Multiple sequence alignment - TraesCS6A01G098100

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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 TraesCS6A01G098100 chr6A 100.000 2525 0 0 1 2525 65135074 65132550 0.000000e+00 4663
1 TraesCS6A01G098100 chr6A 91.412 1409 78 13 1144 2525 65140771 65139379 0.000000e+00 1892
2 TraesCS6A01G098100 chr6A 87.860 1318 84 27 709 1990 65074131 65072854 0.000000e+00 1478
3 TraesCS6A01G098100 chr6A 89.149 470 35 7 1 460 65078798 65078335 2.820000e-159 571
4 TraesCS6A01G098100 chr6A 88.854 323 20 7 2030 2348 65072790 65072480 1.420000e-102 383
5 TraesCS6A01G098100 chr6A 90.865 208 13 3 500 707 65074372 65074171 8.900000e-70 274
6 TraesCS6A01G098100 chr6D 92.301 1221 64 12 1144 2348 49843067 49844273 0.000000e+00 1707
7 TraesCS6A01G098100 chr6D 91.121 1115 52 16 709 1808 49848539 49849621 0.000000e+00 1467
8 TraesCS6A01G098100 chr6D 87.246 1231 78 33 709 1903 49854922 49856109 0.000000e+00 1330
9 TraesCS6A01G098100 chr6D 90.000 610 36 9 109 707 49847904 49848499 0.000000e+00 765
10 TraesCS6A01G098100 chr6D 88.324 531 38 9 1 517 49854231 49854751 1.280000e-172 616
11 TraesCS6A01G098100 chr6D 87.330 442 43 7 1154 1591 47810925 47810493 6.270000e-136 494
12 TraesCS6A01G098100 chr6D 86.287 474 37 15 1901 2348 49856232 49856703 8.120000e-135 490
13 TraesCS6A01G098100 chr6D 87.774 319 37 1 2030 2348 49851730 49852046 3.070000e-99 372
14 TraesCS6A01G098100 chr6D 92.614 176 8 3 2351 2525 49844314 49844485 5.390000e-62 248
15 TraesCS6A01G098100 chr6D 89.714 175 14 2 2351 2525 49852087 49852257 1.180000e-53 220
16 TraesCS6A01G098100 chr6D 93.043 115 4 2 593 707 49854772 49854882 5.590000e-37 165
17 TraesCS6A01G098100 chr6D 84.800 125 10 7 567 689 47811908 47811791 1.590000e-22 117
18 TraesCS6A01G098100 chr6B 87.944 929 66 17 1144 2049 121732663 121731758 0.000000e+00 1053
19 TraesCS6A01G098100 chr6B 91.451 772 41 7 757 1525 121529980 121529231 0.000000e+00 1037
20 TraesCS6A01G098100 chr6B 91.589 321 17 3 2036 2348 121717192 121716874 3.860000e-118 435
21 TraesCS6A01G098100 chr6B 91.250 320 25 2 2030 2348 121529079 121528762 1.390000e-117 433
22 TraesCS6A01G098100 chr6B 89.080 348 32 3 360 707 121530665 121530324 6.450000e-116 427
23 TraesCS6A01G098100 chr6B 89.021 337 33 2 1168 1500 123724154 123724490 5.030000e-112 414
24 TraesCS6A01G098100 chr6B 88.923 325 27 5 1 316 121532996 121532672 2.350000e-105 392
