Multiple sequence alignment - TraesCS2D01G370700

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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 TraesCS2D01G370700 chr2D 100.000 2800 0 0 604 3403 474894175 474891376 0.000000e+00 5171.0
1 TraesCS2D01G370700 chr2D 100.000 457 0 0 1 457 474894778 474894322 0.000000e+00 845.0
2 TraesCS2D01G370700 chr2B 95.804 1549 37 9 1869 3403 555846453 555844919 0.000000e+00 2475.0
3 TraesCS2D01G370700 chr2B 88.889 846 46 24 700 1534 555849696 555848888 0.000000e+00 998.0
4 TraesCS2D01G370700 chr2B 92.286 350 16 6 1531 1874 555848857 555848513 1.420000e-133 486.0
5 TraesCS2D01G370700 chr2A 90.446 1884 140 24 1535 3403 617439405 617437547 0.000000e+00 2446.0
6 TraesCS2D01G370700 chr2A 88.034 936 50 18 604 1532 617440322 617439442 0.000000e+00 1051.0
7 TraesCS2D01G370700 chr6D 81.100 291 44 11 25 311 364105966 364105683 4.420000e-54 222.0
8 TraesCS2D01G370700 chr3A 84.549 233 24 7 4 234 336047940 336047718 1.590000e-53 220.0
9 TraesCS2D01G370700 chr3A 79.323 266 36 16 73 325 511593094 511592835 5.840000e-38 169.0
10 TraesCS2D01G370700 chr3A 76.963 191 27 11 1 190 584037126 584037300 3.620000e-15 93.5
11 TraesCS2D01G370700 chr3A 88.462 52 4 2 2447 2497 501654170 501654220 1.020000e-05 62.1
12 TraesCS2D01G370700 chr7D 82.591 247 31 11 9 249 26659468 26659228 1.240000e-49 207.0
13 TraesCS2D01G370700 chr7D 77.607 326 42 24 3 323 5103725 5103426 5.840000e-38 169.0
14 TraesCS2D01G370700 chr7D 74.793 242 40 17 1 237 622183603 622183378 4.680000e-14 89.8
15 TraesCS2D01G370700 chr3D 81.600 250 38 6 1 249 457907592 457907350 2.070000e-47 200.0
16 TraesCS2D01G370700 chr3D 78.906 256 36 16 44 290 134134963 134134717 1.260000e-34 158.0
17 TraesCS2D01G370700 chr3D 88.235 51 6 0 2447 2497 376923589 376923639 1.020000e-05 62.1
18 TraesCS2D01G370700 chr3B 80.258 233 33 11 93 319 756679783 756679558 2.720000e-36 163.0
19 TraesCS2D01G370700 chr1D 80.180 222 38 5 2447 2665 89134711 89134929 9.770000e-36 161.0
20 TraesCS2D01G370700 chr1D 90.244 41 4 0 2447 2487 182031009 182031049 2.000000e-03 54.7
21 TraesCS2D01G370700 chr4B 76.615 325 53 14 1 318 54774747 54774439 1.260000e-34 158.0
22 TraesCS2D01G370700 chr1A 75.113 221 40 15 2447 2659 438689430 438689643 4.680000e-14 89.8


