Multiple sequence alignment - TraesCS6A01G342100

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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 TraesCS6A01G342100 chr6A 100.000 2300 0 0 1 2300 574817833 574820132 0.000000e+00 4248.0
1 TraesCS6A01G342100 chr6D 91.698 1325 73 18 979 2300 429658560 429659850 0.000000e+00 1803.0
2 TraesCS6A01G342100 chr6D 82.470 907 92 40 1 885 429657697 429658558 0.000000e+00 732.0
3 TraesCS6A01G342100 chr6B 88.073 872 60 14 1439 2300 647596127 647596964 0.000000e+00 994.0
4 TraesCS6A01G342100 chr6B 88.776 686 63 11 1625 2300 647503352 647504033 0.000000e+00 828.0
5 TraesCS6A01G342100 chr6B 90.000 550 30 15 3 543 647501671 647502204 0.000000e+00 688.0
6 TraesCS6A01G342100 chr6B 86.287 474 46 9 974 1441 647595408 647595868 4.410000e-137 497.0
7 TraesCS6A01G342100 chr6B 89.303 402 34 2 973 1371 647502467 647502862 1.590000e-136 496.0
8 TraesCS6A01G342100 chr6B 89.216 102 9 2 877 977 408698178 408698078 2.400000e-25 126.0
9 TraesCS6A01G342100 chr7B 78.358 402 45 21 986 1345 526854752 526854351 2.970000e-54 222.0
10 TraesCS6A01G342100 chr7A 77.372 411 42 19 986 1345 564269866 564269456 1.800000e-46 196.0
11 TraesCS6A01G342100 chr7A 100.000 41 0 0 1667 1707 376620664 376620704 2.450000e-10 76.8
12 TraesCS6A01G342100 chr7D 82.114 246 17 13 986 1204 498490840 498490595 3.900000e-43 185.0
13 TraesCS6A01G342100 chr3D 90.196 102 8 2 877 977 527004748 527004848 5.160000e-27 132.0
14 TraesCS6A01G342100 chr3D 88.350 103 10 2 873 974 36168902 36169003 3.100000e-24 122.0
15 TraesCS6A01G342100 chr3D 87.736 106 10 3 870 974 527004851 527004748 1.120000e-23 121.0
16 TraesCS6A01G342100 chr3D 97.619 42 1 0 1667 1708 610386697 610386656 3.170000e-09 73.1
17 TraesCS6A01G342100 chr2D 90.000 100 9 1 877 976 380722145 380722047 6.670000e-26 128.0
18 TraesCS6A01G342100 chr2B 89.899 99 9 1 876 974 361570485 361570388 2.400000e-25 126.0
19 TraesCS6A01G342100 chr2B 100.000 42 0 0 1667 1708 549514915 549514956 6.810000e-11 78.7
20 TraesCS6A01G342100 chr2B 81.818 88 5 8 224 303 441869744 441869828 1.910000e-06 63.9
21 TraesCS6A01G342100 chr5B 89.109 101 10 1 876 976 633495021 633494922 8.630000e-25 124.0
22 TraesCS6A01G342100 chr3B 89.109 101 10 1 874 974 637538343 637538442 8.630000e-25 124.0
23 TraesCS6A01G342100 chr3B 88.889 72 5 3 339 410 246164928 246164860 4.070000e-13 86.1
