Multiple sequence alignment - TraesCS6A01G364400

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 TraesCS6A01G364400 chr6A 100.000 4456 0 0 1 4456 593027965 593023510 0.000000e+00 8229
1 TraesCS6A01G364400 chr6A 98.792 662 8 0 1 662 593010428 593009767 0.000000e+00 1179
2 TraesCS6A01G364400 chr4A 93.689 2440 110 20 678 3080 599180001 599177569 0.000000e+00 3613
3 TraesCS6A01G364400 chr4A 93.645 2439 112 19 678 3080 599102622 599100191 0.000000e+00 3605
4 TraesCS6A01G364400 chr4A 93.440 2439 117 19 678 3080 599223428 599220997 0.000000e+00 3578
5 TraesCS6A01G364400 chr4A 92.617 1639 83 15 678 2283 599084899 599083266 0.000000e+00 2322
6 TraesCS6A01G364400 chr4A 92.455 1617 83 17 678 2261 599146841 599145231 0.000000e+00 2274
7 TraesCS6A01G364400 chr4A 95.004 1381 61 2 3077 4456 599123714 599122341 0.000000e+00 2161
8 TraesCS6A01G364400 chr4A 94.931 1381 62 2 3077 4456 599156672 599155299 0.000000e+00 2156
9 TraesCS6A01G364400 chr4A 94.786 1381 64 3 3077 4456 599245751 599244378 0.000000e+00 2145
10 TraesCS6A01G364400 chr4A 94.420 1380 70 3 3077 4456 599177528 599176156 0.000000e+00 2115
11 TraesCS6A01G364400 chr4A 94.420 1380 70 3 3077 4456 599220956 599219584 0.000000e+00 2115
12 TraesCS6A01G364400 chr4A 93.773 1381 80 2 3077 4456 599082491 599081116 0.000000e+00 2069
13 TraesCS6A01G364400 chr4A 93.606 1392 70 6 3077 4456 599100150 599098766 0.000000e+00 2060
14 TraesCS6A01G364400 chr4A 93.255 1364 56 8 678 2006 599126113 599124751 0.000000e+00 1977
15 TraesCS6A01G364400 chr4A 93.119 1366 56 13 678 2006 599159074 599157710 0.000000e+00 1967
16 TraesCS6A01G364400 chr4A 93.114 1365 58 8 678 2006 599248153 599246789 0.000000e+00 1967
17 TraesCS6A01G364400 chr4A 94.449 1189 60 2 3077 4265 599143669 599142487 0.000000e+00 1825
18 TraesCS6A01G364400 chr4A 96.603 1001 31 3 2082 3080 599246791 599245792 0.000000e+00 1657
19 TraesCS6A01G364400 chr4A 96.503 1001 32 3 2082 3080 599157712 599156713 0.000000e+00 1652
20 TraesCS6A01G364400 chr4A 96.004 1001 36 4 2082 3080 599124753 599123755 0.000000e+00 1624
21 TraesCS6A01G364400 chr4A 85.887 1155 91 37 678 1788 598816166 598815040 0.000000e+00 1164
22 TraesCS6A01G364400 chr4A 89.671 668 33 13 1019 1656 599099136 599098475 0.000000e+00 819
23 TraesCS6A01G364400 chr4A 92.877 365 20 3 4092 4456 599158716 599158358 3.950000e-145 525
24 TraesCS6A01G364400 chr4A 88.000 375 29 9 737 1107 598787769 598787407 3.180000e-116 429
25 TraesCS6A01G364400 chr4A 90.800 250 7 8 678 911 599202392 599202143 2.000000e-83 320