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 TraesCS2D01G370700 chr2D 474891376 474894778 3402 True 3008.000000 5171 100.000000 1 3403 2 chr2D.!!$R1 3402
1 TraesCS2D01G370700 chr2B 555844919 555849696 4777 True 1319.666667 2475 92.326333 700 3403 3 chr2B.!!$R1 2703
2 TraesCS2D01G370700 chr2A 617437547 617440322 2775 True 1748.500000 2446 89.240000 604 3403 2 chr2A.!!$R1 2799

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
941 958 1.068055 ACCAACGAACGAGCGAGTAAT 60.068 47.619 8.5 0.0 34.83 1.89 F
1458 1476 0.107456 CTGTGTGAAGCTGGTCTGGT 59.893 55.000 0.0 0.0 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2036 4167 2.470999 CAGGCAAAACATAAACACGTGC 59.529 45.455 17.22 0.0 0.00 5.34 R
3303 5447 1.601419 CCACTGAAAGGCCATGGCTG 61.601 60.000 34.70 22.6 38.81 4.85 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
36 37 9.935682 AAATGTTAAATGCGTATAGTGAAGATG 57.064 29.630 0.00 0.00 0.00 2.90
37 38 8.662781 ATGTTAAATGCGTATAGTGAAGATGT 57.337 30.769 0.00 0.00 0.00 3.06
38 39 8.487313 TGTTAAATGCGTATAGTGAAGATGTT 57.513 30.769 0.00 0.00 0.00 2.71
39 40 8.941977 TGTTAAATGCGTATAGTGAAGATGTTT 58.058 29.630 0.00 0.00 0.00 2.83
40 41 9.422196 GTTAAATGCGTATAGTGAAGATGTTTC 57.578 33.333 0.00 0.00 0.00 2.78
41 42 7.849804 AAATGCGTATAGTGAAGATGTTTCT 57.150 32.000 0.00 0.00 0.00 2.52
42 43 7.470289 AATGCGTATAGTGAAGATGTTTCTC 57.530 36.000 0.00 0.00 0.00 2.87
43 44 5.961272 TGCGTATAGTGAAGATGTTTCTCA 58.039 37.500 0.00 0.00 0.00 3.27
44 45 6.573434 TGCGTATAGTGAAGATGTTTCTCAT 58.427 36.000 0.00 0.00 39.77 2.90
45 46 6.476706 TGCGTATAGTGAAGATGTTTCTCATG 59.523 38.462 0.00 0.00 36.83 3.07
46 47 6.477033 GCGTATAGTGAAGATGTTTCTCATGT 59.523 38.462 0.00 0.00 36.83 3.21
47 48 7.648112 GCGTATAGTGAAGATGTTTCTCATGTA 59.352 37.037 0.00 0.00 36.83 2.29
48 49 9.684448 CGTATAGTGAAGATGTTTCTCATGTAT 57.316 33.333 0.00 0.00 36.83 2.29
53 54 9.725019 AGTGAAGATGTTTCTCATGTATACAAA 57.275 29.630 10.14 0.36 36.83 2.83
242 243 8.555361 TCTTGCATTTAAAAATGTTAACCAAGC 58.445 29.630 18.21 5.40 45.77 4.01
243 244 7.792374 TGCATTTAAAAATGTTAACCAAGCA 57.208 28.000 14.98 3.17 45.77 3.91
244 245 8.388484 TGCATTTAAAAATGTTAACCAAGCAT 57.612 26.923 14.98 0.00 45.77 3.79
245 246 8.844244 TGCATTTAAAAATGTTAACCAAGCATT 58.156 25.926 14.98 0.00 45.77 3.56
