Multiple sequence alignment - TraesCS7B01G082000

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 TraesCS7B01G082000 chr7B 100.000 1922 0 0 1 1922 92553956 92555877 0.000000e+00 3550.0
1 TraesCS7B01G082000 chr7B 100.000 638 0 0 2140 2777 92556095 92556732 0.000000e+00 1179.0
2 TraesCS7B01G082000 chr7B 87.313 670 58 11 1 653 409166249 409166908 0.000000e+00 741.0
3 TraesCS7B01G082000 chr7D 93.205 883 29 9 852 1712 131597775 131598648 0.000000e+00 1269.0
4 TraesCS7B01G082000 chr7D 85.303 660 48 25 2140 2777 131598967 131599599 1.080000e-178 636.0
5 TraesCS7B01G082000 chr7D 91.262 206 13 4 1711 1914 131598678 131598880 2.720000e-70 276.0
6 TraesCS7B01G082000 chr7A 85.555 1253 77 42 744 1921 130292414 130293637 0.000000e+00 1216.0
7 TraesCS7B01G082000 chr7A 93.220 354 18 5 2428 2777 130294010 130294361 1.470000e-142 516.0
8 TraesCS7B01G082000 chr7A 85.874 269 18 14 2140 2401 130293759 130294014 4.560000e-68 268.0
9 TraesCS7B01G082000 chr7A 97.059 34 1 0 375 408 543805178 543805145 1.070000e-04 58.4
10 TraesCS7B01G082000 chr3A 88.331 677 54 7 1 654 715737389 715736715 0.000000e+00 789.0
11 TraesCS7B01G082000 chr5D 88.244 672 56 13 1 652 458692769 458693437 0.000000e+00 782.0
12 TraesCS7B01G082000 chr5D 80.952 399 37 17 239 631 548021145 548021510 2.110000e-71 279.0
13 TraesCS7B01G082000 chr6B 88.253 664 59 9 1 653 8813079 8813734 0.000000e+00 776.0
14 TraesCS7B01G082000 chr6B 86.232 552 48 6 1 530 681074449 681074994 8.630000e-160 573.0
15 TraesCS7B01G082000 chr6B 88.971 136 15 0 517 652 681075010 681075145 4.760000e-38 169.0
16 TraesCS7B01G082000 chr3D 86.012 672 69 10 1 652 174412549 174413215 0.000000e+00 697.0
17 TraesCS7B01G082000 chr4B 83.333 684 79 11 1 663 574055628 574054959 1.420000e-167 599.0
18 TraesCS7B01G082000 chr1B 84.288 611 77 11 48 649 412873202 412872602 1.850000e-161 579.0
19 TraesCS7B01G082000 chr1D 83.111 450 56 12 1 433 411311618 411312064 2.590000e-105 392.0


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 TraesCS7B01G082000 chr7B 92553956 92556732 2776 False 2364.500000 3550 100.000000 1 2777 2 chr7B.!!$F2 2776
1 TraesCS7B01G082000 chr7B 409166249 409166908 659 False 741.000000 741 87.313000 1 653 1 chr7B.!!$F1 652
2 TraesCS7B01G082000 chr7D 131597775 131599599 1824 False 727.000000 1269 89.923333 852 2777 3 chr7D.!!$F1 1925
3 TraesCS7B01G082000 chr7A 130292414 130294361 1947 False 666.666667 1216 88.216333 744 2777 3 chr7A.!!$F1 2033
4 TraesCS7B01G082000 chr3A 715736715 715737389 674 True 789.000000 789 88.331000 1 654 1 chr3A.!!$R1 653
5 TraesCS7B01G082000 chr5D 458692769 458693437 668 False 782.000000 782 88.244000 1 652 1 chr5D.!!$F1 651
6 TraesCS7B01G082000 chr6B 8813079 8813734 655 False 776.000000 776 88.253000 1 653 1 chr6B.!!$F1 652
7 TraesCS7B01G082000 chr6B 681074449 681075145 696 False 371.000000 573 87.601500 1 652 2 chr6B.!!$F2 651
8 TraesCS7B01G082000 chr3D 174412549 174413215 666 False 697.000000 697 86.012000 1 652 1 chr3D.!!$F1 651