24 TraesCS6A01G342100 chr2A 85.586 111 14 2 864 974 603084630 603084738 5.190000e-22 115.0
25 TraesCS6A01G342100 chr2A 97.619 42 1 0 1667 1708 439375551 439375510 3.170000e-09 73.1
26 TraesCS6A01G342100 chr4B 97.619 42 1 0 1667 1708 466689065 466689106 3.170000e-09 73.1
27 TraesCS6A01G342100 chr1D 97.619 42 1 0 1667 1708 9037644 9037603 3.170000e-09 73.1
28 TraesCS6A01G342100 chr3A 92.500 40 3 0 272 311 472786118 472786157 8.880000e-05 58.4


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 TraesCS6A01G342100 chr6A 574817833 574820132 2299 False 4248.000000 4248 100.000000 1 2300 1 chr6A.!!$F1 2299
1 TraesCS6A01G342100 chr6D 429657697 429659850 2153 False 1267.500000 1803 87.084000 1 2300 2 chr6D.!!$F1 2299
2 TraesCS6A01G342100 chr6B 647595408 647596964 1556 False 745.500000 994 87.180000 974 2300 2 chr6B.!!$F2 1326
3 TraesCS6A01G342100 chr6B 647501671 647504033 2362 False 670.666667 828 89.359667 3 2300 3 chr6B.!!$F1 2297

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
577 621 0.042731 TTGAGAGTAGGGAGGTGGGG 59.957 60.0 0.0 0.0 0.0 4.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1630 2251 1.003959 TAACACTGGCGCTGCATCA 60.004 52.632 7.64 0.0 0.0 3.07 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 0.476771 GTGAAAGGGTGAAGGGGTCA 59.523 55.000 0.00 0.00 0.00 4.02
128 130 1.392510 GCAACGATAACGAGGTGGAAC 59.607 52.381 0.00 0.00 42.66 3.62
159 161 4.973663 GTGGTTGAACGGTAAAAATGTCAG 59.026 41.667 0.00 0.00 0.00 3.51
177 179 7.759489 ATGTCAGTAATGTTGTTTGGTGTAT 57.241 32.000 0.00 0.00 0.00 2.29
275 280 0.373370 GCATTACATGTCGCGAGCAA 59.627 50.000 10.24 0.00 0.00 3.91
337 350 6.431234 ACTTAACTTGTGAAGATGCTAAAGGG 59.569 38.462 4.97 0.00 0.00 3.95
341 354 6.721318 ACTTGTGAAGATGCTAAAGGGAATA 58.279 36.000 0.00 0.00 0.00 1.75
342 355 7.349598 ACTTGTGAAGATGCTAAAGGGAATAT 58.650 34.615 0.00 0.00 0.00 1.28
343 356 7.836183 ACTTGTGAAGATGCTAAAGGGAATATT 59.164 33.333 0.00 0.00 0.00 1.28
344 357 7.572523 TGTGAAGATGCTAAAGGGAATATTG 57.427 36.000 0.00 0.00 0.00 1.90
345 358 7.118723 TGTGAAGATGCTAAAGGGAATATTGT 58.881 34.615 0.00 0.00 0.00 2.71
346 359 7.283127 TGTGAAGATGCTAAAGGGAATATTGTC 59.717 37.037 0.00 0.00 0.00 3.18
389 423 6.867816 GCCATGTGTTAAAAATCTGACATCAA 59.132 34.615 0.00 0.00 0.00 2.57
404 438 4.223659 GACATCAAATTTGTAACGCGGTT 58.776 39.130 17.47 5.03 0.00 4.44
418 452 5.840940 AACGCGGTTCTAAAGATATATGC 57.159 39.130 12.47 0.00 0.00 3.14