26 TraesCS6A01G364400 chr4D 91.517 2452 128 38 678 3080 4416827 4419247 0.000000e+00 3302
27 TraesCS6A01G364400 chr4D 85.333 900 71 26 678 1539 4458695 4459571 0.000000e+00 874
28 TraesCS6A01G364400 chr4B 91.533 2433 134 27 701 3080 7170329 7172742 0.000000e+00 3286
29 TraesCS6A01G364400 chr4B 91.092 2436 142 28 701 3080 7217288 7219704 0.000000e+00 3227
30 TraesCS6A01G364400 chr4B 91.003 2423 145 36 701 3080 7353326 7355718 0.000000e+00 3199
31 TraesCS6A01G364400 chr4B 85.928 1137 90 28 678 1785 7375374 7376469 0.000000e+00 1149
32 TraesCS6A01G364400 chrUn 92.393 1617 84 17 678 2261 360633238 360631628 0.000000e+00 2268
33 TraesCS6A01G364400 chrUn 95.148 1381 59 2 3077 4456 216673870 216672497 0.000000e+00 2172
34 TraesCS6A01G364400 chrUn 96.603 1001 31 3 2082 3080 216674910 216673911 0.000000e+00 1657
35 TraesCS6A01G364400 chr6B 96.847 666 17 3 1 662 674714178 674713513 0.000000e+00 1110
36 TraesCS6A01G364400 chr6D 95.495 666 25 4 1 662 446445257 446444593 0.000000e+00 1059


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 TraesCS6A01G364400 chr6A 593023510 593027965 4455 True 8229.000000 8229 100.000000 1 4456 1 chr6A.!!$R2 4455
1 TraesCS6A01G364400 chr6A 593009767 593010428 661 True 1179.000000 1179 98.792000 1 662 1 chr6A.!!$R1 661
2 TraesCS6A01G364400 chr4A 599176156 599180001 3845 True 2864.000000 3613 94.054500 678 4456 2 chr4A.!!$R9 3778
3 TraesCS6A01G364400 chr4A 599219584 599223428 3844 True 2846.500000 3578 93.930000 678 4456 2 chr4A.!!$R10 3778
4 TraesCS6A01G364400 chr4A 599081116 599084899 3783 True 2195.500000 2322 93.195000 678 4456 2 chr4A.!!$R4 3778
5 TraesCS6A01G364400 chr4A 599098475 599102622 4147 True 2161.333333 3605 92.307333 678 4456 3 chr4A.!!$R5 3778
6 TraesCS6A01G364400 chr4A 599142487 599146841 4354 True 2049.500000 2274 93.452000 678 4265 2 chr4A.!!$R7 3587
7 TraesCS6A01G364400 chr4A 599244378 599248153 3775 True 1923.000000 2145 94.834333 678 4456 3 chr4A.!!$R11 3778
8 TraesCS6A01G364400 chr4A 599122341 599126113 3772 True 1920.666667 2161 94.754333 678 4456 3 chr4A.!!$R6 3778
9 TraesCS6A01G364400 chr4A 599155299 599159074 3775 True 1575.000000 2156 94.357500 678 4456 4 chr4A.!!$R8 3778
10 TraesCS6A01G364400 chr4A 598815040 598816166 1126 True 1164.000000 1164 85.887000 678 1788 1 chr4A.!!$R2 1110
11 TraesCS6A01G364400 chr4D 4416827 4419247 2420 False 3302.000000 3302 91.517000 678 3080 1 chr4D.!!$F1 2402
12 TraesCS6A01G364400 chr4D 4458695 4459571 876 False 874.000000 874 85.333000 678 1539 1 chr4D.!!$F2 861
