Multiple sequence alignment - TraesCS7D01G369700

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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 TraesCS7D01G369700 chr7D 100.000 3139 0 0 1 3139 478369278 478372416 0.000000e+00 5797.0
1 TraesCS7D01G369700 chr7D 84.679 483 68 4 1661 2137 478335692 478336174 7.880000e-131 477.0
2 TraesCS7D01G369700 chr7D 75.649 501 106 14 1583 2075 478576338 478576830 5.230000e-58 235.0
3 TraesCS7D01G369700 chr7D 77.163 416 63 24 1109 1502 478327683 478328088 2.450000e-51 213.0
4 TraesCS7D01G369700 chr7D 75.854 410 75 19 1108 1502 478572489 478572089 1.490000e-43 187.0
5 TraesCS7D01G369700 chr7B 93.398 2590 86 30 578 3139 503505889 503508421 0.000000e+00 3757.0
6 TraesCS7D01G369700 chr7B 79.044 1193 168 54 707 1863 503498398 503499544 0.000000e+00 743.0
7 TraesCS7D01G369700 chr7B 75.649 501 106 14 1583 2075 504439979 504440471 5.230000e-58 235.0
8 TraesCS7D01G369700 chr7B 75.649 501 106 14 1583 2075 504456644 504457136 5.230000e-58 235.0
9 TraesCS7D01G369700 chr7B 86.555 119 14 2 1108 1225 504244564 504244447 2.540000e-26 130.0
10 TraesCS7D01G369700 chr7A 89.494 2113 150 39 623 2700 516873744 516871669 0.000000e+00 2606.0
11 TraesCS7D01G369700 chr7A 79.621 422 63 17 1093 1502 516990168 516989758 6.630000e-72 281.0
12 TraesCS7D01G369700 chr7A 84.437 302 23 12 2855 3139 516842096 516841802 3.080000e-70 276.0
13 TraesCS7D01G369700 chr7A 75.152 495 105 16 1593 2075 516514432 516513944 1.900000e-52 217.0
14 TraesCS7D01G369700 chr7A 79.888 179 32 3 403 578 34997759 34997936 9.140000e-26 128.0
15 TraesCS7D01G369700 chr5A 83.333 498 75 5 27 520 219830127 219829634 1.330000e-123 453.0
16 TraesCS7D01G369700 chr5A 84.300 414 59 4 12 421 485865419 485865830 1.750000e-107 399.0
17 TraesCS7D01G369700 chr5A 84.108 409 59 4 12 416 485923688 485924094 1.060000e-104 390.0
18 TraesCS7D01G369700 chr5A 74.558 566 101 28 28 557 502441921 502441363 1.140000e-49 207.0
19 TraesCS7D01G369700 chr5A 80.435 230 36 5 328 548 272128139 272128368 1.940000e-37 167.0
20 TraesCS7D01G369700 chr5A 83.036 112 16 1 470 578 608348078 608347967 7.160000e-17 99.0
21 TraesCS7D01G369700 chr5A 81.731 104 19 0 1384 1487 704015843 704015740 1.550000e-13 87.9
22 TraesCS7D01G369700 chr5A 83.333 84 11 2 500 580 534896094 534896177 1.210000e-09 75.0
23 TraesCS7D01G369700 chr6D 81.411 581 80 16 2 557 414102767 414103344 1.720000e-122 449.0
24 TraesCS7D01G369700 chr6D 75.087 289 62 7 1732 2012 25826844 25826558 3.290000e-25 126.0
25 TraesCS7D01G369700 chr5D 85.194 412 55 3 15 422 9127031 9126622 4.840000e-113 418.0
