Multiple sequence alignment - TraesCS1D01G315200

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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 TraesCS1D01G315200 chr1D 100.000 2351 0 0 326 2676 410491779 410489429 0.000000e+00 4342.0
1 TraesCS1D01G315200 chr1D 86.552 1279 106 31 867 2103 410483031 410481777 0.000000e+00 1349.0
2 TraesCS1D01G315200 chr1D 87.597 1032 91 20 728 1738 410472538 410471523 0.000000e+00 1162.0
3 TraesCS1D01G315200 chr1D 81.469 572 66 23 2119 2676 410481715 410481170 1.470000e-117 433.0
4 TraesCS1D01G315200 chr1D 85.634 355 50 1 329 683 353569580 353569227 3.250000e-99 372.0
5 TraesCS1D01G315200 chr1D 83.062 307 51 1 381 687 451038598 451038293 7.300000e-71 278.0
6 TraesCS1D01G315200 chr1D 89.865 148 15 0 381 528 451038918 451038771 9.780000e-45 191.0
7 TraesCS1D01G315200 chr1D 100.000 47 0 0 1 47 410492104 410492058 1.320000e-13 87.9
8 TraesCS1D01G315200 chr1A 89.994 1589 98 26 352 1900 506489973 506488406 0.000000e+00 1997.0
9 TraesCS1D01G315200 chr1A 94.123 1208 41 15 708 1895 506474480 506473283 0.000000e+00 1810.0
10 TraesCS1D01G315200 chr1A 93.052 1209 61 12 704 1893 506493966 506492762 0.000000e+00 1746.0
11 TraesCS1D01G315200 chr1A 93.121 785 39 4 1047 1819 506481145 506480364 0.000000e+00 1136.0
12 TraesCS1D01G315200 chr1A 84.896 960 97 23 729 1679 506309137 506308217 0.000000e+00 926.0
13 TraesCS1D01G315200 chr1A 88.548 489 48 7 2192 2676 506368057 506367573 1.070000e-163 586.0
14 TraesCS1D01G315200 chr1A 92.448 384 29 0 326 709 506475936 506475553 1.400000e-152 549.0
15 TraesCS1D01G315200 chr1A 82.512 406 43 11 729 1126 506294537 506294152 5.520000e-87 331.0
16 TraesCS1D01G315200 chr1A 91.398 93 8 0 1765 1857 506477616 506477524 7.780000e-26 128.0
17 TraesCS1D01G315200 chr1B 89.206 1436 111 18 704 2113 553136479 553135062 0.000000e+00 1753.0
18 TraesCS1D01G315200 chr1B 87.344 1043 81 34 729 1738 553025525 553024501 0.000000e+00 1147.0
19 TraesCS1D01G315200 chr1B 83.160 576 71 16 2119 2676 553135010 553134443 1.110000e-138 503.0
20 TraesCS1D01G315200 chr1B 76.761 142 24 7 1960 2096 626679719 626679856 1.330000e-08 71.3
21 TraesCS1D01G315200 chr4A 85.223 291 43 0 332 622 173653340 173653050 1.560000e-77 300.0
22 TraesCS1D01G315200 chr4B 86.170 282 31 5 329 610 578047895 578047622 5.600000e-77 298.0
23 TraesCS1D01G315200 chr4B 75.258 291 46 9 326 592 614679181 614679469 6.050000e-22 115.0
24 TraesCS1D01G315200 chr4D 86.809 235 29 2 332 565 305151060 305150827 7.350000e-66 261.0