25 TraesCS6A01G098100 chr6B 93.143 175 8 2 2351 2525 121716830 121716660 1.160000e-63 254
26 TraesCS6A01G098100 chr6B 80.997 321 42 14 787 1105 121733618 121733315 1.170000e-58 237


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 TraesCS6A01G098100 chr6A 65132550 65135074 2524 True 4663.00 4663 100.0000 1 2525 1 chr6A.!!$R1 2524
1 TraesCS6A01G098100 chr6A 65139379 65140771 1392 True 1892.00 1892 91.4120 1144 2525 1 chr6A.!!$R2 1381
2 TraesCS6A01G098100 chr6A 65072480 65078798 6318 True 676.50 1478 89.1820 1 2348 4 chr6A.!!$R3 2347
3 TraesCS6A01G098100 chr6D 49843067 49856703 13636 False 738.00 1707 89.8424 1 2525 10 chr6D.!!$F1 2524
4 TraesCS6A01G098100 chr6D 47810493 47811908 1415 True 305.50 494 86.0650 567 1591 2 chr6D.!!$R1 1024
5 TraesCS6A01G098100 chr6B 121731758 121733618 1860 True 645.00 1053 84.4705 787 2049 2 chr6B.!!$R3 1262
6 TraesCS6A01G098100 chr6B 121528762 121532996 4234 True 572.25 1037 90.1760 1 2348 4 chr6B.!!$R1 2347
7 TraesCS6A01G098100 chr6B 121716660 121717192 532 True 344.50 435 92.3660 2036 2525 2 chr6B.!!$R2 489

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
777 12186 0.240145 AGAAATGCGTCGTGTCTCGA 59.76 50.0 0.0 0.0 46.83 4.04 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2349 21446 0.8364 TCCTGAAGGTCTGTCCCCAC 60.836 60.0 0.0 0.0 36.75 4.61 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
60 2106 1.229428 AGAGCAACACATCCAACACG 58.771 50.000 0.00 0.00 0.00 4.49
76 2122 6.403049 TCCAACACGAATCTTAGCATAGAAA 58.597 36.000 0.00 0.00 0.00 2.52
81 2127 7.220030 ACACGAATCTTAGCATAGAAATGGAT 58.780 34.615 0.00 0.00 33.38 3.41
247 4985 9.940166 AAACTAGTGTAATTTCGGTAAAAACTG 57.060 29.630 0.00 0.00 0.00 3.16
361 7071 3.397849 GGAAACCTCCACGTTAGTCTT 57.602 47.619 0.00 0.00 41.96 3.01
362 7072 3.736720 GGAAACCTCCACGTTAGTCTTT 58.263 45.455 0.00 0.00 41.96 2.52
363 7073 4.886579 GGAAACCTCCACGTTAGTCTTTA 58.113 43.478 0.00 0.00 41.96 1.85
375 7085 7.486551 CCACGTTAGTCTTTAGAGATCTCAAAG 59.513 40.741 25.80 25.80 33.70 2.77
382 7092 7.673926 AGTCTTTAGAGATCTCAAAGAGGAGTT 59.326 37.037 30.14 19.23 37.38 3.01
406 7116 8.360390 GTTGAATAACTTCTCCATTTTGGTCTT 58.640 33.333 0.00 0.00 34.92 3.01
407 7117 7.885297 TGAATAACTTCTCCATTTTGGTCTTG 58.115 34.615 0.00 0.00 39.03 3.02
511 11145 2.431683 GGCCTTCAGGTCTGTGCA 59.568 61.111 0.00 0.00 36.72 4.57
