
533 579 2.985957 TCAGATCGCCATGTCAATGA 57.014 45.000 0.00 0.00 35.67 2.57
537 583 3.135994 CAATGATCAGATCGCCATGTCA 58.864 45.455 0.09 0.00 0.00 3.58
541 587 2.265589 TGCAATGATCAGATCGCCAT 57.734 45.000 0.09 0.00 0.00 4.40
574 621 4.705110 TGAGTGAGGTTTTCATCTCCAA 57.295 40.909 0.00 0.00 38.29 3.53
595 642 3.786635 GGTGACGATAAGTGATGAGCTT 58.213 45.455 0.00 0.00 0.00 3.74
639 686 3.559655 GCTTTGTGTGTGATGTGACACTA 59.440 43.478 7.20 0.00 45.52 2.74
644 691 5.826601 TTTTAGCTTTGTGTGTGATGTGA 57.173 34.783 0.00 0.00 0.00 3.58
645 692 6.035843 AGTTTTTAGCTTTGTGTGTGATGTG 58.964 36.000 0.00 0.00 0.00 3.21
646 693 6.127758 TGAGTTTTTAGCTTTGTGTGTGATGT 60.128 34.615 0.00 0.00 0.00 3.06
647 694 6.264832 TGAGTTTTTAGCTTTGTGTGTGATG 58.735 36.000 0.00 0.00 0.00 3.07
648 695 6.449635 TGAGTTTTTAGCTTTGTGTGTGAT 57.550 33.333 0.00 0.00 0.00 3.06
649 696 5.888691 TGAGTTTTTAGCTTTGTGTGTGA 57.111 34.783 0.00 0.00 0.00 3.58
650 697 5.396362 CGATGAGTTTTTAGCTTTGTGTGTG 59.604 40.000 0.00 0.00 0.00 3.82
651 698 5.065988 ACGATGAGTTTTTAGCTTTGTGTGT 59.934 36.000 0.00 0.00 0.00 3.72
652 699 5.510671 ACGATGAGTTTTTAGCTTTGTGTG 58.489 37.500 0.00 0.00 0.00 3.82
653 700 5.751243 ACGATGAGTTTTTAGCTTTGTGT 57.249 34.783 0.00 0.00 0.00 3.72
654 701 5.783654 CGTACGATGAGTTTTTAGCTTTGTG 59.216 40.000 10.44 0.00 0.00 3.33
655 702 5.614013 GCGTACGATGAGTTTTTAGCTTTGT 60.614 40.000 21.65 0.00 0.00 2.83
656 703 4.781528 GCGTACGATGAGTTTTTAGCTTTG 59.218 41.667 21.65 0.00 0.00 2.77
657 704 4.449743 TGCGTACGATGAGTTTTTAGCTTT 59.550 37.500 21.65 0.00 0.00 3.51
658 705 3.991773 TGCGTACGATGAGTTTTTAGCTT 59.008 39.130 21.65 0.00 0.00 3.74
659 706 3.581755 TGCGTACGATGAGTTTTTAGCT 58.418 40.909 21.65 0.00 0.00 3.32
660 707 3.984018 TGCGTACGATGAGTTTTTAGC 57.016 42.857 21.65 0.00 0.00 3.09
661 708 5.696260 TCATGCGTACGATGAGTTTTTAG 57.304 39.130 21.65 0.00 0.00 1.85
662 709 6.507299 CGATTCATGCGTACGATGAGTTTTTA 60.507 38.462 21.65 9.17 31.52 1.52
663 710 5.545658 ATTCATGCGTACGATGAGTTTTT 57.454 34.783 21.65 6.45 31.52 1.94
664 711 4.259810 CGATTCATGCGTACGATGAGTTTT 60.260 41.667 21.65 10.56 31.52 2.43
665 712 3.242944 CGATTCATGCGTACGATGAGTTT 59.757 43.478 21.65 12.62 31.52 2.66
666 713 2.789339 CGATTCATGCGTACGATGAGTT 59.211 45.455 21.65 14.71 31.52 3.01
667 714 2.032924 TCGATTCATGCGTACGATGAGT 59.967 45.455 21.65 19.52 31.52 3.41
668 715 2.650608 TCGATTCATGCGTACGATGAG 58.349 47.619 21.65 12.61 31.52 2.90
680 727 6.285990 TCACATCACAATCTGATCGATTCAT 58.714 36.000 0.00 0.00 40.33 2.57