13 TraesCS6A01G364400 chr4B 7170329 7172742 2413 False 3286.000000 3286 91.533000 701 3080 1 chr4B.!!$F1 2379
14 TraesCS6A01G364400 chr4B 7217288 7219704 2416 False 3227.000000 3227 91.092000 701 3080 1 chr4B.!!$F2 2379
15 TraesCS6A01G364400 chr4B 7353326 7355718 2392 False 3199.000000 3199 91.003000 701 3080 1 chr4B.!!$F3 2379
16 TraesCS6A01G364400 chr4B 7375374 7376469 1095 False 1149.000000 1149 85.928000 678 1785 1 chr4B.!!$F4 1107
17 TraesCS6A01G364400 chrUn 360631628 360633238 1610 True 2268.000000 2268 92.393000 678 2261 1 chrUn.!!$R1 1583
18 TraesCS6A01G364400 chrUn 216672497 216674910 2413 True 1914.500000 2172 95.875500 2082 4456 2 chrUn.!!$R2 2374
19 TraesCS6A01G364400 chr6B 674713513 674714178 665 True 1110.000000 1110 96.847000 1 662 1 chr6B.!!$R1 661
20 TraesCS6A01G364400 chr6D 446444593 446445257 664 True 1059.000000 1059 95.495000 1 662 1 chr6D.!!$R1 661

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
669 670 0.546122 ACAAGGTGTGCTCACTTCCA 59.454 50.0 17.68 0.0 43.41 3.53 F
1376 1490 0.035458 CTTTGACGAGGTGGAAGCCT 59.965 55.0 0.00 0.0 42.53 4.58 F
2184 2324 0.246635 GTCAGACGCAGGGTGTGTAT 59.753 55.0 13.68 0.0 41.77 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2184 2324 1.559219 ACCCGAATCACATCCATGACA 59.441 47.619 0.0 0.0 0.00 3.58 R
2403 3247 3.803186 AGGAGCCATTTCCTATCATGG 57.197 47.619 0.0 0.0 45.76 3.66 R
4153 5055 0.113776 AACCACACGACTAGAGGGGA 59.886 55.000 0.0 0.0 35.90 4.81 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
150 151 6.611236 TGGGTTCTTTCTTGAGGATTTTCTTT 59.389 34.615 0.00 0.00 0.00 2.52
162 163 7.951591 TGAGGATTTTCTTTTCGGAGATTTTT 58.048 30.769 0.00 0.00 35.04 1.94
198 199 3.196254 GGCAACAATGATTCCATGTTCCT 59.804 43.478 0.00 0.00 32.36 3.36
233 234 4.102035 GCATTAGTGAAAGGCAGAAAGG 57.898 45.455 0.00 0.00 44.27 3.11
601 602 8.976986 AAGTGATCAGAACAATAAAAAGATGC 57.023 30.769 0.00 0.00 0.00 3.91
602 603 8.114331 AGTGATCAGAACAATAAAAAGATGCA 57.886 30.769 0.00 0.00 0.00 3.96
603 604 8.242053 AGTGATCAGAACAATAAAAAGATGCAG 58.758 33.333 0.00 0.00 0.00 4.41
604 605 8.025445 GTGATCAGAACAATAAAAAGATGCAGT 58.975 33.333 0.00 0.00 0.00 4.40
605 606 8.579006 TGATCAGAACAATAAAAAGATGCAGTT 58.421 29.630 0.00 0.00 0.00 3.16
608 609 8.023128 TCAGAACAATAAAAAGATGCAGTTAGC 58.977 33.333 0.00 0.00 45.96 3.09
620 621 3.203161 GCAGTTAGCAAGTAGTTTGGC 57.797 47.619 0.00 0.00 44.79 4.52
621 622 2.095212 GCAGTTAGCAAGTAGTTTGGCC 60.095 50.000 0.00 0.00 44.79 5.36
622 623 3.146066 CAGTTAGCAAGTAGTTTGGCCA 58.854 45.455 0.00 0.00 37.26 5.36