26 TraesCS7D01G369700 chr4D 84.346 428 58 6 2 424 480506743 480506320 8.100000e-111 411.0
27 TraesCS7D01G369700 chr2D 83.810 420 57 9 15 427 484955836 484956251 3.800000e-104 388.0
28 TraesCS7D01G369700 chr2D 79.439 107 21 1 1388 1494 95516255 95516360 1.210000e-09 75.0
29 TraesCS7D01G369700 chr4B 78.947 532 104 6 24 550 370905487 370906015 3.850000e-94 355.0
30 TraesCS7D01G369700 chr2B 77.957 558 103 14 34 578 158638703 158638153 6.490000e-87 331.0
31 TraesCS7D01G369700 chr3B 77.586 522 92 20 1302 1815 146706808 146706304 3.060000e-75 292.0
32 TraesCS7D01G369700 chr3B 82.979 141 20 4 1083 1221 146707040 146706902 1.180000e-24 124.0
33 TraesCS7D01G369700 chr4A 76.401 589 102 21 19 580 638248001 638247423 1.840000e-72 283.0
34 TraesCS7D01G369700 chr3A 76.967 521 97 18 1302 1815 113922268 113921764 3.080000e-70 276.0
35 TraesCS7D01G369700 chr3D 86.070 201 28 0 1302 1502 95840128 95839928 1.900000e-52 217.0
36 TraesCS7D01G369700 chr3D 83.099 142 18 6 1083 1221 95840326 95840188 1.180000e-24 124.0
37 TraesCS7D01G369700 chr6A 75.367 341 72 9 1732 2063 23951614 23951277 1.510000e-33 154.0
38 TraesCS7D01G369700 chr1D 83.019 159 25 2 406 563 449971335 449971178 3.260000e-30 143.0
39 TraesCS7D01G369700 chr6B 74.194 341 76 9 1732 2063 42211227 42210890 7.060000e-27 132.0
40 TraesCS7D01G369700 chr6B 83.594 128 17 4 1093 1218 173391781 173391906 1.980000e-22 117.0


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 TraesCS7D01G369700 chr7D 478369278 478372416 3138 False 5797 5797 100.0000 1 3139 1 chr7D.!!$F3 3138
1 TraesCS7D01G369700 chr7B 503505889 503508421 2532 False 3757 3757 93.3980 578 3139 1 chr7B.!!$F2 2561
2 TraesCS7D01G369700 chr7B 503498398 503499544 1146 False 743 743 79.0440 707 1863 1 chr7B.!!$F1 1156
3 TraesCS7D01G369700 chr7A 516871669 516873744 2075 True 2606 2606 89.4940 623 2700 1 chr7A.!!$R3 2077
4 TraesCS7D01G369700 chr5A 502441363 502441921 558 True 207 207 74.5580 28 557 1 chr5A.!!$R2 529
5 TraesCS7D01G369700 chr6D 414102767 414103344 577 False 449 449 81.4110 2 557 1 chr6D.!!$F1 555
6 TraesCS7D01G369700 chr4B 370905487 370906015 528 False 355 355 78.9470 24 550 1 chr4B.!!$F1 526
7 TraesCS7D01G369700 chr2B 158638153 158638703 550 True 331 331 77.9570 34 578 1 chr2B.!!$R1 544
8 TraesCS7D01G369700 chr3B 146706304 146707040 736 True 208 292 80.2825 1083 1815 2 chr3B.!!$R1 732
9 TraesCS7D01G369700 chr4A 638247423 638248001 578 True 283 283 76.4010 19 580 1 chr4A.!!$R1 561
10 TraesCS7D01G369700 chr3A 113921764 113922268 504 True 276 276 76.9670 1302 1815 1 chr3A.!!$R1 513

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
386 416 0.038526 CGTCTACCACCGCTTTGACT 60.039 55.000 0.0 0.0 0.00 3.41 F
