Multiple sequence alignment - TraesCS2B01G224100

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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 TraesCS2B01G224100 chr2B 100.000 3977 0 0 1 3977 214287770 214283794 0.000000e+00 7345.0
1 TraesCS2B01G224100 chr2A 92.822 3037 167 31 1 3025 166260612 166257615 0.000000e+00 4353.0
2 TraesCS2B01G224100 chr2A 92.490 253 13 2 3459 3705 33590199 33589947 1.360000e-94 357.0
3 TraesCS2B01G224100 chr2A 88.341 223 18 6 3090 3306 166257113 166256893 1.100000e-65 261.0
4 TraesCS2B01G224100 chr2D 94.479 2735 113 16 308 3025 156598346 156595633 0.000000e+00 4180.0
5 TraesCS2B01G224100 chr2D 88.571 245 21 5 3094 3337 156595121 156594883 1.400000e-74 291.0
6 TraesCS2B01G224100 chr2D 93.158 190 11 2 104 293 156598812 156598625 1.090000e-70 278.0
7 TraesCS2B01G224100 chr2D 91.892 111 9 0 1 111 156600531 156600421 5.320000e-34 156.0
8 TraesCS2B01G224100 chr3B 90.373 509 29 13 3335 3823 99537309 99537817 0.000000e+00 651.0
9 TraesCS2B01G224100 chr3B 89.938 487 29 4 3357 3823 602440568 602440082 9.450000e-171 610.0
10 TraesCS2B01G224100 chr3B 87.598 508 43 12 3336 3823 549875045 549875552 4.460000e-159 571.0
11 TraesCS2B01G224100 chr3B 90.222 450 17 4 3393 3823 605678603 605679044 2.680000e-156 562.0
12 TraesCS2B01G224100 chr3B 96.129 155 6 0 3823 3977 99537874 99538028 1.830000e-63 254.0
13 TraesCS2B01G224100 chr3B 96.129 155 6 0 3823 3977 602440025 602439871 1.830000e-63 254.0
14 TraesCS2B01G224100 chr3B 95.484 155 7 0 3823 3977 549875609 549875763 8.530000e-62 248.0
15 TraesCS2B01G224100 chr3B 95.484 155 7 0 3823 3977 605679101 605679255 8.530000e-62 248.0
16 TraesCS2B01G224100 chr3B 92.258 155 12 0 3823 3977 696779231 696779077 1.860000e-53 220.0
17 TraesCS2B01G224100 chr3B 92.308 52 2 2 3927 3977 224821947 224821997 5.510000e-09 73.1
18 TraesCS2B01G224100 chr1B 90.222 450 25 6 3393 3823 223788727 223788278 1.600000e-158 569.0
19 TraesCS2B01G224100 chr1B 87.154 506 45 3 3338 3823 679125153 679125658 1.250000e-154 556.0
20 TraesCS2B01G224100 chr1B 95.484 155 6 1 3823 3977 223788221 223788068 3.070000e-61 246.0
21 TraesCS2B01G224100 chr1B 97.541 122 3 0 3823 3944 679125715 679125836 4.030000e-50 209.0
22 TraesCS2B01G224100 chr7A 92.917 240 13 1 3459 3694 90433281 90433520 2.940000e-91 346.0
23 TraesCS2B01G224100 chr4A 94.839 155 8 0 3823 3977 623783897 623784051 3.970000e-60 243.0
24 TraesCS2B01G224100 chr4A 86.512 215 24 5 3459 3669 244492322 244492109 8.600000e-57 231.0
25 TraesCS2B01G224100 chr1A 94.194 155 9 0 3823 3977 569787837 569787991 1.850000e-58 237.0
