Multiple sequence alignment - TraesCS7D01G320500

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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 TraesCS7D01G320500 chr7D 100.000 2636 0 0 1 2636 410514903 410517538 0.000000e+00 4868.0
1 TraesCS7D01G320500 chr7D 71.823 724 122 50 1938 2636 55141063 55140397 5.920000e-27 132.0
2 TraesCS7D01G320500 chr7A 90.564 1950 75 48 750 2636 471561650 471559747 0.000000e+00 2481.0
3 TraesCS7D01G320500 chr7A 92.308 182 14 0 238 419 471562021 471561840 2.600000e-65 259.0
4 TraesCS7D01G320500 chr7A 91.589 107 9 0 449 555 471561774 471561668 5.880000e-32 148.0
5 TraesCS7D01G320500 chr7B 91.376 1832 66 35 770 2528 425230259 425228447 0.000000e+00 2423.0
6 TraesCS7D01G320500 chr7B 84.756 328 39 6 238 555 425230762 425230436 4.230000e-83 318.0
7 TraesCS7D01G320500 chr7B 87.815 238 27 2 1 238 425231028 425230793 7.190000e-71 278.0
8 TraesCS7D01G320500 chr7B 95.902 122 4 1 2516 2636 425227564 425227443 2.070000e-46 196.0
9 TraesCS7D01G320500 chrUn 72.785 474 75 26 2180 2635 368384964 368385401 7.710000e-21 111.0
10 TraesCS7D01G320500 chrUn 97.297 37 1 0 2133 2169 368384935 368384971 2.190000e-06 63.9
11 TraesCS7D01G320500 chr2A 72.785 474 75 27 2180 2635 6275455 6275018 7.710000e-21 111.0
12 TraesCS7D01G320500 chr2A 97.297 37 1 0 2133 2169 6275484 6275448 2.190000e-06 63.9
13 TraesCS7D01G320500 chr5D 90.769 65 6 0 587 651 511626663 511626599 1.300000e-13 87.9


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 TraesCS7D01G320500 chr7D 410514903 410517538 2635 False 4868.000000 4868 100.00000 1 2636 1 chr7D.!!$F1 2635
1 TraesCS7D01G320500 chr7A 471559747 471562021 2274 True 962.666667 2481 91.48700 238 2636 3 chr7A.!!$R1 2398
2 TraesCS7D01G320500 chr7B 425227443 425231028 3585 True 803.750000 2423 89.96225 1 2636 4 chr7B.!!$R1 2635

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
629 700 0.250727 GCTACTCAGTTGGGTGGCAA 60.251 55.0 14.63 0.0 39.24 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2405 2564 2.402564 TGGCCTCTCCTCTCAAATAGG 58.597 52.381 3.32 0.0 35.26 2.57 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 2.383527 CCTTCAGCCTCACGCGAAC 61.384 63.158 15.93 0.00 44.76 3.95
32 33 4.717629 TCAGCCTCACGCGAACCG 62.718 66.667 15.93 0.00 44.76 4.44
36 37 2.600475 GCCTCACGCGAACCGAAAA 61.600 57.895 15.93 0.00 41.02 2.29
40 41 1.393539 CTCACGCGAACCGAAAATGAT 59.606 47.619 15.93 0.00 41.02 2.45
43 44 0.907171 CGCGAACCGAAAATGATTGC 59.093 50.000 0.00 0.00 40.02 3.56