1427 1558 1.077265 CACCATCAAGGCCCAGGTT 59.923 57.895 0.0 0.0 43.14 3.50 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1528 1659 0.466007 TCAATGGTGCATGGATCGGG 60.466 55.0 0.00 0.0 0.0 5.14 R
2409 2577 0.108377 ATAGCGCCGTTGATGTGTCA 60.108 50.0 2.29 0.0 0.0 3.58 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
61 62 2.355481 GAAGCCGACACGTCCGTT 60.355 61.111 6.20 0.00 0.00 4.44
68 69 4.164087 ACACGTCCGTTGGCACCA 62.164 61.111 0.00 0.00 0.00 4.17
143 144 4.787280 CCACCGCTCCTCCCCTCT 62.787 72.222 0.00 0.00 0.00 3.69
144 145 3.151022 CACCGCTCCTCCCCTCTC 61.151 72.222 0.00 0.00 0.00 3.20
176 178 1.980772 GCTTGGTGGGCTGAGCATT 60.981 57.895 6.82 0.00 35.29 3.56
237 255 1.535444 TTGAGTTCTCGGGGCTCCA 60.535 57.895 1.96 0.00 0.00 3.86
269 287 4.415332 GAGCGTCGAGGCGGAACA 62.415 66.667 22.98 0.00 38.18 3.18
270 288 3.909258 GAGCGTCGAGGCGGAACAA 62.909 63.158 22.98 0.00 38.18 2.83
288 306 4.348863 ACAAGAGACAGTGAAGCTTCAT 57.651 40.909 30.65 16.32 39.73 2.57
289 307 4.314121 ACAAGAGACAGTGAAGCTTCATC 58.686 43.478 30.65 23.28 39.73 2.92
341 359 2.128035 GACGCCGGTGATCATTTAGAG 58.872 52.381 24.59 0.00 0.00 2.43
369 389 6.070938 GGTATTAATTATACTCCAGAGCCCGT 60.071 42.308 0.00 0.00 39.30 5.28
373 393 1.984066 ATACTCCAGAGCCCGTCTAC 58.016 55.000 0.00 0.00 32.51 2.59
385 415 1.012486 CCGTCTACCACCGCTTTGAC 61.012 60.000 0.00 0.00 0.00 3.18
386 416 0.038526 CGTCTACCACCGCTTTGACT 60.039 55.000 0.00 0.00 0.00 3.41
392 422 5.870978 GTCTACCACCGCTTTGACTTATTTA 59.129 40.000 0.00 0.00 0.00 1.40
400 450 9.221775 CACCGCTTTGACTTATTTATAATGAAC 57.778 33.333 0.00 0.00 0.00 3.18
508 581 3.399181 GGCGTCCTCCCACATCCA 61.399 66.667 0.00 0.00 0.00 3.41
511 584 1.524621 CGTCCTCCCACATCCATGC 60.525 63.158 0.00 0.00 0.00 4.06
521 594 2.842462 ATCCATGCCCGCGGACTA 60.842 61.111 30.73 13.00 33.05 2.59
590 670 4.565652 GGAGATGCCCTAACAAGAGTCAAA 60.566 45.833 0.00 0.00 0.00 2.69
616 696 2.876219 GACTCCTGTCCCGACGAC 59.124 66.667 0.00 0.00 42.33 4.34
774 861 4.029809 CCCACCGTCACCTTCCCC 62.030 72.222 0.00 0.00 0.00 4.81
830 921 2.202492 CTCGAGTTCAGGCGTCCG 60.202 66.667 3.62 0.00 0.00 4.79
898 989 1.649815 CTAGCTAGCCGGAGACACG 59.350 63.158 12.13 0.00 0.00 4.49
906 997 4.293648 CGGAGACACGCACCCACA 62.294 66.667 0.00 0.00 0.00 4.17
962 1058 5.491070 CCTTCTCATCAAACCATCAGTACA 58.509 41.667 0.00 0.00 0.00 2.90
985 1081 5.180492 CAGTCTTGAGTCTTCTCGTCTACTT 59.820 44.000 0.00 0.00 43.09 2.24
1257 1380 1.474077 GCGCCATTTCCTCAGTTGATT 59.526 47.619 0.00 0.00 0.00 2.57
1264 1387 5.922544 CCATTTCCTCAGTTGATTTTGTGTC 59.077 40.000 0.00 0.00 0.00 3.67
1268 1391 4.576053 TCCTCAGTTGATTTTGTGTCTGTG 59.424 41.667 0.00 0.00 0.00 3.66