440 474 4.917415 GCTTGACATGATTGTTGTTACACC 59.083 41.667 0.00 0.00 35.79 4.16
452 486 8.825667 ATTGTTGTTACACCAATTGAATAACC 57.174 30.769 7.12 2.44 32.98 2.85
507 547 6.660521 TGAGACAAAAATAGATGCTGGATTGT 59.339 34.615 0.00 0.00 32.89 2.71
551 595 8.669946 AGCTAATTACTAAGGAGATTCAAAGC 57.330 34.615 0.00 0.00 0.00 3.51
555 599 6.743575 TTACTAAGGAGATTCAAAGCTTGC 57.256 37.500 0.00 0.00 0.00 4.01
557 601 5.259632 ACTAAGGAGATTCAAAGCTTGCAT 58.740 37.500 0.00 0.00 0.00 3.96
558 602 5.713861 ACTAAGGAGATTCAAAGCTTGCATT 59.286 36.000 0.00 0.00 0.00 3.56
559 603 5.479124 AAGGAGATTCAAAGCTTGCATTT 57.521 34.783 0.00 0.00 0.00 2.32
560 604 4.817517 AGGAGATTCAAAGCTTGCATTTG 58.182 39.130 0.00 5.12 38.68 2.32
563 607 5.336213 GGAGATTCAAAGCTTGCATTTGAGA 60.336 40.000 12.38 6.41 44.86 3.27
564 608 5.710984 AGATTCAAAGCTTGCATTTGAGAG 58.289 37.500 12.38 0.00 44.86 3.20
565 609 4.924305 TTCAAAGCTTGCATTTGAGAGT 57.076 36.364 12.38 0.00 44.86 3.24
566 610 6.432162 AGATTCAAAGCTTGCATTTGAGAGTA 59.568 34.615 12.38 1.29 44.86 2.59
567 611 5.618056 TCAAAGCTTGCATTTGAGAGTAG 57.382 39.130 9.38 0.00 40.72 2.57
569 613 2.996631 AGCTTGCATTTGAGAGTAGGG 58.003 47.619 0.00 0.00 0.00 3.53
570 614 2.573462 AGCTTGCATTTGAGAGTAGGGA 59.427 45.455 0.00 0.00 0.00 4.20
571 615 2.941720 GCTTGCATTTGAGAGTAGGGAG 59.058 50.000 0.00 0.00 0.00 4.30
572 616 3.539604 CTTGCATTTGAGAGTAGGGAGG 58.460 50.000 0.00 0.00 0.00 4.30
573 617 2.551270 TGCATTTGAGAGTAGGGAGGT 58.449 47.619 0.00 0.00 0.00 3.85
574 618 2.237143 TGCATTTGAGAGTAGGGAGGTG 59.763 50.000 0.00 0.00 0.00 4.00
575 619 2.420687 GCATTTGAGAGTAGGGAGGTGG 60.421 54.545 0.00 0.00 0.00 4.61
576 620 1.952621 TTTGAGAGTAGGGAGGTGGG 58.047 55.000 0.00 0.00 0.00 4.61
577 621 0.042731 TTGAGAGTAGGGAGGTGGGG 59.957 60.000 0.00 0.00 0.00 4.96
578 622 1.153695 TGAGAGTAGGGAGGTGGGGT 61.154 60.000 0.00 0.00 0.00 4.95
579 623 0.688087 GAGAGTAGGGAGGTGGGGTG 60.688 65.000 0.00 0.00 0.00 4.61
582 626 4.033251 TAGGGAGGTGGGGTGGGG 62.033 72.222 0.00 0.00 0.00 4.96
592 636 3.105928 GGGTGGGGGAGCCATGAT 61.106 66.667 0.00 0.00 42.41 2.45
595 639 1.456331 GTGGGGGAGCCATGATTGG 60.456 63.158 0.00 0.00 46.66 3.16
773 821 3.361158 CCACCACGCAATCCGCAA 61.361 61.111 0.00 0.00 42.60 4.85
781 829 1.371635 GCAATCCGCAAAACACGCT 60.372 52.632 0.00 0.00 41.79 5.07
811 859 5.230726 GCAAGCAAATCCACATCGATTTAAG 59.769 40.000 0.00 0.00 39.82 1.85
821 869 6.049149 CCACATCGATTTAAGCTTCCTCTTA 58.951 40.000 0.00 0.00 0.00 2.10