529 11163 2.367894 TGCATATCTCTCTGCCTGGAAG 59.632 50.000 0.00 0.00 37.59 3.46
548 11182 3.179443 AGCTTGTTTCTCGTTGACAGA 57.821 42.857 0.00 0.00 0.00 3.41
550 11184 4.130118 AGCTTGTTTCTCGTTGACAGATT 58.870 39.130 0.00 0.00 0.00 2.40
577 11211 2.757868 CAACAACCTGAACCTGGTGAAA 59.242 45.455 0.00 0.00 35.88 2.69
578 11212 3.094484 ACAACCTGAACCTGGTGAAAA 57.906 42.857 0.00 0.00 35.88 2.29
583 11217 1.338020 CTGAACCTGGTGAAAACTGGC 59.662 52.381 0.00 0.00 0.00 4.85
609 11245 2.049185 TGTGCAACACCACCACCAC 61.049 57.895 0.00 0.00 45.67 4.16
612 11248 3.591835 CAACACCACCACCACCGC 61.592 66.667 0.00 0.00 0.00 5.68
681 11317 2.202349 GCTCACCGCGTGCATTTC 60.202 61.111 4.92 0.00 34.19 2.17
682 11318 2.680913 GCTCACCGCGTGCATTTCT 61.681 57.895 4.92 0.00 34.19 2.52
683 11319 1.421485 CTCACCGCGTGCATTTCTC 59.579 57.895 4.92 0.00 32.98 2.87
684 11320 1.005037 TCACCGCGTGCATTTCTCT 60.005 52.632 4.92 0.00 32.98 3.10
685 11321 1.014044 TCACCGCGTGCATTTCTCTC 61.014 55.000 4.92 0.00 32.98 3.20
777 12186 0.240145 AGAAATGCGTCGTGTCTCGA 59.760 50.000 0.00 0.00 46.83 4.04
946 12360 0.946221 AGACTCGCAAGCCAAACTCG 60.946 55.000 0.00 0.00 37.18 4.18
955 12369 3.790123 GCAAGCCAAACTCGCTAATCATC 60.790 47.826 0.00 0.00 34.84 2.92
1011 12428 1.301716 AAGTGCAATGGCGTCGTCT 60.302 52.632 0.00 0.00 45.35 4.18
1371 19850 0.981183 ACATCTTCAACCGCACCCTA 59.019 50.000 0.00 0.00 0.00 3.53
1533 20025 4.161295 TCGGCCTGAATCGCCTGG 62.161 66.667 0.00 0.00 44.73 4.45
1560 20588 0.881118 CAACCCAGGTGATCAAACCG 59.119 55.000 0.00 0.00 45.53 4.44
1562 20590 1.131303 ACCCAGGTGATCAAACCGGA 61.131 55.000 9.46 0.00 45.53 5.14
1565 20593 0.320421 CAGGTGATCAAACCGGACGT 60.320 55.000 9.46 0.00 45.53 4.34
1567 20595 1.067354 AGGTGATCAAACCGGACGTAC 60.067 52.381 9.46 0.00 45.53 3.67
1568 20596 0.986992 GTGATCAAACCGGACGTACG 59.013 55.000 14.78 14.78 0.00 3.67
1576 20604 1.959042 ACCGGACGTACGATCACTAT 58.041 50.000 24.65 0.00 35.47 2.12
1579 20607 2.096367 CCGGACGTACGATCACTATGAG 60.096 54.545 24.65 0.00 35.47 2.90
1585 20613 3.059800 CGTACGATCACTATGAGCTTCGA 60.060 47.826 10.44 0.00 32.57 3.71
1590 20618 4.551509 CGATCACTATGAGCTTCGATTACG 59.448 45.833 0.00 0.00 30.48 3.18
1594 20622 1.200483 ATGAGCTTCGATTACGTGCG 58.800 50.000 0.00 0.00 41.46 5.34
1610 20638 1.030488 TGCGACGTAGAGCTAGGCTT 61.030 55.000 0.00 0.00 39.88 4.35
1617 20645 5.033589 ACGTAGAGCTAGGCTTCTAACTA 57.966 43.478 0.00 0.00 39.88 2.24
