Multiple sequence alignment - TraesCS3A01G315400

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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 TraesCS3A01G315400 chr3A 100.000 2336 0 0 1 2336 556457953 556460288 0.000000e+00 4314
1 TraesCS3A01G315400 chr3B 91.850 2233 127 21 135 2336 561542110 561539902 0.000000e+00 3064
2 TraesCS3A01G315400 chr3B 87.407 135 13 3 1 135 561542295 561542165 4.020000e-33 152
3 TraesCS3A01G315400 chr3D 91.027 2229 130 23 134 2336 429599950 429597766 0.000000e+00 2944
4 TraesCS3A01G315400 chr3D 85.714 126 8 3 1 121 429605085 429604965 8.760000e-25 124


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 TraesCS3A01G315400 chr3A 556457953 556460288 2335 False 4314 4314 100.0000 1 2336 1 chr3A.!!$F1 2335
1 TraesCS3A01G315400 chr3B 561539902 561542295 2393 True 1608 3064 89.6285 1 2336 2 chr3B.!!$R1 2335
2 TraesCS3A01G315400 chr3D 429597766 429599950 2184 True 2944 2944 91.0270 134 2336 1 chr3D.!!$R1 2202

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
77 78 0.108804 TCCAGGTTCGTCGAGAATGC 60.109 55.0 0.0 0.0 41.49 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1643 1747 0.257328 TCCTGCCAAGTGAACCAACA 59.743 50.0 0.0 0.0 0.0 3.33 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
30 31 3.687212 TGTGTTCTGTTGATCGTTGTTGT 59.313 39.130 0.00 0.00 0.00 3.32
31 32 4.201773 TGTGTTCTGTTGATCGTTGTTGTC 60.202 41.667 0.00 0.00 0.00 3.18
60 61 3.057033 TGTCTTCGGCTTAACAGTAGTCC 60.057 47.826 0.00 0.00 0.00 3.85
61 62 3.057033 GTCTTCGGCTTAACAGTAGTCCA 60.057 47.826 0.00 0.00 0.00 4.02
62 63 3.192844 TCTTCGGCTTAACAGTAGTCCAG 59.807 47.826 0.00 0.00 0.00 3.86
67 68 3.251571 GCTTAACAGTAGTCCAGGTTCG 58.748 50.000 0.00 0.00 0.00 3.95
74 75 1.808945 GTAGTCCAGGTTCGTCGAGAA 59.191 52.381 0.00 0.00 36.31 2.87
75 76 1.546961 AGTCCAGGTTCGTCGAGAAT 58.453 50.000 0.00 0.00 41.49 2.40
76 77 1.202582 AGTCCAGGTTCGTCGAGAATG 59.797 52.381 0.00 0.00 41.49 2.67
77 78 0.108804 TCCAGGTTCGTCGAGAATGC 60.109 55.000 0.00 0.00 41.49 3.56
84 85 2.647529 TCGTCGAGAATGCTGCTTTA 57.352 45.000 0.00 0.00 0.00 1.85
96 97 3.069289 TGCTGCTTTATGTGTCTCTGTG 58.931 45.455 0.00 0.00 0.00 3.66
106 107 3.838120 TGTGTCTCTGTGCTATTCTTCG 58.162 45.455 0.00 0.00 0.00 3.79
119 120 4.147306 GCTATTCTTCGAGTATGTGCTTCG 59.853 45.833 0.00 0.00 0.00 3.79
121 122 0.924090 CTTCGAGTATGTGCTTCGGC 59.076 55.000 0.00 0.00 42.19 5.54