25 TraesCS1D01G315200 chr4D 81.013 237 31 11 2448 2676 437822278 437822048 2.740000e-40 176.0
26 TraesCS1D01G315200 chr4D 91.111 45 4 0 434 478 433107885 433107929 8.000000e-06 62.1
27 TraesCS1D01G315200 chr5B 83.594 256 30 3 337 592 351487523 351487766 2.070000e-56 230.0
28 TraesCS1D01G315200 chr5B 83.190 232 27 9 2421 2645 352143035 352142809 4.520000e-48 202.0
29 TraesCS1D01G315200 chr6A 81.545 233 32 9 2421 2649 555320868 555321093 5.880000e-42 182.0
30 TraesCS1D01G315200 chrUn 80.567 247 33 13 2440 2676 342705256 342705015 2.740000e-40 176.0
31 TraesCS1D01G315200 chrUn 80.567 247 33 13 2440 2676 366519435 366519194 2.740000e-40 176.0
32 TraesCS1D01G315200 chrUn 80.162 247 34 12 2440 2676 342707107 342706866 1.270000e-38 171.0
33 TraesCS1D01G315200 chrUn 79.602 201 36 2 1913 2111 154594257 154594454 3.590000e-29 139.0
34 TraesCS1D01G315200 chrUn 78.974 195 34 5 1920 2111 94859616 94859806 2.800000e-25 126.0
35 TraesCS1D01G315200 chr6B 80.478 251 31 15 2438 2676 612846230 612846474 2.740000e-40 176.0
36 TraesCS1D01G315200 chr3B 84.746 118 17 1 1997 2113 702649689 702649572 1.680000e-22 117.0
37 TraesCS1D01G315200 chr3B 87.500 80 6 4 2033 2110 783110651 783110728 3.670000e-14 89.8
38 TraesCS1D01G315200 chr7D 79.375 160 28 2 1941 2098 14174143 14173987 1.010000e-19 108.0
39 TraesCS1D01G315200 chr7D 76.471 170 32 7 1944 2110 477388628 477388464 4.750000e-13 86.1
40 TraesCS1D01G315200 chr2B 77.000 200 39 5 1914 2111 698971608 698971414 1.010000e-19 108.0


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 TraesCS1D01G315200 chr1D 410489429 410492104 2675 True 2214.95 4342 100.0000 1 2676 2 chr1D.!!$R4 2675
1 TraesCS1D01G315200 chr1D 410471523 410472538 1015 True 1162.00 1162 87.5970 728 1738 1 chr1D.!!$R2 1010
2 TraesCS1D01G315200 chr1D 410481170 410483031 1861 True 891.00 1349 84.0105 867 2676 2 chr1D.!!$R3 1809
3 TraesCS1D01G315200 chr1D 451038293 451038918 625 True 234.50 278 86.4635 381 687 2 chr1D.!!$R5 306
4 TraesCS1D01G315200 chr1A 506488406 506493966 5560 True 1871.50 1997 91.5230 352 1900 2 chr1A.!!$R5 1548
5 TraesCS1D01G315200 chr1A 506308217 506309137 920 True 926.00 926 84.8960 729 1679 1 chr1A.!!$R2 950
6 TraesCS1D01G315200 chr1A 506473283 506481145 7862 True 905.75 1810 92.7725 326 1895 4 chr1A.!!$R4 1569
7 TraesCS1D01G315200 chr1B 553024501 553025525 1024 True 1147.00 1147 87.3440 729 1738 1 chr1B.!!$R1 1009
8 TraesCS1D01G315200 chr1B 553134443 553136479 2036 True 1128.00 1753 86.1830 704 2676 2 chr1B.!!$R2 1972

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