623 624 3.058224 CAGTTAGCAAGTAGTTTGGCCAC 60.058 47.826 3.88 0.00 37.26 5.01
624 625 3.146847 GTTAGCAAGTAGTTTGGCCACT 58.853 45.455 3.88 2.09 37.26 4.00
625 626 2.364972 AGCAAGTAGTTTGGCCACTT 57.635 45.000 3.88 1.34 37.26 3.16
626 627 2.666317 AGCAAGTAGTTTGGCCACTTT 58.334 42.857 3.88 0.00 37.26 2.66
627 628 3.031013 AGCAAGTAGTTTGGCCACTTTT 58.969 40.909 3.88 0.00 37.26 2.27
628 629 3.068165 AGCAAGTAGTTTGGCCACTTTTC 59.932 43.478 3.88 0.00 37.26 2.29
629 630 3.068165 GCAAGTAGTTTGGCCACTTTTCT 59.932 43.478 3.88 2.05 37.26 2.52
630 631 4.441495 GCAAGTAGTTTGGCCACTTTTCTT 60.441 41.667 3.88 5.34 37.26 2.52
631 632 4.918810 AGTAGTTTGGCCACTTTTCTTG 57.081 40.909 3.88 0.00 0.00 3.02
632 633 4.278310 AGTAGTTTGGCCACTTTTCTTGT 58.722 39.130 3.88 0.00 0.00 3.16
633 634 5.442391 AGTAGTTTGGCCACTTTTCTTGTA 58.558 37.500 3.88 0.00 0.00 2.41
634 635 4.649088 AGTTTGGCCACTTTTCTTGTAC 57.351 40.909 3.88 0.00 0.00 2.90
635 636 4.020543 AGTTTGGCCACTTTTCTTGTACA 58.979 39.130 3.88 0.00 0.00 2.90
636 637 4.649218 AGTTTGGCCACTTTTCTTGTACAT 59.351 37.500 3.88 0.00 0.00 2.29
637 638 5.128663 AGTTTGGCCACTTTTCTTGTACATT 59.871 36.000 3.88 0.00 0.00 2.71
638 639 4.846779 TGGCCACTTTTCTTGTACATTC 57.153 40.909 0.00 0.00 0.00 2.67
639 640 4.469657 TGGCCACTTTTCTTGTACATTCT 58.530 39.130 0.00 0.00 0.00 2.40
640 641 4.518970 TGGCCACTTTTCTTGTACATTCTC 59.481 41.667 0.00 0.00 0.00 2.87
641 642 4.518970 GGCCACTTTTCTTGTACATTCTCA 59.481 41.667 0.00 0.00 0.00 3.27
642 643 5.183904 GGCCACTTTTCTTGTACATTCTCAT 59.816 40.000 0.00 0.00 0.00 2.90
643 644 6.294731 GGCCACTTTTCTTGTACATTCTCATT 60.295 38.462 0.00 0.00 0.00 2.57
644 645 6.583806 GCCACTTTTCTTGTACATTCTCATTG 59.416 38.462 0.00 0.00 0.00 2.82
645 646 7.522073 GCCACTTTTCTTGTACATTCTCATTGA 60.522 37.037 0.00 0.00 0.00 2.57
646 647 8.352201 CCACTTTTCTTGTACATTCTCATTGAA 58.648 33.333 0.00 0.00 39.24 2.69
647 648 9.734620 CACTTTTCTTGTACATTCTCATTGAAA 57.265 29.630 0.00 0.00 38.29 2.69
667 668 3.782889 AAAACAAGGTGTGCTCACTTC 57.217 42.857 17.68 3.24 43.41 3.01
668 669 1.680338 AACAAGGTGTGCTCACTTCC 58.320 50.000 17.68 2.51 43.41 3.46
669 670 0.546122 ACAAGGTGTGCTCACTTCCA 59.454 50.000 17.68 0.00 43.41 3.53
670 671 1.143684 ACAAGGTGTGCTCACTTCCAT 59.856 47.619 17.68 0.00 43.41 3.41
671 672 1.538512 CAAGGTGTGCTCACTTCCATG 59.461 52.381 17.68 3.23 43.41 3.66
672 673 1.059098 AGGTGTGCTCACTTCCATGA 58.941 50.000 17.68 0.00 43.41 3.07
673 674 1.421268 AGGTGTGCTCACTTCCATGAA 59.579 47.619 17.68 0.00 43.41 2.57
674 675 1.537202 GGTGTGCTCACTTCCATGAAC 59.463 52.381 17.68 0.00 43.41 3.18