51 52 2.415893 CCGAAAATGATTGCCACCTGAC 60.416 50.000 0.00 0.00 0.00 3.51
58 59 4.255833 TGATTGCCACCTGACAAATTTC 57.744 40.909 0.00 0.00 0.00 2.17
59 60 3.640498 TGATTGCCACCTGACAAATTTCA 59.360 39.130 0.00 0.00 0.00 2.69
81 82 2.280628 GCGCCTGATACTTAGCAAACT 58.719 47.619 0.00 0.00 0.00 2.66
85 86 4.201724 CGCCTGATACTTAGCAAACTTGTC 60.202 45.833 0.00 0.00 0.00 3.18
87 88 5.245531 CCTGATACTTAGCAAACTTGTCCA 58.754 41.667 0.00 0.00 0.00 4.02
91 92 7.648142 TGATACTTAGCAAACTTGTCCAAAAG 58.352 34.615 0.00 0.00 0.00 2.27
96 97 3.934579 AGCAAACTTGTCCAAAAGCTTTG 59.065 39.130 13.54 7.04 34.66 2.77
101 102 3.513515 ACTTGTCCAAAAGCTTTGACCAA 59.486 39.130 20.82 15.82 0.00 3.67
105 106 6.418057 TGTCCAAAAGCTTTGACCAATAAT 57.582 33.333 20.82 0.00 0.00 1.28
112 113 9.643693 CAAAAGCTTTGACCAATAATATGAGTT 57.356 29.630 13.54 0.00 0.00 3.01
142 143 9.725019 CTAATAGATTGGGCATATGTTCTTGTA 57.275 33.333 4.29 0.00 0.00 2.41
152 153 7.978975 GGGCATATGTTCTTGTAGCAAAATAAA 59.021 33.333 4.29 0.00 0.00 1.40
153 154 9.023967 GGCATATGTTCTTGTAGCAAAATAAAG 57.976 33.333 4.29 0.00 0.00 1.85
317 351 8.860088 ACCAAAATAGTGCATAGATTAAATCCC 58.140 33.333 0.00 0.00 0.00 3.85
331 365 8.551682 AGATTAAATCCCATTAAAAGGATGCA 57.448 30.769 9.71 0.00 42.19 3.96
419 453 6.169557 TGGAACTGTGTGAGTAGTTACATT 57.830 37.500 0.00 0.00 41.52 2.71
421 455 7.051623 TGGAACTGTGTGAGTAGTTACATTTT 58.948 34.615 0.00 0.00 41.52 1.82
493 564 7.806960 GGTAAAGTACTAGAATGTACATAGGCG 59.193 40.741 9.21 1.45 43.65 5.52
538 609 1.070786 AGTTGCGGTGAATCGTGGT 59.929 52.632 0.00 0.00 0.00 4.16
555 626 4.751098 TCGTGGTGGTTATTTACAACTCAC 59.249 41.667 0.00 0.00 32.71 3.51
556 627 4.083696 CGTGGTGGTTATTTACAACTCACC 60.084 45.833 14.49 14.49 43.16 4.02
559 630 6.040054 GTGGTGGTTATTTACAACTCACCTTT 59.960 38.462 18.70 0.00 43.20 3.11
560 631 6.608002 TGGTGGTTATTTACAACTCACCTTTT 59.392 34.615 18.70 0.00 43.20 2.27
561 632 7.124448 TGGTGGTTATTTACAACTCACCTTTTT 59.876 33.333 18.70 0.00 43.20 1.94
606 677 9.981114 AACCATTGTTAAGGAAATCTTTAACTG 57.019 29.630 21.35 14.97 44.06 3.16
607 678 8.585018 ACCATTGTTAAGGAAATCTTTAACTGG 58.415 33.333 21.76 21.76 44.06 4.00
608 679 8.585018 CCATTGTTAAGGAAATCTTTAACTGGT 58.415 33.333 21.35 10.14 44.06 4.00
614 685 9.662947 TTAAGGAAATCTTTAACTGGTAGCTAC 57.337 33.333 15.88 15.88 36.93 3.58
616 687 7.557724 AGGAAATCTTTAACTGGTAGCTACTC 58.442 38.462 22.74 13.53 0.00 2.59
617 688 7.180408 AGGAAATCTTTAACTGGTAGCTACTCA 59.820 37.037 22.74 17.02 0.00 3.41