125 126 1.146358 GAGTATGTGCTTCGGCCGTC 61.146 60.000 27.15 15.88 40.91 4.79
128 129 1.600511 TATGTGCTTCGGCCGTCTCA 61.601 55.000 27.15 20.59 40.91 3.27
147 203 3.745803 GACTCGGGTCGGCTCGTT 61.746 66.667 10.08 0.00 40.06 3.85
151 207 4.124351 CGGGTCGGCTCGTTGCTA 62.124 66.667 0.00 0.00 42.39 3.49
164 222 1.459592 CGTTGCTAACAGTAGTGTGGC 59.540 52.381 17.07 17.07 36.84 5.01
199 260 4.004982 GGAGGACGTAGGCAAATTACAAA 58.995 43.478 0.00 0.00 0.00 2.83
205 267 8.042515 AGGACGTAGGCAAATTACAAAGTTATA 58.957 33.333 0.00 0.00 0.00 0.98
238 300 1.338136 AAGCCCTCCCATGTCTACGG 61.338 60.000 0.00 0.00 0.00 4.02
240 302 0.757935 GCCCTCCCATGTCTACGGTA 60.758 60.000 0.00 0.00 0.00 4.02
273 335 4.896482 ACCTACTATAGCTCCACCAAGAAG 59.104 45.833 0.00 0.00 0.00 2.85
274 336 4.282195 CCTACTATAGCTCCACCAAGAAGG 59.718 50.000 0.00 0.00 45.67 3.46
279 341 1.065854 AGCTCCACCAAGAAGGAATCG 60.066 52.381 0.00 0.00 41.22 3.34
296 358 3.936372 ATCGGGTGAATAGTATCGGTG 57.064 47.619 0.00 0.00 0.00 4.94
333 395 0.544697 GGAATCCGAAACCTAGGCCA 59.455 55.000 9.30 0.00 0.00 5.36
352 414 9.396022 CTAGGCCAGTAAAATTCTCTTTAATCA 57.604 33.333 5.01 0.00 0.00 2.57
360 422 9.935682 GTAAAATTCTCTTTAATCATCATCGCA 57.064 29.630 0.00 0.00 0.00 5.10
384 446 5.633830 AATCATCAAGTGTGATCACAACC 57.366 39.130 29.42 18.12 42.88 3.77
385 447 4.084011 TCATCAAGTGTGATCACAACCA 57.916 40.909 29.42 14.25 42.88 3.67
392 454 0.163788 GTGATCACAACCAACGAGCG 59.836 55.000 21.07 0.00 0.00 5.03
422 484 1.063951 CGCGTAGGACTCGAACACAC 61.064 60.000 0.00 0.00 0.00 3.82
429 491 1.798813 GGACTCGAACACACATCAACC 59.201 52.381 0.00 0.00 0.00 3.77
444 506 1.881324 TCAACCGAACGGAAATTTCCC 59.119 47.619 27.72 15.08 44.67 3.97
486 553 1.766069 GTCAAAATGCCGTCCAACAC 58.234 50.000 0.00 0.00 0.00 3.32
497 564 3.243602 GCCGTCCAACACCTAAACAAATT 60.244 43.478 0.00 0.00 0.00 1.82
541 608 5.765677 TCCTCGAGATCACCTCAGTTTATAG 59.234 44.000 15.71 0.00 42.06 1.31
595 664 6.071952 TGACTCTGCCAAAATTCTTAATGACC 60.072 38.462 0.00 0.00 0.00 4.02
613 682 7.754851 AATGACCCATAAAGAAAACGTACTT 57.245 32.000 0.00 0.00 0.00 2.24
614 683 6.548441 TGACCCATAAAGAAAACGTACTTG 57.452 37.500 0.00 0.00 0.00 3.16
657 747 3.346631 CTGCAAGCAATCCGGCACC 62.347 63.158 0.00 0.00 35.83 5.01
658 748 4.481112 GCAAGCAATCCGGCACCG 62.481 66.667 1.02 1.02 39.44 4.94
668 758 3.121030 CGGCACCGGAGAAGCAAG 61.121 66.667 9.46 1.04 35.56 4.01