675 676 2.221169 GTGTGCTCACTTCCATGAACA 58.779 47.619 11.58 0.00 40.98 3.18
676 677 2.031682 GTGTGCTCACTTCCATGAACAC 60.032 50.000 11.58 3.01 43.15 3.32
730 731 2.224281 ACAGACGCTCACTTCCATGAAA 60.224 45.455 0.00 0.00 0.00 2.69
913 951 2.203422 CCGCTCCTCCTCGATCCT 60.203 66.667 0.00 0.00 0.00 3.24
971 1016 4.316823 TCCACCGCTCAGTCCCCT 62.317 66.667 0.00 0.00 0.00 4.79
989 1034 3.379445 GGACCGCCGAACCTCTCA 61.379 66.667 0.00 0.00 0.00 3.27
1004 1049 1.452651 CTCATCGCCTTGCCATGGT 60.453 57.895 14.67 0.00 0.00 3.55
1084 1134 2.341677 CCCCTCCCCTCCCCTCTAA 61.342 68.421 0.00 0.00 0.00 2.10
1091 1141 1.133262 CCCCTCCCCTCTAATCGTGTA 60.133 57.143 0.00 0.00 0.00 2.90
1176 1284 2.759973 TTCGAGGAGCTGCGGGAT 60.760 61.111 0.00 0.00 0.00 3.85
1287 1397 2.888069 GCCCTCTATCATCTCTCCCTCC 60.888 59.091 0.00 0.00 0.00 4.30
1329 1443 8.242729 TGACTCATCTTAATTATCTGCTCTGA 57.757 34.615 0.00 0.00 0.00 3.27
1376 1490 0.035458 CTTTGACGAGGTGGAAGCCT 59.965 55.000 0.00 0.00 42.53 4.58
1525 1652 7.313646 TCAGATCTGTTTATTATACTAGGCGC 58.686 38.462 21.92 0.00 0.00 6.53
1576 1703 6.238648 CCCCATAGGCGTAATTAGAAGAATT 58.761 40.000 0.00 0.00 0.00 2.17
1584 1711 8.880750 AGGCGTAATTAGAAGAATTGAGTTTAC 58.119 33.333 0.00 0.00 0.00 2.01
1652 1784 5.484173 TGATGAGGATAAATTGTTGTCGC 57.516 39.130 0.00 0.00 0.00 5.19
1692 1824 9.499479 CTGGTATTAATGATCTGCTATTCTGTT 57.501 33.333 0.00 0.00 0.00 3.16
1917 2053 9.395707 CTGAGTTTAGTCATATATCGTGTAACC 57.604 37.037 0.00 0.00 0.00 2.85
1954 2091 3.781079 TCCCAATGTCAATCAAATCGC 57.219 42.857 0.00 0.00 0.00 4.58
1965 2102 1.748950 TCAAATCGCATAGCTTGGCA 58.251 45.000 9.57 0.00 0.00 4.92
2046 2183 4.543590 ATGCCATTATTCTAGTCCGAGG 57.456 45.455 0.00 0.00 0.00 4.63
2184 2324 0.246635 GTCAGACGCAGGGTGTGTAT 59.753 55.000 13.68 0.00 41.77 2.29
2205 2345 2.769095 TGTCATGGATGTGATTCGGGTA 59.231 45.455 0.00 0.00 0.00 3.69
2218 2358 6.034591 GTGATTCGGGTATCGTATATCCAAG 58.965 44.000 5.42 0.00 40.32 3.61
2403 3247 8.702438 CATCAAACAATTTATGGAGTTGACAAC 58.298 33.333 10.47 10.47 33.81 3.32
2439 3285 7.992754 ATGGCTCCTTGAGAATATTATTGAC 57.007 36.000 0.00 0.00 0.00 3.18
2963 3819 5.240891 TCTTCAGAATCTGACAATGTGGTC 58.759 41.667 13.17 0.00 40.46 4.02
3235 4135 2.635714 TCATGCTTGGTAGATGCACAG 58.364 47.619 0.00 0.00 37.54 3.66
3272 4174 5.240844 AGTGGTAGAAATTCTTTGTTTCCCG 59.759 40.000 0.00 0.00 36.48 5.14
3531 4433 2.667448 CGTTCGATGTGTCTCCGAAGAA 60.667 50.000 0.00 0.00 42.00 2.52
3702 4604 5.892348 CCCTTCCTATGGGCTGTTTATAAT 58.108 41.667 0.00 0.00 37.99 1.28