1630 20658 8.100508 AGGCTTCTAACTAATTCACTGTTTTC 57.899 34.615 0.00 0.00 0.00 2.29
1632 20660 8.568794 GGCTTCTAACTAATTCACTGTTTTCTT 58.431 33.333 0.00 0.00 0.00 2.52
1633 20661 9.600646 GCTTCTAACTAATTCACTGTTTTCTTC 57.399 33.333 0.00 0.00 0.00 2.87
1678 20710 2.499197 TGCGTGAGTAAAAGATGGCAA 58.501 42.857 0.00 0.00 0.00 4.52
1679 20711 2.225491 TGCGTGAGTAAAAGATGGCAAC 59.775 45.455 0.00 0.00 0.00 4.17
1693 20725 0.696501 GGCAACCCCTCTTCCAAGTA 59.303 55.000 0.00 0.00 0.00 2.24
1694 20726 1.074889 GGCAACCCCTCTTCCAAGTAA 59.925 52.381 0.00 0.00 0.00 2.24
1695 20727 2.437413 GCAACCCCTCTTCCAAGTAAG 58.563 52.381 0.00 0.00 0.00 2.34
1696 20728 2.039879 GCAACCCCTCTTCCAAGTAAGA 59.960 50.000 0.00 0.00 34.39 2.10
1697 20729 3.676093 CAACCCCTCTTCCAAGTAAGAC 58.324 50.000 0.00 0.00 32.18 3.01
1698 20730 1.900486 ACCCCTCTTCCAAGTAAGACG 59.100 52.381 0.00 0.00 32.18 4.18
1700 20732 2.565834 CCCCTCTTCCAAGTAAGACGAA 59.434 50.000 0.00 0.00 32.18 3.85
1702 20734 3.368531 CCCTCTTCCAAGTAAGACGAAGG 60.369 52.174 0.00 0.00 33.94 3.46
1732 20770 5.960113 ACGAATGCAGATCATAGATACTCC 58.040 41.667 0.00 0.00 34.33 3.85
1733 20771 5.478332 ACGAATGCAGATCATAGATACTCCA 59.522 40.000 0.00 0.00 34.33 3.86
1734 20772 6.154192 ACGAATGCAGATCATAGATACTCCAT 59.846 38.462 0.00 0.00 34.33 3.41
1736 20774 7.647318 CGAATGCAGATCATAGATACTCCATAC 59.353 40.741 0.00 0.00 34.33 2.39
1737 20775 8.606754 AATGCAGATCATAGATACTCCATACT 57.393 34.615 0.00 0.00 34.33 2.12
1738 20776 9.706529 AATGCAGATCATAGATACTCCATACTA 57.293 33.333 0.00 0.00 34.33 1.82
1739 20777 9.706529 ATGCAGATCATAGATACTCCATACTAA 57.293 33.333 0.00 0.00 32.59 2.24
1740 20778 9.183368 TGCAGATCATAGATACTCCATACTAAG 57.817 37.037 0.00 0.00 0.00 2.18
1756 20796 8.195436 TCCATACTAAGTGGAGTTTCGAATTAG 58.805 37.037 0.00 4.84 40.72 1.73
1766 20806 5.106712 GGAGTTTCGAATTAGCAACACATGA 60.107 40.000 0.00 0.00 0.00 3.07
1767 20807 6.312399 AGTTTCGAATTAGCAACACATGAA 57.688 33.333 0.00 0.00 0.00 2.57
1835 20891 7.764141 TGTGGTTACAGAAGTATGTACTGTA 57.236 36.000 0.00 0.00 43.27 2.74
1838 20894 7.642978 GTGGTTACAGAAGTATGTACTGTATCG 59.357 40.741 0.00 0.00 43.44 2.92
1851 20907 6.084277 TGTACTGTATCGACGCATAATGATC 58.916 40.000 0.00 0.00 0.00 2.92
1855 20911 7.312899 ACTGTATCGACGCATAATGATCAATA 58.687 34.615 0.00 0.00 0.00 1.90
1856 20912 7.976175 ACTGTATCGACGCATAATGATCAATAT 59.024 33.333 0.00 0.00 0.00 1.28