836 884 2.054363 CTCTTAATCGATCGCACGCAT 58.946 47.619 11.09 0.00 0.00 4.73
859 908 1.469308 CTACAGTTCTCGCGTCTCCTT 59.531 52.381 5.77 0.00 0.00 3.36
860 909 1.531423 ACAGTTCTCGCGTCTCCTTA 58.469 50.000 5.77 0.00 0.00 2.69
893 942 9.715121 AGTACAATATACTTTCTCCGTTTCAAA 57.285 29.630 0.00 0.00 0.00 2.69
901 950 7.979444 ACTTTCTCCGTTTCAAAATAGATGA 57.021 32.000 0.00 0.00 0.00 2.92
902 951 7.807680 ACTTTCTCCGTTTCAAAATAGATGAC 58.192 34.615 0.00 0.00 0.00 3.06
903 952 7.661847 ACTTTCTCCGTTTCAAAATAGATGACT 59.338 33.333 0.00 0.00 0.00 3.41
904 953 7.596749 TTCTCCGTTTCAAAATAGATGACTC 57.403 36.000 0.00 0.00 0.00 3.36
905 954 6.697395 TCTCCGTTTCAAAATAGATGACTCA 58.303 36.000 0.00 0.00 0.00 3.41
906 955 7.158697 TCTCCGTTTCAAAATAGATGACTCAA 58.841 34.615 0.00 0.00 0.00 3.02
907 956 7.117812 TCTCCGTTTCAAAATAGATGACTCAAC 59.882 37.037 0.00 0.00 0.00 3.18
908 957 6.934645 TCCGTTTCAAAATAGATGACTCAACT 59.065 34.615 0.00 0.00 0.00 3.16
909 958 7.444183 TCCGTTTCAAAATAGATGACTCAACTT 59.556 33.333 0.00 0.00 0.00 2.66
910 959 8.076178 CCGTTTCAAAATAGATGACTCAACTTT 58.924 33.333 0.00 0.00 0.00 2.66
953 1002 9.726438 AAAGCTAGTATAAAGTTGAGTCATGTT 57.274 29.630 0.00 0.00 0.00 2.71
954 1003 9.726438 AAGCTAGTATAAAGTTGAGTCATGTTT 57.274 29.630 0.00 0.00 0.00 2.83
955 1004 9.726438 AGCTAGTATAAAGTTGAGTCATGTTTT 57.274 29.630 0.00 0.00 0.00 2.43
1161 1210 3.353836 GTGGGTGCGTTGCGTGAT 61.354 61.111 0.00 0.00 0.00 3.06
1284 1333 1.654954 CCGACGGAGATGACCTCGTT 61.655 60.000 8.64 0.00 42.89 3.85
1285 1334 1.012086 CGACGGAGATGACCTCGTTA 58.988 55.000 0.00 0.00 42.89 3.18
1341 1393 2.936829 GATCGATCACGTGCGCCTGA 62.937 60.000 20.52 3.08 40.69 3.86
1428 1516 1.083847 GACCGCGAACGTGTGTTTC 60.084 57.895 8.23 0.00 38.78 2.78
1475 1828 6.547510 GGCATTTGGTAAAGTCTGATCCTTAT 59.452 38.462 0.00 0.00 0.00 1.73
1476 1829 7.719633 GGCATTTGGTAAAGTCTGATCCTTATA 59.280 37.037 0.00 0.00 0.00 0.98
1525 1887 6.419791 TCCTAGTCTCAAGTTTTTGGTTTGA 58.580 36.000 0.00 0.00 34.97 2.69
1526 1888 7.060421 TCCTAGTCTCAAGTTTTTGGTTTGAT 58.940 34.615 0.00 0.00 34.97 2.57
1568 2189 7.719193 TGGTTGAATGAGAAGTCAAAGATACAA 59.281 33.333 0.00 0.00 35.60 2.41
1571 2192 9.950680 TTGAATGAGAAGTCAAAGATACAAAAC 57.049 29.630 0.00 0.00 35.88 2.43
1644 2265 0.107508 AAGTATGATGCAGCGCCAGT 60.108 50.000 2.29 0.00 0.00 4.00
1650 2277 1.003355 ATGCAGCGCCAGTGTTAGT 60.003 52.632 2.29 0.00 0.00 2.24