26 TraesCS2B01G224100 chr5D 90.058 171 2 1 3668 3823 418583226 418583396 1.450000e-49 207.0
27 TraesCS2B01G224100 chr5B 97.500 80 2 0 3744 3823 506205656 506205735 1.930000e-28 137.0
28 TraesCS2B01G224100 chr5A 98.387 62 1 0 3762 3823 533343749 533343810 4.200000e-20 110.0


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 TraesCS2B01G224100 chr2B 214283794 214287770 3976 True 7345.00 7345 100.0000 1 3977 1 chr2B.!!$R1 3976
1 TraesCS2B01G224100 chr2A 166256893 166260612 3719 True 2307.00 4353 90.5815 1 3306 2 chr2A.!!$R2 3305
2 TraesCS2B01G224100 chr2D 156594883 156600531 5648 True 1226.25 4180 92.0250 1 3337 4 chr2D.!!$R1 3336
3 TraesCS2B01G224100 chr3B 99537309 99538028 719 False 452.50 651 93.2510 3335 3977 2 chr3B.!!$F2 642
4 TraesCS2B01G224100 chr3B 602439871 602440568 697 True 432.00 610 93.0335 3357 3977 2 chr3B.!!$R2 620
5 TraesCS2B01G224100 chr3B 549875045 549875763 718 False 409.50 571 91.5410 3336 3977 2 chr3B.!!$F3 641
6 TraesCS2B01G224100 chr3B 605678603 605679255 652 False 405.00 562 92.8530 3393 3977 2 chr3B.!!$F4 584
7 TraesCS2B01G224100 chr1B 223788068 223788727 659 True 407.50 569 92.8530 3393 3977 2 chr1B.!!$R1 584
8 TraesCS2B01G224100 chr1B 679125153 679125836 683 False 382.50 556 92.3475 3338 3944 2 chr1B.!!$F1 606

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
988 2882 0.111253 CCACATCCTCCTATTGGGGC 59.889 60.0 0.0 0.0 35.33 5.80 F
2330 4232 0.391661 CAACATGTACGCCTGCTCCT 60.392 55.0 0.0 0.0 0.00 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2682 4586 0.247460 TCTGAGCAACGGATCCTGTG 59.753 55.0 10.75 8.63 0.0 3.66 R
3347 5704 0.033796 AGATCGGTCGGGTGAAGGTA 60.034 55.0 0.00 0.00 0.0 3.08 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
50 51 6.757237 TGGTCAACAGCAAAATCACATAATT 58.243 32.000 0.00 0.00 0.00 1.40
51 52 7.215789 TGGTCAACAGCAAAATCACATAATTT 58.784 30.769 0.00 0.00 0.00 1.82
108 1725 0.167470 CATCTCACAGGTTTGCTGCG 59.833 55.000 0.00 0.00 0.00 5.18
111 1728 0.877071 CTCACAGGTTTGCTGCGAAT 59.123 50.000 5.47 0.00 0.00 3.34
126 1743 5.215160 GCTGCGAATACATCCCTAAAAATG 58.785 41.667 0.00 0.00 0.00 2.32
138 1755 5.120399 TCCCTAAAAATGCATTATCGACGT 58.880 37.500 13.39 0.00 0.00 4.34
139 1756 5.007234 TCCCTAAAAATGCATTATCGACGTG 59.993 40.000 13.39 0.00 0.00 4.49
140 1757 5.220777 CCCTAAAAATGCATTATCGACGTGT 60.221 40.000 13.39 0.00 0.00 4.49
281 1901 1.303309 GTCAGCAGCAAAGTCACAGT 58.697 50.000 0.00 0.00 0.00 3.55
390 2274 3.430862 GGCAACATGCGCGAGGAA 61.431 61.111 12.10 0.00 46.21 3.36
391 2275 2.099062 GCAACATGCGCGAGGAAG 59.901 61.111 12.10 0.00 31.71 3.46