669 759 3.435186 GGCACCGGAGAAGCAAGC 61.435 66.667 9.46 0.00 0.00 4.01
670 760 3.435186 GCACCGGAGAAGCAAGCC 61.435 66.667 9.46 0.00 0.00 4.35
753 843 3.946907 ACGCAGCAACGTCCTAAC 58.053 55.556 0.00 0.00 44.43 2.34
754 844 1.068417 ACGCAGCAACGTCCTAACA 59.932 52.632 0.00 0.00 44.43 2.41
755 845 0.944311 ACGCAGCAACGTCCTAACAG 60.944 55.000 0.00 0.00 44.43 3.16
786 876 2.176546 CCACGACGCCTGCAATTG 59.823 61.111 0.00 0.00 0.00 2.32
787 877 2.502510 CACGACGCCTGCAATTGC 60.503 61.111 23.69 23.69 42.50 3.56
788 878 3.737172 ACGACGCCTGCAATTGCC 61.737 61.111 26.94 11.27 41.18 4.52
789 879 3.434319 CGACGCCTGCAATTGCCT 61.434 61.111 26.94 4.77 41.18 4.75
790 880 2.964978 GACGCCTGCAATTGCCTT 59.035 55.556 26.94 5.93 41.18 4.35
791 881 1.444895 GACGCCTGCAATTGCCTTG 60.445 57.895 26.94 15.89 41.18 3.61
891 981 1.792118 GCCGCCCCCTTATTTAAGCG 61.792 60.000 0.00 0.00 42.99 4.68
923 1019 5.193325 ACCATTCTCCTCTCATTCTCCATTT 59.807 40.000 0.00 0.00 0.00 2.32
977 1078 0.867753 CTGATCCTCCGTTCTTCGCG 60.868 60.000 0.00 0.00 38.35 5.87
1035 1136 1.079750 GAGGACCTCGGTGCAGTTC 60.080 63.158 5.55 0.00 38.98 3.01
1260 1361 3.785859 GGCGCCCTGGATCAGACA 61.786 66.667 18.11 0.00 32.44 3.41
1287 1388 1.086634 GCGTTCTCATGGTCAGGCTC 61.087 60.000 0.00 0.00 0.00 4.70
1437 1538 4.256920 CACTCCCTTCCTACTGAAACATG 58.743 47.826 0.00 0.00 31.06 3.21
1470 1574 7.770366 ATGGCTGATCATGCTATTGAAATAA 57.230 32.000 14.20 0.00 0.00 1.40
1505 1609 7.452630 TTTTTGGACAACACGCTTATAAAAC 57.547 32.000 0.00 0.00 0.00 2.43
1568 1672 2.365635 ACAGGCCTATGTCCCGCT 60.366 61.111 3.98 0.00 0.00 5.52
1579 1683 0.527113 TGTCCCGCTATCGACGAAAA 59.473 50.000 0.00 0.00 38.10 2.29
1586 1690 1.925185 GCTATCGACGAAAACCAGACC 59.075 52.381 0.00 0.00 0.00 3.85
1587 1691 2.416972 GCTATCGACGAAAACCAGACCT 60.417 50.000 0.00 0.00 0.00 3.85
1601 1705 3.118738 ACCAGACCTCTTATTAGGCAACG 60.119 47.826 0.00 0.00 40.62 4.10
1605 1709 4.344102 AGACCTCTTATTAGGCAACGCATA 59.656 41.667 0.00 0.00 40.62 3.14
1606 1710 4.377897 ACCTCTTATTAGGCAACGCATAC 58.622 43.478 0.00 0.00 40.62 2.39
1613 1717 0.104120 AGGCAACGCATACGAGCATA 59.896 50.000 9.11 0.00 43.93 3.14
1615 1719 1.136252 GGCAACGCATACGAGCATATG 60.136 52.381 0.00 0.00 43.93 1.78
1643 1747 5.835113 AAAATGTGCAGTACAACAACTCT 57.165 34.783 0.00 0.00 43.77 3.24
1644 1748 4.818534 AATGTGCAGTACAACAACTCTG 57.181 40.909 0.00 0.00 43.77 3.35