619 690 7.483580 AATCTTTAACTGGTAGCTACTCAGT 57.516 36.000 28.16 28.16 38.48 3.41
621 692 6.688578 TCTTTAACTGGTAGCTACTCAGTTG 58.311 40.000 38.11 30.07 42.32 3.16
622 693 3.963428 AACTGGTAGCTACTCAGTTGG 57.037 47.619 35.06 19.76 41.59 3.77
623 694 2.180276 ACTGGTAGCTACTCAGTTGGG 58.820 52.381 28.16 14.82 35.59 4.12
624 695 2.180276 CTGGTAGCTACTCAGTTGGGT 58.820 52.381 22.74 0.00 0.00 4.51
626 697 1.207329 GGTAGCTACTCAGTTGGGTGG 59.793 57.143 22.74 0.00 0.00 4.61
628 699 1.127567 AGCTACTCAGTTGGGTGGCA 61.128 55.000 20.41 0.00 41.32 4.92
629 700 0.250727 GCTACTCAGTTGGGTGGCAA 60.251 55.000 14.63 0.00 39.24 4.52
630 701 1.813513 CTACTCAGTTGGGTGGCAAG 58.186 55.000 0.00 0.00 0.00 4.01
632 703 1.136828 ACTCAGTTGGGTGGCAAGTA 58.863 50.000 0.00 0.00 0.00 2.24
633 704 1.493022 ACTCAGTTGGGTGGCAAGTAA 59.507 47.619 0.00 0.00 0.00 2.24
634 705 2.092103 ACTCAGTTGGGTGGCAAGTAAA 60.092 45.455 0.00 0.00 0.00 2.01
635 706 2.554032 CTCAGTTGGGTGGCAAGTAAAG 59.446 50.000 0.00 0.00 0.00 1.85
636 707 1.613437 CAGTTGGGTGGCAAGTAAAGG 59.387 52.381 0.00 0.00 0.00 3.11
637 708 1.497286 AGTTGGGTGGCAAGTAAAGGA 59.503 47.619 0.00 0.00 0.00 3.36
638 709 2.110011 AGTTGGGTGGCAAGTAAAGGAT 59.890 45.455 0.00 0.00 0.00 3.24
640 711 4.083565 GTTGGGTGGCAAGTAAAGGATTA 58.916 43.478 0.00 0.00 0.00 1.75
641 712 4.390129 TGGGTGGCAAGTAAAGGATTAA 57.610 40.909 0.00 0.00 0.00 1.40
642 713 4.941713 TGGGTGGCAAGTAAAGGATTAAT 58.058 39.130 0.00 0.00 0.00 1.40
643 714 6.080969 TGGGTGGCAAGTAAAGGATTAATA 57.919 37.500 0.00 0.00 0.00 0.98
645 716 6.069323 TGGGTGGCAAGTAAAGGATTAATAGA 60.069 38.462 0.00 0.00 0.00 1.98
646 717 6.262496 GGGTGGCAAGTAAAGGATTAATAGAC 59.738 42.308 0.00 0.00 0.00 2.59
647 718 7.054751 GGTGGCAAGTAAAGGATTAATAGACT 58.945 38.462 0.00 0.00 0.00 3.24
648 719 8.208903 GGTGGCAAGTAAAGGATTAATAGACTA 58.791 37.037 0.00 0.00 0.00 2.59
713 784 3.717890 CGACTATTTCGTACTACACTGCG 59.282 47.826 0.00 0.00 43.24 5.18
714 785 4.025015 ACTATTTCGTACTACACTGCGG 57.975 45.455 0.00 0.00 0.00 5.69
715 786 3.441572 ACTATTTCGTACTACACTGCGGT 59.558 43.478 0.00 0.00 0.00 5.68
716 787 2.798976 TTTCGTACTACACTGCGGTT 57.201 45.000 0.00 0.00 0.00 4.44
717 788 3.913548 TTTCGTACTACACTGCGGTTA 57.086 42.857 0.00 0.00 0.00 2.85
718 789 3.476295 TTCGTACTACACTGCGGTTAG 57.524 47.619 0.00 4.47 0.00 2.34
719 790 1.739466 TCGTACTACACTGCGGTTAGG 59.261 52.381 15.07 4.78 0.00 2.69
720 791 1.739466 CGTACTACACTGCGGTTAGGA 59.261 52.381 15.07 7.44 0.00 2.94