392 2276 2.680913 GCAACATGCGCGAGGAAGT 61.681 57.895 12.10 0.00 33.93 3.01
393 2277 1.421485 CAACATGCGCGAGGAAGTC 59.579 57.895 12.10 0.00 30.32 3.01
431 2315 1.377987 GGCAAATACGGGCCTGTGA 60.378 57.895 28.18 11.67 46.74 3.58
432 2316 0.751643 GGCAAATACGGGCCTGTGAT 60.752 55.000 28.18 12.88 46.74 3.06
447 2331 0.811616 GTGATGTCATGGAGGCGGAC 60.812 60.000 0.00 0.00 0.00 4.79
495 2379 2.697751 AGATCTTATCCTGAGCGCAAGT 59.302 45.455 11.47 0.00 41.68 3.16
514 2401 6.043411 GCAAGTAGGTAGGTATCAAGAGTTG 58.957 44.000 0.00 0.00 0.00 3.16
550 2438 5.425217 TGCTGGAATAAATCACACCTAGAGA 59.575 40.000 0.00 0.00 0.00 3.10
569 2457 2.291043 CGGGTGGAAGCAGTAGGGT 61.291 63.158 0.00 0.00 34.77 4.34
608 2496 1.662629 CAATCGTACTGAGGCAAGCAG 59.337 52.381 0.00 0.00 39.26 4.24
609 2497 1.186200 ATCGTACTGAGGCAAGCAGA 58.814 50.000 8.67 0.00 36.86 4.26
832 2721 3.262420 GCCATTGCTTCTTCTTCGTCTA 58.738 45.455 0.00 0.00 33.53 2.59
899 2788 3.443037 CACTATGGAGAAGAAGTCGCTG 58.557 50.000 0.00 0.00 0.00 5.18
903 2792 1.357991 GGAGAAGAAGTCGCTGCTGC 61.358 60.000 5.34 5.34 0.00 5.25
912 2801 3.297620 CGCTGCTGCCCTTGGTTT 61.298 61.111 10.24 0.00 35.36 3.27
913 2802 2.341176 GCTGCTGCCCTTGGTTTG 59.659 61.111 3.85 0.00 0.00 2.93
984 2877 6.678568 ATCTACTTCCACATCCTCCTATTG 57.321 41.667 0.00 0.00 0.00 1.90
988 2882 0.111253 CCACATCCTCCTATTGGGGC 59.889 60.000 0.00 0.00 35.33 5.80
991 2885 1.067762 CATCCTCCTATTGGGGCCCA 61.068 60.000 24.76 24.76 35.33 5.36
1097 2999 3.775654 GCCACCTCCTCACCTCCG 61.776 72.222 0.00 0.00 0.00 4.63
1483 3385 3.071206 TGCTCCTGGACCTCGCTC 61.071 66.667 7.12 0.00 0.00 5.03
1489 3391 2.680352 TGGACCTCGCTCCTCACC 60.680 66.667 0.00 0.00 0.00 4.02
1648 3550 3.157252 GGGATGCTCAGGGCTCGA 61.157 66.667 0.00 0.00 42.39 4.04
1682 3584 2.967076 CGGCTATCGTTGGCGCAT 60.967 61.111 10.83 0.00 45.58 4.73
1768 3670 1.445942 CGCCGGTAGAATGGATGGT 59.554 57.895 1.90 0.00 0.00 3.55
1787 3689 4.394712 GGGTGGCTACTGCGCTGT 62.395 66.667 23.67 23.67 40.82 4.40
1937 3839 3.282745 GAGGCCGTCGAGCTGTTCA 62.283 63.158 0.00 0.00 0.00 3.18
2028 3930 2.978010 CGGTGGTGGGCTTGTCAC 60.978 66.667 0.00 0.00 34.61 3.67
2330 4232 0.391661 CAACATGTACGCCTGCTCCT 60.392 55.000 0.00 0.00 0.00 3.69
2384 4286 2.834549 GTGATGGAGGAGAAGAAGGTGA 59.165 50.000 0.00 0.00 0.00 4.02
2481 4383 2.173382 GTGCATCAACACCGTCGC 59.827 61.111 0.00 0.00 34.35 5.19
2485 4387 2.047274 ATCAACACCGTCGCCAGG 60.047 61.111 0.00 0.00 0.00 4.45
2608 4511 1.069765 ACACTGTGTCTTGGCCTCG 59.930 57.895 7.80 0.00 0.00 4.63
2609 4512 2.031163 ACTGTGTCTTGGCCTCGC 59.969 61.111 3.32 0.00 0.00 5.03