246 247 9.676195 GCATTTAAAAATGTTAACCAAGCATTT 57.324 25.926 14.98 0.00 45.77 2.32
413 414 9.936759 AAAAATGTAAAGTGAAAACCAGAAGAA 57.063 25.926 0.00 0.00 0.00 2.52
414 415 9.936759 AAAATGTAAAGTGAAAACCAGAAGAAA 57.063 25.926 0.00 0.00 0.00 2.52
415 416 8.926715 AATGTAAAGTGAAAACCAGAAGAAAC 57.073 30.769 0.00 0.00 0.00 2.78
416 417 7.455641 TGTAAAGTGAAAACCAGAAGAAACA 57.544 32.000 0.00 0.00 0.00 2.83
417 418 7.887381 TGTAAAGTGAAAACCAGAAGAAACAA 58.113 30.769 0.00 0.00 0.00 2.83
418 419 8.361139 TGTAAAGTGAAAACCAGAAGAAACAAA 58.639 29.630 0.00 0.00 0.00 2.83
419 420 7.889589 AAAGTGAAAACCAGAAGAAACAAAG 57.110 32.000 0.00 0.00 0.00 2.77
420 421 6.834168 AGTGAAAACCAGAAGAAACAAAGA 57.166 33.333 0.00 0.00 0.00 2.52
421 422 7.227049 AGTGAAAACCAGAAGAAACAAAGAA 57.773 32.000 0.00 0.00 0.00 2.52
422 423 7.666623 AGTGAAAACCAGAAGAAACAAAGAAA 58.333 30.769 0.00 0.00 0.00 2.52
423 424 7.598869 AGTGAAAACCAGAAGAAACAAAGAAAC 59.401 33.333 0.00 0.00 0.00 2.78
424 425 7.383843 GTGAAAACCAGAAGAAACAAAGAAACA 59.616 33.333 0.00 0.00 0.00 2.83
425 426 7.928706 TGAAAACCAGAAGAAACAAAGAAACAA 59.071 29.630 0.00 0.00 0.00 2.83
426 427 8.669946 AAAACCAGAAGAAACAAAGAAACAAA 57.330 26.923 0.00 0.00 0.00 2.83
427 428 8.669946 AAACCAGAAGAAACAAAGAAACAAAA 57.330 26.923 0.00 0.00 0.00 2.44
428 429 8.669946 AACCAGAAGAAACAAAGAAACAAAAA 57.330 26.923 0.00 0.00 0.00 1.94
635 637 8.495260 ACCAATAAACCCCAAATAAGAAACAAA 58.505 29.630 0.00 0.00 0.00 2.83
636 638 8.779303 CCAATAAACCCCAAATAAGAAACAAAC 58.221 33.333 0.00 0.00 0.00 2.93
651 653 7.346208 AGAAACAAACGAAACCAAAGAAAAG 57.654 32.000 0.00 0.00 0.00 2.27
805 818 7.595311 AACCATGAAAGAAACAAACAGAAAC 57.405 32.000 0.00 0.00 0.00 2.78
806 819 6.935167 ACCATGAAAGAAACAAACAGAAACT 58.065 32.000 0.00 0.00 0.00 2.66
820 834 9.849166 ACAAACAGAAACTAAAGAAATTCGAAA 57.151 25.926 0.00 0.00 0.00 3.46
885 899 9.534565 AGAGAAGAAATAAGAAAACAAAAAGGC 57.465 29.630 0.00 0.00 0.00 4.35
941 958 1.068055 ACCAACGAACGAGCGAGTAAT 60.068 47.619 8.50 0.00 34.83 1.89
945 962 4.494690 CCAACGAACGAGCGAGTAATACTA 60.495 45.833 8.50 0.00 34.83 1.82
951 968 5.496133 ACGAGCGAGTAATACTATGTTGT 57.504 39.130 0.00 0.00 0.00 3.32
952 969 5.888105 ACGAGCGAGTAATACTATGTTGTT 58.112 37.500 0.00 0.00 0.00 2.83
953 970 5.742453 ACGAGCGAGTAATACTATGTTGTTG 59.258 40.000 0.00 0.00 0.00 3.33