721 792 2.162208 CGTACTACACTGCGGTTAGGAA 59.838 50.000 15.07 4.90 0.00 3.36
722 793 3.181493 CGTACTACACTGCGGTTAGGAAT 60.181 47.826 15.07 2.76 0.00 3.01
723 794 3.975168 ACTACACTGCGGTTAGGAATT 57.025 42.857 15.07 0.00 0.00 2.17
724 795 5.449041 CGTACTACACTGCGGTTAGGAATTA 60.449 44.000 15.07 1.85 0.00 1.40
725 796 5.410355 ACTACACTGCGGTTAGGAATTAA 57.590 39.130 15.07 0.00 0.00 1.40
726 797 5.985911 ACTACACTGCGGTTAGGAATTAAT 58.014 37.500 15.07 0.00 0.00 1.40
727 798 6.047231 ACTACACTGCGGTTAGGAATTAATC 58.953 40.000 15.07 0.00 0.00 1.75
728 799 3.869246 ACACTGCGGTTAGGAATTAATCG 59.131 43.478 0.00 0.00 46.27 3.34
729 800 4.116961 CACTGCGGTTAGGAATTAATCGA 58.883 43.478 0.00 0.00 46.42 3.59
730 801 4.025979 CACTGCGGTTAGGAATTAATCGAC 60.026 45.833 0.00 0.00 46.42 4.20
736 807 6.256321 GCGGTTAGGAATTAATCGACAAGTTA 59.744 38.462 3.97 0.00 46.42 2.24
738 809 7.703621 CGGTTAGGAATTAATCGACAAGTTAGA 59.296 37.037 0.00 0.00 46.42 2.10
740 811 8.529911 GTTAGGAATTAATCGACAAGTTAGACG 58.470 37.037 0.00 0.00 0.00 4.18
743 814 7.980099 AGGAATTAATCGACAAGTTAGACGAAT 59.020 33.333 0.00 0.00 38.93 3.34
744 815 8.601476 GGAATTAATCGACAAGTTAGACGAATT 58.399 33.333 0.00 0.00 38.93 2.17
860 945 4.330074 GTCGTCACTCCATTCGATTCAATT 59.670 41.667 0.00 0.00 34.93 2.32
1662 1753 2.772739 ATGACTTCATGAGCCGCAC 58.227 52.632 0.00 0.00 34.83 5.34
1681 1772 5.277586 CCGCACATCACAGTAAAAACAGTTA 60.278 40.000 0.00 0.00 0.00 2.24
1707 1798 6.632834 CACTTTATGATAAATAGCGTGTTGGC 59.367 38.462 0.00 0.00 0.00 4.52
1839 1961 9.063615 TGTGTATCATTACGTACAGTCATATCT 57.936 33.333 0.00 0.00 31.95 1.98
1899 2047 4.456535 TGGTTTACATACAGTTGTGCAGT 58.543 39.130 0.00 0.00 0.00 4.40
1905 2053 3.694072 ACATACAGTTGTGCAGTGTGTTT 59.306 39.130 0.46 0.00 39.59 2.83
1923 2071 6.147000 GTGTGTTTTCATTTGTTCTGGTTTGT 59.853 34.615 0.00 0.00 0.00 2.83
1950 2098 1.615392 ACTTGTGATTTTGGCCTGAGC 59.385 47.619 3.32 0.00 38.76 4.26
1951 2099 1.891150 CTTGTGATTTTGGCCTGAGCT 59.109 47.619 3.32 0.00 39.73 4.09
2017 2165 3.854666 TCAGCTGCAGATTCACTTAGAC 58.145 45.455 20.43 0.00 0.00 2.59
2053 2203 9.170584 GAAAGTTCCAGCTATATTTTATTTCGC 57.829 33.333 0.00 0.00 0.00 4.70
2056 2206 8.682710 AGTTCCAGCTATATTTTATTTCGCAAA 58.317 29.630 0.00 0.00 0.00 3.68
2057 2207 9.296400 GTTCCAGCTATATTTTATTTCGCAAAA 57.704 29.630 0.00 0.00 0.00 2.44
2199 2351 4.202264 ACCAGTCATCTTCCGCTATTAAGG 60.202 45.833 0.00 0.00 0.00 2.69
2343 2497 5.789521 TGTATAGCAAAGCTGTCAAGTACA 58.210 37.500 1.04 0.00 40.10 2.90