2611 4514 2.280797 TGTGTCTTGGCCTCGCAC 60.281 61.111 3.32 8.74 0.00 5.34
2630 4533 2.678836 CACAAGTTGGAACACCACGTTA 59.321 45.455 7.96 0.00 39.29 3.18
2646 4549 1.419374 GTTACAGACTCGTGCCACAG 58.581 55.000 0.00 0.00 0.00 3.66
2649 4552 1.735920 CAGACTCGTGCCACAGCTC 60.736 63.158 0.00 0.00 40.80 4.09
2671 4574 3.243805 CCACATGGCAAACATTGTTCAGA 60.244 43.478 1.83 0.00 37.84 3.27
2681 4585 1.812571 CATTGTTCAGACGAAAGGGGG 59.187 52.381 0.00 0.00 31.43 5.40
2682 4586 0.536460 TTGTTCAGACGAAAGGGGGC 60.536 55.000 0.00 0.00 31.43 5.80
2683 4587 1.072505 GTTCAGACGAAAGGGGGCA 59.927 57.895 0.00 0.00 31.43 5.36
2684 4588 1.072505 TTCAGACGAAAGGGGGCAC 59.927 57.895 0.00 0.00 0.00 5.01
2685 4589 1.701031 TTCAGACGAAAGGGGGCACA 61.701 55.000 0.00 0.00 0.00 4.57
2686 4590 1.672356 CAGACGAAAGGGGGCACAG 60.672 63.158 0.00 0.00 0.00 3.66
2692 4596 2.893682 GAAAGGGGGCACAGGATCCG 62.894 65.000 5.98 3.99 0.00 4.18
2708 4612 3.243873 GGATCCGTTGCTCAGATGACATA 60.244 47.826 0.00 0.00 0.00 2.29
2709 4613 4.562347 GGATCCGTTGCTCAGATGACATAT 60.562 45.833 0.00 0.00 0.00 1.78
2727 4631 4.164796 ACATATGCTCATGGAGGTTTCTCA 59.835 41.667 1.58 0.00 41.69 3.27
2729 4633 2.995283 TGCTCATGGAGGTTTCTCATG 58.005 47.619 0.00 0.00 41.69 3.07
2730 4634 2.295885 GCTCATGGAGGTTTCTCATGG 58.704 52.381 0.00 0.00 41.69 3.66
2731 4635 2.092753 GCTCATGGAGGTTTCTCATGGA 60.093 50.000 0.00 0.00 41.69 3.41
2758 4662 1.569493 CAAGACGCCAAGTTGGTCG 59.431 57.895 26.60 26.60 40.46 4.79
2762 4666 3.726517 CGCCAAGTTGGTCGGCAG 61.727 66.667 22.85 4.80 46.60 4.85
2786 4690 1.714414 GCAGCTTGACATGCTCTCG 59.286 57.895 12.62 4.16 38.92 4.04
2800 4704 2.278013 CTCGTCGGCTACCTTCGC 60.278 66.667 0.00 0.00 0.00 4.70
2820 4724 4.087892 AGCTTCACCGCTGGCGAT 62.088 61.111 16.79 0.00 42.83 4.58
2828 4732 2.125552 CGCTGGCGATCCAACAGA 60.126 61.111 9.51 0.00 42.91 3.41
2849 4753 4.743018 GGCCAGCTGAAGCCTTAA 57.257 55.556 22.54 0.00 46.14 1.85
2933 4837 4.498009 CCAAATGTGATTTATCTCCACGGC 60.498 45.833 0.00 0.00 33.78 5.68
2939 4843 2.691409 TTTATCTCCACGGCTTCCTG 57.309 50.000 0.00 0.00 0.00 3.86
2943 4847 2.922503 TCCACGGCTTCCTGCAGA 60.923 61.111 17.39 0.00 45.15 4.26
2944 4848 2.249413 CTCCACGGCTTCCTGCAGAT 62.249 60.000 17.39 0.00 45.15 2.90
3000 4904 2.625737 AGACACAAGGCAGATTGATCG 58.374 47.619 2.93 0.00 34.20 3.69
3002 4906 1.089112 CACAAGGCAGATTGATCGCA 58.911 50.000 2.93 0.00 34.20 5.10
3021 4925 2.939103 GCAGTAGCATCAACTAACAGGG 59.061 50.000 0.00 0.00 41.58 4.45
3039 5352 2.040412 AGGGTTTGGAGTTCTCCATGTC 59.960 50.000 20.26 13.51 39.86 3.06
3062 5375 1.227823 TGACCTTGCTGTTCACGGG 60.228 57.895 0.00 0.00 38.34 5.28