1269 1392 4.261322 CCTCAGTTGATTTTGTGTCTGTGG 60.261 45.833 0.00 0.00 32.87 4.17
1313 1444 1.827789 TTTTCTTGCGCAGGGCTGT 60.828 52.632 20.24 0.00 44.05 4.40
1427 1558 1.077265 CACCATCAAGGCCCAGGTT 59.923 57.895 0.00 0.00 43.14 3.50
1524 1655 1.699083 TCAGTTGCTCTGGTTCATCCA 59.301 47.619 8.98 0.00 43.76 3.41
1526 1657 3.087031 CAGTTGCTCTGGTTCATCCATT 58.913 45.455 2.37 0.00 46.12 3.16
1527 1658 3.128242 CAGTTGCTCTGGTTCATCCATTC 59.872 47.826 2.37 0.00 46.12 2.67
1528 1659 2.424956 GTTGCTCTGGTTCATCCATTCC 59.575 50.000 0.00 0.00 46.12 3.01
1529 1660 1.064463 TGCTCTGGTTCATCCATTCCC 60.064 52.381 0.00 0.00 46.12 3.97
1818 1971 1.126113 GCATCTACAACGACACCAACG 59.874 52.381 0.00 0.00 0.00 4.10
1940 2093 1.893801 ACCACCTACTTCGAGAACCTG 59.106 52.381 0.00 0.00 0.00 4.00
2043 2196 1.227438 AACCCGGACATATTCGCCG 60.227 57.895 0.73 0.00 44.42 6.46
2044 2197 3.041940 CCCGGACATATTCGCCGC 61.042 66.667 0.73 0.00 43.52 6.53
2112 2265 3.718210 GACACGCCCACGGAGATCC 62.718 68.421 0.00 0.00 46.04 3.36
2150 2308 2.825861 TCAACTAAGGTCAACCGGAC 57.174 50.000 9.46 0.00 46.20 4.79
2256 2414 2.165030 CCAAAAGGGCTGTTAGCAGATG 59.835 50.000 11.20 0.00 44.75 2.90
2332 2494 3.878160 AGATTCCTTTCCACGAGACTC 57.122 47.619 0.00 0.00 0.00 3.36
2361 2528 1.789464 GGATTAGCTTGAGATCGCACG 59.211 52.381 0.00 0.00 0.00 5.34
2408 2576 2.351835 CCAACGGAGTCTACTGACACAG 60.352 54.545 0.00 0.00 45.00 3.66
2409 2577 2.273538 ACGGAGTCTACTGACACAGT 57.726 50.000 9.32 9.32 42.97 3.55
2410 2578 1.880675 ACGGAGTCTACTGACACAGTG 59.119 52.381 13.62 0.00 40.82 3.66
2411 2579 2.152016 CGGAGTCTACTGACACAGTGA 58.848 52.381 7.81 7.14 45.01 3.41
2412 2580 2.095668 CGGAGTCTACTGACACAGTGAC 60.096 54.545 7.81 16.08 45.01 3.67
2413 2581 2.885266 GGAGTCTACTGACACAGTGACA 59.115 50.000 22.50 6.54 45.01 3.58
2414 2582 3.304794 GGAGTCTACTGACACAGTGACAC 60.305 52.174 22.50 18.92 45.01 3.67
2415 2583 3.288092 AGTCTACTGACACAGTGACACA 58.712 45.455 22.50 3.82 45.01 3.72
2421 2589 2.200899 TGACACAGTGACACATCAACG 58.799 47.619 7.81 0.00 36.31 4.10
2424 2592 1.221466 ACAGTGACACATCAACGGCG 61.221 55.000 4.80 4.80 36.31 6.46
2503 2671 5.917541 TCTGTTAGAGCCTAAACAAAACG 57.082 39.130 0.00 0.00 35.32 3.60
2545 2729 0.240678 TAATGCAGTGCAAGTTGCCG 59.759 50.000 23.90 14.04 44.23 5.69
2635 2829 1.885388 GCGCACGGTGGCATACATA 60.885 57.895 10.60 0.00 0.00 2.29
2713 2913 2.179517 CTCGGGCTGTCTCGTCAC 59.820 66.667 0.00 0.00 0.00 3.67
2723 2923 4.436998 CTCGTCACGTGGGAGGGC 62.437 72.222 22.20 0.00 0.00 5.19
2764 2964 3.726517 CGCACGTTGGCCTTGAGG 61.727 66.667 3.32 0.00 38.53 3.86
2786 2986 2.105128 GGCTGGGTGAGTCGATCG 59.895 66.667 9.36 9.36 0.00 3.69