2344 2498 6.406370 TGTATAGCAAAGCTGTCAAGTACAT 58.594 36.000 1.04 0.00 40.10 2.29
2345 2499 6.878923 TGTATAGCAAAGCTGTCAAGTACATT 59.121 34.615 1.04 0.00 40.10 2.71
2347 2501 4.863491 AGCAAAGCTGTCAAGTACATTTG 58.137 39.130 0.00 0.00 39.49 2.32
2405 2564 6.256757 GGTTGTCTGATTCTTGCATACTACTC 59.743 42.308 0.00 0.00 0.00 2.59
2554 3622 2.742053 AGCGTGTAACAAGGCAATGTAG 59.258 45.455 0.00 0.00 35.74 2.74
2586 3654 8.299570 ACAAGAGTATTTCACAAATCACAATCC 58.700 33.333 0.00 0.00 32.38 3.01
2613 3689 6.436218 TGAAGAAGACTATGCAGTACTACCAA 59.564 38.462 0.00 0.00 34.21 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.743928 GTGAGGCTGAAGGCGGTG 60.744 66.667 0.00 0.00 46.23 4.94
8 9 4.379243 CGTGAGGCTGAAGGCGGT 62.379 66.667 0.00 0.00 46.23 5.68
30 31 1.818060 TCAGGTGGCAATCATTTTCGG 59.182 47.619 0.00 0.00 0.00 4.30
32 33 3.940209 TGTCAGGTGGCAATCATTTTC 57.060 42.857 0.00 0.00 0.00 2.29
36 37 4.283978 TGAAATTTGTCAGGTGGCAATCAT 59.716 37.500 0.00 0.00 39.61 2.45
40 41 3.731652 CTGAAATTTGTCAGGTGGCAA 57.268 42.857 0.00 0.00 41.21 4.52
58 59 0.104855 TGCTAAGTATCAGGCGCCTG 59.895 55.000 44.24 44.24 44.86 4.85
59 60 0.830648 TTGCTAAGTATCAGGCGCCT 59.169 50.000 27.08 27.08 0.00 5.52
63 64 4.095036 GGACAAGTTTGCTAAGTATCAGGC 59.905 45.833 0.00 0.00 0.00 4.85
71 72 4.936891 AGCTTTTGGACAAGTTTGCTAAG 58.063 39.130 0.00 0.00 0.00 2.18
81 82 4.751767 ATTGGTCAAAGCTTTTGGACAA 57.248 36.364 23.51 18.81 32.00 3.18
85 86 8.253113 ACTCATATTATTGGTCAAAGCTTTTGG 58.747 33.333 9.53 0.00 0.00 3.28
134 135 7.084486 CCCAGACTTTATTTTGCTACAAGAAC 58.916 38.462 0.00 0.00 0.00 3.01
136 137 6.303839 ACCCAGACTTTATTTTGCTACAAGA 58.696 36.000 0.00 0.00 0.00 3.02
137 138 6.206634 TGACCCAGACTTTATTTTGCTACAAG 59.793 38.462 0.00 0.00 0.00 3.16
142 143 9.646522 AATATATGACCCAGACTTTATTTTGCT 57.353 29.630 0.00 0.00 0.00 3.91
189 190 9.852481 CATTTAATGAATTTAATGAATGCACCG 57.148 29.630 8.40 0.00 38.41 4.94
220 221 1.222936 CCCAGTCATGACCTGGAGC 59.777 63.158 30.30 7.35 40.50 4.70
300 334 9.696917 CCTTTTAATGGGATTTAATCTATGCAC 57.303 33.333 4.87 0.00 0.00 4.57
307 341 9.783081 ATTGCATCCTTTTAATGGGATTTAATC 57.217 29.630 6.90 0.00 40.01 1.75
386 420 5.701290 ACTCACACAGTTCCAAAATACTAGC 59.299 40.000 0.00 0.00 26.56 3.42
388 422 7.959175 ACTACTCACACAGTTCCAAAATACTA 58.041 34.615 0.00 0.00 36.43 1.82
421 455 4.792513 TGTAACTACTCCCCCACAAAAA 57.207 40.909 0.00 0.00 0.00 1.94
424 458 5.535029 AGATATGTAACTACTCCCCCACAA 58.465 41.667 0.00 0.00 0.00 3.33
425 459 5.152306 AGATATGTAACTACTCCCCCACA 57.848 43.478 0.00 0.00 0.00 4.17