954 971 5.742453 CGAGCGAGTAATACTATGTTGTTGT 59.258 40.000 0.00 0.00 0.00 3.32
955 972 6.291112 CGAGCGAGTAATACTATGTTGTTGTG 60.291 42.308 0.00 0.00 0.00 3.33
956 973 5.291128 AGCGAGTAATACTATGTTGTTGTGC 59.709 40.000 0.00 0.00 0.00 4.57
957 974 5.501897 GCGAGTAATACTATGTTGTTGTGCC 60.502 44.000 0.00 0.00 0.00 5.01
994 1011 3.251043 GCGCTGCTAGTGTCGCTC 61.251 66.667 0.00 0.00 43.70 5.03
1140 1158 1.598962 CGCTATCCATGGCCACCTG 60.599 63.158 8.16 2.59 0.00 4.00
1232 1250 1.523758 GCACAGAAACCCTCGATTGT 58.476 50.000 0.00 0.00 0.00 2.71
1400 1418 2.679837 GAGCATGCTTCAATCCTTTCGA 59.320 45.455 23.61 0.00 0.00 3.71
1453 1471 3.821033 GGTAAATTCTGTGTGAAGCTGGT 59.179 43.478 0.00 0.00 38.18 4.00
1455 1473 3.498774 AATTCTGTGTGAAGCTGGTCT 57.501 42.857 0.00 0.00 38.18 3.85
1456 1474 2.245159 TTCTGTGTGAAGCTGGTCTG 57.755 50.000 0.00 0.00 0.00 3.51
1457 1475 0.394192 TCTGTGTGAAGCTGGTCTGG 59.606 55.000 0.00 0.00 0.00 3.86
1458 1476 0.107456 CTGTGTGAAGCTGGTCTGGT 59.893 55.000 0.00 0.00 0.00 4.00
1459 1477 1.344438 CTGTGTGAAGCTGGTCTGGTA 59.656 52.381 0.00 0.00 0.00 3.25
1460 1478 1.977854 TGTGTGAAGCTGGTCTGGTAT 59.022 47.619 0.00 0.00 0.00 2.73
1492 1510 1.003718 GTGGAGTTGGTTCCTCGGG 60.004 63.158 0.00 0.00 38.12 5.14
1570 1622 7.256475 CCATCAGTTATGCTTAGGTAATCTCCT 60.256 40.741 0.00 0.00 36.65 3.69
1571 1623 7.055667 TCAGTTATGCTTAGGTAATCTCCTG 57.944 40.000 0.00 0.00 38.41 3.86
1593 1645 8.318412 TCCTGTGTAGTTGCAGATTTATAGAAA 58.682 33.333 0.00 0.00 34.87 2.52
1646 1699 4.366586 GTGCGTATAGAAAAGGGGTAGTC 58.633 47.826 0.00 0.00 0.00 2.59
1667 1720 9.448294 GTAGTCTATCGTAATTGGTTACTTCTG 57.552 37.037 0.00 0.00 38.41 3.02
1728 1782 2.751806 GAGGGAGCTCAAAAGAATGGTG 59.248 50.000 17.19 0.00 0.00 4.17
1888 4016 6.752168 AGTTCTTGCTTGCTGTCATAAAATT 58.248 32.000 0.00 0.00 0.00 1.82
1911 4039 1.134610 CCAGCTCCATCAAATTTGGGC 60.135 52.381 17.90 13.43 34.85 5.36
1953 4082 8.760103 AAAAGCAAACAAAATGCAGAAAATTT 57.240 23.077 0.00 0.00 46.22 1.82
1954 4083 8.760103 AAAGCAAACAAAATGCAGAAAATTTT 57.240 23.077 2.28 2.28 46.22 1.82
1970 4100 8.887717 CAGAAAATTTTGGATGACTAGTAGAGG 58.112 37.037 8.47 0.00 0.00 3.69
2036 4167 7.688372 ACAATATGTCGTTCTTGAAGCAATAG 58.312 34.615 0.00 0.00 0.00 1.73
2306 4437 7.017319 ACAGCCTTACTTGTAACTTATCCTT 57.983 36.000 0.00 0.00 0.00 3.36
