Multiple sequence alignment - TraesCS7B01G278300

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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 TraesCS7B01G278300 chr7B 100.000 3985 0 0 1 3985 509562623 509566607 0.000000e+00 7360
1 TraesCS7B01G278300 chr7A 90.371 4092 244 58 1 3985 550296561 550300609 0.000000e+00 5236
2 TraesCS7B01G278300 chr7A 75.000 516 94 24 49 536 566126550 566126042 5.220000e-49 206
3 TraesCS7B01G278300 chr7A 74.240 559 111 21 61 590 63473371 63473925 1.880000e-48 204
4 TraesCS7B01G278300 chr7D 91.463 3643 164 41 453 3985 483917715 483921320 0.000000e+00 4868
5 TraesCS7B01G278300 chr7D 78.510 577 99 22 88 644 634289930 634289359 4.900000e-94 355
6 TraesCS7B01G278300 chr7D 81.042 480 54 18 1 456 483917035 483917501 8.200000e-92 348
7 TraesCS7B01G278300 chr7D 92.000 75 3 2 2242 2314 46087831 46087758 7.050000e-18 102
8 TraesCS7B01G278300 chr2D 77.528 623 100 26 61 652 317879268 317878655 4.930000e-89 339
9 TraesCS7B01G278300 chr2D 77.013 596 97 26 88 652 616500594 616500008 5.000000e-79 305
10 TraesCS7B01G278300 chr2D 75.626 439 82 14 238 652 17458400 17458837 1.130000e-45 195
11 TraesCS7B01G278300 chr1D 77.265 607 107 17 67 644 347407746 347408350 1.070000e-85 327
12 TraesCS7B01G278300 chr1D 75.447 615 119 18 61 646 134686399 134685788 1.830000e-68 270
13 TraesCS7B01G278300 chr1D 74.199 593 117 27 89 652 221125263 221124678 8.670000e-52 215
14 TraesCS7B01G278300 chr1D 79.457 258 49 3 405 659 48025814 48025558 3.160000e-41 180
15 TraesCS7B01G278300 chr1D 79.283 251 46 6 414 659 482827761 482827512 1.900000e-38 171
16 TraesCS7B01G278300 chr1D 93.333 75 2 2 2242 2314 42092818 42092745 1.510000e-19 108
17 TraesCS7B01G278300 chr4D 75.497 604 105 27 67 636 498075494 498076088 5.110000e-64 255
18 TraesCS7B01G278300 chr4D 75.331 604 106 27 67 636 267716823 267717417 2.380000e-62 250
19 TraesCS7B01G278300 chr5B 80.524 267 51 1 88 353 63546079 63546345 1.880000e-48 204
20 TraesCS7B01G278300 chr6A 77.778 324 55 11 1629 1948 208118088 208118398 2.450000e-42 183
21 TraesCS7B01G278300 chrUn 80.162 247 40 8 395 636 402525542 402525300 4.090000e-40 176
22 TraesCS7B01G278300 chrUn 80.162 247 40 8 395 636 474083638 474083880 4.090000e-40 176
23 TraesCS7B01G278300 chr6D 76.852 324 58 11 1629 1948 154596876 154596566 2.460000e-37 167