9 TraesCS7B01G082000 chr4B 574054959 574055628 669 True 599.000000 599 83.333000 1 663 1 chr4B.!!$R1 662
10 TraesCS7B01G082000 chr1B 412872602 412873202 600 True 579.000000 579 84.288000 48 649 1 chr1B.!!$R1 601

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
526 579 1.071385 CAGAGGGTCTTCTGCAACACT 59.929 52.381 0.0 0.0 38.28 3.55 F
817 901 1.507630 CCATGCCACCAATCACACG 59.492 57.895 0.0 0.0 0.00 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1458 1560 0.108615 CTCTTCTTCACGGACGCCAT 60.109 55.0 0.0 0.0 0.00 4.40 R
2408 2650 0.739561 GCTCGGGTCGTAGAGAATGT 59.260 55.0 0.0 0.0 36.95 2.71 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
211 248 7.769272 TGTCAAGGTCTTTATTTGCAAAAAG 57.231 32.000 17.19 15.75 34.65 2.27
214 252 8.542953 GTCAAGGTCTTTATTTGCAAAAAGAAG 58.457 33.333 21.95 20.25 41.89 2.85
215 253 8.257306 TCAAGGTCTTTATTTGCAAAAAGAAGT 58.743 29.630 21.95 12.76 41.89 3.01
233 271 9.466497 AAAAGAAGTTCTGCAATATGATCCTAA 57.534 29.630 6.06 0.00 0.00 2.69
280 320 4.220602 ACCCATGTTGCAAAAGGATTCTAC 59.779 41.667 2.03 0.00 0.00 2.59
287 327 4.442706 TGCAAAAGGATTCTACCGATCTC 58.557 43.478 0.00 0.00 34.73 2.75
293 333 8.577296 CAAAAGGATTCTACCGATCTCTACATA 58.423 37.037 0.00 0.00 34.73 2.29
312 352 4.156008 ACATATTCCGCAACAAGACCTTTC 59.844 41.667 0.00 0.00 0.00 2.62
448 499 5.791336 GGAAAAATTCCTCCAACAAGACT 57.209 39.130 1.86 0.00 46.57 3.24
526 579 1.071385 CAGAGGGTCTTCTGCAACACT 59.929 52.381 0.00 0.00 38.28 3.55
537 621 7.119846 GGTCTTCTGCAACACTAATCTTATTGT 59.880 37.037 0.00 0.00 0.00 2.71
567 651 2.489329 GGCTACTTACGCGGGTATATCA 59.511 50.000 13.56 0.00 0.00 2.15
585 669 8.067784 GGTATATCAAACGACCATTAATGTGTG 58.932 37.037 14.25 5.74 31.89 3.82
659 743 1.718396 GTAGCGTCGCCCTAGTTTTT 58.282 50.000 14.86 0.00 0.00 1.94
696 780 7.866038 GAATTATGCAATTCAAAACAATCGC 57.134 32.000 6.29 0.00 46.29 4.58
697 781 6.964741 ATTATGCAATTCAAAACAATCGCA 57.035 29.167 0.00 0.00 0.00 5.10
698 782 4.650545 ATGCAATTCAAAACAATCGCAC 57.349 36.364 0.00 0.00 0.00 5.34
699 783 3.451526 TGCAATTCAAAACAATCGCACA 58.548 36.364 0.00 0.00 0.00 4.57
700 784 3.490155 TGCAATTCAAAACAATCGCACAG 59.510 39.130 0.00 0.00 0.00 3.66
701 785 3.490526 GCAATTCAAAACAATCGCACAGT 59.509 39.130 0.00 0.00 0.00 3.55
702 786 4.025813 GCAATTCAAAACAATCGCACAGTT 60.026 37.500 0.00 0.00 0.00 3.16
703 787 5.659426 CAATTCAAAACAATCGCACAGTTC 58.341 37.500 0.00 0.00 0.00 3.01
704 788 4.630894 TTCAAAACAATCGCACAGTTCT 57.369 36.364 0.00 0.00 0.00 3.01
705 789 4.630894 TCAAAACAATCGCACAGTTCTT 57.369 36.364 0.00 0.00 0.00 2.52
706 790 4.992688 TCAAAACAATCGCACAGTTCTTT 58.007 34.783 0.00 0.00 0.00 2.52
707 791 5.406649 TCAAAACAATCGCACAGTTCTTTT 58.593 33.333 0.00 0.00 0.00 2.27
708 792 5.866633 TCAAAACAATCGCACAGTTCTTTTT 59.133 32.000 0.00 0.00 0.00 1.94
817 901 1.507630 CCATGCCACCAATCACACG 59.492 57.895 0.00 0.00 0.00 4.49
819 903 2.689785 ATGCCACCAATCACACGCG 61.690 57.895 3.53 3.53 0.00 6.01