3084 5409 3.643792 GCAACCACTACCCATAGATCTCT 59.356 47.826 0.00 0.00 32.23 3.10
3086 5411 4.816048 ACCACTACCCATAGATCTCTCA 57.184 45.455 0.00 0.00 32.23 3.27
3098 5449 7.230913 CCCATAGATCTCTCATGCAGAAAATTT 59.769 37.037 0.00 0.00 0.00 1.82
3126 5477 9.182214 ACAGATTTTGTGCTAGATTATGTGATT 57.818 29.630 0.00 0.00 38.99 2.57
3166 5517 6.615839 GCGTGTACTACATTGTTTCTTCTGTC 60.616 42.308 0.00 0.00 0.00 3.51
3202 5553 6.203723 GCTAGTACCAATGGATTGATCAGTTC 59.796 42.308 6.16 0.00 40.14 3.01
3252 5604 5.305585 TGATTAGTTTCTGTGACTGGTTCC 58.694 41.667 0.00 0.00 0.00 3.62
3256 5608 7.786046 TTAGTTTCTGTGACTGGTTCCTATA 57.214 36.000 0.00 0.00 0.00 1.31
3258 5610 6.644347 AGTTTCTGTGACTGGTTCCTATATG 58.356 40.000 0.00 0.00 0.00 1.78
3276 5633 7.014326 TCCTATATGCTACTAAACTCCTGTGTG 59.986 40.741 0.00 0.00 0.00 3.82
3341 5698 1.005215 ACTTCTGGCAATCTTGGGGAG 59.995 52.381 0.00 0.00 0.00 4.30
3347 5704 1.618074 GGCAATCTTGGGGAGAAGCTT 60.618 52.381 0.00 0.00 38.68 3.74
3348 5705 2.357154 GGCAATCTTGGGGAGAAGCTTA 60.357 50.000 0.00 0.00 38.68 3.09
3350 5707 3.282885 CAATCTTGGGGAGAAGCTTACC 58.717 50.000 0.00 6.26 38.06 2.85
3352 5709 2.632537 TCTTGGGGAGAAGCTTACCTT 58.367 47.619 17.80 0.00 36.19 3.50
3366 5723 0.033796 TACCTTCACCCGACCGATCT 60.034 55.000 0.00 0.00 0.00 2.75
3397 5755 2.499685 GCTGGCTCCGTATCCGTT 59.500 61.111 0.00 0.00 0.00 4.44
3504 5862 4.586235 AAACGCCCCTGCAGCTGT 62.586 61.111 16.64 0.00 37.32 4.40
3654 6016 0.325296 AAGCAGGTACGGATCTCCCA 60.325 55.000 0.00 0.00 34.14 4.37
3888 6322 5.392165 CGGCCGTTGTTTCAGGAATTATTTA 60.392 40.000 19.50 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 51 7.574967 GCTTCCGGTCTCAAGAAAAATGAATAA 60.575 37.037 0.00 0.00 0.00 1.40
51 52 6.128007 GCTTCCGGTCTCAAGAAAAATGAATA 60.128 38.462 0.00 0.00 0.00 1.75
56 57 3.253432 GTGCTTCCGGTCTCAAGAAAAAT 59.747 43.478 0.00 0.00 0.00 1.82
108 1725 9.559958 CGATAATGCATTTTTAGGGATGTATTC 57.440 33.333 18.75 0.00 38.75 1.75
111 1728 7.095397 CGTCGATAATGCATTTTTAGGGATGTA 60.095 37.037 18.75 0.00 0.00 2.29
126 1743 1.526986 GCACACACACGTCGATAATGC 60.527 52.381 0.00 0.00 0.00 3.56
138 1755 2.936919 ATCTCTTCTTGGCACACACA 57.063 45.000 0.00 0.00 39.29 3.72
139 1756 4.154918 CCTTTATCTCTTCTTGGCACACAC 59.845 45.833 0.00 0.00 39.29 3.82
140 1757 4.041567 TCCTTTATCTCTTCTTGGCACACA 59.958 41.667 0.00 0.00 39.29 3.72
230 1850 6.419116 GCAGTTCTCTTGCCTAAAAAGAAAAG 59.581 38.462 0.00 0.00 33.40 2.27
390 2274 0.674534 GCCGACTCCCATTATCGACT 59.325 55.000 0.00 0.00 38.10 4.18
391 2275 0.674534 AGCCGACTCCCATTATCGAC 59.325 55.000 0.00 0.00 38.10 4.20