3760 4662 7.636259 TTGTTTTGCTGTATGTTCTATTTGC 57.364 32.000 0.00 0.00 0.00 3.68
3798 4700 6.329496 CAAGTCTTGTTGTTGGTTGTTGTAT 58.671 36.000 4.27 0.00 0.00 2.29
3964 4866 2.644299 TCACATCCAGGGATCACAAAGT 59.356 45.455 0.00 0.00 31.62 2.66
3980 4882 0.038526 AAGTTGTCGGTTCGCGAGAT 60.039 50.000 9.59 0.00 41.60 2.75
3984 4886 1.063649 GTCGGTTCGCGAGATAGCA 59.936 57.895 9.59 0.00 41.60 3.49
4034 4936 4.742438 TTGCATTGGTACGAAAAGTCTC 57.258 40.909 0.00 0.00 0.00 3.36
4058 4960 6.313744 GGCTAATTAAGTCGCCAATTACAT 57.686 37.500 13.03 0.00 42.06 2.29
4072 4974 5.700832 GCCAATTACATCTCCAACGATGATA 59.299 40.000 7.69 0.00 42.63 2.15
4118 5020 1.227527 CTCAACGCCCATATCGCCA 60.228 57.895 0.00 0.00 0.00 5.69
4125 5027 1.859427 GCCCATATCGCCAGCATGTG 61.859 60.000 0.00 0.00 0.00 3.21
4130 5032 2.533974 TATCGCCAGCATGTGCACCA 62.534 55.000 15.69 2.61 45.16 4.17
4213 5117 1.106285 CCTATGAGTTTGCCTTGCCC 58.894 55.000 0.00 0.00 0.00 5.36
4265 5169 1.086634 GGACACATTCGAGGAGCTGC 61.087 60.000 0.00 0.00 0.00 5.25
4389 5305 3.052329 TCATCTCTCCCTCTGCTCTCTA 58.948 50.000 0.00 0.00 0.00 2.43
4395 5311 2.038426 CTCCCTCTGCTCTCTATCTCGA 59.962 54.545 0.00 0.00 0.00 4.04
4400 5316 5.105106 CCCTCTGCTCTCTATCTCGATACTA 60.105 48.000 0.00 0.00 0.00 1.82
4436 5352 1.821332 GCTCTGGAAATCGCAGGGG 60.821 63.158 0.00 0.00 0.00 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
162 163 4.505313 TTGTTGCCGTAAATATGTGCAA 57.495 36.364 0.00 0.00 39.42 4.08
233 234 0.318107 AAGTCTTTGCGTGCATGCAC 60.318 50.000 35.76 35.76 46.25 4.57
575 576 9.415544 GCATCTTTTTATTGTTCTGATCACTTT 57.584 29.630 0.00 0.00 0.00 2.66
600 601 2.095212 GGCCAAACTACTTGCTAACTGC 60.095 50.000 0.00 0.00 43.25 4.40
601 602 3.058224 GTGGCCAAACTACTTGCTAACTG 60.058 47.826 7.24 0.00 33.27 3.16
602 603 3.146847 GTGGCCAAACTACTTGCTAACT 58.853 45.455 7.24 0.00 33.27 2.24
603 604 3.146847 AGTGGCCAAACTACTTGCTAAC 58.853 45.455 7.24 0.00 36.55 2.34
604 605 3.502123 AGTGGCCAAACTACTTGCTAA 57.498 42.857 7.24 0.00 36.55 3.09
610 611 4.278310 ACAAGAAAAGTGGCCAAACTACT 58.722 39.130 7.24 1.55 42.87 2.57
611 612 4.649088 ACAAGAAAAGTGGCCAAACTAC 57.351 40.909 7.24 0.00 0.00 2.73
612 613 5.194432 TGTACAAGAAAAGTGGCCAAACTA 58.806 37.500 7.24 0.00 0.00 2.24
613 614 4.020543 TGTACAAGAAAAGTGGCCAAACT 58.979 39.130 7.24 0.00 0.00 2.66
614 615 4.379339 TGTACAAGAAAAGTGGCCAAAC 57.621 40.909 7.24 0.00 0.00 2.93
615 616 5.362430 AGAATGTACAAGAAAAGTGGCCAAA 59.638 36.000 7.24 0.00 0.00 3.28
616 617 4.892934 AGAATGTACAAGAAAAGTGGCCAA 59.107 37.500 7.24 0.00 0.00 4.52
617 618 4.469657 AGAATGTACAAGAAAAGTGGCCA 58.530 39.130 0.00 0.00 0.00 5.36