24 TraesCS7B01G278300 chr6B 77.199 307 53 12 1646 1948 278127440 278127733 3.190000e-36 163


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 TraesCS7B01G278300 chr7B 509562623 509566607 3984 False 7360 7360 100.0000 1 3985 1 chr7B.!!$F1 3984
1 TraesCS7B01G278300 chr7A 550296561 550300609 4048 False 5236 5236 90.3710 1 3985 1 chr7A.!!$F2 3984
2 TraesCS7B01G278300 chr7A 566126042 566126550 508 True 206 206 75.0000 49 536 1 chr7A.!!$R1 487
3 TraesCS7B01G278300 chr7A 63473371 63473925 554 False 204 204 74.2400 61 590 1 chr7A.!!$F1 529
4 TraesCS7B01G278300 chr7D 483917035 483921320 4285 False 2608 4868 86.2525 1 3985 2 chr7D.!!$F1 3984
5 TraesCS7B01G278300 chr7D 634289359 634289930 571 True 355 355 78.5100 88 644 1 chr7D.!!$R2 556
6 TraesCS7B01G278300 chr2D 317878655 317879268 613 True 339 339 77.5280 61 652 1 chr2D.!!$R1 591
7 TraesCS7B01G278300 chr2D 616500008 616500594 586 True 305 305 77.0130 88 652 1 chr2D.!!$R2 564
8 TraesCS7B01G278300 chr1D 347407746 347408350 604 False 327 327 77.2650 67 644 1 chr1D.!!$F1 577
9 TraesCS7B01G278300 chr1D 134685788 134686399 611 True 270 270 75.4470 61 646 1 chr1D.!!$R3 585
10 TraesCS7B01G278300 chr1D 221124678 221125263 585 True 215 215 74.1990 89 652 1 chr1D.!!$R4 563
11 TraesCS7B01G278300 chr4D 498075494 498076088 594 False 255 255 75.4970 67 636 1 chr4D.!!$F2 569
12 TraesCS7B01G278300 chr4D 267716823 267717417 594 False 250 250 75.3310 67 636 1 chr4D.!!$F1 569

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
451 481 0.593128 CTCCAAAACGCTGGTCCTTG 59.407 55.0 0.0 0.0 37.74 3.61 F
2000 2280 0.187117 TGGCACCTGTTCCATTTCCA 59.813 50.0 0.0 0.0 0.00 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2190 2470 0.698238 TAGAAGCCCCAGTGTGCATT 59.302 50.0 0.0 0.0 0.0 3.56 R
3920 4284 0.036952 CGTCAGATCCTTGTGCCACT 60.037 55.0 0.0 0.0 0.0 4.00 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
99 100 3.951563 TCATAAGTGGCTAGGGCAAAT 57.048 42.857 0.00 0.00 40.46 2.32
370 385 2.585900 TCCTTAGGGCAGAGAGGTTAGA 59.414 50.000 0.00 0.00 0.00 2.10
451 481 0.593128 CTCCAAAACGCTGGTCCTTG 59.407 55.000 0.00 0.00 37.74 3.61
504 751 0.669318 CGACAAAGTCAAGCGGGCTA 60.669 55.000 0.00 0.00 32.09 3.93
559 809 2.520979 CTCGTTCTGCTGTAGTAGTGC 58.479 52.381 0.00 0.00 0.00 4.40
579 830 2.479275 GCTTGTTCGGTGGTCTAAGAAC 59.521 50.000 0.77 0.77 42.19 3.01