1907 20963 6.701145 TTTACTTGTGCTGTCATGGTTTTA 57.299 33.333 0.00 0.00 0.00 1.52
1948 21006 7.547370 GCAGTTATCTATGTCTTTCAACTCAGT 59.453 37.037 0.00 0.00 0.00 3.41
1990 21048 6.166279 TCGTCAAGAAAAGACTAGCATCATT 58.834 36.000 0.00 0.00 33.89 2.57
1991 21049 6.650807 TCGTCAAGAAAAGACTAGCATCATTT 59.349 34.615 0.00 0.00 33.89 2.32
2154 21241 7.716768 AAGAGTTGCTTTAGTTTGAGTAGAC 57.283 36.000 0.00 0.00 31.11 2.59
2160 21249 4.806330 CTTTAGTTTGAGTAGACGGAGCA 58.194 43.478 0.00 0.00 0.00 4.26
2161 21250 2.726832 AGTTTGAGTAGACGGAGCAC 57.273 50.000 0.00 0.00 0.00 4.40
2166 21255 0.097325 GAGTAGACGGAGCACTCACG 59.903 60.000 0.00 3.81 38.82 4.35
2248 21345 2.096335 CACCGTACGTGCACTATCTACA 59.904 50.000 16.19 0.00 35.18 2.74
2250 21347 2.096335 CCGTACGTGCACTATCTACACA 59.904 50.000 16.19 0.00 33.89 3.72
2278 21375 9.856803 AAAAATACAAAACCGATCAAATTTTCG 57.143 25.926 5.48 5.48 35.19 3.46
2349 21446 3.455910 TCTCCAAGTGGGGAACATATCAG 59.544 47.826 0.00 0.00 42.92 2.90
2358 21496 2.158755 GGGAACATATCAGTGGGGACAG 60.159 54.545 0.00 0.00 44.46 3.51
2380 21518 7.339482 ACAGACCTTCAGGAAATCTAATAACC 58.661 38.462 0.00 0.00 38.94 2.85
2381 21519 6.768381 CAGACCTTCAGGAAATCTAATAACCC 59.232 42.308 0.00 0.00 38.94 4.11
2382 21520 6.447084 AGACCTTCAGGAAATCTAATAACCCA 59.553 38.462 0.00 0.00 38.94 4.51
2383 21521 7.129504 AGACCTTCAGGAAATCTAATAACCCAT 59.870 37.037 0.00 0.00 38.94 4.00
2384 21522 7.290813 ACCTTCAGGAAATCTAATAACCCATC 58.709 38.462 0.00 0.00 38.94 3.51
2452 21590 5.336213 CCACCATGAGAATCTTTCAACCTTG 60.336 44.000 0.00 0.00 34.92 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 2009 2.030371 TGGATGTGTTGCTCTTTTGCA 58.970 42.857 0.00 0.00 41.65 4.08
60 2106 7.120432 GGGTCATCCATTTCTATGCTAAGATTC 59.880 40.741 0.00 0.00 35.00 2.52
81 2127 4.135306 TGCGTTAGTTAATTTGTGGGTCA 58.865 39.130 0.00 0.00 0.00 4.02
353 7063 8.962679 TCCTCTTTGAGATCTCTAAAGACTAAC 58.037 37.037 28.02 5.01 35.28 2.34
357 7067 7.404671 ACTCCTCTTTGAGATCTCTAAAGAC 57.595 40.000 28.02 7.14 35.28 3.01
358 7068 7.671819 TCAACTCCTCTTTGAGATCTCTAAAGA 59.328 37.037 28.82 28.82 36.40 2.52
359 7069 7.835822 TCAACTCCTCTTTGAGATCTCTAAAG 58.164 38.462 25.80 25.80 36.22 1.85
360 7070 7.782897 TCAACTCCTCTTTGAGATCTCTAAA 57.217 36.000 22.95 18.32 36.22 1.85
361 7071 7.782897 TTCAACTCCTCTTTGAGATCTCTAA 57.217 36.000 22.95 19.77 34.50 2.10
362 7072 7.969690 ATTCAACTCCTCTTTGAGATCTCTA 57.030 36.000 22.95 13.48 34.50 2.43