1657 1761 3.016736 ACAACTCTGTTGGTTCACTTGG 58.983 45.455 13.86 0.00 28.57 3.61
1661 1765 0.670162 CTGTTGGTTCACTTGGCAGG 59.330 55.000 0.00 0.00 0.00 4.85
1673 1777 3.376234 CACTTGGCAGGATCAACATACTG 59.624 47.826 2.65 0.00 43.37 2.74
1679 1784 4.333926 GGCAGGATCAACATACTGAAAGAC 59.666 45.833 0.00 0.00 43.20 3.01
1680 1785 4.937620 GCAGGATCAACATACTGAAAGACA 59.062 41.667 0.00 0.00 43.20 3.41
1695 1800 6.809196 ACTGAAAGACATCATCTCGTTTACTC 59.191 38.462 0.00 0.00 36.27 2.59
1697 1802 4.657436 AGACATCATCTCGTTTACTCCC 57.343 45.455 0.00 0.00 28.16 4.30
1698 1803 4.282496 AGACATCATCTCGTTTACTCCCT 58.718 43.478 0.00 0.00 28.16 4.20
1710 1817 4.925054 CGTTTACTCCCTCGAAATGTTGTA 59.075 41.667 0.00 0.00 0.00 2.41
1717 1824 2.364632 CTCGAAATGTTGTATGCCCCA 58.635 47.619 0.00 0.00 0.00 4.96
1719 1826 3.360867 TCGAAATGTTGTATGCCCCATT 58.639 40.909 0.00 0.00 0.00 3.16
1720 1827 3.130164 TCGAAATGTTGTATGCCCCATTG 59.870 43.478 0.00 0.00 0.00 2.82
1721 1828 3.737663 CGAAATGTTGTATGCCCCATTGG 60.738 47.826 0.00 0.00 37.09 3.16
1837 1944 5.881923 TTTACTCCAGTCCGCCTATAAAT 57.118 39.130 0.00 0.00 0.00 1.40
1868 1975 1.547372 GTTGCTGCATCCCAGTCAAAT 59.453 47.619 1.84 0.00 43.71 2.32
1924 2031 6.604795 CACCCCTTTCAGATAAGAATCAACAT 59.395 38.462 0.00 0.00 34.28 2.71
1943 2050 8.032952 TCAACATGTAACAGATCAAGATTGAC 57.967 34.615 0.00 0.00 40.49 3.18
2011 2118 6.715280 ACATCTGAGCAGGATCTTTTAAGAA 58.285 36.000 0.00 0.00 38.77 2.52
2023 2130 8.975295 AGGATCTTTTAAGAATGGGATCTTTTG 58.025 33.333 0.00 0.00 40.13 2.44
2048 2155 6.844097 AGAAATAAAGCGTTGGGGAAAATA 57.156 33.333 0.00 0.00 0.00 1.40
2053 2160 8.936070 AATAAAGCGTTGGGGAAAATATAAAC 57.064 30.769 0.00 0.00 0.00 2.01
2165 2278 3.197766 TGATGCCAGTAAACTGTCCTAGG 59.802 47.826 0.82 0.82 42.27 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 4.508124 AGAGACAACAACGATCAACAGAAC 59.492 41.667 0.00 0.00 0.00 3.01
30 31 4.038763 TGTTAAGCCGAAGACAAAGAGAGA 59.961 41.667 0.00 0.00 0.00 3.10
31 32 4.307432 TGTTAAGCCGAAGACAAAGAGAG 58.693 43.478 0.00 0.00 0.00 3.20
60 61 0.994995 CAGCATTCTCGACGAACCTG 59.005 55.000 0.00 0.00 33.72 4.00
61 62 0.737715 GCAGCATTCTCGACGAACCT 60.738 55.000 0.00 0.00 33.72 3.50
62 63 0.737715 AGCAGCATTCTCGACGAACC 60.738 55.000 0.00 0.00 33.72 3.62
67 68 3.372206 ACACATAAAGCAGCATTCTCGAC 59.628 43.478 0.00 0.00 0.00 4.20
74 75 3.688185 CACAGAGACACATAAAGCAGCAT 59.312 43.478 0.00 0.00 0.00 3.79