2374 4505 8.981724 TTGTGTTTATAGTACAGCTCTAAGTG 57.018 34.615 0.00 0.00 0.00 3.16
2655 4787 0.686441 GGGCCCCAATAAACCCAGAC 60.686 60.000 12.23 0.00 42.33 3.51
2822 4954 5.028549 TGCTGAGACTTCATTATCCCTTC 57.971 43.478 0.00 0.00 31.68 3.46
3215 5354 6.636447 TCATGCTATTTTTCAAACTGTTGTCG 59.364 34.615 0.00 0.00 36.07 4.35
3227 5366 1.260561 CTGTTGTCGTTTTCAGACCCG 59.739 52.381 0.00 0.00 37.80 5.28
3267 5406 4.536364 TTCAGCAAAAAGAGAGAACACG 57.464 40.909 0.00 0.00 0.00 4.49
3303 5447 8.893219 TGATGGATAACTAGATGATCAAACAC 57.107 34.615 0.00 0.00 0.00 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 9.935682 CATCTTCACTATACGCATTTAACATTT 57.064 29.630 0.00 0.00 0.00 2.32
11 12 9.109393 ACATCTTCACTATACGCATTTAACATT 57.891 29.630 0.00 0.00 0.00 2.71
12 13 8.662781 ACATCTTCACTATACGCATTTAACAT 57.337 30.769 0.00 0.00 0.00 2.71
13 14 8.487313 AACATCTTCACTATACGCATTTAACA 57.513 30.769 0.00 0.00 0.00 2.41
14 15 9.422196 GAAACATCTTCACTATACGCATTTAAC 57.578 33.333 0.00 0.00 0.00 2.01
15 16 9.378551 AGAAACATCTTCACTATACGCATTTAA 57.621 29.630 0.00 0.00 0.00 1.52
16 17 8.942338 AGAAACATCTTCACTATACGCATTTA 57.058 30.769 0.00 0.00 0.00 1.40
17 18 7.549134 TGAGAAACATCTTCACTATACGCATTT 59.451 33.333 0.00 0.00 0.00 2.32
18 19 7.041721 TGAGAAACATCTTCACTATACGCATT 58.958 34.615 0.00 0.00 0.00 3.56
19 20 6.573434 TGAGAAACATCTTCACTATACGCAT 58.427 36.000 0.00 0.00 0.00 4.73
20 21 5.961272 TGAGAAACATCTTCACTATACGCA 58.039 37.500 0.00 0.00 0.00 5.24
21 22 6.477033 ACATGAGAAACATCTTCACTATACGC 59.523 38.462 0.00 0.00 37.07 4.42
22 23 7.993821 ACATGAGAAACATCTTCACTATACG 57.006 36.000 0.00 0.00 37.07 3.06
27 28 9.725019 TTTGTATACATGAGAAACATCTTCACT 57.275 29.630 6.36 0.00 37.07 3.41
387 388 9.936759 TTCTTCTGGTTTTCACTTTACATTTTT 57.063 25.926 0.00 0.00 0.00 1.94
388 389 9.936759 TTTCTTCTGGTTTTCACTTTACATTTT 57.063 25.926 0.00 0.00 0.00 1.82
389 390 9.366216 GTTTCTTCTGGTTTTCACTTTACATTT 57.634 29.630 0.00 0.00 0.00 2.32
390 391 8.527810 TGTTTCTTCTGGTTTTCACTTTACATT 58.472 29.630 0.00 0.00 0.00 2.71
391 392 8.062065 TGTTTCTTCTGGTTTTCACTTTACAT 57.938 30.769 0.00 0.00 0.00 2.29
392 393 7.455641 TGTTTCTTCTGGTTTTCACTTTACA 57.544 32.000 0.00 0.00 0.00 2.41
393 394 8.751302 TTTGTTTCTTCTGGTTTTCACTTTAC 57.249 30.769 0.00 0.00 0.00 2.01
394 395 8.798402 TCTTTGTTTCTTCTGGTTTTCACTTTA 58.202 29.630 0.00 0.00 0.00 1.85