1729 2361 4.379499 GGTTTCTCGCCAGTTTGGATTAAG 60.379 45.833 0.00 0.00 40.96 1.85
1782 2414 0.184692 TTGGTGTGGCTGAATGGTCA 59.815 50.000 0.00 0.00 0.00 4.02
1791 2423 2.494870 GGCTGAATGGTCATCTTTTGCT 59.505 45.455 0.00 0.00 31.85 3.91
1805 2437 6.772716 TCATCTTTTGCTGACTTTTACTCCTT 59.227 34.615 0.00 0.00 0.00 3.36
1809 2442 1.732809 GCTGACTTTTACTCCTTCCGC 59.267 52.381 0.00 0.00 0.00 5.54
1918 2551 1.970640 GAGGTGGCACCCAAGATTTTT 59.029 47.619 32.30 11.18 39.75 1.94
1936 2569 2.026014 GTTTGTGCACACGGGCAG 59.974 61.111 21.56 0.00 45.96 4.85
2046 2679 1.069358 GCCCTCTATGAAGAAGGGACG 59.931 57.143 10.85 0.00 40.19 4.79
2117 2753 4.898861 TGTAATTTGGAAACCCAAGCTTCT 59.101 37.500 0.00 0.00 43.90 2.85
2148 2784 5.403466 GTCATTTTCTGCTGATGGTTTTGAC 59.597 40.000 0.00 0.15 0.00 3.18
2192 2828 4.584743 GGTTCCACAAGAAAGAATGAAGGT 59.415 41.667 0.00 0.00 35.85 3.50
2213 2849 2.159184 TGGCTAAGATTCACTCTCTGCG 60.159 50.000 0.00 0.00 34.71 5.18
2226 2863 8.771920 TTCACTCTCTGCGAAAGATAAATTTA 57.228 30.769 0.00 0.00 33.29 1.40
2276 2913 8.691797 AGAAATTTGCTTCTAGTGGTACAAAAA 58.308 29.630 0.00 0.00 34.96 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
128 130 1.202651 ACCGTTCAACCACTCCTCTTG 60.203 52.381 0.00 0.00 0.00 3.02
159 161 8.500753 TCCTCATATACACCAAACAACATTAC 57.499 34.615 0.00 0.00 0.00 1.89
196 198 7.760794 TCCGACGTTAGATTTTTAGCATTTCTA 59.239 33.333 0.00 0.00 0.00 2.10
220 222 9.435688 AGTTTGATTTGCCATACTTAAAAATCC 57.564 29.630 0.00 0.00 36.74 3.01
263 268 1.398390 GAAGGAAATTGCTCGCGACAT 59.602 47.619 3.71 0.00 0.00 3.06
275 280 1.206371 GCCATGCTTGCTGAAGGAAAT 59.794 47.619 0.00 0.00 32.62 2.17
341 354 9.941325 TGGCTAATCAAATGTTTTTATGACAAT 57.059 25.926 0.00 0.00 0.00 2.71
342 355 9.941325 ATGGCTAATCAAATGTTTTTATGACAA 57.059 25.926 0.00 0.00 0.00 3.18
343 356 9.368674 CATGGCTAATCAAATGTTTTTATGACA 57.631 29.630 0.00 0.00 0.00 3.58
344 357 9.369904 ACATGGCTAATCAAATGTTTTTATGAC 57.630 29.630 0.00 0.00 28.99 3.06
345 358 9.368674 CACATGGCTAATCAAATGTTTTTATGA 57.631 29.630 0.00 0.00 30.98 2.15
346 359 9.153721 ACACATGGCTAATCAAATGTTTTTATG 57.846 29.630 0.00 0.00 30.98 1.90
389 423 5.927954 TCTTTAGAACCGCGTTACAAATT 57.072 34.783 4.92 0.00 0.00 1.82
397 431 5.135508 AGCATATATCTTTAGAACCGCGT 57.864 39.130 4.92 0.00 0.00 6.01
418 452 6.070897 TGGTGTAACAACAATCATGTCAAG 57.929 37.500 0.00 0.00 39.40 3.02
440 474 6.580788 TGCAATGGGTATGGTTATTCAATTG 58.419 36.000 0.00 0.00 0.00 2.32