75 76 3.069289 CACAGAGACACATAAAGCAGCA 58.931 45.455 0.00 0.00 0.00 4.41
76 77 2.159599 GCACAGAGACACATAAAGCAGC 60.160 50.000 0.00 0.00 0.00 5.25
77 78 3.332919 AGCACAGAGACACATAAAGCAG 58.667 45.455 0.00 0.00 0.00 4.24
84 85 4.158579 TCGAAGAATAGCACAGAGACACAT 59.841 41.667 0.00 0.00 0.00 3.21
96 97 4.147306 CGAAGCACATACTCGAAGAATAGC 59.853 45.833 0.00 0.00 34.09 2.97
106 107 1.146358 GACGGCCGAAGCACATACTC 61.146 60.000 35.90 11.13 42.56 2.59
125 126 3.827898 GCCGACCCGAGTCCTGAG 61.828 72.222 0.00 0.00 40.12 3.35
147 203 2.920724 TTGCCACACTACTGTTAGCA 57.079 45.000 0.00 0.00 35.98 3.49
151 207 3.616219 TCACTTTTGCCACACTACTGTT 58.384 40.909 0.00 0.00 0.00 3.16
164 222 1.792949 CGTCCTCCGTTCTCACTTTTG 59.207 52.381 0.00 0.00 0.00 2.44
199 260 6.607600 GGGCTTCTTCTTTTGGGAATATAACT 59.392 38.462 0.00 0.00 0.00 2.24
205 267 3.435275 GAGGGCTTCTTCTTTTGGGAAT 58.565 45.455 0.00 0.00 0.00 3.01
238 300 6.063404 AGCTATAGTAGGTGACAGGAAGTAC 58.937 44.000 0.84 0.00 34.78 2.73
240 302 5.132043 AGCTATAGTAGGTGACAGGAAGT 57.868 43.478 0.84 0.00 34.78 3.01
273 335 3.257624 ACCGATACTATTCACCCGATTCC 59.742 47.826 0.00 0.00 0.00 3.01
274 336 4.235360 CACCGATACTATTCACCCGATTC 58.765 47.826 0.00 0.00 0.00 2.52
279 341 2.755650 CAGCACCGATACTATTCACCC 58.244 52.381 0.00 0.00 0.00 4.61
296 358 0.664166 CCGGTGTGTTTTGATGCAGC 60.664 55.000 0.00 0.00 0.00 5.25
352 414 5.124297 TCACACTTGATGATTTTGCGATGAT 59.876 36.000 0.00 0.00 0.00 2.45
360 422 6.040729 TGGTTGTGATCACACTTGATGATTTT 59.959 34.615 27.88 0.00 42.95 1.82
384 446 2.774951 CTAACGCCGTCGCTCGTTG 61.775 63.158 24.02 14.71 46.64 4.10
422 484 3.498082 GGAAATTTCCGTTCGGTTGATG 58.502 45.455 21.15 0.00 37.65 3.07
444 506 3.063997 GTGGTCATCTTAAATGACTGGCG 59.936 47.826 20.37 0.00 45.60 5.69
447 509 4.929211 TGACGTGGTCATCTTAAATGACTG 59.071 41.667 20.37 15.64 45.60 3.51
486 553 8.813282 GGCGTATTTATTTCCAATTTGTTTAGG 58.187 33.333 0.00 0.00 0.00 2.69
497 564 3.949113 GGAAGGTGGCGTATTTATTTCCA 59.051 43.478 0.00 0.00 34.44 3.53
541 608 4.503910 TGTGTGTGGCTGATCATAACTAC 58.496 43.478 0.00 0.00 0.00 2.73
595 664 4.216687 TGCCCAAGTACGTTTTCTTTATGG 59.783 41.667 0.00 0.00 0.00 2.74
607 676 1.665679 GATGATGTGTGCCCAAGTACG 59.334 52.381 0.00 0.00 0.00 3.67
613 682 1.004511 TCATGTGATGATGTGTGCCCA 59.995 47.619 0.00 0.00 33.59 5.36
614 683 1.674441 CTCATGTGATGATGTGTGCCC 59.326 52.381 0.00 0.00 38.85 5.36
657 747 2.694760 GGCTTGGCTTGCTTCTCCG 61.695 63.158 2.77 0.00 0.00 4.63