2787 2987 2.105128 GCTGGGTGAGTCGATCGG 59.895 66.667 16.41 0.00 0.00 4.18
2788 2988 2.105128 CTGGGTGAGTCGATCGGC 59.895 66.667 12.83 12.83 0.00 5.54
2789 2989 3.432051 CTGGGTGAGTCGATCGGCC 62.432 68.421 17.57 8.69 0.00 6.13
2790 2990 4.222847 GGGTGAGTCGATCGGCCC 62.223 72.222 17.57 10.64 38.19 5.80
2791 2991 3.458163 GGTGAGTCGATCGGCCCA 61.458 66.667 17.57 8.28 0.00 5.36
2857 3057 2.436824 GAAACTGGCCGCTCCCTC 60.437 66.667 0.00 0.00 0.00 4.30
2965 3165 4.072088 GTAGCGGCGTGTGTGTGC 62.072 66.667 9.37 0.00 0.00 4.57
2981 3181 0.599204 GTGCCTGAGGAAAACGACGA 60.599 55.000 0.65 0.00 0.00 4.20
2985 3185 0.937699 CTGAGGAAAACGACGACGCA 60.938 55.000 7.30 0.00 43.96 5.24
3057 3257 0.038892 GCGAAACGTGGGTAGAGTGA 60.039 55.000 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.068250 GCCTCCTCATCGTAGGTGC 59.932 63.158 0.00 0.00 37.91 5.01
5 6 1.327690 GGTGTGGCCTCCTCATCGTA 61.328 60.000 3.32 0.00 29.60 3.43
7 8 2.187946 GGTGTGGCCTCCTCATCG 59.812 66.667 3.32 0.00 29.60 3.84
61 62 1.480212 CCTCACTACTGGTGGTGCCA 61.480 60.000 11.48 0.00 46.95 4.92
68 69 4.337145 CACTACTCTTCCTCACTACTGGT 58.663 47.826 0.00 0.00 0.00 4.00
71 72 3.759618 GTGCACTACTCTTCCTCACTACT 59.240 47.826 10.32 0.00 0.00 2.57
76 77 0.888619 CCGTGCACTACTCTTCCTCA 59.111 55.000 16.19 0.00 0.00 3.86
165 166 0.968405 TGACCAAAAATGCTCAGCCC 59.032 50.000 0.00 0.00 0.00 5.19
176 178 3.305064 GCCAAGCGACTAATTGACCAAAA 60.305 43.478 0.00 0.00 0.00 2.44
208 210 0.398318 AGAACTCAAGCTTCCGCCTT 59.602 50.000 0.00 0.00 36.60 4.35
221 224 1.671901 CTCTGGAGCCCCGAGAACTC 61.672 65.000 6.78 0.00 36.12 3.01
237 255 2.720134 GCTCTTCAGCTCCGCCTCT 61.720 63.158 0.00 0.00 43.09 3.69
250 268 3.371063 TTCCGCCTCGACGCTCTT 61.371 61.111 4.89 0.00 0.00 2.85
257 275 1.176619 TGTCTCTTGTTCCGCCTCGA 61.177 55.000 0.00 0.00 0.00 4.04
269 287 4.527816 AGAGATGAAGCTTCACTGTCTCTT 59.472 41.667 34.85 25.39 43.40 2.85
270 288 4.088634 AGAGATGAAGCTTCACTGTCTCT 58.911 43.478 34.85 34.85 42.19 3.10
288 306 2.903357 GCAATCAGCCCCGAGAGA 59.097 61.111 0.00 0.00 37.23 3.10
341 359 8.476447 GGGCTCTGGAGTATAATTAATACCTAC 58.524 40.741 0.00 0.00 41.33 3.18
369 389 4.546829 AATAAGTCAAAGCGGTGGTAGA 57.453 40.909 0.00 0.00 0.00 2.59
373 393 7.925993 TCATTATAAATAAGTCAAAGCGGTGG 58.074 34.615 0.00 0.00 0.00 4.61
400 450 7.042051 ACGACCGGATTTCATATAAACATGAAG 60.042 37.037 9.46 0.00 43.77 3.02
482 555 1.049289 GGGAGGACGCCATCTAACCT 61.049 60.000 0.00 0.00 0.00 3.50
487 560 1.690219 GATGTGGGAGGACGCCATCT 61.690 60.000 0.00 0.00 35.73 2.90
508 581 3.537874 GGACTAGTCCGCGGGCAT 61.538 66.667 34.17 17.50 40.36 4.40
610 690 1.909376 CCTCATGGTTACTGTCGTCG 58.091 55.000 0.00 0.00 0.00 5.12