855 939 2.044806 CTCACCCCACCATCCGATCC 62.045 65.000 0.00 0.00 0.00 3.36
1025 1127 2.949963 GCCACCATTAATCTTCCAGCCA 60.950 50.000 0.00 0.00 0.00 4.75
1316 1418 2.202987 CTGATGCGGCAGGAGGAC 60.203 66.667 9.25 0.00 32.26 3.85
1355 1457 2.434884 CGTCACGGCAAGCAGGAT 60.435 61.111 0.00 0.00 0.00 3.24
1476 1578 0.108804 GATGGCGTCCGTGAAGAAGA 60.109 55.000 0.00 0.00 0.00 2.87
1670 1837 2.800544 TCTTTCTCGCTGTTTCTTTCGG 59.199 45.455 0.00 0.00 0.00 4.30
1671 1838 1.508632 TTCTCGCTGTTTCTTTCGGG 58.491 50.000 0.00 0.00 0.00 5.14
1672 1839 0.391597 TCTCGCTGTTTCTTTCGGGT 59.608 50.000 0.00 0.00 0.00 5.28
1673 1840 1.202604 TCTCGCTGTTTCTTTCGGGTT 60.203 47.619 0.00 0.00 0.00 4.11
1674 1841 1.602377 CTCGCTGTTTCTTTCGGGTTT 59.398 47.619 0.00 0.00 0.00 3.27
1675 1842 1.332375 TCGCTGTTTCTTTCGGGTTTG 59.668 47.619 0.00 0.00 0.00 2.93
1676 1843 1.064952 CGCTGTTTCTTTCGGGTTTGT 59.935 47.619 0.00 0.00 0.00 2.83
1677 1844 2.459934 GCTGTTTCTTTCGGGTTTGTG 58.540 47.619 0.00 0.00 0.00 3.33
1678 1845 2.459934 CTGTTTCTTTCGGGTTTGTGC 58.540 47.619 0.00 0.00 0.00 4.57
1679 1846 1.135333 TGTTTCTTTCGGGTTTGTGCC 59.865 47.619 0.00 0.00 0.00 5.01
1680 1847 0.747852 TTTCTTTCGGGTTTGTGCCC 59.252 50.000 0.00 0.00 45.21 5.36
1681 1848 0.106419 TTCTTTCGGGTTTGTGCCCT 60.106 50.000 0.00 0.00 46.47 5.19
1682 1849 0.821711 TCTTTCGGGTTTGTGCCCTG 60.822 55.000 0.00 0.00 46.47 4.45
1683 1850 1.076632 TTTCGGGTTTGTGCCCTGT 60.077 52.632 0.00 0.00 46.47 4.00
1684 1851 0.684805 TTTCGGGTTTGTGCCCTGTT 60.685 50.000 0.00 0.00 46.47 3.16
1685 1852 1.388065 TTCGGGTTTGTGCCCTGTTG 61.388 55.000 0.00 0.00 46.47 3.33
1801 2003 2.368685 GATCGCGTTGTTCGTTTGTTT 58.631 42.857 5.77 0.00 42.13 2.83
1844 2047 2.158885 TGGTGGATGTTTCTTGTCGTGA 60.159 45.455 0.00 0.00 0.00 4.35
1848 2051 3.074412 GGATGTTTCTTGTCGTGATGGT 58.926 45.455 0.00 0.00 0.00 3.55
1871 2074 7.213914 GTGAGATTCACTAGCTCCGTAGGTC 62.214 52.000 0.00 0.00 46.40 3.85
1880 2083 3.193757 CCGTAGGTCGCAGCTACA 58.806 61.111 18.81 0.00 46.45 2.74
1881 2084 1.064296 CCGTAGGTCGCAGCTACAG 59.936 63.158 18.81 13.43 46.45 2.74
1882 2085 1.064296 CGTAGGTCGCAGCTACAGG 59.936 63.158 18.81 6.33 46.45 4.00
1883 2086 1.227002 GTAGGTCGCAGCTACAGGC 60.227 63.158 15.87 0.00 45.67 4.85
1903 2106 2.928757 GCTACAGCTGAGTCTGTCAATG 59.071 50.000 23.35 0.00 45.32 2.82
1910 2113 4.039730 AGCTGAGTCTGTCAATGTTGTACT 59.960 41.667 0.00 0.00 33.60 2.73
1911 2114 5.243954 AGCTGAGTCTGTCAATGTTGTACTA 59.756 40.000 0.00 0.00 33.60 1.82
1912 2115 5.574830 GCTGAGTCTGTCAATGTTGTACTAG 59.425 44.000 0.00 0.00 33.60 2.57
1917 2120 8.142994 AGTCTGTCAATGTTGTACTAGTTTTG 57.857 34.615 0.00 0.00 0.00 2.44
1919 2122 8.395633 GTCTGTCAATGTTGTACTAGTTTTGTT 58.604 33.333 0.00 0.00 0.00 2.83
1920 2123 8.394877 TCTGTCAATGTTGTACTAGTTTTGTTG 58.605 33.333 0.00 0.26 0.00 3.33
1921 2124 7.476667 TGTCAATGTTGTACTAGTTTTGTTGG 58.523 34.615 0.00 0.00 0.00 3.77
2167 2370 3.300009 CCGAAACATCAGAACTGTTTGC 58.700 45.455 6.83 0.20 44.56 3.68
2168 2371 3.243035 CCGAAACATCAGAACTGTTTGCA 60.243 43.478 6.83 0.00 44.56 4.08