452 486 0.523125 CGTGCGTTGCAATGGGTATG 60.523 55.000 19.93 6.00 41.47 2.39
507 547 3.007614 AGCTTCCAAGTTTCTAACCGCTA 59.992 43.478 0.00 0.00 0.00 4.26
551 595 3.054802 ACCTCCCTACTCTCAAATGCAAG 60.055 47.826 0.00 0.00 0.00 4.01
555 599 2.171448 CCCACCTCCCTACTCTCAAATG 59.829 54.545 0.00 0.00 0.00 2.32
557 601 1.554822 CCCCACCTCCCTACTCTCAAA 60.555 57.143 0.00 0.00 0.00 2.69
558 602 0.042731 CCCCACCTCCCTACTCTCAA 59.957 60.000 0.00 0.00 0.00 3.02
559 603 1.153695 ACCCCACCTCCCTACTCTCA 61.154 60.000 0.00 0.00 0.00 3.27
560 604 0.688087 CACCCCACCTCCCTACTCTC 60.688 65.000 0.00 0.00 0.00 3.20
563 607 2.454941 CCACCCCACCTCCCTACT 59.545 66.667 0.00 0.00 0.00 2.57
564 608 2.691252 CCCACCCCACCTCCCTAC 60.691 72.222 0.00 0.00 0.00 3.18
565 609 4.033251 CCCCACCCCACCTCCCTA 62.033 72.222 0.00 0.00 0.00 3.53
592 636 4.589374 TCCATTGCATGCATTGATATCCAA 59.411 37.500 33.39 13.06 39.41 3.53
595 639 4.381612 CCCTCCATTGCATGCATTGATATC 60.382 45.833 33.39 0.00 31.27 1.63
773 821 1.650912 CTTGCAGCTCAGCGTGTTT 59.349 52.632 0.00 0.00 37.31 2.83
781 829 0.599558 GTGGATTTGCTTGCAGCTCA 59.400 50.000 9.12 0.00 42.97 4.26
811 859 2.473235 GTGCGATCGATTAAGAGGAAGC 59.527 50.000 21.57 0.00 0.00 3.86
821 869 2.885676 GCCATGCGTGCGATCGATT 61.886 57.895 21.57 0.00 0.00 3.34
836 884 1.211969 GACGCGAGAACTGTAGCCA 59.788 57.895 15.93 0.00 0.00 4.75
878 927 8.034058 AGTCATCTATTTTGAAACGGAGAAAG 57.966 34.615 0.00 0.00 0.00 2.62
881 930 6.697395 TGAGTCATCTATTTTGAAACGGAGA 58.303 36.000 0.00 0.00 0.00 3.71
882 931 6.968131 TGAGTCATCTATTTTGAAACGGAG 57.032 37.500 0.00 0.00 0.00 4.63
883 932 6.934645 AGTTGAGTCATCTATTTTGAAACGGA 59.065 34.615 1.70 0.00 0.00 4.69
884 933 7.133891 AGTTGAGTCATCTATTTTGAAACGG 57.866 36.000 1.70 0.00 0.00 4.44
927 976 9.726438 AACATGACTCAACTTTATACTAGCTTT 57.274 29.630 0.00 0.00 0.00 3.51
928 977 9.726438 AAACATGACTCAACTTTATACTAGCTT 57.274 29.630 0.00 0.00 0.00 3.74
929 978 9.726438 AAAACATGACTCAACTTTATACTAGCT 57.274 29.630 0.00 0.00 0.00 3.32
954 1003 8.530269 GAGAATTACTCACTCCGTTCTAAAAA 57.470 34.615 0.00 0.00 44.36 1.94
969 1018 5.681880 CCTAGACGACGATGAGAATTACTC 58.318 45.833 0.00 0.00 45.11 2.59
970 1019 4.023878 GCCTAGACGACGATGAGAATTACT 60.024 45.833 0.00 0.00 0.00 2.24
971 1020 4.220572 GCCTAGACGACGATGAGAATTAC 58.779 47.826 0.00 0.00 0.00 1.89
972 1021 3.059120 CGCCTAGACGACGATGAGAATTA 60.059 47.826 0.00 0.00 34.06 1.40