611 691 1.641577 GCCTCATGGTTACTGTCGTC 58.358 55.000 0.00 0.00 35.27 4.20
612 692 0.249398 GGCCTCATGGTTACTGTCGT 59.751 55.000 0.00 0.00 35.27 4.34
614 694 2.717639 ATGGCCTCATGGTTACTGTC 57.282 50.000 3.32 0.00 35.27 3.51
615 695 3.748668 GCATATGGCCTCATGGTTACTGT 60.749 47.826 16.03 0.00 36.11 3.55
616 696 2.816087 GCATATGGCCTCATGGTTACTG 59.184 50.000 16.03 0.00 36.11 2.74
617 697 2.550855 CGCATATGGCCTCATGGTTACT 60.551 50.000 16.03 0.00 40.31 2.24
618 698 1.806542 CGCATATGGCCTCATGGTTAC 59.193 52.381 16.03 2.29 40.31 2.50
619 699 1.419762 ACGCATATGGCCTCATGGTTA 59.580 47.619 16.03 0.00 40.31 2.85
620 700 0.183492 ACGCATATGGCCTCATGGTT 59.817 50.000 16.03 0.00 40.31 3.67
621 701 0.250467 GACGCATATGGCCTCATGGT 60.250 55.000 16.03 12.46 40.31 3.55
685 769 1.141881 GACGGCGTGGATCACATCT 59.858 57.895 21.19 0.00 33.40 2.90
790 881 2.222027 GTATGGGCTGACTAATGTGCC 58.778 52.381 0.00 0.00 44.22 5.01
830 921 2.597903 GGAGGGGAGTGATTGGCC 59.402 66.667 0.00 0.00 0.00 5.36
898 989 4.619863 CGTATATATAGTGGGTGTGGGTGC 60.620 50.000 0.00 0.00 0.00 5.01
906 997 6.670617 ACATAGGAGCGTATATATAGTGGGT 58.329 40.000 0.00 0.00 0.00 4.51
962 1058 4.901868 AGTAGACGAGAAGACTCAAGACT 58.098 43.478 0.00 0.00 42.72 3.24
985 1081 1.807226 CCATACCTGACGACGAGCA 59.193 57.895 0.00 0.00 0.00 4.26
1257 1380 5.449862 GCAAATCAACTACCACAGACACAAA 60.450 40.000 0.00 0.00 0.00 2.83
1264 1387 4.940046 AGATCAGCAAATCAACTACCACAG 59.060 41.667 0.00 0.00 0.00 3.66
1268 1391 4.433615 TCGAGATCAGCAAATCAACTACC 58.566 43.478 0.00 0.00 0.00 3.18
1269 1392 4.505922 CCTCGAGATCAGCAAATCAACTAC 59.494 45.833 15.71 0.00 0.00 2.73
1313 1444 1.514228 GAGCAAGATCGACGCGTCA 60.514 57.895 35.71 23.77 0.00 4.35
1524 1655 1.151450 GGTGCATGGATCGGGGAAT 59.849 57.895 0.00 0.00 0.00 3.01
1526 1657 1.644437 AATGGTGCATGGATCGGGGA 61.644 55.000 0.00 0.00 0.00 4.81
1527 1658 1.152694 AATGGTGCATGGATCGGGG 60.153 57.895 0.00 0.00 0.00 5.73
1528 1659 0.466007 TCAATGGTGCATGGATCGGG 60.466 55.000 0.00 0.00 0.00 5.14
1529 1660 1.391577 TTCAATGGTGCATGGATCGG 58.608 50.000 0.00 0.00 0.00 4.18
2003 2156 1.668419 GCATGTACACCCTCACCATC 58.332 55.000 0.00 0.00 0.00 3.51
2044 2197 4.735132 TCGCCTTGGCGAAGTCGG 62.735 66.667 30.88 4.31 39.34 4.79
2112 2265 2.266554 GATCTTCTTGCAGTCCAGACG 58.733 52.381 0.00 0.00 36.20 4.18
2114 2267 3.326006 AGTTGATCTTCTTGCAGTCCAGA 59.674 43.478 0.00 0.00 0.00 3.86
2150 2308 0.833287 ACCACAGATTCATCCTCCGG 59.167 55.000 0.00 0.00 0.00 5.14
2318 2480 1.132643 CTACCCGAGTCTCGTGGAAAG 59.867 57.143 26.71 20.35 38.40 2.62
2332 2494 3.574396 TCTCAAGCTAATCCATCTACCCG 59.426 47.826 0.00 0.00 0.00 5.28