392 2276 2.281539 TAGCCGACTCCCATTATCGA 57.718 50.000 0.00 0.00 38.10 3.59
393 2277 2.417379 CCATAGCCGACTCCCATTATCG 60.417 54.545 0.00 0.00 35.62 2.92
394 2278 2.678190 GCCATAGCCGACTCCCATTATC 60.678 54.545 0.00 0.00 0.00 1.75
395 2279 1.279271 GCCATAGCCGACTCCCATTAT 59.721 52.381 0.00 0.00 0.00 1.28
396 2280 0.685097 GCCATAGCCGACTCCCATTA 59.315 55.000 0.00 0.00 0.00 1.90
397 2281 1.344953 TGCCATAGCCGACTCCCATT 61.345 55.000 0.00 0.00 38.69 3.16
398 2282 1.344953 TTGCCATAGCCGACTCCCAT 61.345 55.000 0.00 0.00 38.69 4.00
399 2283 1.558167 TTTGCCATAGCCGACTCCCA 61.558 55.000 0.00 0.00 38.69 4.37
400 2284 0.179018 ATTTGCCATAGCCGACTCCC 60.179 55.000 0.00 0.00 38.69 4.30
401 2285 2.143925 GTATTTGCCATAGCCGACTCC 58.856 52.381 0.00 0.00 38.69 3.85
402 2286 1.792949 CGTATTTGCCATAGCCGACTC 59.207 52.381 0.00 0.00 38.69 3.36
431 2315 2.501128 CGTCCGCCTCCATGACAT 59.499 61.111 0.00 0.00 0.00 3.06
432 2316 4.451150 GCGTCCGCCTCCATGACA 62.451 66.667 0.00 0.00 34.56 3.58
447 2331 0.520404 GGATGATATGCCTTGCTGCG 59.480 55.000 0.00 0.00 0.00 5.18
454 2338 2.844966 CTCCCTCATGGATGATATGCCT 59.155 50.000 0.00 0.00 44.07 4.75
495 2379 9.483489 TGAATTACAACTCTTGATACCTACCTA 57.517 33.333 0.00 0.00 0.00 3.08
514 2401 6.371809 TTTATTCCAGCATCGGTGAATTAC 57.628 37.500 0.00 0.00 32.22 1.89
550 2438 2.291043 CCCTACTGCTTCCACCCGT 61.291 63.158 0.00 0.00 0.00 5.28
569 2457 5.336770 CGATTGGATTGGATCGGATCTTAGA 60.337 44.000 16.96 2.51 40.94 2.10
608 2496 2.359975 CCCCACCCGTCTGCTTTC 60.360 66.667 0.00 0.00 0.00 2.62
609 2497 3.966543 CCCCCACCCGTCTGCTTT 61.967 66.667 0.00 0.00 0.00 3.51
823 2712 0.747283 GAGCGGGAGGTAGACGAAGA 60.747 60.000 0.00 0.00 43.00 2.87
874 2763 3.429547 CGACTTCTTCTCCATAGTGGGTG 60.430 52.174 0.00 0.00 38.32 4.61
875 2764 2.761208 CGACTTCTTCTCCATAGTGGGT 59.239 50.000 0.00 0.00 38.32 4.51
878 2767 3.443037 CAGCGACTTCTTCTCCATAGTG 58.557 50.000 0.00 0.00 0.00 2.74
879 2768 2.159170 GCAGCGACTTCTTCTCCATAGT 60.159 50.000 0.00 0.00 0.00 2.12
880 2769 2.100584 AGCAGCGACTTCTTCTCCATAG 59.899 50.000 0.00 0.00 0.00 2.23
881 2770 2.103373 AGCAGCGACTTCTTCTCCATA 58.897 47.619 0.00 0.00 0.00 2.74
899 2788 2.440385 GAAGGCAAACCAAGGGCAGC 62.440 60.000 0.00 0.00 39.06 5.25
903 2792 0.469892 AGTGGAAGGCAAACCAAGGG 60.470 55.000 0.00 0.00 37.94 3.95
912 2801 0.246635 GAAGCGTAGAGTGGAAGGCA 59.753 55.000 0.00 0.00 0.00 4.75
913 2802 0.802607 CGAAGCGTAGAGTGGAAGGC 60.803 60.000 0.00 0.00 0.00 4.35
988 2882 0.106719 AATGATACGTGGGCCTTGGG 60.107 55.000 4.53 0.00 0.00 4.12
991 2885 0.179056 CCGAATGATACGTGGGCCTT 60.179 55.000 4.53 0.00 0.00 4.35
1205 3107 2.983192 TGTAGTTGTTGGGGAGGAATGA 59.017 45.455 0.00 0.00 0.00 2.57