536 5421 0.161658 GATAATCGTCGTGCATGGCG 59.838 55.0 26.45 26.45 0.0 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2015 8449 0.537371 TGTGCCGACTCAGTCTCTCA 60.537 55.0 2.61 0.0 0.0 3.27 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
24 25 7.093322 CTTCCCCATTCTTAAATGAGACTTG 57.907 40.000 0.00 0.00 44.25 3.16
28 29 4.706476 CCATTCTTAAATGAGACTTGCCCA 59.294 41.667 0.00 0.00 44.25 5.36
29 30 5.361857 CCATTCTTAAATGAGACTTGCCCAT 59.638 40.000 0.00 0.00 44.25 4.00
30 31 6.460676 CCATTCTTAAATGAGACTTGCCCATC 60.461 42.308 0.00 0.00 44.25 3.51
32 33 4.228210 TCTTAAATGAGACTTGCCCATCCT 59.772 41.667 0.00 0.00 0.00 3.24
33 34 5.428457 TCTTAAATGAGACTTGCCCATCCTA 59.572 40.000 0.00 0.00 0.00 2.94
35 36 2.550277 TGAGACTTGCCCATCCTAGA 57.450 50.000 0.00 0.00 0.00 2.43
36 37 2.392662 TGAGACTTGCCCATCCTAGAG 58.607 52.381 0.00 0.00 0.00 2.43
38 39 0.833287 GACTTGCCCATCCTAGAGCA 59.167 55.000 0.00 0.00 0.00 4.26
39 40 1.210478 GACTTGCCCATCCTAGAGCAA 59.790 52.381 0.00 0.00 42.60 3.91
40 41 1.635487 ACTTGCCCATCCTAGAGCAAA 59.365 47.619 0.00 0.00 44.02 3.68
41 42 2.243221 ACTTGCCCATCCTAGAGCAAAT 59.757 45.455 0.00 0.00 44.02 2.32
42 43 3.459598 ACTTGCCCATCCTAGAGCAAATA 59.540 43.478 0.00 0.00 44.02 1.40
43 44 4.105377 ACTTGCCCATCCTAGAGCAAATAT 59.895 41.667 0.00 0.00 44.02 1.28
45 46 3.245016 TGCCCATCCTAGAGCAAATATGG 60.245 47.826 0.00 0.00 34.85 2.74
379 5264 5.036117 TCCAATAATGTCAGGAGCTTACC 57.964 43.478 0.00 0.00 0.00 2.85
396 5281 2.693762 CCGCTTCTACACGACCCGA 61.694 63.158 0.00 0.00 0.00 5.14
470 5355 6.938030 ACGGGTGTGAAAATCTTAACTATGAA 59.062 34.615 0.00 0.00 0.00 2.57
491 5376 5.346281 TGAACAATTTTCGGTGTGTTTTGAC 59.654 36.000 0.00 0.00 34.44 3.18
519 5404 0.620410 TGACCCAAGATGGACGGGAT 60.620 55.000 0.00 0.00 43.21 3.85
520 5405 1.343580 TGACCCAAGATGGACGGGATA 60.344 52.381 0.00 0.00 43.21 2.59
536 5421 0.161658 GATAATCGTCGTGCATGGCG 59.838 55.000 26.45 26.45 0.00 5.69
537 5422 0.529773 ATAATCGTCGTGCATGGCGT 60.530 50.000 30.05 16.23 0.00 5.68
555 5440 3.119637 GGCGTTGCATGTAATAGGTGTTT 60.120 43.478 0.00 0.00 0.00 2.83
556 5441 4.095610 GCGTTGCATGTAATAGGTGTTTC 58.904 43.478 0.00 0.00 0.00 2.78
567 5452 7.396418 TGTAATAGGTGTTTCGAAAATAGGGT 58.604 34.615 13.10 0.00 0.00 4.34
612 5497 0.396435 TGGCCCGCCTAATCACTATG 59.604 55.000 7.35 0.00 36.94 2.23
613 5498 0.955919 GGCCCGCCTAATCACTATGC 60.956 60.000 0.00 0.00 0.00 3.14
647 5532 2.379634 CGCGTCCGCAGACATTTCA 61.380 57.895 12.58 0.00 43.73 2.69
697 5582 7.148171 GCTGTAGATGCTGTAAGAGGAATTTTT 60.148 37.037 0.00 0.00 34.07 1.94