618 619 4.518970 TGAGAATGTACAAGAAAAGTGGCC 59.481 41.667 0.00 0.00 0.00 5.36
619 620 5.689383 TGAGAATGTACAAGAAAAGTGGC 57.311 39.130 0.00 0.00 0.00 5.01
620 621 7.874940 TCAATGAGAATGTACAAGAAAAGTGG 58.125 34.615 0.00 0.00 0.00 4.00
621 622 9.734620 TTTCAATGAGAATGTACAAGAAAAGTG 57.265 29.630 0.00 0.00 35.83 3.16
646 647 3.119137 GGAAGTGAGCACACCTTGTTTTT 60.119 43.478 10.88 0.00 46.99 1.94
647 648 2.427095 GGAAGTGAGCACACCTTGTTTT 59.573 45.455 10.88 0.00 46.99 2.43
648 649 2.024414 GGAAGTGAGCACACCTTGTTT 58.976 47.619 10.88 0.00 46.99 2.83
649 650 1.064758 TGGAAGTGAGCACACCTTGTT 60.065 47.619 10.88 0.00 46.99 2.83
650 651 0.546122 TGGAAGTGAGCACACCTTGT 59.454 50.000 10.88 0.00 46.99 3.16
651 652 1.538512 CATGGAAGTGAGCACACCTTG 59.461 52.381 10.88 13.93 46.99 3.61
652 653 1.421268 TCATGGAAGTGAGCACACCTT 59.579 47.619 10.88 4.84 46.99 3.50
653 654 1.059098 TCATGGAAGTGAGCACACCT 58.941 50.000 10.88 0.00 46.99 4.00
654 655 1.537202 GTTCATGGAAGTGAGCACACC 59.463 52.381 10.88 6.65 46.99 4.16
655 656 2.221169 TGTTCATGGAAGTGAGCACAC 58.779 47.619 6.11 6.11 46.24 3.82
656 657 2.636647 TGTTCATGGAAGTGAGCACA 57.363 45.000 3.19 0.00 34.93 4.57
658 659 2.936919 AGTGTTCATGGAAGTGAGCA 57.063 45.000 0.00 0.00 37.06 4.26
659 660 4.574599 AAAAGTGTTCATGGAAGTGAGC 57.425 40.909 0.00 0.00 0.00 4.26
730 731 1.816259 CCGGTTGTGTGTCCACGTT 60.816 57.895 0.00 0.00 44.92 3.99
781 805 2.400269 TTAGCTTGGAAACGGCCCGT 62.400 55.000 1.02 1.02 43.97 5.28
913 951 1.272490 GATGTGGAGTGAACGAGGACA 59.728 52.381 0.00 0.00 0.00 4.02
971 1016 3.379445 GAGAGGTTCGGCGGTCCA 61.379 66.667 19.36 0.00 0.00 4.02
981 1026 1.078143 GGCAAGGCGATGAGAGGTT 60.078 57.895 0.00 0.00 0.00 3.50
989 1034 1.526917 GCTACCATGGCAAGGCGAT 60.527 57.895 13.04 0.00 0.00 4.58
1004 1049 3.774528 CCCTCAGTGCTGCGGCTA 61.775 66.667 20.27 1.92 39.59 3.93
1084 1134 3.190535 GCCAAATTCCACAACTACACGAT 59.809 43.478 0.00 0.00 0.00 3.73
1091 1141 4.019174 CTCATAGGCCAAATTCCACAACT 58.981 43.478 5.01 0.00 0.00 3.16
1287 1397 0.803117 TCAGTACCGAGACAAGAGCG 59.197 55.000 0.00 0.00 0.00 5.03
1329 1443 3.987594 GGCTCCTCCCTGTGATTTT 57.012 52.632 0.00 0.00 0.00 1.82
1376 1490 3.569902 CATGAGCTGCTGCGTCAA 58.430 55.556 7.01 4.12 45.42 3.18
1520 1647 3.002656 CGACAAATAAGAATCATGCGCCT 59.997 43.478 4.18 0.00 0.00 5.52
1525 1652 5.512788 GTGCAACCGACAAATAAGAATCATG 59.487 40.000 0.00 0.00 0.00 3.07
1584 1711 8.236637 GGTAACTCCGTTACACTAAACGCAAG 62.237 46.154 16.08 6.06 46.94 4.01
1692 1824 8.943594 ACCAGAAAAACCACCATTAGTAATAA 57.056 30.769 0.00 0.00 0.00 1.40