682 729 6.645827 AGATCACATCACAATCTGATCGATTC 59.354 38.462 0.00 0.00 40.37 2.52
711 758 0.738412 CCACCGCGGTTCTACGATTT 60.738 55.000 32.11 0.00 35.47 2.17
718 765 2.282180 AATTGCCACCGCGGTTCT 60.282 55.556 32.11 3.80 38.08 3.01
769 816 1.403323 GTACTCCCACCAGTAGTACGC 59.597 57.143 0.00 0.00 37.08 4.42
774 821 3.377253 TGGTAGTACTCCCACCAGTAG 57.623 52.381 11.29 0.00 37.42 2.57
782 832 1.337387 GAGACGCATGGTAGTACTCCC 59.663 57.143 0.00 0.00 0.00 4.30
825 875 0.251742 CCAGAATTTGGCTGGTGGGA 60.252 55.000 0.00 0.00 46.19 4.37
856 906 7.329717 GCAGGAGAGAGATTTATTACAATACCG 59.670 40.741 0.00 0.00 0.00 4.02
858 908 8.233692 CGCAGGAGAGAGATTTATTACAATAC 57.766 38.462 0.00 0.00 0.00 1.89
882 932 1.278127 ACATCACAAGGGGTAGAACCG 59.722 52.381 0.00 0.00 39.83 4.44
893 944 6.293626 GCTGCCCTGTTTATATACATCACAAG 60.294 42.308 0.00 0.00 0.00 3.16
895 946 5.063204 GCTGCCCTGTTTATATACATCACA 58.937 41.667 0.00 0.00 0.00 3.58
896 947 4.152402 CGCTGCCCTGTTTATATACATCAC 59.848 45.833 0.00 0.00 0.00 3.06
897 948 4.039852 TCGCTGCCCTGTTTATATACATCA 59.960 41.667 0.00 0.00 0.00 3.07
898 949 4.566004 TCGCTGCCCTGTTTATATACATC 58.434 43.478 0.00 0.00 0.00 3.06
899 950 4.569943 CTCGCTGCCCTGTTTATATACAT 58.430 43.478 0.00 0.00 0.00 2.29
922 974 3.049912 TGTCGAAGATGTCTTGTGTTCG 58.950 45.455 0.00 0.00 41.84 3.95
942 994 5.580691 ACGATTGTGACCTGTGTGTATAATG 59.419 40.000 0.00 0.00 0.00 1.90
950 1002 2.872245 CAAGAACGATTGTGACCTGTGT 59.128 45.455 0.00 0.00 0.00 3.72
955 1007 4.092968 GTGATACCAAGAACGATTGTGACC 59.907 45.833 0.00 0.00 0.00 4.02
1085 1137 2.882876 CATGCTTGGTGCTCTGGC 59.117 61.111 0.00 0.00 43.37 4.85
1091 1143 2.497770 GGATGGCATGCTTGGTGC 59.502 61.111 18.92 0.00 41.78 5.01
1092 1144 2.428925 GGGGATGGCATGCTTGGTG 61.429 63.158 18.92 0.00 0.00 4.17
1093 1145 2.042639 GGGGATGGCATGCTTGGT 60.043 61.111 18.92 0.74 0.00 3.67
1100 1152 1.843376 CGGGTAGAGGGGATGGCAT 60.843 63.158 0.00 0.00 0.00 4.40
1103 1155 1.837499 GGACGGGTAGAGGGGATGG 60.837 68.421 0.00 0.00 0.00 3.51
1105 1157 1.893588 TTGGGACGGGTAGAGGGGAT 61.894 60.000 0.00 0.00 0.00 3.85
1123 1175 0.839946 ATGCGGTTCATAGGAGGCTT 59.160 50.000 0.00 0.00 32.59 4.35
1135 1187 4.164843 AGTGGGTAATATTGATGCGGTT 57.835 40.909 0.00 0.00 0.00 4.44
1178 1230 1.514014 GCATAGTTGTTTGCGGCGG 60.514 57.895 9.78 0.00 0.00 6.13
1194 1246 1.005748 CTTCTGCGTCCACTGAGCA 60.006 57.895 0.00 0.00 39.25 4.26
1208 1260 3.633065 GGTGAGGATAGCGTAGAACTTCT 59.367 47.826 0.00 0.00 0.00 2.85