426 460 5.601313 TGAAGATATGTAACTACTCCCCCAC 59.399 44.000 0.00 0.00 0.00 4.61
427 461 5.784023 TGAAGATATGTAACTACTCCCCCA 58.216 41.667 0.00 0.00 0.00 4.96
428 462 6.070710 GGATGAAGATATGTAACTACTCCCCC 60.071 46.154 0.00 0.00 0.00 5.40
429 463 6.497259 TGGATGAAGATATGTAACTACTCCCC 59.503 42.308 0.00 0.00 0.00 4.81
430 464 7.540474 TGGATGAAGATATGTAACTACTCCC 57.460 40.000 0.00 0.00 0.00 4.30
431 465 9.482627 CTTTGGATGAAGATATGTAACTACTCC 57.517 37.037 0.00 0.00 0.00 3.85
493 564 3.058432 CGAATGGATGATCAGGCATTCAC 60.058 47.826 17.19 0.46 36.63 3.18
580 651 9.981114 CAGTTAAAGATTTCCTTAACAATGGTT 57.019 29.630 12.13 0.00 41.06 3.67
581 652 8.585018 CCAGTTAAAGATTTCCTTAACAATGGT 58.415 33.333 12.13 0.00 34.00 3.55
582 653 8.585018 ACCAGTTAAAGATTTCCTTAACAATGG 58.415 33.333 12.13 12.82 34.00 3.16
585 656 8.789762 GCTACCAGTTAAAGATTTCCTTAACAA 58.210 33.333 12.13 0.00 34.00 2.83
587 658 8.563123 AGCTACCAGTTAAAGATTTCCTTAAC 57.437 34.615 4.38 4.38 34.00 2.01
588 659 9.662947 GTAGCTACCAGTTAAAGATTTCCTTAA 57.337 33.333 13.20 0.00 34.00 1.85
589 660 9.043548 AGTAGCTACCAGTTAAAGATTTCCTTA 57.956 33.333 20.31 0.00 34.00 2.69
591 662 7.180408 TGAGTAGCTACCAGTTAAAGATTTCCT 59.820 37.037 20.31 0.00 0.00 3.36
594 665 7.908453 ACTGAGTAGCTACCAGTTAAAGATTT 58.092 34.615 28.16 12.77 35.59 2.17
595 666 7.483580 ACTGAGTAGCTACCAGTTAAAGATT 57.516 36.000 28.16 13.26 35.59 2.40
596 667 7.324178 CAACTGAGTAGCTACCAGTTAAAGAT 58.676 38.462 35.02 22.62 41.42 2.40
598 669 5.869888 CCAACTGAGTAGCTACCAGTTAAAG 59.130 44.000 35.02 28.03 41.42 1.85
601 672 3.767673 CCCAACTGAGTAGCTACCAGTTA 59.232 47.826 35.02 14.61 41.42 2.24
603 674 2.180276 CCCAACTGAGTAGCTACCAGT 58.820 52.381 28.16 28.16 38.48 4.00
605 676 1.899814 CACCCAACTGAGTAGCTACCA 59.100 52.381 20.31 15.83 0.00 3.25
606 677 1.207329 CCACCCAACTGAGTAGCTACC 59.793 57.143 20.31 12.16 0.00 3.18
607 678 1.405661 GCCACCCAACTGAGTAGCTAC 60.406 57.143 16.43 16.43 0.00 3.58
608 679 0.902531 GCCACCCAACTGAGTAGCTA 59.097 55.000 0.00 0.00 0.00 3.32
610 681 0.250727 TTGCCACCCAACTGAGTAGC 60.251 55.000 0.00 0.00 0.00 3.58
614 685 2.270352 TTACTTGCCACCCAACTGAG 57.730 50.000 0.00 0.00 0.00 3.35
616 687 1.613437 CCTTTACTTGCCACCCAACTG 59.387 52.381 0.00 0.00 0.00 3.16
617 688 1.497286 TCCTTTACTTGCCACCCAACT 59.503 47.619 0.00 0.00 0.00 3.16
619 690 2.990740 ATCCTTTACTTGCCACCCAA 57.009 45.000 0.00 0.00 0.00 4.12
621 692 6.262496 GTCTATTAATCCTTTACTTGCCACCC 59.738 42.308 0.00 0.00 0.00 4.61