700 5585 7.150783 AGATGCTGTAAGAGGAATTTTTGTC 57.849 36.000 0.00 0.00 34.07 3.18
715 6674 4.566545 TTTTGTCAGTACATGCTGGTTG 57.433 40.909 0.00 0.00 37.12 3.77
755 6714 3.996124 CGAGAGCGGGCTATGGGG 61.996 72.222 0.00 0.00 0.00 4.96
756 6715 4.321966 GAGAGCGGGCTATGGGGC 62.322 72.222 0.00 0.00 40.05 5.80
984 6958 0.457851 TCTCTTCCTGCGCTAGCTTC 59.542 55.000 13.93 5.02 45.42 3.86
1012 6989 2.419990 CCTTGAGTAATGGCGACCATGA 60.420 50.000 11.38 2.41 44.40 3.07
1040 7017 3.479269 CTCCTTCGCCGTCGTTGC 61.479 66.667 0.00 0.00 36.96 4.17
1178 7155 4.587262 TGGCTAGTGTTACTTCAAGACTCA 59.413 41.667 0.00 0.00 39.83 3.41
1226 7209 0.743701 GCAGCCTGACATGGACTCAG 60.744 60.000 0.00 0.91 35.78 3.35
1413 7414 4.404098 GGTGGGATTCGTGGCGGT 62.404 66.667 0.00 0.00 0.00 5.68
1534 7535 4.927782 TCGTTGGTGCCGCTGCTT 62.928 61.111 0.70 0.00 38.71 3.91
1735 7755 4.682778 AGAACTAACTGTTGTAGCCACA 57.317 40.909 2.69 0.00 39.30 4.17
1908 8329 7.148407 CCTCTTGCGGTTATATATTTGATGACC 60.148 40.741 0.00 0.00 31.26 4.02
1911 8332 6.530120 TGCGGTTATATATTTGATGACCACT 58.470 36.000 0.00 0.00 33.58 4.00
1955 8380 6.188400 TCAAATGCAAACGCTCATACATAA 57.812 33.333 0.00 0.00 0.00 1.90
1973 8398 6.102897 ACATAAGCATATACACTCACTCCC 57.897 41.667 0.00 0.00 0.00 4.30
1974 8399 3.735237 AAGCATATACACTCACTCCCG 57.265 47.619 0.00 0.00 0.00 5.14
1975 8400 1.964223 AGCATATACACTCACTCCCGG 59.036 52.381 0.00 0.00 0.00 5.73
1988 8413 3.135712 TCACTCCCGGTATAAATGCACAT 59.864 43.478 0.00 0.00 0.00 3.21
2015 8449 5.686124 GCACCCTATCTCTATGAGCACTTTT 60.686 44.000 0.00 0.00 0.00 2.27
2028 8462 3.987220 GAGCACTTTTGAGAGACTGAGTC 59.013 47.826 3.98 3.98 0.00 3.36
2051 8485 4.386711 GGCACATCATCATGAGATTGAGA 58.613 43.478 0.09 0.00 33.72 3.27
2103 8538 4.879598 GAGAACGTCTTCTCCCACTAAAA 58.120 43.478 6.04 0.00 44.82 1.52
2114 8595 4.074970 CTCCCACTAAAAGCACATCACTT 58.925 43.478 0.00 0.00 0.00 3.16
2117 8598 4.278170 CCCACTAAAAGCACATCACTTTGA 59.722 41.667 0.00 0.00 37.42 2.69
2124 8605 6.787085 AAAGCACATCACTTTGACTAGTAC 57.213 37.500 0.00 0.00 36.04 2.73
2183 8664 8.140628 ACTCATATGTCTACTTTGACTATGCTG 58.859 37.037 1.90 0.00 37.79 4.41
2247 8730 4.142924 CGTGAAAATTAAATTTGGGCCAGC 60.143 41.667 6.23 0.00 31.77 4.85
2251 8734 2.849294 TTAAATTTGGGCCAGCCAAC 57.151 45.000 6.23 0.00 37.98 3.77
2259 8742 0.541998 GGGCCAGCCAACTTTTAGGT 60.542 55.000 11.50 0.00 37.98 3.08
2271 8754 7.286775 AGCCAACTTTTAGGTTGTTGATTTCTA 59.713 33.333 6.65 0.00 43.36 2.10
2286 8840 8.227791 TGTTGATTTCTACTTTAAGATTCGTGC 58.772 33.333 0.00 0.00 0.00 5.34
2317 8872 5.970317 TTTCTACATTAGTCTCCGTGTCA 57.030 39.130 0.00 0.00 0.00 3.58