363 7073 6.872585 ATTCAACTCCTCTTTGAGATCTCT 57.127 37.500 22.95 0.00 34.50 3.10
375 7085 7.929941 AAATGGAGAAGTTATTCAACTCCTC 57.070 36.000 0.00 0.00 43.46 3.71
382 7092 7.505585 ACAAGACCAAAATGGAGAAGTTATTCA 59.494 33.333 2.85 0.00 40.96 2.57
401 7111 3.821033 ACTATGTTGGCTTTGACAAGACC 59.179 43.478 2.39 2.39 37.20 3.85
511 11145 2.975075 AGCTTCCAGGCAGAGAGATAT 58.025 47.619 0.00 0.00 34.17 1.63
529 11163 4.024893 TCAATCTGTCAACGAGAAACAAGC 60.025 41.667 0.00 0.00 0.00 4.01
548 11182 4.766891 CAGGTTCAGGTTGTTGGTATCAAT 59.233 41.667 0.00 0.00 35.10 2.57
550 11184 3.497763 CCAGGTTCAGGTTGTTGGTATCA 60.498 47.826 0.00 0.00 0.00 2.15
583 11217 0.383590 TGGTGTTGCACATGGAAACG 59.616 50.000 0.00 0.00 35.86 3.60
609 11245 1.931841 CATGAGACAAGTGATGAGCGG 59.068 52.381 0.00 0.00 0.00 5.52
612 11248 2.676839 GGTGCATGAGACAAGTGATGAG 59.323 50.000 0.00 0.00 0.00 2.90
666 11302 1.005037 AGAGAAATGCACGCGGTGA 60.005 52.632 12.47 0.00 35.23 4.02
684 11320 9.627395 CGAACAAAATAAACTTCTAGAGAGAGA 57.373 33.333 8.38 0.00 31.77 3.10
685 11321 9.627395 TCGAACAAAATAAACTTCTAGAGAGAG 57.373 33.333 8.38 0.00 31.77 3.20
725 11860 5.035443 CGTCTTACCTACTGCAACATAGTC 58.965 45.833 0.00 0.00 0.00 2.59
726 11861 4.142227 CCGTCTTACCTACTGCAACATAGT 60.142 45.833 0.00 0.00 0.00 2.12
727 11862 4.360563 CCGTCTTACCTACTGCAACATAG 58.639 47.826 0.00 0.00 0.00 2.23
728 11863 3.429822 GCCGTCTTACCTACTGCAACATA 60.430 47.826 0.00 0.00 0.00 2.29
729 11864 2.677037 GCCGTCTTACCTACTGCAACAT 60.677 50.000 0.00 0.00 0.00 2.71
730 11865 1.337447 GCCGTCTTACCTACTGCAACA 60.337 52.381 0.00 0.00 0.00 3.33
731 11866 1.356938 GCCGTCTTACCTACTGCAAC 58.643 55.000 0.00 0.00 0.00 4.17
732 11867 0.248289 GGCCGTCTTACCTACTGCAA 59.752 55.000 0.00 0.00 0.00 4.08
734 11869 0.179108 CTGGCCGTCTTACCTACTGC 60.179 60.000 0.00 0.00 0.00 4.40
735 11870 1.405821 CTCTGGCCGTCTTACCTACTG 59.594 57.143 0.00 0.00 0.00 2.74
736 11871 1.005687 ACTCTGGCCGTCTTACCTACT 59.994 52.381 0.00 0.00 0.00 2.57
840 12249 1.804151 GCGCAACCATCTGTGAGTTTA 59.196 47.619 0.30 0.00 0.00 2.01
946 12360 1.521423 GCACGTACGTGGATGATTAGC 59.479 52.381 40.17 24.02 45.49 3.09
955 12369 2.267188 TAAGCTAAGCACGTACGTGG 57.733 50.000 40.17 27.76 45.49 4.94
1077 12590 1.501741 GATGCTCTTTTTCGCCGCA 59.498 52.632 0.00 0.00 34.83 5.69
1086 12599 1.517257 CTCCGACGCGATGCTCTTT 60.517 57.895 15.93 0.00 0.00 2.52
1389 19868 3.445687 CGGTCGACGGGGATGTCA 61.446 66.667 14.86 0.00 38.84 3.58