708 960 7.730364 AAAGAACGGTGATGATATCCAATAC 57.270 36.000 0.00 0.00 0.00 1.89
709 961 5.470368 AGAACGGTGATGATATCCAATACG 58.530 41.667 0.00 2.75 0.00 3.06
710 962 4.188247 ACGGTGATGATATCCAATACGG 57.812 45.455 0.00 2.20 0.00 4.02
757 1009 0.893727 AACCATTTCGGACCACTGGC 60.894 55.000 0.00 0.00 38.63 4.85
1081 1358 0.528470 CGTGTCTTCCCTCACTCTCC 59.472 60.000 0.00 0.00 33.07 3.71
1295 1572 2.217847 CGCATAAATAGACACGGTTCGG 59.782 50.000 0.00 0.00 0.00 4.30
1326 1603 4.900635 AAACATTTAGATGCCGATGTCC 57.099 40.909 0.00 0.00 36.72 4.02
1366 1643 3.343617 GTCCTTGAATCCATCGTTTCCA 58.656 45.455 0.00 0.00 0.00 3.53
1367 1644 3.756434 GTCCTTGAATCCATCGTTTCCAA 59.244 43.478 0.00 0.00 0.00 3.53
1368 1645 3.756434 TCCTTGAATCCATCGTTTCCAAC 59.244 43.478 0.00 0.00 0.00 3.77
1369 1646 3.758554 CCTTGAATCCATCGTTTCCAACT 59.241 43.478 0.00 0.00 0.00 3.16
1370 1647 4.218417 CCTTGAATCCATCGTTTCCAACTT 59.782 41.667 0.00 0.00 0.00 2.66
1371 1648 5.278957 CCTTGAATCCATCGTTTCCAACTTT 60.279 40.000 0.00 0.00 0.00 2.66
1372 1649 5.371115 TGAATCCATCGTTTCCAACTTTC 57.629 39.130 0.00 0.00 0.00 2.62
1373 1650 4.217550 TGAATCCATCGTTTCCAACTTTCC 59.782 41.667 0.00 0.00 0.00 3.13
1414 1691 6.348498 CATGTGATGGTACCTGATTCTTGTA 58.652 40.000 14.36 0.00 0.00 2.41
1426 1703 7.805163 ACCTGATTCTTGTATAATGTCCATGA 58.195 34.615 0.00 0.00 0.00 3.07
1486 1765 9.197306 ACCTTGAAACTAACCTTTGTAATCTTT 57.803 29.630 0.00 0.00 0.00 2.52
1514 1794 6.976925 CCAAAATGCTCTGTCTTATGATTTCC 59.023 38.462 0.00 0.00 0.00 3.13
1542 1822 0.385473 GGAATGACGGTTGTTGTGCG 60.385 55.000 0.00 0.00 0.00 5.34
1967 2247 5.072329 AGGTATACAGCATGCACCTAAGATT 59.928 40.000 21.63 0.98 42.24 2.40
2000 2280 0.187117 TGGCACCTGTTCCATTTCCA 59.813 50.000 0.00 0.00 0.00 3.53
2157 2437 6.423905 CAGAGTTTGTAGCAGCTGTAGTTTTA 59.576 38.462 16.64 0.00 0.00 1.52
2161 2441 4.817517 TGTAGCAGCTGTAGTTTTAGACC 58.182 43.478 16.64 0.00 0.00 3.85
2164 2444 5.074584 AGCAGCTGTAGTTTTAGACCTAC 57.925 43.478 16.64 0.00 0.00 3.18
2184 2464 2.287547 ACGTGCAAAACCATGCTTACAG 60.288 45.455 0.00 0.00 46.54 2.74
2190 2470 5.765677 TGCAAAACCATGCTTACAGTTACTA 59.234 36.000 0.67 0.00 46.54 1.82
2191 2471 6.263392 TGCAAAACCATGCTTACAGTTACTAA 59.737 34.615 0.67 0.00 46.54 2.24
2219 2499 1.183549 GGGGCTTCTAACGTCTCTGA 58.816 55.000 0.00 0.00 0.00 3.27