977 1026 1.070710 GTACGCCTAGACGACGATGAG 60.071 57.143 5.13 0.00 36.70 2.90
989 1038 3.542676 CCGCCATGGGTACGCCTA 61.543 66.667 15.13 0.00 34.45 3.93
1149 1198 4.365505 TCCGGATCACGCAACGCA 62.366 61.111 0.00 0.00 42.52 5.24
1158 1207 0.687757 CCTCCTGGTTCTCCGGATCA 60.688 60.000 3.57 0.37 42.46 2.92
1161 1210 1.000486 CTCCTCCTGGTTCTCCGGA 60.000 63.158 2.93 2.93 42.46 5.14
1224 1273 1.381928 GGTCGGGATCGCTGTAGTCA 61.382 60.000 8.28 0.00 36.13 3.41
1272 1321 2.231529 CCGAGGATAACGAGGTCATCT 58.768 52.381 0.00 0.00 0.00 2.90
1284 1333 1.202842 TCGTATCAGTGGCCGAGGATA 60.203 52.381 0.00 1.88 0.00 2.59
1285 1334 0.467474 TCGTATCAGTGGCCGAGGAT 60.467 55.000 0.00 2.96 0.00 3.24
1388 1476 6.395629 GTCCAAGCACACTATCTACTTAACA 58.604 40.000 0.00 0.00 0.00 2.41
1475 1828 4.137849 CGTACCGCAGATTAATCGAGTA 57.862 45.455 9.78 7.58 0.00 2.59
1476 1829 2.996155 CGTACCGCAGATTAATCGAGT 58.004 47.619 9.78 8.44 0.00 4.18
1526 1888 9.585369 TCATTCAACCAATCTTATTGCCATATA 57.415 29.630 0.00 0.00 0.00 0.86
1571 2192 9.462174 TTGCATAATTTACTTTGTTGAGACAAG 57.538 29.630 0.00 0.00 45.80 3.16
1573 2194 7.589587 CGTTGCATAATTTACTTTGTTGAGACA 59.410 33.333 0.00 0.00 0.00 3.41
1630 2251 1.003959 TAACACTGGCGCTGCATCA 60.004 52.632 7.64 0.00 0.00 3.07
1644 2265 4.036567 ACTTATATCGTGCGCACTAACA 57.963 40.909 35.27 18.73 0.00 2.41
1650 2277 8.920509 ATATACATTTACTTATATCGTGCGCA 57.079 30.769 5.66 5.66 0.00 6.09
1747 2379 5.587043 CCACACCAAGTGTTTTACAGAAGTA 59.413 40.000 0.00 0.00 45.08 2.24
1753 2385 2.425312 CAGCCACACCAAGTGTTTTACA 59.575 45.455 0.00 0.00 45.08 2.41
1765 2397 1.098050 GATGACCATTCAGCCACACC 58.902 55.000 0.00 0.00 34.35 4.16
1782 2414 6.207614 GGAAGGAGTAAAAGTCAGCAAAAGAT 59.792 38.462 0.00 0.00 0.00 2.40
1791 2423 1.337447 CCGCGGAAGGAGTAAAAGTCA 60.337 52.381 24.07 0.00 0.00 3.41
1805 2437 2.338620 CTTGTGTGAGACCGCGGA 59.661 61.111 35.90 6.02 0.00 5.54
1809 2442 1.478510 AGATAGCCTTGTGTGAGACCG 59.521 52.381 0.00 0.00 0.00 4.79
1918 2551 2.751837 TGCCCGTGTGCACAAACA 60.752 55.556 23.59 14.27 36.04 2.83
2046 2679 2.093447 AGATGGACTCGACAATTGACCC 60.093 50.000 13.59 3.30 0.00 4.46
2117 2753 5.533528 CCATCAGCAGAAAATGACCATGATA 59.466 40.000 0.00 0.00 0.00 2.15
2192 2828 2.159184 CGCAGAGAGTGAATCTTAGCCA 60.159 50.000 2.80 0.00 38.84 4.75
2226 2863 2.467880 TCCAGTCCGAAAGCCTCTTAT 58.532 47.619 0.00 0.00 0.00 1.73


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

AutoCloner maintained by Alex Coulton.