622 693 7.054751 AGTCTATTAATCCTTTACTTGCCACC 58.945 38.462 0.00 0.00 0.00 4.61
623 694 9.609346 TTAGTCTATTAATCCTTTACTTGCCAC 57.391 33.333 0.00 0.00 0.00 5.01
692 763 4.033684 CCGCAGTGTAGTACGAAATAGTC 58.966 47.826 0.00 0.00 0.00 2.59
693 764 3.441572 ACCGCAGTGTAGTACGAAATAGT 59.558 43.478 0.00 0.00 0.00 2.12
694 765 4.025015 ACCGCAGTGTAGTACGAAATAG 57.975 45.455 0.00 0.00 0.00 1.73
695 766 4.439305 AACCGCAGTGTAGTACGAAATA 57.561 40.909 0.00 0.00 0.00 1.40
696 767 3.308438 AACCGCAGTGTAGTACGAAAT 57.692 42.857 0.00 0.00 0.00 2.17
697 768 2.798976 AACCGCAGTGTAGTACGAAA 57.201 45.000 0.00 0.00 0.00 3.46
698 769 2.162208 CCTAACCGCAGTGTAGTACGAA 59.838 50.000 0.00 0.00 0.00 3.85
699 770 1.739466 CCTAACCGCAGTGTAGTACGA 59.261 52.381 0.00 0.00 0.00 3.43
700 771 1.739466 TCCTAACCGCAGTGTAGTACG 59.261 52.381 0.00 0.00 0.00 3.67
701 772 3.855689 TTCCTAACCGCAGTGTAGTAC 57.144 47.619 0.00 0.00 0.00 2.73
702 773 6.528537 TTAATTCCTAACCGCAGTGTAGTA 57.471 37.500 0.00 0.00 0.00 1.82
703 774 3.975168 AATTCCTAACCGCAGTGTAGT 57.025 42.857 0.00 0.00 0.00 2.73
704 775 5.175126 CGATTAATTCCTAACCGCAGTGTAG 59.825 44.000 0.00 0.00 0.00 2.74
705 776 5.045215 CGATTAATTCCTAACCGCAGTGTA 58.955 41.667 0.00 0.00 0.00 2.90
706 777 3.869246 CGATTAATTCCTAACCGCAGTGT 59.131 43.478 0.00 0.00 0.00 3.55
707 778 4.025979 GTCGATTAATTCCTAACCGCAGTG 60.026 45.833 0.00 0.00 0.00 3.66
708 779 4.117685 GTCGATTAATTCCTAACCGCAGT 58.882 43.478 0.00 0.00 0.00 4.40
709 780 4.116961 TGTCGATTAATTCCTAACCGCAG 58.883 43.478 0.00 0.00 0.00 5.18
710 781 4.126208 TGTCGATTAATTCCTAACCGCA 57.874 40.909 0.00 0.00 0.00 5.69
711 782 4.569564 ACTTGTCGATTAATTCCTAACCGC 59.430 41.667 0.00 0.00 0.00 5.68
712 783 6.657836 AACTTGTCGATTAATTCCTAACCG 57.342 37.500 0.00 0.00 0.00 4.44
713 784 8.815189 GTCTAACTTGTCGATTAATTCCTAACC 58.185 37.037 0.00 0.00 0.00 2.85
714 785 8.529911 CGTCTAACTTGTCGATTAATTCCTAAC 58.470 37.037 0.00 0.00 0.00 2.34
715 786 8.461222 TCGTCTAACTTGTCGATTAATTCCTAA 58.539 33.333 0.00 0.00 0.00 2.69
716 787 7.988737 TCGTCTAACTTGTCGATTAATTCCTA 58.011 34.615 0.00 0.00 0.00 2.94
717 788 6.860080 TCGTCTAACTTGTCGATTAATTCCT 58.140 36.000 0.00 0.00 0.00 3.36
718 789 7.515957 TTCGTCTAACTTGTCGATTAATTCC 57.484 36.000 0.00 0.00 32.54 3.01
723 794 9.241317 GGATTAATTCGTCTAACTTGTCGATTA 57.759 33.333 0.00 0.00 32.54 1.75
724 795 7.762615 TGGATTAATTCGTCTAACTTGTCGATT 59.237 33.333 0.00 0.00 32.54 3.34
725 796 7.262772 TGGATTAATTCGTCTAACTTGTCGAT 58.737 34.615 0.00 0.00 32.54 3.59