2220 2500 1.757699 GGGGCTTCTAACGTCTCTGAT 59.242 52.381 0.00 0.00 0.00 2.90
2221 2501 2.168728 GGGGCTTCTAACGTCTCTGATT 59.831 50.000 0.00 0.00 0.00 2.57
2222 2502 3.383825 GGGGCTTCTAACGTCTCTGATTA 59.616 47.826 0.00 0.00 0.00 1.75
2228 2526 7.412020 GGCTTCTAACGTCTCTGATTAAAACAG 60.412 40.741 0.00 6.67 36.80 3.16
2232 2530 8.358148 TCTAACGTCTCTGATTAAAACAGTCTT 58.642 33.333 11.10 3.03 36.81 3.01
2622 2934 8.542497 TTACTGTTGTACCTGAAATACATGAC 57.458 34.615 0.00 0.00 32.70 3.06
2641 2953 8.065473 ACATGACATGTCTTATTTTTATGGCA 57.935 30.769 25.55 2.06 39.92 4.92
2646 2958 8.721019 ACATGTCTTATTTTTATGGCATTTGG 57.279 30.769 4.78 0.00 0.00 3.28
2652 2964 8.040132 TCTTATTTTTATGGCATTTGGACCAAG 58.960 33.333 4.78 0.00 39.96 3.61
2715 3027 3.891366 CCTTTTGCATATGGAACTAGGGG 59.109 47.826 20.92 11.42 0.00 4.79
2716 3028 4.536765 CTTTTGCATATGGAACTAGGGGT 58.463 43.478 9.42 0.00 0.00 4.95
2717 3029 5.398581 CCTTTTGCATATGGAACTAGGGGTA 60.399 44.000 20.92 0.89 0.00 3.69
2718 3030 4.699925 TTGCATATGGAACTAGGGGTAC 57.300 45.455 5.43 0.00 0.00 3.34
2778 3092 6.916360 TCTCCACCTTTGATATTTTTGCTT 57.084 33.333 0.00 0.00 0.00 3.91
3045 3376 8.699130 TGAGATTATAGATTGTCAAGAGCTCAA 58.301 33.333 17.77 1.31 0.00 3.02
3086 3417 3.722147 AGTGTATATTTGGCGAGCTCAG 58.278 45.455 15.40 7.85 0.00 3.35
3089 3420 3.871006 TGTATATTTGGCGAGCTCAGTTG 59.129 43.478 15.40 0.00 0.00 3.16
3120 3451 8.942338 TGTGACCTTGAACATACAGTATTATC 57.058 34.615 0.00 0.00 0.00 1.75
3259 3601 4.380867 CCATACAACCACAAATCTTGGCTC 60.381 45.833 0.00 0.00 37.69 4.70
3265 3607 2.096496 CCACAAATCTTGGCTCGTGATC 59.904 50.000 0.00 0.00 34.12 2.92
3283 3625 5.460646 GTGATCGTTCCAATGACAAAACAT 58.539 37.500 0.00 0.00 0.00 2.71
3304 3646 6.335777 ACATAGCAAAGAGAAATTTCATGGC 58.664 36.000 19.99 13.79 0.00 4.40
3354 3696 9.494271 TGATATTTGATAATACAGTTCAGAGGC 57.506 33.333 0.00 0.00 0.00 4.70
3356 3698 5.592104 TTGATAATACAGTTCAGAGGCGA 57.408 39.130 0.00 0.00 0.00 5.54
3358 3700 5.592054 TGATAATACAGTTCAGAGGCGAAG 58.408 41.667 0.00 0.00 0.00 3.79
3549 3891 7.707624 ATGCTTCAGAAATAATGGTTCTTGA 57.292 32.000 0.00 0.00 32.96 3.02
3583 3925 5.423610 AGGAGACTATGACTGCATAAACTGT 59.576 40.000 0.00 0.00 40.61 3.55
3614 3956 2.002586 GTCGTCATTGTCCCAGATGTG 58.997 52.381 0.00 0.00 0.00 3.21
3615 3957 1.623311 TCGTCATTGTCCCAGATGTGT 59.377 47.619 0.00 0.00 0.00 3.72