658 748 1.303970 AGGCTTGGCTTGCTTCTCC 60.304 57.895 2.77 0.00 0.00 3.71
659 749 1.311651 GGAGGCTTGGCTTGCTTCTC 61.312 60.000 12.17 7.02 36.86 2.87
660 750 1.303970 GGAGGCTTGGCTTGCTTCT 60.304 57.895 12.17 0.00 36.86 2.85
661 751 0.897401 AAGGAGGCTTGGCTTGCTTC 60.897 55.000 2.96 6.03 41.75 3.86
662 752 1.154688 AAGGAGGCTTGGCTTGCTT 59.845 52.632 2.96 2.96 40.87 3.91
663 753 1.303970 GAAGGAGGCTTGGCTTGCT 60.304 57.895 0.00 0.00 38.00 3.91
664 754 2.346541 GGAAGGAGGCTTGGCTTGC 61.347 63.158 0.00 0.00 0.00 4.01
665 755 0.251519 AAGGAAGGAGGCTTGGCTTG 60.252 55.000 0.00 0.00 0.00 4.01
666 756 0.038890 GAAGGAAGGAGGCTTGGCTT 59.961 55.000 0.00 0.00 0.00 4.35
667 757 1.688211 GAAGGAAGGAGGCTTGGCT 59.312 57.895 0.00 0.00 0.00 4.75
668 758 1.379176 GGAAGGAAGGAGGCTTGGC 60.379 63.158 0.00 0.00 0.00 4.52
669 759 1.078143 CGGAAGGAAGGAGGCTTGG 60.078 63.158 0.00 0.00 0.00 3.61
670 760 0.391793 GACGGAAGGAAGGAGGCTTG 60.392 60.000 0.00 0.00 0.00 4.01
786 876 1.000274 CAACCAAAGTACAGGCAAGGC 60.000 52.381 0.00 0.00 0.00 4.35
787 877 1.613437 CCAACCAAAGTACAGGCAAGG 59.387 52.381 0.00 0.00 0.00 3.61
788 878 1.000274 GCCAACCAAAGTACAGGCAAG 60.000 52.381 0.00 0.00 38.05 4.01
789 879 1.036707 GCCAACCAAAGTACAGGCAA 58.963 50.000 0.00 0.00 38.05 4.52
790 880 0.106469 TGCCAACCAAAGTACAGGCA 60.106 50.000 0.00 0.00 42.69 4.75
791 881 1.202348 GATGCCAACCAAAGTACAGGC 59.798 52.381 0.00 0.00 38.41 4.85
891 981 2.043953 GGAGAATGGTGGGTGGGC 60.044 66.667 0.00 0.00 0.00 5.36
977 1078 4.867599 GCCCGATCCACGTCGACC 62.868 72.222 10.58 0.00 44.06 4.79
1020 1121 1.733399 GTCGAACTGCACCGAGGTC 60.733 63.158 0.00 0.00 35.31 3.85
1260 1361 1.620819 ACCATGAGAACGCAGAACTCT 59.379 47.619 0.00 0.00 35.37 3.24
1270 1371 2.011046 GCTGAGCCTGACCATGAGAAC 61.011 57.143 0.00 0.00 0.00 3.01
1437 1538 6.219417 AGCATGATCAGCCATACTAGTATC 57.781 41.667 12.62 3.11 0.00 2.24
1470 1574 5.178438 GTGTTGTCCAAAAATTGTGTGTTGT 59.822 36.000 0.00 0.00 0.00 3.32
1505 1609 0.587768 TTTGCGTGCTGTGATCTGTG 59.412 50.000 0.00 0.00 0.00 3.66
1568 1672 3.087031 AGAGGTCTGGTTTTCGTCGATA 58.913 45.455 0.00 0.00 0.00 2.92
1579 1683 3.118738 CGTTGCCTAATAAGAGGTCTGGT 60.119 47.826 0.00 0.00 39.02 4.00
1586 1690 4.295870 TCGTATGCGTTGCCTAATAAGAG 58.704 43.478 2.37 0.00 39.49 2.85
1587 1691 4.295870 CTCGTATGCGTTGCCTAATAAGA 58.704 43.478 2.37 0.00 39.49 2.10