2169 2372 4.539870 CGAAACATCAGAACTGTTTGCAT 58.460 39.130 6.83 0.00 44.56 3.96
2170 2373 4.614284 CGAAACATCAGAACTGTTTGCATC 59.386 41.667 6.83 0.00 44.56 3.91
2171 2374 5.561532 CGAAACATCAGAACTGTTTGCATCT 60.562 40.000 6.83 0.00 44.56 2.90
2172 2375 4.761235 ACATCAGAACTGTTTGCATCTG 57.239 40.909 6.43 6.43 40.46 2.90
2173 2376 3.057736 ACATCAGAACTGTTTGCATCTGC 60.058 43.478 7.70 0.00 39.27 4.26
2239 2446 3.865745 CGAGACCATCACATAACTGGTTC 59.134 47.826 0.00 0.00 43.23 3.62
2256 2463 6.560711 ACTGGTTCAAGTTTGATGTTTACAC 58.439 36.000 0.00 0.00 37.00 2.90
2266 2473 1.737793 GATGTTTACACCCTTCGCCAG 59.262 52.381 0.00 0.00 0.00 4.85
2289 2497 4.672587 TGAGGCAATCTGTGACCTATAC 57.327 45.455 0.00 0.00 34.75 1.47
2297 2505 7.210174 GCAATCTGTGACCTATACACATTCTA 58.790 38.462 0.00 0.00 45.18 2.10
2298 2506 7.875041 GCAATCTGTGACCTATACACATTCTAT 59.125 37.037 0.00 0.00 45.18 1.98
2318 2526 6.403878 TCTATTTCTACCCCTTCGTTTTCTG 58.596 40.000 0.00 0.00 0.00 3.02
2324 2532 1.541670 CCCCTTCGTTTTCTGTTCGGA 60.542 52.381 0.00 0.00 0.00 4.55
2325 2533 2.215196 CCCTTCGTTTTCTGTTCGGAA 58.785 47.619 0.00 0.00 0.00 4.30
2401 2643 7.133483 ACTATACATTCTGTACCTCCCTTTCT 58.867 38.462 0.00 0.00 35.42 2.52
2402 2644 4.559862 ACATTCTGTACCTCCCTTTCTG 57.440 45.455 0.00 0.00 0.00 3.02
2403 2645 3.274288 CATTCTGTACCTCCCTTTCTGC 58.726 50.000 0.00 0.00 0.00 4.26
2404 2646 2.024176 TCTGTACCTCCCTTTCTGCA 57.976 50.000 0.00 0.00 0.00 4.41
2407 2649 2.503356 CTGTACCTCCCTTTCTGCATCT 59.497 50.000 0.00 0.00 0.00 2.90
2408 2650 3.706594 CTGTACCTCCCTTTCTGCATCTA 59.293 47.826 0.00 0.00 0.00 1.98
2409 2651 3.451178 TGTACCTCCCTTTCTGCATCTAC 59.549 47.826 0.00 0.00 0.00 2.59
2410 2652 2.551270 ACCTCCCTTTCTGCATCTACA 58.449 47.619 0.00 0.00 0.00 2.74
2411 2653 3.118531 ACCTCCCTTTCTGCATCTACAT 58.881 45.455 0.00 0.00 0.00 2.29
2412 2654 3.525199 ACCTCCCTTTCTGCATCTACATT 59.475 43.478 0.00 0.00 0.00 2.71
2413 2655 4.133078 CCTCCCTTTCTGCATCTACATTC 58.867 47.826 0.00 0.00 0.00 2.67
2414 2656 4.141528 CCTCCCTTTCTGCATCTACATTCT 60.142 45.833 0.00 0.00 0.00 2.40
2415 2657 5.028549 TCCCTTTCTGCATCTACATTCTC 57.971 43.478 0.00 0.00 0.00 2.87
2416 2658 4.718774 TCCCTTTCTGCATCTACATTCTCT 59.281 41.667 0.00 0.00 0.00 3.10
2417 2659 5.899547 TCCCTTTCTGCATCTACATTCTCTA 59.100 40.000 0.00 0.00 0.00 2.43
2418 2660 5.988561 CCCTTTCTGCATCTACATTCTCTAC 59.011 44.000 0.00 0.00 0.00 2.59
2419 2661 5.689514 CCTTTCTGCATCTACATTCTCTACG 59.310 44.000 0.00 0.00 0.00 3.51
2420 2662 6.451064 TTTCTGCATCTACATTCTCTACGA 57.549 37.500 0.00 0.00 0.00 3.43
2421 2663 5.425577 TCTGCATCTACATTCTCTACGAC 57.574 43.478 0.00 0.00 0.00 4.34
2422 2664 4.276183 TCTGCATCTACATTCTCTACGACC 59.724 45.833 0.00 0.00 0.00 4.79
2423 2665 3.318275 TGCATCTACATTCTCTACGACCC 59.682 47.826 0.00 0.00 0.00 4.46
2424 2666 3.609644 GCATCTACATTCTCTACGACCCG 60.610 52.174 0.00 0.00 0.00 5.28
2425 2667 3.548745 TCTACATTCTCTACGACCCGA 57.451 47.619 0.00 0.00 0.00 5.14