3616 3958 1.733912 CGTCATTGTCCCAGATGTGTG 59.266 52.381 0.00 0.00 0.00 3.82
3617 3959 2.612721 CGTCATTGTCCCAGATGTGTGA 60.613 50.000 0.00 0.00 0.00 3.58
3634 3990 9.155975 AGATGTGTGATGTTGTAGAGTTTAATC 57.844 33.333 0.00 0.00 0.00 1.75
3646 4002 8.842358 TGTAGAGTTTAATCTTTTCCATCGTT 57.158 30.769 0.00 0.00 0.00 3.85
3647 4003 8.717821 TGTAGAGTTTAATCTTTTCCATCGTTG 58.282 33.333 0.00 0.00 0.00 4.10
3656 4012 7.703058 ATCTTTTCCATCGTTGTCCTAAAAT 57.297 32.000 0.00 0.00 0.00 1.82
3658 4014 8.624367 TCTTTTCCATCGTTGTCCTAAAATAA 57.376 30.769 0.00 0.00 0.00 1.40
3659 4015 8.508875 TCTTTTCCATCGTTGTCCTAAAATAAC 58.491 33.333 0.00 0.00 0.00 1.89
3664 4022 5.937165 TCGTTGTCCTAAAATAACGATCG 57.063 39.130 14.88 14.88 46.59 3.69
3728 4086 6.842163 AGCCACTATGAATTTTGTTCTTACG 58.158 36.000 0.00 0.00 0.00 3.18
3730 4088 7.040686 AGCCACTATGAATTTTGTTCTTACGTT 60.041 33.333 0.00 0.00 0.00 3.99
3732 4090 9.113876 CCACTATGAATTTTGTTCTTACGTTTC 57.886 33.333 0.00 0.00 0.00 2.78
3742 4100 8.610248 TTTGTTCTTACGTTTCAATATCCAGA 57.390 30.769 0.00 0.00 0.00 3.86
3749 4107 4.154195 ACGTTTCAATATCCAGACAAGTGC 59.846 41.667 0.00 0.00 0.00 4.40
3756 4114 2.526304 TCCAGACAAGTGCTGTGTAC 57.474 50.000 0.00 0.00 38.84 2.90
3759 4117 2.483714 CCAGACAAGTGCTGTGTACTGT 60.484 50.000 0.00 0.00 38.84 3.55
3763 4121 4.039245 AGACAAGTGCTGTGTACTGTGTAT 59.961 41.667 0.00 0.00 38.84 2.29
3778 4136 4.700213 ACTGTGTATGCCATTACTGGAAAC 59.300 41.667 2.72 0.00 46.37 2.78
3779 4137 4.657013 TGTGTATGCCATTACTGGAAACA 58.343 39.130 2.72 0.85 46.37 2.83
3808 4172 2.574006 TCATCCCTGGCTGATAATGC 57.426 50.000 0.00 0.00 0.00 3.56
3812 4176 0.664761 CCCTGGCTGATAATGCAACG 59.335 55.000 0.00 0.00 0.00 4.10
3818 4182 3.181498 TGGCTGATAATGCAACGTCATTG 60.181 43.478 11.59 0.00 41.69 2.82
3858 4222 0.878416 TGCATTAAGTGGACCGTTGC 59.122 50.000 0.00 0.00 0.00 4.17
3908 4272 7.662604 ATCTTCATTCAAAAATGTTGCTTCC 57.337 32.000 0.00 0.00 42.46 3.46
3920 4284 2.279741 GTTGCTTCCGCTGATACATCA 58.720 47.619 0.00 0.00 36.97 3.07
3938 4302 1.002430 TCAGTGGCACAAGGATCTGAC 59.998 52.381 21.41 0.00 44.16 3.51
3939 4303 0.036952 AGTGGCACAAGGATCTGACG 60.037 55.000 21.41 0.00 44.16 4.35
3953 4317 9.884465 CAAGGATCTGACGAAAAATATTTATCC 57.116 33.333 11.83 11.83 30.97 2.59
3956 4320 8.507249 GGATCTGACGAAAAATATTTATCCTGG 58.493 37.037 12.25 0.00 29.40 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