2319 8874 6.525578 TTCTACATTAGTCTCCGTGTCATT 57.474 37.500 0.00 0.00 0.00 2.57
2322 8877 7.383687 TCTACATTAGTCTCCGTGTCATTTTT 58.616 34.615 0.00 0.00 0.00 1.94
2358 8920 2.632377 ACGCATATTTGGGTCAGTCAG 58.368 47.619 0.00 0.00 45.01 3.51
2369 8931 2.036862 GGGTCAGTCAGTTCTTAACGGT 59.963 50.000 0.00 0.00 36.23 4.83
2370 8932 3.256631 GGGTCAGTCAGTTCTTAACGGTA 59.743 47.826 0.00 0.00 36.23 4.02
2388 8950 2.167900 GGTACGAAGCCTATTCCAGTGT 59.832 50.000 0.00 0.00 0.00 3.55
2412 8974 6.147985 GTGACATAACCTTGTTCTTTCTCCTC 59.852 42.308 0.00 0.00 0.00 3.71
2476 9433 9.797556 TTTCTTTCCTTTAGTAGTTTCTTTTGC 57.202 29.630 0.00 0.00 0.00 3.68
2655 12693 8.506168 TTCTTAAGGAATTACCAATGCACTAG 57.494 34.615 1.85 0.00 42.04 2.57
2659 12756 5.815581 AGGAATTACCAATGCACTAGTTCA 58.184 37.500 0.00 0.00 42.04 3.18
2662 12759 7.067494 AGGAATTACCAATGCACTAGTTCATTC 59.933 37.037 16.52 6.10 42.04 2.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 5.418840 GCAAGTCTCATTTAAGAATGGGGAA 59.581 40.000 0.00 0.00 42.82 3.97
2 3 4.949856 GCAAGTCTCATTTAAGAATGGGGA 59.050 41.667 0.00 0.00 42.82 4.81
5 6 4.706476 TGGGCAAGTCTCATTTAAGAATGG 59.294 41.667 0.00 0.00 42.36 3.16
7 8 5.595952 GGATGGGCAAGTCTCATTTAAGAAT 59.404 40.000 0.00 0.00 0.00 2.40
8 9 4.949856 GGATGGGCAAGTCTCATTTAAGAA 59.050 41.667 0.00 0.00 0.00 2.52
9 10 4.228210 AGGATGGGCAAGTCTCATTTAAGA 59.772 41.667 0.00 0.00 0.00 2.10
10 11 4.530875 AGGATGGGCAAGTCTCATTTAAG 58.469 43.478 0.00 0.00 0.00 1.85
13 14 3.782523 TCTAGGATGGGCAAGTCTCATTT 59.217 43.478 0.00 0.00 0.00 2.32
14 15 3.387962 TCTAGGATGGGCAAGTCTCATT 58.612 45.455 0.00 0.00 0.00 2.57
15 16 2.971330 CTCTAGGATGGGCAAGTCTCAT 59.029 50.000 0.00 0.00 0.00 2.90
18 19 1.127343 GCTCTAGGATGGGCAAGTCT 58.873 55.000 0.00 0.00 0.00 3.24
20 21 1.289160 TTGCTCTAGGATGGGCAAGT 58.711 50.000 0.00 0.00 39.33 3.16
21 22 2.425143 TTTGCTCTAGGATGGGCAAG 57.575 50.000 2.08 0.00 43.84 4.01
22 23 4.401022 CATATTTGCTCTAGGATGGGCAA 58.599 43.478 0.00 0.00 41.90 4.52
23 24 3.245016 CCATATTTGCTCTAGGATGGGCA 60.245 47.826 0.00 0.00 31.95 5.36
24 25 3.350833 CCATATTTGCTCTAGGATGGGC 58.649 50.000 0.00 0.00 31.95 5.36
379 5264 1.513586 GTCGGGTCGTGTAGAAGCG 60.514 63.158 0.00 0.00 0.00 4.68
386 5271 2.417787 GGCTTAAATAGTCGGGTCGTGT 60.418 50.000 0.00 0.00 0.00 4.49
396 5281 3.243334 GCTAGTCGACCGGCTTAAATAGT 60.243 47.826 13.01 0.00 0.00 2.12
470 5355 4.810790 TGTCAAAACACACCGAAAATTGT 58.189 34.783 0.00 0.00 0.00 2.71
519 5404 0.738063 AACGCCATGCACGACGATTA 60.738 50.000 12.59 0.00 0.00 1.75