1954 2091 2.077687 AATCCCCTTGCCAAGCTATG 57.922 50.000 0.00 0.00 0.00 2.23
2069 2206 5.123502 CAGATCATTAATACCAGCCATGCTC 59.876 44.000 0.00 0.00 36.40 4.26
2184 2324 1.559219 ACCCGAATCACATCCATGACA 59.441 47.619 0.00 0.00 0.00 3.58
2205 2345 8.744652 CAGGTCTTCTAATCTTGGATATACGAT 58.255 37.037 0.00 0.00 0.00 3.73
2218 2358 7.819900 ACACAACTACAATCAGGTCTTCTAATC 59.180 37.037 0.00 0.00 0.00 1.75
2370 3214 5.712446 TCCATAAATTGTTTGATGAACCCGA 59.288 36.000 0.00 0.00 37.45 5.14
2371 3215 5.960113 TCCATAAATTGTTTGATGAACCCG 58.040 37.500 0.00 0.00 37.45 5.28
2372 3216 6.935167 ACTCCATAAATTGTTTGATGAACCC 58.065 36.000 0.00 0.00 37.45 4.11
2403 3247 3.803186 AGGAGCCATTTCCTATCATGG 57.197 47.619 0.00 0.00 45.76 3.66
2963 3819 6.306356 CGAGACACCTGAAATAATGCAAAAAG 59.694 38.462 0.00 0.00 0.00 2.27
3428 4330 1.966901 TAGGACCACATGCCGCGATT 61.967 55.000 8.23 0.00 0.00 3.34
3515 4417 3.440228 GCTACTTCTTCGGAGACACATC 58.560 50.000 0.00 0.00 34.32 3.06
3531 4433 2.227194 CACCCTTTGAAAACCGCTACT 58.773 47.619 0.00 0.00 0.00 2.57
3760 4662 8.778358 ACAACAAGACTTGCTTATAGAGAAAAG 58.222 33.333 15.24 0.00 34.31 2.27
3798 4700 1.555075 GGTGATTGGCTACACTCTGGA 59.445 52.381 0.00 0.00 37.22 3.86
3964 4866 0.524816 GCTATCTCGCGAACCGACAA 60.525 55.000 11.33 0.00 41.89 3.18
3980 4882 2.367894 CCCAGAGATGCTCTTCATGCTA 59.632 50.000 0.00 0.00 38.99 3.49
3984 4886 1.509373 AGCCCAGAGATGCTCTTCAT 58.491 50.000 0.00 0.00 38.99 2.57
4058 4960 2.666317 TCCAGCTATCATCGTTGGAGA 58.334 47.619 0.00 0.00 36.94 3.71
4072 4974 3.328931 CCCTATGGTATGATGTTCCAGCT 59.671 47.826 0.00 0.00 34.62 4.24
4118 5020 0.892358 CTCACCTTGGTGCACATGCT 60.892 55.000 20.43 0.00 42.66 3.79
4147 5049 1.151908 CGACTAGAGGGGAGGGGAG 59.848 68.421 0.00 0.00 0.00 4.30
4148 5050 1.621822 ACGACTAGAGGGGAGGGGA 60.622 63.158 0.00 0.00 0.00 4.81
4149 5051 1.455959 CACGACTAGAGGGGAGGGG 60.456 68.421 0.00 0.00 0.00 4.79
4150 5052 1.038130 CACACGACTAGAGGGGAGGG 61.038 65.000 0.00 0.00 0.00 4.30
4151 5053 1.038130 CCACACGACTAGAGGGGAGG 61.038 65.000 0.00 0.00 35.90 4.30
4152 5054 0.323542 ACCACACGACTAGAGGGGAG 60.324 60.000 0.00 0.00 35.90 4.30
4153 5055 0.113776 AACCACACGACTAGAGGGGA 59.886 55.000 0.00 0.00 35.90 4.81
4213 5117 0.458543 CCTGGATCAACGTCGACCAG 60.459 60.000 10.58 14.54 45.09 4.00
4414 5330 1.541147 CCTGCGATTTCCAGAGCAAAA 59.459 47.619 0.00 0.00 39.26 2.44
4416 5332 0.677731 CCCTGCGATTTCCAGAGCAA 60.678 55.000 0.00 0.00 39.26 3.91


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

AutoCloner maintained by Alex Coulton.