99 100 4.655963 CTGATGAAGTCTGGAGGGAAAAA 58.344 43.478 0.00 0.00 0.00 1.94
370 385 5.238583 CACCTATTCCAAAGACGAGAAACT 58.761 41.667 0.00 0.00 0.00 2.66
451 481 0.745845 ATCTTCATGCACGTGCCCTC 60.746 55.000 35.72 11.06 41.18 4.30
512 760 2.943345 GCACAACTGTCACCGCTCG 61.943 63.158 0.00 0.00 0.00 5.03
559 809 3.064931 GGTTCTTAGACCACCGAACAAG 58.935 50.000 0.00 0.00 39.57 3.16
676 927 9.869844 GATATCATCACCGTTCTTTTATCTTTG 57.130 33.333 0.00 0.00 0.00 2.77
708 960 6.097356 TGCAGTAAATTACAGAGTTACTCCG 58.903 40.000 8.96 0.83 43.53 4.63
709 961 7.900782 TTGCAGTAAATTACAGAGTTACTCC 57.099 36.000 8.96 0.00 43.53 3.85
711 963 9.946165 GTTTTTGCAGTAAATTACAGAGTTACT 57.054 29.630 5.89 0.00 46.77 2.24
712 964 9.724839 TGTTTTTGCAGTAAATTACAGAGTTAC 57.275 29.630 5.89 0.00 38.69 2.50
714 966 9.083080 GTTGTTTTTGCAGTAAATTACAGAGTT 57.917 29.630 5.89 0.00 30.12 3.01
886 1163 3.767044 GAGGAGGGGAGGAGGAGGC 62.767 73.684 0.00 0.00 0.00 4.70
1295 1572 5.390991 GGCATCTAAATGTTTATAGAGCGGC 60.391 44.000 0.00 0.00 35.18 6.53
1326 1603 1.817099 CGCCTAGCCTCTGCAAAGG 60.817 63.158 0.11 0.11 42.71 3.11
1366 1643 3.777522 AGCAGCTCCTACTATGGAAAGTT 59.222 43.478 0.00 0.00 35.43 2.66
1367 1644 3.379452 AGCAGCTCCTACTATGGAAAGT 58.621 45.455 0.00 0.00 35.43 2.66
1368 1645 3.244044 GGAGCAGCTCCTACTATGGAAAG 60.244 52.174 31.54 0.00 46.41 2.62
1369 1646 2.700897 GGAGCAGCTCCTACTATGGAAA 59.299 50.000 31.54 0.00 46.41 3.13
1370 1647 2.320781 GGAGCAGCTCCTACTATGGAA 58.679 52.381 31.54 0.00 46.41 3.53
1371 1648 2.002505 GGAGCAGCTCCTACTATGGA 57.997 55.000 31.54 0.00 46.41 3.41
1486 1765 8.579850 AATCATAAGACAGAGCATTTTGGTAA 57.420 30.769 0.00 0.00 0.00 2.85
1514 1794 2.885644 CGTCATTCCACGGGCTCG 60.886 66.667 3.27 3.27 43.02 5.03
1542 1822 2.622942 TGACAGCTTTTGACATTGGACC 59.377 45.455 0.00 0.00 0.00 4.46
1606 1886 4.118410 GTCTGAGATAAGTCATGTGGCAG 58.882 47.826 0.00 0.00 0.00 4.85
2061 2341 3.801698 TGACAGAGCTCCAATAATCAGC 58.198 45.455 10.93 0.00 0.00 4.26
2157 2437 2.151202 CATGGTTTTGCACGTAGGTCT 58.849 47.619 0.00 0.00 0.00 3.85
2161 2441 2.704725 AAGCATGGTTTTGCACGTAG 57.295 45.000 3.82 0.00 45.23 3.51
2164 2444 2.287547 ACTGTAAGCATGGTTTTGCACG 60.288 45.455 16.43 6.94 45.23 5.34
2184 2464 1.743394 GCCCCAGTGTGCATTAGTAAC 59.257 52.381 0.00 0.00 0.00 2.50
2190 2470 0.698238 TAGAAGCCCCAGTGTGCATT 59.302 50.000 0.00 0.00 0.00 3.56