1608 3510 3.989698 AACACCTCGAGCGCATCCG 62.990 63.158 11.47 10.55 37.57 4.18
1759 3661 0.923729 TAGCCACCCCACCATCCATT 60.924 55.000 0.00 0.00 0.00 3.16
1787 3689 1.818060 GCACTTGGCATACATGTCCAA 59.182 47.619 14.79 14.79 43.97 3.53
1821 3723 2.594303 CGAACACCTGCCTTGCCA 60.594 61.111 0.00 0.00 0.00 4.92
2028 3930 1.334239 CGAAGATCTCCTTAGCGACGG 60.334 57.143 0.00 0.00 34.68 4.79
2225 4127 2.049063 GAGCTTCACGCCGTCACT 60.049 61.111 0.00 0.00 40.39 3.41
2330 4232 2.425592 CACGTCCTCCCACTTGCA 59.574 61.111 0.00 0.00 0.00 4.08
2481 4383 4.247380 GCTGATCGAGCCCCCTGG 62.247 72.222 0.00 0.00 42.54 4.45
2608 4511 0.248458 CGTGGTGTTCCAACTTGTGC 60.248 55.000 0.00 0.00 46.15 4.57
2609 4512 1.091537 ACGTGGTGTTCCAACTTGTG 58.908 50.000 0.00 0.00 46.15 3.33
2611 4514 2.678836 TGTAACGTGGTGTTCCAACTTG 59.321 45.455 0.00 0.00 46.15 3.16
2630 4533 2.029666 GCTGTGGCACGAGTCTGT 59.970 61.111 13.77 0.00 38.54 3.41
2646 4549 1.001181 ACAATGTTTGCCATGTGGAGC 59.999 47.619 2.55 0.00 37.39 4.70
2649 4552 3.061322 CTGAACAATGTTTGCCATGTGG 58.939 45.455 0.00 0.00 32.82 4.17
2671 4574 2.198304 GATCCTGTGCCCCCTTTCGT 62.198 60.000 0.00 0.00 0.00 3.85
2681 4585 1.364626 CTGAGCAACGGATCCTGTGC 61.365 60.000 22.63 22.63 0.00 4.57
2682 4586 0.247460 TCTGAGCAACGGATCCTGTG 59.753 55.000 10.75 8.63 0.00 3.66
2683 4587 1.134580 CATCTGAGCAACGGATCCTGT 60.135 52.381 10.75 6.80 42.08 4.00
2684 4588 1.137675 TCATCTGAGCAACGGATCCTG 59.862 52.381 10.75 3.13 42.08 3.86
2685 4589 1.137872 GTCATCTGAGCAACGGATCCT 59.862 52.381 10.75 0.00 42.08 3.24
2686 4590 1.134699 TGTCATCTGAGCAACGGATCC 60.135 52.381 0.00 0.00 42.08 3.36
2692 4596 4.124970 TGAGCATATGTCATCTGAGCAAC 58.875 43.478 4.29 0.00 0.00 4.17
2708 4612 3.552875 CATGAGAAACCTCCATGAGCAT 58.447 45.455 0.00 0.00 0.00 3.79
2709 4613 2.356432 CCATGAGAAACCTCCATGAGCA 60.356 50.000 0.00 0.00 0.00 4.26
2727 4631 3.329889 TCTTGGCCGGCAGTCCAT 61.330 61.111 30.85 0.00 31.54 3.41
2749 4653 1.600916 GGAAGCTGCCGACCAACTT 60.601 57.895 0.00 0.00 32.74 2.66
2786 4690 3.753070 CTCCGCGAAGGTAGCCGAC 62.753 68.421 8.23 0.00 41.99 4.79
2820 4724 3.160585 CTGGCCTGGTCTGTTGGA 58.839 61.111 3.32 0.00 0.00 3.53
2828 4732 4.357279 GGCTTCAGCTGGCCTGGT 62.357 66.667 22.54 8.74 44.48 4.00
2848 4752 2.098770 GTCTCGGCGGTAGTACTGAATT 59.901 50.000 13.54 0.00 0.00 2.17
2849 4753 1.674962 GTCTCGGCGGTAGTACTGAAT 59.325 52.381 13.54 0.00 0.00 2.57
2890 4794 8.517878 CATTTGGTAATCATTCCATACATCTCC 58.482 37.037 0.00 0.00 33.50 3.71
2933 4837 8.498054 TCAACTTCTTAAATATCTGCAGGAAG 57.502 34.615 15.13 16.93 36.17 3.46