2426 2668 3.464907 TCTACATTCTCTACGACCCGAG 58.535 50.000 0.00 0.00 0.00 4.63
2427 2669 0.739561 ACATTCTCTACGACCCGAGC 59.260 55.000 0.00 0.00 0.00 5.03
2428 2670 1.025812 CATTCTCTACGACCCGAGCT 58.974 55.000 0.00 0.00 0.00 4.09
2429 2671 1.405821 CATTCTCTACGACCCGAGCTT 59.594 52.381 0.00 0.00 0.00 3.74
2430 2672 1.542492 TTCTCTACGACCCGAGCTTT 58.458 50.000 0.00 0.00 0.00 3.51
2431 2673 1.093159 TCTCTACGACCCGAGCTTTC 58.907 55.000 0.00 0.00 0.00 2.62
2432 2674 0.809385 CTCTACGACCCGAGCTTTCA 59.191 55.000 0.00 0.00 0.00 2.69
2433 2675 1.405821 CTCTACGACCCGAGCTTTCAT 59.594 52.381 0.00 0.00 0.00 2.57
2434 2676 2.617308 CTCTACGACCCGAGCTTTCATA 59.383 50.000 0.00 0.00 0.00 2.15
2435 2677 2.357009 TCTACGACCCGAGCTTTCATAC 59.643 50.000 0.00 0.00 0.00 2.39
2436 2678 1.183549 ACGACCCGAGCTTTCATACT 58.816 50.000 0.00 0.00 0.00 2.12
2437 2679 1.134560 ACGACCCGAGCTTTCATACTC 59.865 52.381 0.00 0.00 0.00 2.59
2438 2680 1.405821 CGACCCGAGCTTTCATACTCT 59.594 52.381 0.00 0.00 0.00 3.24
2447 2689 6.590292 CCGAGCTTTCATACTCTTAACTTTGA 59.410 38.462 0.00 0.00 0.00 2.69
2455 2697 9.778741 TTCATACTCTTAACTTTGAACATGTCT 57.221 29.630 0.00 0.00 0.00 3.41
2459 2701 6.203723 ACTCTTAACTTTGAACATGTCTCAGC 59.796 38.462 0.00 0.00 0.00 4.26
2463 2705 2.084610 TTGAACATGTCTCAGCTCCG 57.915 50.000 0.00 0.00 0.00 4.63
2545 2795 3.699955 TTCGAGGGCGCTGTCATCG 62.700 63.158 8.56 10.31 37.46 3.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 50 2.607892 GCCGCTCGCAACTTCAAGT 61.608 57.895 0.00 0.00 37.47 3.16
46 51 2.174349 GCCGCTCGCAACTTCAAG 59.826 61.111 0.00 0.00 37.47 3.02
256 296 3.647590 AGAATCCTTTTGCAACATGGGTT 59.352 39.130 0.00 4.07 37.87 4.11
280 320 3.850122 TGCGGAATATGTAGAGATCGG 57.150 47.619 0.00 0.00 0.00 4.18
287 327 4.442706 AGGTCTTGTTGCGGAATATGTAG 58.557 43.478 0.00 0.00 0.00 2.74
293 333 2.863809 AGAAAGGTCTTGTTGCGGAAT 58.136 42.857 0.00 0.00 0.00 3.01
427 478 7.549134 ACAAAAGTCTTGTTGGAGGAATTTTTC 59.451 33.333 10.35 0.00 35.88 2.29
526 579 8.202137 AGTAGCCGCTTCTTTACAATAAGATTA 58.798 33.333 0.00 0.00 34.33 1.75
537 621 2.533266 GCGTAAGTAGCCGCTTCTTTA 58.467 47.619 16.34 2.87 46.08 1.85
567 651 4.094294 CGATCCACACATTAATGGTCGTTT 59.906 41.667 19.37 0.66 36.06 3.60
585 669 1.784525 CCTCGCTAACCATTCGATCC 58.215 55.000 0.00 0.00 0.00 3.36
672 756 7.454642 TGCGATTGTTTTGAATTGCATAATTC 58.545 30.769 4.46 4.46 44.41 2.17
673 757 7.361889 TGCGATTGTTTTGAATTGCATAATT 57.638 28.000 0.00 0.00 44.41 1.40
674 758 6.964741 TGCGATTGTTTTGAATTGCATAAT 57.035 29.167 0.00 0.00 44.41 1.28
678 762 3.451526 TGTGCGATTGTTTTGAATTGCA 58.548 36.364 0.00 0.00 46.20 4.08
679 763 3.490526 ACTGTGCGATTGTTTTGAATTGC 59.509 39.130 0.00 0.00 41.44 3.56
680 764 5.459762 AGAACTGTGCGATTGTTTTGAATTG 59.540 36.000 0.00 0.00 0.00 2.32
681 765 5.591099 AGAACTGTGCGATTGTTTTGAATT 58.409 33.333 0.00 0.00 0.00 2.17
682 766 5.186996 AGAACTGTGCGATTGTTTTGAAT 57.813 34.783 0.00 0.00 0.00 2.57
683 767 4.630894 AGAACTGTGCGATTGTTTTGAA 57.369 36.364 0.00 0.00 0.00 2.69