2361 2528 1.269309 ACTCGCTATCGGATTGAGTGC 60.269 52.381 15.16 5.13 38.41 4.40
2408 2576 1.011968 TAGCGCCGTTGATGTGTCAC 61.012 55.000 2.29 0.00 33.11 3.67
2409 2577 0.108377 ATAGCGCCGTTGATGTGTCA 60.108 50.000 2.29 0.00 0.00 3.58
2410 2578 0.301687 CATAGCGCCGTTGATGTGTC 59.698 55.000 2.29 0.00 0.00 3.67
2411 2579 0.108377 TCATAGCGCCGTTGATGTGT 60.108 50.000 2.29 0.00 0.00 3.72
2412 2580 0.301687 GTCATAGCGCCGTTGATGTG 59.698 55.000 2.29 0.00 0.00 3.21
2413 2581 0.108377 TGTCATAGCGCCGTTGATGT 60.108 50.000 2.29 0.00 0.00 3.06
2414 2582 0.578683 CTGTCATAGCGCCGTTGATG 59.421 55.000 2.29 0.27 0.00 3.07
2415 2583 0.459899 TCTGTCATAGCGCCGTTGAT 59.540 50.000 2.29 0.00 0.00 2.57
2421 2589 3.999051 GACGTCTGTCATAGCGCC 58.001 61.111 8.70 0.00 44.82 6.53
2503 2671 1.674441 GGGGACGCAGGTAAATTAAGC 59.326 52.381 0.00 0.00 0.00 3.09
2631 2819 4.449131 CTGCCATTGTCATCTCAGTATGT 58.551 43.478 0.00 0.00 37.40 2.29
2635 2829 1.681166 GCCTGCCATTGTCATCTCAGT 60.681 52.381 0.00 0.00 0.00 3.41
2701 2895 2.430921 CCCACGTGACGAGACAGC 60.431 66.667 19.30 0.00 0.00 4.40
2713 2913 1.683418 GGTTAGGTAGCCCTCCCACG 61.683 65.000 0.00 0.00 41.45 4.94
2723 2923 0.986992 CGCGACAAACGGTTAGGTAG 59.013 55.000 0.00 0.00 42.83 3.18
2767 2967 3.432051 GATCGACTCACCCAGCCGG 62.432 68.421 0.00 0.00 37.81 6.13
2769 2969 2.105128 CGATCGACTCACCCAGCC 59.895 66.667 10.26 0.00 0.00 4.85
2771 2971 2.105128 GCCGATCGACTCACCCAG 59.895 66.667 18.66 0.00 0.00 4.45
2772 2972 3.458163 GGCCGATCGACTCACCCA 61.458 66.667 18.66 0.00 0.00 4.51
2773 2973 4.222847 GGGCCGATCGACTCACCC 62.223 72.222 18.66 14.65 33.84 4.61
2774 2974 3.432051 CTGGGCCGATCGACTCACC 62.432 68.421 18.66 11.18 0.00 4.02
2775 2975 2.105128 CTGGGCCGATCGACTCAC 59.895 66.667 18.66 6.99 0.00 3.51
2776 2976 3.838271 GCTGGGCCGATCGACTCA 61.838 66.667 18.66 10.93 0.00 3.41
2777 2977 4.593864 GGCTGGGCCGATCGACTC 62.594 72.222 18.66 5.20 39.62 3.36
2837 3037 2.335712 GGGAGCGGCCAGTTTCTTG 61.336 63.158 2.24 0.00 38.95 3.02
2958 3158 0.307760 CGTTTTCCTCAGGCACACAC 59.692 55.000 0.00 0.00 0.00 3.82
2959 3159 0.179234 TCGTTTTCCTCAGGCACACA 59.821 50.000 0.00 0.00 0.00 3.72
2960 3160 0.586802 GTCGTTTTCCTCAGGCACAC 59.413 55.000 0.00 0.00 0.00 3.82
2961 3161 0.878523 CGTCGTTTTCCTCAGGCACA 60.879 55.000 0.00 0.00 0.00 4.57
2965 3165 1.615107 GCGTCGTCGTTTTCCTCAGG 61.615 60.000 3.66 0.00 39.49 3.86
2981 3181 1.750930 CAGGATAGGATGCCTGCGT 59.249 57.895 0.00 0.00 44.53 5.24
2985 3185 1.063183 GGCTTCAGGATAGGATGCCT 58.937 55.000 10.89 0.00 46.49 4.75
3057 3257 5.682990 GCACCACTTGCCATTTCATATGAAT 60.683 40.000 18.61 6.75 46.63 2.57


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

AutoCloner maintained by Alex Coulton.