395 396 7.666623 TCTTTGTTTCTTCTGGTTTTCACTTT 58.333 30.769 0.00 0.00 0.00 2.66
396 397 7.227049 TCTTTGTTTCTTCTGGTTTTCACTT 57.773 32.000 0.00 0.00 0.00 3.16
397 398 6.834168 TCTTTGTTTCTTCTGGTTTTCACT 57.166 33.333 0.00 0.00 0.00 3.41
398 399 7.383843 TGTTTCTTTGTTTCTTCTGGTTTTCAC 59.616 33.333 0.00 0.00 0.00 3.18
399 400 7.437748 TGTTTCTTTGTTTCTTCTGGTTTTCA 58.562 30.769 0.00 0.00 0.00 2.69
400 401 7.883229 TGTTTCTTTGTTTCTTCTGGTTTTC 57.117 32.000 0.00 0.00 0.00 2.29
401 402 8.669946 TTTGTTTCTTTGTTTCTTCTGGTTTT 57.330 26.923 0.00 0.00 0.00 2.43
402 403 8.669946 TTTTGTTTCTTTGTTTCTTCTGGTTT 57.330 26.923 0.00 0.00 0.00 3.27
403 404 8.669946 TTTTTGTTTCTTTGTTTCTTCTGGTT 57.330 26.923 0.00 0.00 0.00 3.67
609 610 7.619512 TGTTTCTTATTTGGGGTTTATTGGT 57.380 32.000 0.00 0.00 0.00 3.67
615 616 6.223351 TCGTTTGTTTCTTATTTGGGGTTT 57.777 33.333 0.00 0.00 0.00 3.27
618 619 5.464057 GGTTTCGTTTGTTTCTTATTTGGGG 59.536 40.000 0.00 0.00 0.00 4.96
619 620 6.043411 TGGTTTCGTTTGTTTCTTATTTGGG 58.957 36.000 0.00 0.00 0.00 4.12
622 623 8.989653 TCTTTGGTTTCGTTTGTTTCTTATTT 57.010 26.923 0.00 0.00 0.00 1.40
635 637 8.989653 TTGTTTTATCTTTTCTTTGGTTTCGT 57.010 26.923 0.00 0.00 0.00 3.85
665 667 2.202295 TTTGCACTTGTTTCTTCGGC 57.798 45.000 0.00 0.00 0.00 5.54
884 898 2.661195 CGTGTTCATTCGGGATTTTTGC 59.339 45.455 0.00 0.00 0.00 3.68
885 899 3.896122 ACGTGTTCATTCGGGATTTTTG 58.104 40.909 0.00 0.00 0.00 2.44
892 906 0.948623 TGCTGACGTGTTCATTCGGG 60.949 55.000 0.00 0.00 32.17 5.14
941 958 1.444836 GCCGGCACAACAACATAGTA 58.555 50.000 24.80 0.00 0.00 1.82
945 962 3.669344 CGGCCGGCACAACAACAT 61.669 61.111 30.85 0.00 0.00 2.71
1186 1204 3.556549 GAAATTACGGCGGCGCGA 61.557 61.111 32.57 20.45 0.00 5.87
1232 1250 1.002868 GGCTCAGCTCTGCCTTGAA 60.003 57.895 16.81 0.00 45.26 2.69
1273 1291 4.081322 ACCTCTGCGGAAACTAGAAAAA 57.919 40.909 0.00 0.00 36.31 1.94
1274 1292 3.764237 ACCTCTGCGGAAACTAGAAAA 57.236 42.857 0.00 0.00 36.31 2.29
1275 1293 3.764237 AACCTCTGCGGAAACTAGAAA 57.236 42.857 0.00 0.00 36.31 2.52
1276 1294 3.556423 GGAAACCTCTGCGGAAACTAGAA 60.556 47.826 0.00 0.00 36.31 2.10
1277 1295 2.028385 GGAAACCTCTGCGGAAACTAGA 60.028 50.000 0.00 0.00 36.31 2.43
1453 1471 4.410883 CACTACCCCAATACCAATACCAGA 59.589 45.833 0.00 0.00 0.00 3.86