684 768 4.630894 AAGAACTGTGCGATTGTTTTGA 57.369 36.364 0.00 0.00 0.00 2.69
685 769 5.701029 AAAAGAACTGTGCGATTGTTTTG 57.299 34.783 0.00 0.00 32.04 2.44
719 803 7.756722 GCTGTACAATGTTTTCAGCTCAATAAT 59.243 33.333 21.13 0.00 45.14 1.28
720 804 7.083858 GCTGTACAATGTTTTCAGCTCAATAA 58.916 34.615 21.13 0.00 45.14 1.40
721 805 6.611381 GCTGTACAATGTTTTCAGCTCAATA 58.389 36.000 21.13 0.00 45.14 1.90
722 806 5.464168 GCTGTACAATGTTTTCAGCTCAAT 58.536 37.500 21.13 0.00 45.14 2.57
723 807 4.858935 GCTGTACAATGTTTTCAGCTCAA 58.141 39.130 21.13 0.00 45.14 3.02
724 808 4.488126 GCTGTACAATGTTTTCAGCTCA 57.512 40.909 21.13 0.00 45.14 4.26
728 812 6.138761 GTCAAGAGCTGTACAATGTTTTCAG 58.861 40.000 0.00 0.00 0.00 3.02
729 813 5.008613 GGTCAAGAGCTGTACAATGTTTTCA 59.991 40.000 0.00 0.00 0.00 2.69
730 814 5.452777 GGTCAAGAGCTGTACAATGTTTTC 58.547 41.667 0.00 0.00 0.00 2.29
731 815 4.024048 CGGTCAAGAGCTGTACAATGTTTT 60.024 41.667 0.00 0.00 0.00 2.43
732 816 3.498397 CGGTCAAGAGCTGTACAATGTTT 59.502 43.478 0.00 0.00 0.00 2.83
733 817 3.067106 CGGTCAAGAGCTGTACAATGTT 58.933 45.455 0.00 0.00 0.00 2.71
734 818 2.688507 CGGTCAAGAGCTGTACAATGT 58.311 47.619 0.00 0.00 0.00 2.71
735 819 1.394917 GCGGTCAAGAGCTGTACAATG 59.605 52.381 0.00 0.00 0.00 2.82
736 820 1.001974 TGCGGTCAAGAGCTGTACAAT 59.998 47.619 0.00 0.00 0.00 2.71
737 821 0.391228 TGCGGTCAAGAGCTGTACAA 59.609 50.000 0.00 0.00 0.00 2.41
738 822 0.038251 CTGCGGTCAAGAGCTGTACA 60.038 55.000 0.00 0.00 0.00 2.90
739 823 1.355066 GCTGCGGTCAAGAGCTGTAC 61.355 60.000 0.00 0.00 35.24 2.90
740 824 1.079819 GCTGCGGTCAAGAGCTGTA 60.080 57.895 0.00 0.00 35.24 2.74
741 825 2.358003 GCTGCGGTCAAGAGCTGT 60.358 61.111 0.00 0.00 35.24 4.40
742 826 3.123620 GGCTGCGGTCAAGAGCTG 61.124 66.667 0.00 0.00 33.03 4.24
830 914 3.889525 ATGGTGGGGTGAGCAGGGA 62.890 63.158 0.00 0.00 0.00 4.20
831 915 3.341629 ATGGTGGGGTGAGCAGGG 61.342 66.667 0.00 0.00 0.00 4.45
832 916 2.273449 GATGGTGGGGTGAGCAGG 59.727 66.667 0.00 0.00 0.00 4.85
833 917 2.273449 GGATGGTGGGGTGAGCAG 59.727 66.667 0.00 0.00 0.00 4.24
834 918 3.716195 CGGATGGTGGGGTGAGCA 61.716 66.667 0.00 0.00 0.00 4.26
835 919 2.666596 GATCGGATGGTGGGGTGAGC 62.667 65.000 0.00 0.00 0.00 4.26
1025 1127 1.169661 CGTCTAGCTCGGAGGATGCT 61.170 60.000 7.20 0.77 40.43 3.79
1133 1235 2.045536 CTGAGGCAGAAGGGGCAC 60.046 66.667 0.00 0.00 32.44 5.01
1295 1397 2.515290 TCCTGCCGCATCAGCATG 60.515 61.111 0.00 0.00 40.04 4.06
1335 1437 2.356313 CTGCTTGCCGTGACGAGT 60.356 61.111 6.54 0.00 0.00 4.18
1336 1438 2.842394 ATCCTGCTTGCCGTGACGAG 62.842 60.000 6.54 0.00 0.00 4.18
1339 1441 3.044059 GCATCCTGCTTGCCGTGAC 62.044 63.158 0.00 0.00 40.96 3.67
1363 1465 1.677637 CTTCTCCCCGTAGTCTGCCC 61.678 65.000 0.00 0.00 0.00 5.36
1367 1469 3.358118 CTTCTTCTTCTCCCCGTAGTCT 58.642 50.000 0.00 0.00 0.00 3.24
1370 1472 1.137282 GGCTTCTTCTTCTCCCCGTAG 59.863 57.143 0.00 0.00 0.00 3.51
1371 1473 1.192428 GGCTTCTTCTTCTCCCCGTA 58.808 55.000 0.00 0.00 0.00 4.02