1643 1747 0.257328 TCCTGCCAAGTGAACCAACA 59.743 50.000 0.00 0.00 0.00 3.33
1644 1748 1.541588 GATCCTGCCAAGTGAACCAAC 59.458 52.381 0.00 0.00 0.00 3.77
1651 1755 3.376234 CAGTATGTTGATCCTGCCAAGTG 59.624 47.826 0.00 0.00 0.00 3.16
1657 1761 4.937620 TGTCTTTCAGTATGTTGATCCTGC 59.062 41.667 0.00 0.00 37.40 4.85
1661 1765 8.659925 AGATGATGTCTTTCAGTATGTTGATC 57.340 34.615 0.00 0.00 32.37 2.92
1673 1777 5.520649 GGGAGTAAACGAGATGATGTCTTTC 59.479 44.000 0.00 0.00 37.29 2.62
1679 1784 3.315470 TCGAGGGAGTAAACGAGATGATG 59.685 47.826 0.00 0.00 0.00 3.07
1680 1785 3.552875 TCGAGGGAGTAAACGAGATGAT 58.447 45.455 0.00 0.00 0.00 2.45
1695 1800 1.676006 GGGCATACAACATTTCGAGGG 59.324 52.381 0.00 0.00 0.00 4.30
1697 1802 2.364632 TGGGGCATACAACATTTCGAG 58.635 47.619 0.00 0.00 0.00 4.04
1698 1803 2.498644 TGGGGCATACAACATTTCGA 57.501 45.000 0.00 0.00 0.00 3.71
1710 1817 0.929244 AGCTAAGTCCAATGGGGCAT 59.071 50.000 0.00 0.00 43.06 4.40
1717 1824 3.931907 TGCCACATAGCTAAGTCCAAT 57.068 42.857 0.00 0.00 0.00 3.16
1719 1826 3.931907 AATGCCACATAGCTAAGTCCA 57.068 42.857 0.00 0.00 0.00 4.02
1720 1827 4.036852 GGAAAATGCCACATAGCTAAGTCC 59.963 45.833 0.00 0.00 0.00 3.85
1721 1828 4.884164 AGGAAAATGCCACATAGCTAAGTC 59.116 41.667 0.00 0.00 0.00 3.01
1805 1912 3.181475 GGACTGGAGTAAATCTCATGCGA 60.181 47.826 0.00 0.00 44.40 5.10
1924 2031 4.864806 GCTCGTCAATCTTGATCTGTTACA 59.135 41.667 0.00 0.00 39.73 2.41
1933 2040 3.197766 ACCCATAAGCTCGTCAATCTTGA 59.802 43.478 0.00 0.00 34.20 3.02
1943 2050 3.181465 ACTGTCCATTACCCATAAGCTCG 60.181 47.826 0.00 0.00 0.00 5.03
1988 2095 7.255173 CCATTCTTAAAAGATCCTGCTCAGATG 60.255 40.741 0.00 0.00 34.49 2.90
2011 2118 7.093771 ACGCTTTATTTCTTCAAAAGATCCCAT 60.094 33.333 0.00 0.00 37.38 4.00
2023 2130 4.776795 TTCCCCAACGCTTTATTTCTTC 57.223 40.909 0.00 0.00 0.00 2.87
2025 2132 5.738619 ATTTTCCCCAACGCTTTATTTCT 57.261 34.783 0.00 0.00 0.00 2.52
2031 2138 5.337733 GGGTTTATATTTTCCCCAACGCTTT 60.338 40.000 0.00 0.00 35.32 3.51
2048 2155 8.633561 GCTTTATGCTTTCTAGAATGGGTTTAT 58.366 33.333 17.41 4.92 38.95 1.40
2053 2160 4.279420 GGGCTTTATGCTTTCTAGAATGGG 59.721 45.833 17.41 7.98 42.39 4.00
2058 2165 6.240894 CCATATGGGCTTTATGCTTTCTAGA 58.759 40.000 14.52 0.00 42.39 2.43
2165 2278 6.145534 TGCTATTATGTTACGCTGATACTTGC 59.854 38.462 0.00 0.00 0.00 4.01


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

AutoCloner maintained by Alex Coulton.