726 797 6.623486 TGGATTAATTCGTCTAACTTGTCGA 58.377 36.000 0.00 0.00 0.00 4.20
727 798 6.750501 TCTGGATTAATTCGTCTAACTTGTCG 59.249 38.462 0.00 0.00 0.00 4.35
728 799 7.544566 TGTCTGGATTAATTCGTCTAACTTGTC 59.455 37.037 0.00 0.00 0.00 3.18
729 800 7.383687 TGTCTGGATTAATTCGTCTAACTTGT 58.616 34.615 0.00 0.00 0.00 3.16
730 801 7.827819 TGTCTGGATTAATTCGTCTAACTTG 57.172 36.000 0.00 0.00 0.00 3.16
746 817 8.938906 GTGCATTCAAAAATAAAATGTCTGGAT 58.061 29.630 0.00 0.00 33.82 3.41
748 819 7.228840 CGTGCATTCAAAAATAAAATGTCTGG 58.771 34.615 0.00 0.00 33.82 3.86
798 883 4.384846 CCAGCGCTTTATATACCGTTACTG 59.615 45.833 7.50 0.00 0.00 2.74
1681 1772 7.678690 GCCAACACGCTATTTATCATAAAGTGT 60.679 37.037 6.95 6.95 41.32 3.55
1753 1848 7.422399 TGTGATTATCATCATTGTGCAGAATG 58.578 34.615 26.30 26.30 41.64 2.67
1754 1849 7.284716 ACTGTGATTATCATCATTGTGCAGAAT 59.715 33.333 2.67 2.67 41.64 2.40
1755 1850 6.600427 ACTGTGATTATCATCATTGTGCAGAA 59.400 34.615 0.00 0.00 41.64 3.02
1899 2047 6.226787 ACAAACCAGAACAAATGAAAACACA 58.773 32.000 0.00 0.00 0.00 3.72
1905 2053 6.696411 AGTGAAACAAACCAGAACAAATGAA 58.304 32.000 0.00 0.00 41.43 2.57
1937 2085 4.796606 ACACATATAGCTCAGGCCAAAAT 58.203 39.130 5.01 0.00 39.73 1.82
1950 2098 7.377662 CACAATTGCAGCATTGTACACATATAG 59.622 37.037 14.76 0.00 38.78 1.31
1951 2099 7.148103 ACACAATTGCAGCATTGTACACATATA 60.148 33.333 14.76 0.00 38.78 0.86
2056 2206 8.814038 AGCTTCATCAGGAGTAATACATTTTT 57.186 30.769 0.00 0.00 0.00 1.94
2057 2207 7.500559 GGAGCTTCATCAGGAGTAATACATTTT 59.499 37.037 0.00 0.00 0.00 1.82
2060 2210 5.843421 AGGAGCTTCATCAGGAGTAATACAT 59.157 40.000 0.00 0.00 0.00 2.29
2061 2211 5.069648 CAGGAGCTTCATCAGGAGTAATACA 59.930 44.000 0.00 0.00 0.00 2.29
2199 2351 5.950549 TCCTATATCCTCCTAATTGGTCGAC 59.049 44.000 7.13 7.13 37.07 4.20
2343 2497 7.849804 ACAATCGCTAATTGACTACTCAAAT 57.150 32.000 13.69 0.00 46.54 2.32
2344 2498 7.010183 GCTACAATCGCTAATTGACTACTCAAA 59.990 37.037 13.69 0.00 46.54 2.69
2345 2499 6.475727 GCTACAATCGCTAATTGACTACTCAA 59.524 38.462 13.69 0.00 46.54 3.02
2347 2501 5.977725 TGCTACAATCGCTAATTGACTACTC 59.022 40.000 13.69 1.11 46.54 2.59
2405 2564 2.402564 TGGCCTCTCCTCTCAAATAGG 58.597 52.381 3.32 0.00 35.26 2.57
2554 3622 8.918658 TGATTTGTGAAATACTCTTGTACGTAC 58.081 33.333 18.90 18.90 0.00 3.67
2586 3654 5.590530 AGTACTGCATAGTCTTCTTCAGG 57.409 43.478 0.00 0.00 38.36 3.86


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

AutoCloner maintained by Alex Coulton.