1455 1473 3.460340 CCACTACCCCAATACCAATACCA 59.540 47.826 0.00 0.00 0.00 3.25
1456 1474 3.717913 TCCACTACCCCAATACCAATACC 59.282 47.826 0.00 0.00 0.00 2.73
1457 1475 4.411212 ACTCCACTACCCCAATACCAATAC 59.589 45.833 0.00 0.00 0.00 1.89
1458 1476 4.637600 ACTCCACTACCCCAATACCAATA 58.362 43.478 0.00 0.00 0.00 1.90
1459 1477 3.470868 ACTCCACTACCCCAATACCAAT 58.529 45.455 0.00 0.00 0.00 3.16
1460 1478 2.923908 ACTCCACTACCCCAATACCAA 58.076 47.619 0.00 0.00 0.00 3.67
1492 1510 5.050634 TGCTCAACTGTACATAAACGTCAAC 60.051 40.000 0.00 0.00 0.00 3.18
1593 1645 6.844097 AAGGACTCTTCGAAGACTAGAAAT 57.156 37.500 23.74 4.76 34.32 2.17
1667 1720 9.233232 CGAAGTAGCCAATTATTTTTGGATAAC 57.767 33.333 7.38 2.16 46.14 1.89
1728 1782 3.623510 GCAGTTAAGAGTGAACCCTATGC 59.376 47.826 0.00 0.00 0.00 3.14
1822 1885 9.507329 ACATTTACTACACAAAGAGAATCACAT 57.493 29.630 0.00 0.00 37.82 3.21
1855 1918 6.385033 ACAGCAAGCAAGAACTTTATCAATC 58.615 36.000 0.00 0.00 0.00 2.67
1856 1919 6.016024 TGACAGCAAGCAAGAACTTTATCAAT 60.016 34.615 0.00 0.00 0.00 2.57
1857 1920 5.299028 TGACAGCAAGCAAGAACTTTATCAA 59.701 36.000 0.00 0.00 0.00 2.57
1858 1921 4.821260 TGACAGCAAGCAAGAACTTTATCA 59.179 37.500 0.00 0.00 0.00 2.15
1888 4016 2.833338 CCAAATTTGATGGAGCTGGGAA 59.167 45.455 19.86 0.00 40.56 3.97
1911 4039 5.235516 TGCTTTTCCTCCTAAACTTCTACG 58.764 41.667 0.00 0.00 0.00 3.51
1953 4082 5.045869 CCCAAAACCTCTACTAGTCATCCAA 60.046 44.000 0.00 0.00 0.00 3.53
1954 4083 4.469945 CCCAAAACCTCTACTAGTCATCCA 59.530 45.833 0.00 0.00 0.00 3.41
1970 4100 3.826157 TCAATGTGATGACTCCCCAAAAC 59.174 43.478 0.00 0.00 0.00 2.43
2036 4167 2.470999 CAGGCAAAACATAAACACGTGC 59.529 45.455 17.22 0.00 0.00 5.34
2655 4787 5.581085 CCACAGTAATTTCTTACTTCCTCCG 59.419 44.000 0.00 0.00 44.07 4.63
2822 4954 4.941873 ACTCAAAAGGGATACGGCTTAAAG 59.058 41.667 0.00 0.00 37.60 1.85
3215 5354 3.363341 TCATTTTGCGGGTCTGAAAAC 57.637 42.857 0.00 0.00 0.00 2.43
3262 5401 2.807967 CCATCAATCACTGTGACGTGTT 59.192 45.455 13.50 6.82 36.33 3.32
3266 5405 5.111989 AGTTATCCATCAATCACTGTGACG 58.888 41.667 13.50 7.65 0.00 4.35
3267 5406 7.492524 TCTAGTTATCCATCAATCACTGTGAC 58.507 38.462 13.50 0.00 0.00 3.67
3303 5447 1.601419 CCACTGAAAGGCCATGGCTG 61.601 60.000 34.70 22.60 38.81 4.85


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

AutoCloner maintained by Alex Coulton.