2191 2471 0.698238 TTAGAAGCCCCAGTGTGCAT 59.302 50.000 0.00 0.00 0.00 3.96
2343 2641 1.603802 CACGGTGTCACTGCAAAGAAT 59.396 47.619 11.91 0.00 0.00 2.40
2567 2879 7.393515 ACAATAACTCACCTTATCTTTGGTTCC 59.606 37.037 0.00 0.00 33.75 3.62
2622 2934 8.819974 GTCCAAATGCCATAAAAATAAGACATG 58.180 33.333 0.00 0.00 0.00 3.21
2803 3117 2.206635 GCTTCCTAGCAGGCTCTCA 58.793 57.895 0.00 0.00 46.95 3.27
3045 3376 4.217118 CACTTTTGCCAACTTAGAGCTCAT 59.783 41.667 17.77 3.63 0.00 2.90
3086 3417 3.936453 TGTTCAAGGTCACAGTACACAAC 59.064 43.478 0.00 0.00 0.00 3.32
3089 3420 5.294356 TGTATGTTCAAGGTCACAGTACAC 58.706 41.667 0.00 0.00 0.00 2.90
3097 3428 9.764363 GATGATAATACTGTATGTTCAAGGTCA 57.236 33.333 13.61 5.95 0.00 4.02
3212 3554 9.952030 TGGTAATTTTAGTTACATGAGACATGA 57.048 29.630 16.86 0.57 36.51 3.07
3233 3575 5.047660 GCCAAGATTTGTGGTTGTATGGTAA 60.048 40.000 0.00 0.00 38.50 2.85
3259 3601 3.804518 TTTGTCATTGGAACGATCACG 57.195 42.857 0.00 0.00 45.75 4.35
3265 3607 4.793071 TGCTATGTTTTGTCATTGGAACG 58.207 39.130 0.00 0.00 0.00 3.95
3283 3625 5.711506 TCAGCCATGAAATTTCTCTTTGCTA 59.288 36.000 18.64 0.00 30.61 3.49
3353 3695 3.316283 TGAAAATGAAACATGGCTTCGC 58.684 40.909 0.00 0.00 0.00 4.70
3354 3696 7.760131 ATTATGAAAATGAAACATGGCTTCG 57.240 32.000 0.00 0.00 0.00 3.79
3385 3727 9.755064 CTTAGTGTTAATCCATTACTTTTGTCG 57.245 33.333 0.00 0.00 0.00 4.35
3394 3736 9.832445 GAGATGTTCCTTAGTGTTAATCCATTA 57.168 33.333 0.00 0.00 0.00 1.90
3398 3740 8.738645 ATTGAGATGTTCCTTAGTGTTAATCC 57.261 34.615 0.00 0.00 0.00 3.01
3452 3794 9.027129 GTGAACACATTCCATTCATTCATATTG 57.973 33.333 0.00 0.00 34.98 1.90
3453 3795 8.751242 TGTGAACACATTCCATTCATTCATATT 58.249 29.630 3.39 0.00 36.21 1.28
3454 3796 8.296211 TGTGAACACATTCCATTCATTCATAT 57.704 30.769 3.39 0.00 36.21 1.78
3455 3797 7.700022 TGTGAACACATTCCATTCATTCATA 57.300 32.000 3.39 0.00 36.21 2.15
3456 3798 6.593268 TGTGAACACATTCCATTCATTCAT 57.407 33.333 3.39 0.00 36.21 2.57
3525 3867 7.613022 TCTCAAGAACCATTATTTCTGAAGCAT 59.387 33.333 0.00 0.00 33.46 3.79
3547 3889 8.637099 CAGTCATAGTCTCCTGATTTTATCTCA 58.363 37.037 0.00 0.00 0.00 3.27
3549 3891 7.070447 TGCAGTCATAGTCTCCTGATTTTATCT 59.930 37.037 0.00 0.00 0.00 1.98
3559 3901 5.423610 ACAGTTTATGCAGTCATAGTCTCCT 59.576 40.000 0.00 0.00 36.60 3.69