1458 1560 0.108615 CTCTTCTTCACGGACGCCAT 60.109 55.000 0.00 0.00 0.00 4.40
1554 1681 1.324005 ACCAACCAACCAACCAACCG 61.324 55.000 0.00 0.00 0.00 4.44
1617 1751 0.395686 CGAGCAGGTGATCCATCCAT 59.604 55.000 0.00 0.00 35.89 3.41
1670 1837 3.137687 CCCAACAGGGCACAAACC 58.862 61.111 0.00 0.00 35.34 3.27
1679 1846 2.727544 CGCACCAAACCCAACAGG 59.272 61.111 0.00 0.00 43.78 4.00
1680 1847 2.027460 GCGCACCAAACCCAACAG 59.973 61.111 0.30 0.00 0.00 3.16
1681 1848 3.893763 CGCGCACCAAACCCAACA 61.894 61.111 8.75 0.00 0.00 3.33
1682 1849 4.639171 CCGCGCACCAAACCCAAC 62.639 66.667 8.75 0.00 0.00 3.77
1685 1852 4.639171 CAACCGCGCACCAAACCC 62.639 66.667 8.75 0.00 0.00 4.11
1801 2003 1.080366 CGATCGTGACGGGGAAACA 60.080 57.895 7.03 0.00 0.00 2.83
1848 2051 3.215151 CCTACGGAGCTAGTGAATCTCA 58.785 50.000 4.72 0.00 0.00 3.27
1876 2079 2.098934 CAGACTCAGCTGTAGCCTGTAG 59.901 54.545 14.67 3.29 43.38 2.74
1878 2081 0.894141 CAGACTCAGCTGTAGCCTGT 59.106 55.000 14.67 4.47 43.38 4.00
1879 2082 0.894141 ACAGACTCAGCTGTAGCCTG 59.106 55.000 19.98 19.98 46.67 4.85
1880 2083 3.372557 ACAGACTCAGCTGTAGCCT 57.627 52.632 14.67 4.94 46.67 4.58
2145 2348 3.853307 GCAAACAGTTCTGATGTTTCGGG 60.853 47.826 6.83 0.00 45.33 5.14
2157 2360 2.798976 TTGGCAGATGCAAACAGTTC 57.201 45.000 7.19 0.00 44.36 3.01
2167 2370 1.901591 AACAGGTCAGTTGGCAGATG 58.098 50.000 0.00 0.00 0.00 2.90
2168 2371 2.664402 AAACAGGTCAGTTGGCAGAT 57.336 45.000 0.00 0.00 0.00 2.90
2169 2372 2.092429 AGAAAACAGGTCAGTTGGCAGA 60.092 45.455 0.00 0.00 0.00 4.26
2170 2373 2.301346 AGAAAACAGGTCAGTTGGCAG 58.699 47.619 0.00 0.00 0.00 4.85
2171 2374 2.426738 CAAGAAAACAGGTCAGTTGGCA 59.573 45.455 0.00 0.00 0.00 4.92
2172 2375 2.687935 TCAAGAAAACAGGTCAGTTGGC 59.312 45.455 0.00 0.00 0.00 4.52
2173 2376 4.157656 TGTTCAAGAAAACAGGTCAGTTGG 59.842 41.667 0.00 0.00 34.31 3.77
2239 2446 5.212194 CGAAGGGTGTAAACATCAAACTTG 58.788 41.667 0.00 0.00 0.00 3.16
2256 2463 2.747855 GCCTCAACTGGCGAAGGG 60.748 66.667 0.00 0.00 43.74 3.95
2266 2473 2.191128 AGGTCACAGATTGCCTCAAC 57.809 50.000 0.00 0.00 28.68 3.18
2289 2497 5.671493 ACGAAGGGGTAGAAATAGAATGTG 58.329 41.667 0.00 0.00 0.00 3.21
2297 2505 4.981812 ACAGAAAACGAAGGGGTAGAAAT 58.018 39.130 0.00 0.00 0.00 2.17
2298 2506 4.426736 ACAGAAAACGAAGGGGTAGAAA 57.573 40.909 0.00 0.00 0.00 2.52
2318 2526 2.375173 ACGGTACAGGATTTCCGAAC 57.625 50.000 9.37 0.00 44.86 3.95
2324 2532 3.986435 ACCTAGGTACGGTACAGGATTT 58.014 45.455 23.91 6.21 31.69 2.17
2325 2533 3.677156 ACCTAGGTACGGTACAGGATT 57.323 47.619 23.91 6.77 31.69 3.01
2401 2643 3.318275 GGGTCGTAGAGAATGTAGATGCA 59.682 47.826 0.00 0.00 36.95 3.96
2402 2644 3.609644 CGGGTCGTAGAGAATGTAGATGC 60.610 52.174 0.00 0.00 36.95 3.91
2403 2645 3.813724 TCGGGTCGTAGAGAATGTAGATG 59.186 47.826 0.00 0.00 36.95 2.90
2404 2646 4.066490 CTCGGGTCGTAGAGAATGTAGAT 58.934 47.826 0.00 0.00 36.95 1.98
2407 2649 1.945394 GCTCGGGTCGTAGAGAATGTA 59.055 52.381 0.00 0.00 36.95 2.29
2408 2650 0.739561 GCTCGGGTCGTAGAGAATGT 59.260 55.000 0.00 0.00 36.95 2.71