1533 20025 3.197766 TGATCACCTGGGTTGACAGATAC 59.802 47.826 0.00 0.00 40.97 2.24
1560 20588 2.548904 AGCTCATAGTGATCGTACGTCC 59.451 50.000 16.05 8.80 0.00 4.79
1562 20590 3.303197 CGAAGCTCATAGTGATCGTACGT 60.303 47.826 16.05 2.33 0.00 3.57
1565 20593 5.690997 AATCGAAGCTCATAGTGATCGTA 57.309 39.130 0.00 0.00 0.00 3.43
1567 20595 4.551509 CGTAATCGAAGCTCATAGTGATCG 59.448 45.833 0.00 0.00 39.71 3.69
1568 20596 5.340932 CACGTAATCGAAGCTCATAGTGATC 59.659 44.000 0.00 0.00 40.62 2.92
1576 20604 0.169451 TCGCACGTAATCGAAGCTCA 59.831 50.000 4.58 0.00 40.62 4.26
1579 20607 1.266089 CGTCGCACGTAATCGAAGC 59.734 57.895 8.04 0.00 40.62 3.86
1590 20618 1.298488 GCCTAGCTCTACGTCGCAC 60.298 63.158 0.00 0.00 0.00 5.34
1594 20622 3.878699 AGTTAGAAGCCTAGCTCTACGTC 59.121 47.826 0.00 0.00 38.25 4.34
1630 20658 6.603201 TCCTCCTGCACCAAAATATAAAGAAG 59.397 38.462 0.00 0.00 0.00 2.85
1632 20660 6.069673 TCTCCTCCTGCACCAAAATATAAAGA 60.070 38.462 0.00 0.00 0.00 2.52
1633 20661 6.122277 TCTCCTCCTGCACCAAAATATAAAG 58.878 40.000 0.00 0.00 0.00 1.85
1636 20664 5.624159 CATCTCCTCCTGCACCAAAATATA 58.376 41.667 0.00 0.00 0.00 0.86
1637 20665 4.467769 CATCTCCTCCTGCACCAAAATAT 58.532 43.478 0.00 0.00 0.00 1.28
1638 20666 3.889815 CATCTCCTCCTGCACCAAAATA 58.110 45.455 0.00 0.00 0.00 1.40
1639 20667 2.731572 CATCTCCTCCTGCACCAAAAT 58.268 47.619 0.00 0.00 0.00 1.82
1644 20672 2.202987 CGCATCTCCTCCTGCACC 60.203 66.667 0.00 0.00 38.30 5.01
1678 20710 1.900486 CGTCTTACTTGGAAGAGGGGT 59.100 52.381 7.25 0.00 37.57 4.95
1679 20711 2.176889 TCGTCTTACTTGGAAGAGGGG 58.823 52.381 13.31 0.38 40.26 4.79
1693 20725 3.520290 TTCGTATGCATCCTTCGTCTT 57.480 42.857 0.19 0.00 0.00 3.01
1694 20726 3.384668 CATTCGTATGCATCCTTCGTCT 58.615 45.455 0.19 0.00 0.00 4.18
1695 20727 3.777807 CATTCGTATGCATCCTTCGTC 57.222 47.619 0.19 0.00 0.00 4.20
1732 20770 7.491372 TGCTAATTCGAAACTCCACTTAGTATG 59.509 37.037 0.00 0.00 0.00 2.39
1733 20771 7.553334 TGCTAATTCGAAACTCCACTTAGTAT 58.447 34.615 0.00 0.00 0.00 2.12
1734 20772 6.927416 TGCTAATTCGAAACTCCACTTAGTA 58.073 36.000 0.00 0.53 0.00 1.82
1736 20774 6.147164 TGTTGCTAATTCGAAACTCCACTTAG 59.853 38.462 0.00 5.05 0.00 2.18
1737 20775 5.992829 TGTTGCTAATTCGAAACTCCACTTA 59.007 36.000 0.00 0.00 0.00 2.24
1738 20776 4.819630 TGTTGCTAATTCGAAACTCCACTT 59.180 37.500 0.00 0.00 0.00 3.16
1739 20777 4.213482 GTGTTGCTAATTCGAAACTCCACT 59.787 41.667 0.00 0.00 0.00 4.00