1242 1294 3.245346 TGGTCGACATGGTGGGCA 61.245 61.111 18.91 0.00 0.00 5.36
1272 1324 2.416747 CACTTGGCATCTTGAAGACGA 58.583 47.619 0.00 0.00 0.00 4.20
1389 1441 3.018149 GGTGTACAACTTGTCCCAAACA 58.982 45.455 2.87 0.00 35.59 2.83
1441 1493 0.389948 AACTCTTCGCGGATGTGGAC 60.390 55.000 6.13 0.00 0.00 4.02
1470 1522 0.390340 GCGTCATGTCTCCTTGCTCA 60.390 55.000 0.00 0.00 0.00 4.26
1539 1591 2.425592 CTGACTGGTTCACCCGCA 59.574 61.111 0.00 0.00 35.15 5.69
1542 1594 0.883833 CATTGCTGACTGGTTCACCC 59.116 55.000 0.00 0.00 34.29 4.61
1558 1610 6.693466 TCATTTGCAATGTCAACATCTCATT 58.307 32.000 0.00 0.00 35.10 2.57
1661 1713 0.106918 AAACAACAGCAGGGAACGGA 60.107 50.000 0.00 0.00 0.00 4.69
1680 1732 5.163764 ACGCGCATTAAGATTGATTTCTTCA 60.164 36.000 5.73 0.00 37.20 3.02
1766 1818 0.893270 CCCATTGTTGCTTCCACCGA 60.893 55.000 0.00 0.00 0.00 4.69
1825 1877 1.206578 GTGGTTGTGCCGAATGTCG 59.793 57.895 0.00 0.00 41.21 4.35
1830 1882 0.171455 GTTGTTGTGGTTGTGCCGAA 59.829 50.000 0.00 0.00 41.21 4.30
2091 5794 6.986817 GCATAGTCCATGTACTAGTCATTGTT 59.013 38.462 0.00 0.00 35.50 2.83
2367 6073 5.774690 TGGCTAGATCCTTCACAAAACAAAT 59.225 36.000 0.00 0.00 0.00 2.32
2548 6261 5.163478 GCATTGGCTTATCACAAGAAGGAAT 60.163 40.000 0.00 0.00 36.96 3.01
2722 6478 8.546244 GTTAGTTGTACCAGAGTTGTTTCTAAC 58.454 37.037 0.00 0.00 0.00 2.34
2733 6489 4.814234 TGCAAGTTGTTAGTTGTACCAGAG 59.186 41.667 4.48 0.00 37.10 3.35
2758 6514 6.404293 GGCTCACTTGTCAGTTAAAGAAAACA 60.404 38.462 0.00 0.00 0.00 2.83
2766 6522 2.224523 CCAGGGCTCACTTGTCAGTTAA 60.225 50.000 0.00 0.00 0.00 2.01
2855 6611 3.670377 GCGTGGGCAGGTCAAACC 61.670 66.667 0.00 0.00 39.62 3.27
2954 6710 4.530094 TCGCCAATGTATTTTCGATGAC 57.470 40.909 0.00 0.00 0.00 3.06
2967 6723 2.250188 GACCGAAAAACATCGCCAATG 58.750 47.619 0.00 0.00 41.40 2.82
2970 6726 0.881159 ACGACCGAAAAACATCGCCA 60.881 50.000 0.00 0.00 41.40 5.69
2971 6727 0.179233 GACGACCGAAAAACATCGCC 60.179 55.000 0.00 0.00 41.40 5.54
3013 6773 8.723311 ACCGTCGAAATTTTATTTTCTATGACA 58.277 29.630 0.00 0.00 34.19 3.58
3079 6839 2.034053 TCGCTGGTGACATTTTTGTTCC 59.966 45.455 0.00 0.00 41.51 3.62
3082 6842 2.095768 CGATCGCTGGTGACATTTTTGT 60.096 45.455 0.26 0.00 41.51 2.83
3083 6843 2.095768 ACGATCGCTGGTGACATTTTTG 60.096 45.455 16.60 0.00 41.51 2.44
3098 6859 0.638746 GCCGTCACTAAACACGATCG 59.361 55.000 14.88 14.88 38.32 3.69
3108 6869 0.613572 TGACATCTGGGCCGTCACTA 60.614 55.000 7.76 0.00 34.83 2.74


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

AutoCloner maintained by Alex Coulton.