520 5405 2.032634 AACGCCATGCACGACGATT 61.033 52.632 12.59 0.16 0.00 3.34
536 5421 5.539582 TCGAAACACCTATTACATGCAAC 57.460 39.130 0.00 0.00 0.00 4.17
537 5422 6.561737 TTTCGAAACACCTATTACATGCAA 57.438 33.333 6.47 0.00 0.00 4.08
555 5440 5.432645 TGCAATCACATACCCTATTTTCGA 58.567 37.500 0.00 0.00 0.00 3.71
556 5441 5.749596 TGCAATCACATACCCTATTTTCG 57.250 39.130 0.00 0.00 0.00 3.46
627 5512 1.897398 GAAATGTCTGCGGACGCGTT 61.897 55.000 20.49 13.61 44.83 4.84
641 5526 1.917273 CAAATCTGGCGCCTGAAATG 58.083 50.000 35.38 29.98 0.00 2.32
642 5527 0.174162 GCAAATCTGGCGCCTGAAAT 59.826 50.000 35.38 25.12 0.00 2.17
647 5532 2.639327 GGTTGCAAATCTGGCGCCT 61.639 57.895 29.70 3.84 0.00 5.52
697 5582 2.368548 AGACAACCAGCATGTACTGACA 59.631 45.455 2.22 0.00 40.25 3.58
700 5585 4.081972 AGACTAGACAACCAGCATGTACTG 60.082 45.833 0.00 0.00 37.42 2.74
715 6674 4.789802 GCCAAAAAGTGCACAAGACTAGAC 60.790 45.833 21.04 0.00 0.00 2.59
1012 6989 1.028868 GCGAAGGAGCTCAAAGCCAT 61.029 55.000 17.19 0.00 43.77 4.40
1217 7200 0.908198 GTCTCCTTGGCTGAGTCCAT 59.092 55.000 0.00 0.00 35.77 3.41
1218 7201 1.536073 CGTCTCCTTGGCTGAGTCCA 61.536 60.000 0.00 0.00 0.00 4.02
1219 7202 1.216710 CGTCTCCTTGGCTGAGTCC 59.783 63.158 0.00 0.00 0.00 3.85
1220 7203 0.109039 GTCGTCTCCTTGGCTGAGTC 60.109 60.000 0.00 0.00 0.00 3.36
1221 7204 1.867919 CGTCGTCTCCTTGGCTGAGT 61.868 60.000 0.00 0.00 0.00 3.41
1222 7205 1.153939 CGTCGTCTCCTTGGCTGAG 60.154 63.158 0.00 0.00 0.00 3.35
1226 7209 2.507324 GCTCGTCGTCTCCTTGGC 60.507 66.667 0.00 0.00 0.00 4.52
1252 7235 4.083862 GTGCCCAGGGACGAGGAC 62.084 72.222 10.89 0.00 0.00 3.85
1470 7471 3.909651 GGAACCAGCCCAACCCCA 61.910 66.667 0.00 0.00 0.00 4.96
1471 7472 3.590574 AGGAACCAGCCCAACCCC 61.591 66.667 0.00 0.00 0.00 4.95
1475 7476 2.081787 TCACCAGGAACCAGCCCAA 61.082 57.895 0.00 0.00 0.00 4.12
1716 7736 4.023193 GCAATGTGGCTACAACAGTTAGTT 60.023 41.667 7.10 0.00 40.84 2.24
1922 8343 7.649705 TGAGCGTTTGCATTTGAACTATTTTAA 59.350 29.630 0.00 0.00 46.23 1.52
1923 8344 7.142021 TGAGCGTTTGCATTTGAACTATTTTA 58.858 30.769 0.00 0.00 46.23 1.52
1928 8349 4.764679 ATGAGCGTTTGCATTTGAACTA 57.235 36.364 0.00 0.00 46.23 2.24
1929 8350 3.648339 ATGAGCGTTTGCATTTGAACT 57.352 38.095 0.00 0.00 46.23 3.01
1930 8351 4.225984 TGTATGAGCGTTTGCATTTGAAC 58.774 39.130 0.00 0.00 46.23 3.18
1931 8352 4.495911 TGTATGAGCGTTTGCATTTGAA 57.504 36.364 0.00 0.00 46.23 2.69
1932 8353 4.700268 ATGTATGAGCGTTTGCATTTGA 57.300 36.364 0.00 0.00 46.23 2.69
1935 8356 4.096231 TGCTTATGTATGAGCGTTTGCATT 59.904 37.500 4.49 0.00 46.23 3.56