2965 4869 4.623932 TGTGTCTTCCAGCTCATTACTT 57.376 40.909 0.00 0.00 0.00 2.24
2967 4871 3.686726 CCTTGTGTCTTCCAGCTCATTAC 59.313 47.826 0.00 0.00 0.00 1.89
3000 4904 2.939103 CCCTGTTAGTTGATGCTACTGC 59.061 50.000 0.00 0.00 40.20 4.40
3002 4906 4.910458 AACCCTGTTAGTTGATGCTACT 57.090 40.909 0.00 0.00 0.00 2.57
3039 5352 1.667236 TGAACAGCAAGGTCACACTG 58.333 50.000 0.00 0.00 39.57 3.66
3062 5375 3.643792 AGAGATCTATGGGTAGTGGTTGC 59.356 47.826 0.00 0.00 0.00 4.17
3067 5392 4.525874 TGCATGAGAGATCTATGGGTAGTG 59.474 45.833 0.00 0.00 0.00 2.74
3068 5393 4.745351 TGCATGAGAGATCTATGGGTAGT 58.255 43.478 0.00 0.00 0.00 2.73
3084 5409 9.545105 ACAAAATCTGTTAAATTTTCTGCATGA 57.455 25.926 0.00 0.00 34.84 3.07
3086 5411 8.284693 GCACAAAATCTGTTAAATTTTCTGCAT 58.715 29.630 14.24 0.00 42.54 3.96
3098 5449 9.665719 TCACATAATCTAGCACAAAATCTGTTA 57.334 29.630 0.00 0.00 35.47 2.41
3109 5460 7.388776 TGCTTCCATAATCACATAATCTAGCAC 59.611 37.037 0.00 0.00 0.00 4.40
3116 5467 6.883217 CCTAGCTGCTTCCATAATCACATAAT 59.117 38.462 7.79 0.00 0.00 1.28
3122 5473 2.548707 CGCCTAGCTGCTTCCATAATCA 60.549 50.000 7.79 0.00 0.00 2.57
3126 5477 0.104855 CACGCCTAGCTGCTTCCATA 59.895 55.000 7.79 0.00 0.00 2.74
3129 5480 0.806492 GTACACGCCTAGCTGCTTCC 60.806 60.000 7.79 0.00 0.00 3.46
3252 5604 7.717568 ACACACAGGAGTTTAGTAGCATATAG 58.282 38.462 0.00 0.00 0.00 1.31
3256 5608 4.891992 ACACACAGGAGTTTAGTAGCAT 57.108 40.909 0.00 0.00 0.00 3.79
3258 5610 5.127356 AGGATACACACAGGAGTTTAGTAGC 59.873 44.000 0.00 0.00 41.41 3.58
3276 5633 5.892568 ACAACAATAGACACGAGAGGATAC 58.107 41.667 0.00 0.00 0.00 2.24
3341 5698 1.675116 GGTCGGGTGAAGGTAAGCTTC 60.675 57.143 0.00 0.00 0.00 3.86
3347 5704 0.033796 AGATCGGTCGGGTGAAGGTA 60.034 55.000 0.00 0.00 0.00 3.08
3348 5705 1.305046 AGATCGGTCGGGTGAAGGT 60.305 57.895 0.00 0.00 0.00 3.50
3350 5707 1.064296 CGAGATCGGTCGGGTGAAG 59.936 63.158 0.00 0.00 36.26 3.02
3352 5709 3.515286 GCGAGATCGGTCGGGTGA 61.515 66.667 4.18 0.00 40.44 4.02
3376 5734 2.574955 GGATACGGAGCCAGCGGAT 61.575 63.158 0.00 0.00 0.00 4.18
3390 5748 3.697542 TGAAAGAGACGATCCAACGGATA 59.302 43.478 0.00 0.00 43.27 2.59
3397 5755 2.099263 GTCCGATGAAAGAGACGATCCA 59.901 50.000 0.00 0.00 0.00 3.41
3566 5928 3.870190 GTAGGTTAGCCCCGGCCC 61.870 72.222 1.02 0.00 43.17 5.80
3654 6016 1.683441 GTGGGGAGAAATCACCGGT 59.317 57.895 0.00 0.00 0.00 5.28
3753 6130 2.368875 GTTGAAGGTGGACAGGAAGAGA 59.631 50.000 0.00 0.00 0.00 3.10
3944 6379 2.053627 CGTTGCAGAAACAATTCCTGC 58.946 47.619 0.00 0.00 38.84 4.85


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

AutoCloner maintained by Alex Coulton.