2409 2651 1.025812 AGCTCGGGTCGTAGAGAATG 58.974 55.000 0.00 0.00 36.95 2.67
2410 2652 1.765230 AAGCTCGGGTCGTAGAGAAT 58.235 50.000 0.00 0.00 36.95 2.40
2411 2653 1.471684 GAAAGCTCGGGTCGTAGAGAA 59.528 52.381 0.00 0.00 36.95 2.87
2412 2654 1.093159 GAAAGCTCGGGTCGTAGAGA 58.907 55.000 0.00 0.00 36.95 3.10
2413 2655 0.809385 TGAAAGCTCGGGTCGTAGAG 59.191 55.000 0.00 0.00 36.95 2.43
2414 2656 1.471119 ATGAAAGCTCGGGTCGTAGA 58.529 50.000 0.00 0.00 0.00 2.59
2415 2657 2.358267 AGTATGAAAGCTCGGGTCGTAG 59.642 50.000 0.00 0.00 0.00 3.51
2416 2658 2.357009 GAGTATGAAAGCTCGGGTCGTA 59.643 50.000 0.00 0.00 0.00 3.43
2417 2659 1.134560 GAGTATGAAAGCTCGGGTCGT 59.865 52.381 0.00 0.00 0.00 4.34
2418 2660 1.405821 AGAGTATGAAAGCTCGGGTCG 59.594 52.381 0.00 0.00 36.88 4.79
2419 2661 3.528597 AAGAGTATGAAAGCTCGGGTC 57.471 47.619 0.00 0.00 36.88 4.46
2420 2662 4.466726 AGTTAAGAGTATGAAAGCTCGGGT 59.533 41.667 0.00 0.00 36.88 5.28
2421 2663 5.012328 AGTTAAGAGTATGAAAGCTCGGG 57.988 43.478 0.00 0.00 36.88 5.14
2422 2664 6.590292 TCAAAGTTAAGAGTATGAAAGCTCGG 59.410 38.462 0.00 0.00 36.88 4.63
2423 2665 7.582435 TCAAAGTTAAGAGTATGAAAGCTCG 57.418 36.000 0.00 0.00 36.88 5.03
2424 2666 8.774586 TGTTCAAAGTTAAGAGTATGAAAGCTC 58.225 33.333 0.00 0.00 0.00 4.09
2425 2667 8.677148 TGTTCAAAGTTAAGAGTATGAAAGCT 57.323 30.769 0.00 0.00 0.00 3.74
2426 2668 9.334693 CATGTTCAAAGTTAAGAGTATGAAAGC 57.665 33.333 0.00 0.00 0.00 3.51
2429 2671 9.778741 AGACATGTTCAAAGTTAAGAGTATGAA 57.221 29.630 0.00 0.00 0.00 2.57
2430 2672 9.424319 GAGACATGTTCAAAGTTAAGAGTATGA 57.576 33.333 0.00 0.00 0.00 2.15
2431 2673 9.208022 TGAGACATGTTCAAAGTTAAGAGTATG 57.792 33.333 0.00 0.00 0.00 2.39
2432 2674 9.429359 CTGAGACATGTTCAAAGTTAAGAGTAT 57.571 33.333 0.00 0.00 0.00 2.12
2433 2675 7.385205 GCTGAGACATGTTCAAAGTTAAGAGTA 59.615 37.037 0.00 0.00 0.00 2.59
2434 2676 6.203723 GCTGAGACATGTTCAAAGTTAAGAGT 59.796 38.462 0.00 0.00 0.00 3.24
2435 2677 6.426328 AGCTGAGACATGTTCAAAGTTAAGAG 59.574 38.462 0.00 0.00 0.00 2.85
2436 2678 6.291377 AGCTGAGACATGTTCAAAGTTAAGA 58.709 36.000 0.00 0.00 0.00 2.10
2437 2679 6.348050 GGAGCTGAGACATGTTCAAAGTTAAG 60.348 42.308 0.00 0.00 0.00 1.85
2438 2680 5.470098 GGAGCTGAGACATGTTCAAAGTTAA 59.530 40.000 0.00 0.00 0.00 2.01
2447 2689 2.839486 TTTCGGAGCTGAGACATGTT 57.161 45.000 0.00 0.00 0.00 2.71
2471 2713 5.395214 GGTTTGACATGTCCAACTTTTTCCT 60.395 40.000 30.71 0.00 36.04 3.36
2473 2715 5.290885 GTGGTTTGACATGTCCAACTTTTTC 59.709 40.000 30.71 19.50 36.04 2.29
2478 2720 2.091885 AGGTGGTTTGACATGTCCAACT 60.092 45.455 30.71 23.55 42.32 3.16
2479 2721 2.293399 GAGGTGGTTTGACATGTCCAAC 59.707 50.000 26.74 26.74 37.87 3.77
2525 2775 0.811616 GATGACAGCGCCCTCGAAAT 60.812 55.000 2.29 0.00 38.10 2.17
2545 2795 2.416972 GGATGTGGAGTACCTTGACGAC 60.417 54.545 0.00 0.00 37.04 4.34
2740 2990 1.007734 CGTGGTACCGGATCCATCG 60.008 63.158 20.84 19.97 36.09 3.84


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

AutoCloner maintained by Alex Coulton.