3583 3925 4.497507 GGACAATGACGACGATGATGACTA 60.498 45.833 0.00 0.00 0.00 2.59
3614 3956 9.827411 GGAAAAGATTAAACTCTACAACATCAC 57.173 33.333 0.00 0.00 0.00 3.06
3615 3957 9.567776 TGGAAAAGATTAAACTCTACAACATCA 57.432 29.630 0.00 0.00 0.00 3.07
3634 3990 7.480542 CGTTATTTTAGGACAACGATGGAAAAG 59.519 37.037 0.00 0.00 44.85 2.27
3638 3994 5.722263 TCGTTATTTTAGGACAACGATGGA 58.278 37.500 4.46 0.00 45.42 3.41
3700 4058 8.409358 AAGAACAAAATTCATAGTGGCTACTT 57.591 30.769 8.46 0.00 38.36 2.24
3706 4064 9.113876 GAAACGTAAGAACAAAATTCATAGTGG 57.886 33.333 0.00 0.00 43.62 4.00
3728 4086 5.182001 ACAGCACTTGTCTGGATATTGAAAC 59.818 40.000 0.00 0.00 33.87 2.78
3730 4088 4.696877 CACAGCACTTGTCTGGATATTGAA 59.303 41.667 0.00 0.00 38.16 2.69
3732 4090 4.005650 ACACAGCACTTGTCTGGATATTG 58.994 43.478 0.00 0.00 38.16 1.90
3742 4100 2.691409 ACACAGTACACAGCACTTGT 57.309 45.000 0.00 0.00 41.94 3.16
3749 4107 5.291858 CAGTAATGGCATACACAGTACACAG 59.708 44.000 0.00 0.00 40.66 3.66
3756 4114 4.699735 TGTTTCCAGTAATGGCATACACAG 59.300 41.667 3.77 0.00 0.00 3.66
3778 4136 2.550423 GCCAGGGATGATCATCAGACTG 60.550 54.545 31.49 30.03 39.54 3.51
3779 4137 1.698532 GCCAGGGATGATCATCAGACT 59.301 52.381 31.49 23.46 39.54 3.24
3780 4138 1.698532 AGCCAGGGATGATCATCAGAC 59.301 52.381 31.49 21.92 39.54 3.51
3781 4139 1.697982 CAGCCAGGGATGATCATCAGA 59.302 52.381 31.49 0.00 39.54 3.27
3782 4140 1.697982 TCAGCCAGGGATGATCATCAG 59.302 52.381 31.49 21.42 39.54 2.90
3783 4141 1.810455 TCAGCCAGGGATGATCATCA 58.190 50.000 31.49 10.46 39.54 3.07
3784 4142 4.564782 TTATCAGCCAGGGATGATCATC 57.435 45.455 24.90 24.90 46.68 2.92
3785 4143 4.856509 CATTATCAGCCAGGGATGATCAT 58.143 43.478 21.26 13.88 46.68 2.45
3808 4172 3.801050 TGGACATTTTTGCAATGACGTTG 59.199 39.130 0.00 2.84 40.90 4.10
3826 4190 9.463443 GTCCACTTAATGCATTATTTTATGGAC 57.537 33.333 28.98 28.98 40.91 4.02
3858 4222 3.259374 ACACACTCAGAGTATCAACCCAG 59.741 47.826 1.67 0.00 37.82 4.45
3920 4284 0.036952 CGTCAGATCCTTGTGCCACT 60.037 55.000 0.00 0.00 0.00 4.00
3923 4287 1.808411 TTTCGTCAGATCCTTGTGCC 58.192 50.000 0.00 0.00 0.00 5.01
3953 4317 7.709947 ACAAACATAATGCAGACATATTCCAG 58.290 34.615 0.00 0.00 34.62 3.86
3956 4320 8.915871 ACAACAAACATAATGCAGACATATTC 57.084 30.769 0.00 0.00 34.62 1.75
3962 4326 5.119931 TGGACAACAAACATAATGCAGAC 57.880 39.130 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.