1937 8358 3.006247 TGCTTATGTATGAGCGTTTGCA 58.994 40.909 4.49 0.00 46.23 4.08
1955 8380 1.964223 CCGGGAGTGAGTGTATATGCT 59.036 52.381 0.00 0.00 0.00 3.79
1988 8413 4.464244 GTGCTCATAGAGATAGGGTGCATA 59.536 45.833 0.00 0.00 0.00 3.14
1998 8423 6.380846 AGTCTCTCAAAAGTGCTCATAGAGAT 59.619 38.462 0.00 0.00 39.89 2.75
2015 8449 0.537371 TGTGCCGACTCAGTCTCTCA 60.537 55.000 2.61 0.00 0.00 3.27
2028 8462 3.135994 TCAATCTCATGATGATGTGCCG 58.864 45.455 0.00 0.00 32.44 5.69
2100 8535 6.073765 CGTACTAGTCAAAGTGATGTGCTTTT 60.074 38.462 0.00 0.00 34.32 2.27
2103 8538 4.022242 ACGTACTAGTCAAAGTGATGTGCT 60.022 41.667 0.00 0.00 0.00 4.40
2114 8595 5.381174 AACATGTAGCACGTACTAGTCAA 57.619 39.130 0.00 0.00 32.19 3.18
2117 8598 7.194278 CAGATAAACATGTAGCACGTACTAGT 58.806 38.462 0.00 0.00 32.19 2.57
2124 8605 5.966636 TTAGCAGATAAACATGTAGCACG 57.033 39.130 0.00 0.00 0.00 5.34
2216 8697 7.409980 CCCAAATTTAATTTTCACGCGACTTAC 60.410 37.037 15.93 0.00 0.00 2.34
2225 8708 4.155826 GGCTGGCCCAAATTTAATTTTCAC 59.844 41.667 0.00 0.00 0.00 3.18
2298 8852 7.413000 CCAAAAATGACACGGAGACTAATGTAG 60.413 40.741 0.00 0.00 0.00 2.74
2299 8853 6.370442 CCAAAAATGACACGGAGACTAATGTA 59.630 38.462 0.00 0.00 0.00 2.29
2300 8854 5.181245 CCAAAAATGACACGGAGACTAATGT 59.819 40.000 0.00 0.00 0.00 2.71
2332 8887 1.063469 GACCCAAATATGCGTTCGGTG 59.937 52.381 0.00 0.00 0.00 4.94
2333 8888 1.339247 TGACCCAAATATGCGTTCGGT 60.339 47.619 0.00 0.00 0.00 4.69
2334 8889 1.330521 CTGACCCAAATATGCGTTCGG 59.669 52.381 0.00 0.00 0.00 4.30
2336 8891 3.006940 TGACTGACCCAAATATGCGTTC 58.993 45.455 0.00 0.00 0.00 3.95
2337 8892 3.009723 CTGACTGACCCAAATATGCGTT 58.990 45.455 0.00 0.00 0.00 4.84
2339 8894 2.632377 ACTGACTGACCCAAATATGCG 58.368 47.619 0.00 0.00 0.00 4.73
2340 8895 4.265073 AGAACTGACTGACCCAAATATGC 58.735 43.478 0.00 0.00 0.00 3.14
2358 8920 2.951726 AGGCTTCGTACCGTTAAGAAC 58.048 47.619 0.00 0.00 0.00 3.01
2369 8931 3.093814 TCACACTGGAATAGGCTTCGTA 58.906 45.455 0.00 0.00 0.00 3.43
2370 8932 1.899814 TCACACTGGAATAGGCTTCGT 59.100 47.619 0.00 0.00 0.00 3.85
2378 8940 6.121776 ACAAGGTTATGTCACACTGGAATA 57.878 37.500 0.00 0.00 0.00 1.75
2388 8950 6.043243 AGAGGAGAAAGAACAAGGTTATGTCA 59.957 38.462 0.00 0.00 31.81 3.58
2452 9397 7.255001 CCGCAAAAGAAACTACTAAAGGAAAGA 60.255 37.037 0.00 0.00 0.00 2.52
2463 9408 6.144886 CCAAAAATACCCGCAAAAGAAACTAC 59.855 38.462 0.00 0.00 0.00 2.73
2476 9433 3.093057 TCCAACATCCCAAAAATACCCG 58.907 45.455 0.00 0.00 0.00 5.28


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

AutoCloner maintained by Alex Coulton.