1740 20778 4.024387 TGTGTTGCTAATTCGAAACTCCAC 60.024 41.667 0.00 4.06 0.00 4.02
1756 20796 7.879070 AGTATCATATCCATTTCATGTGTTGC 58.121 34.615 0.00 0.00 0.00 4.17
1766 20806 9.769677 TGGTAGCTAGTAGTATCATATCCATTT 57.230 33.333 0.00 0.00 0.00 2.32
1767 20807 9.415008 CTGGTAGCTAGTAGTATCATATCCATT 57.585 37.037 0.00 0.00 0.00 3.16
1778 20818 5.484644 AGGATCGATCTGGTAGCTAGTAGTA 59.515 44.000 23.96 0.00 0.00 1.82
1779 20819 4.287585 AGGATCGATCTGGTAGCTAGTAGT 59.712 45.833 23.96 0.00 0.00 2.73
1780 20820 4.634004 CAGGATCGATCTGGTAGCTAGTAG 59.366 50.000 23.96 0.00 0.00 2.57
1823 20879 6.549912 TTATGCGTCGATACAGTACATACT 57.450 37.500 0.00 0.00 36.90 2.12
1878 20934 9.845740 AACCATGACAGCACAAGTAAATATATA 57.154 29.630 0.00 0.00 0.00 0.86
1883 20939 5.789643 AAACCATGACAGCACAAGTAAAT 57.210 34.783 0.00 0.00 0.00 1.40
1888 20944 3.569701 AGGTAAAACCATGACAGCACAAG 59.430 43.478 0.00 0.00 41.95 3.16
1897 20953 5.014755 ACTGTCCCATAAGGTAAAACCATGA 59.985 40.000 0.00 0.00 41.95 3.07
1907 20963 1.362224 ACTGCACTGTCCCATAAGGT 58.638 50.000 0.00 0.00 36.75 3.50
1948 21006 5.110598 TGACGAAGCCGCATATAGTTTTTA 58.889 37.500 0.00 0.00 39.95 1.52
1954 21012 3.013276 TCTTGACGAAGCCGCATATAG 57.987 47.619 0.00 0.00 39.95 1.31
2008 21066 3.057019 TGTGATCGAAGTGACTTTTCCG 58.943 45.455 0.00 0.00 0.00 4.30
2141 21228 3.418995 AGTGCTCCGTCTACTCAAACTA 58.581 45.455 0.00 0.00 0.00 2.24
2161 21250 2.743752 CGGCAAGCATCCACGTGAG 61.744 63.158 19.30 7.45 0.00 3.51
2166 21255 2.410469 GCATCGGCAAGCATCCAC 59.590 61.111 0.00 0.00 40.72 4.02
2244 21341 7.858382 TGATCGGTTTTGTATTTTTGTGTGTAG 59.142 33.333 0.00 0.00 0.00 2.74
2248 21345 8.655651 ATTTGATCGGTTTTGTATTTTTGTGT 57.344 26.923 0.00 0.00 0.00 3.72
2278 21375 4.265073 ACATGGTGGTTGAAGATTCTAGC 58.735 43.478 0.00 0.26 0.00 3.42
2349 21446 0.836400 TCCTGAAGGTCTGTCCCCAC 60.836 60.000 0.00 0.00 36.75 4.61
2358 21496 6.659824 TGGGTTATTAGATTTCCTGAAGGTC 58.340 40.000 0.00 0.00 36.34 3.85
2381 21519 5.219343 TCTGAGCAAGTATACCATGGATG 57.781 43.478 21.47 8.23 0.00 3.51
2382 21520 5.894298 TTCTGAGCAAGTATACCATGGAT 57.106 39.130 21.47 10.25 0.00 3.41
2383 21521 5.894298 ATTCTGAGCAAGTATACCATGGA 57.106 39.130 21.47 2.01 0.00 3.41
2384 21522 8.535335 AGTATATTCTGAGCAAGTATACCATGG 58.465 37.037 11.19 11.19 31.69 3.66


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

AutoCloner maintained by Alex Coulton.