Multiple sequence alignment - TraesCS6A01G260900

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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 TraesCS6A01G260900 chr6A 100.000 3317 0 0 1 3317 484411012 484407696 0.000000e+00 6126.0
1 TraesCS6A01G260900 chr6D 94.327 1604 66 8 729 2330 344059188 344057608 0.000000e+00 2435.0
2 TraesCS6A01G260900 chr6D 93.627 612 20 6 12 621 344064252 344063658 0.000000e+00 896.0
3 TraesCS6A01G260900 chr5A 96.866 989 27 2 2330 3317 14170062 14171047 0.000000e+00 1652.0
4 TraesCS6A01G260900 chr2A 96.673 992 28 5 2330 3317 771786362 771785372 0.000000e+00 1644.0
5 TraesCS6A01G260900 chr2A 81.060 887 124 24 1418 2264 16629996 16629114 0.000000e+00 667.0
6 TraesCS6A01G260900 chr2A 83.051 649 101 6 1031 1672 16617539 16616893 6.170000e-162 580.0
7 TraesCS6A01G260900 chr2A 83.700 454 60 6 1876 2321 733657771 733658218 1.840000e-112 416.0
8 TraesCS6A01G260900 chr2A 83.855 415 62 3 1022 1432 733656391 733656804 1.120000e-104 390.0
9 TraesCS6A01G260900 chr2A 83.250 400 59 5 1031 1423 16630488 16630090 8.750000e-96 361.0
10 TraesCS6A01G260900 chr3A 96.472 992 31 1 2330 3317 710092193 710093184 0.000000e+00 1635.0
11 TraesCS6A01G260900 chr3A 95.888 997 37 1 2325 3317 736074998 736075994 0.000000e+00 1611.0
12 TraesCS6A01G260900 chr7A 96.204 1001 33 2 2321 3317 701589923 701588924 0.000000e+00 1633.0
13 TraesCS6A01G260900 chr7A 96.270 992 33 1 2330 3317 150188526 150189517 0.000000e+00 1624.0
14 TraesCS6A01G260900 chr7A 82.456 114 15 5 1203 1312 714677716 714677604 9.800000e-16 95.3
15 TraesCS6A01G260900 chr3B 96.274 993 35 2 2327 3317 812508948 812509940 0.000000e+00 1628.0
16 TraesCS6A01G260900 chr3B 96.065 991 35 1 2331 3317 55124346 55123356 0.000000e+00 1611.0
17 TraesCS6A01G260900 chr4B 96.069 992 35 1 2330 3317 578522059 578523050 0.000000e+00 1613.0
18 TraesCS6A01G260900 chr6B 92.519 909 48 11 764 1671 519331158 519330269 0.000000e+00 1284.0
19 TraesCS6A01G260900 chr6B 94.334 653 37 0 1666 2318 519323892 519323240 0.000000e+00 1002.0
20 TraesCS6A01G260900 chr6B 91.182 533 27 6 97 621 519332836 519332316 0.000000e+00 706.0
21 TraesCS6A01G260900 chr6B 94.595 74 4 0 695 768 519331899 519331972 7.520000e-22 115.0
22 TraesCS6A01G260900 chr6B 87.379 103 7 3 15 113 519334279 519334179 2.700000e-21 113.0
23 TraesCS6A01G260900 chr2D 81.931 1295 180 30 1022 2268 14373368 14374656 0.000000e+00 1046.0
24 TraesCS6A01G260900 chr5B 72.117 1266 257 69 1024 2223 636901905 636900670 9.000000e-76 294.0
25 TraesCS6A01G260900 chr5D 71.020 1225 270 64 1024 2195 506163269 506162077 2.000000e-52 217.0
26 TraesCS6A01G260900 chr7B 79.646 113 17 5 1203 1312 715996799 715996908 3.550000e-10 76.8


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 TraesCS6A01G260900 chr6A 484407696 484411012 3316 True 6126 6126 100.0000 1 3317 1 chr6A.!!$R1 3316
1 TraesCS6A01G260900 chr6D 344057608 344059188 1580 True 2435 2435 94.3270 729 2330 1 chr6D.!!$R1 1601
2 TraesCS6A01G260900 chr6D 344063658 344064252 594 True 896 896 93.6270 12 621 1 chr6D.!!$R2 609
3 TraesCS6A01G260900 chr5A 14170062 14171047 985 False 1652 1652 96.8660 2330 3317 1 chr5A.!!$F1 987
4 TraesCS6A01G260900 chr2A 771785372 771786362 990 True 1644 1644 96.6730 2330 3317 1 chr2A.!!$R2 987
5 TraesCS6A01G260900 chr2A 16616893 16617539 646 True 580 580 83.0510 1031 1672 1 chr2A.!!$R1 641
6 TraesCS6A01G260900 chr2A 16629114 16630488 1374 True 514 667 82.1550 1031 2264 2 chr2A.!!$R3 1233
7 TraesCS6A01G260900 chr2A 733656391 733658218 1827 False 403 416 83.7775 1022 2321 2 chr2A.!!$F1 1299
8 TraesCS6A01G260900 chr3A 710092193 710093184 991 False 1635 1635 96.4720 2330 3317 1 chr3A.!!$F1 987
9 TraesCS6A01G260900 chr3A 736074998 736075994 996 False 1611 1611 95.8880 2325 3317 1 chr3A.!!$F2 992
10 TraesCS6A01G260900 chr7A 701588924 701589923 999 True 1633 1633 96.2040 2321 3317 1 chr7A.!!$R1 996
11 TraesCS6A01G260900 chr7A 150188526 150189517 991 False 1624 1624 96.2700 2330 3317 1 chr7A.!!$F1 987
12 TraesCS6A01G260900 chr3B 812508948 812509940 992 False 1628 1628 96.2740 2327 3317 1 chr3B.!!$F1 990
13 TraesCS6A01G260900 chr3B 55123356 55124346 990 True 1611 1611 96.0650 2331 3317 1 chr3B.!!$R1 986
14 TraesCS6A01G260900 chr4B 578522059 578523050 991 False 1613 1613 96.0690 2330 3317 1 chr4B.!!$F1 987
15 TraesCS6A01G260900 chr6B 519323240 519323892 652 True 1002 1002 94.3340 1666 2318 1 chr6B.!!$R1 652
16 TraesCS6A01G260900 chr6B 519330269 519334279 4010 True 701 1284 90.3600 15 1671 3 chr6B.!!$R2 1656
17 TraesCS6A01G260900 chr2D 14373368 14374656 1288 False 1046 1046 81.9310 1022 2268 1 chr2D.!!$F1 1246
18 TraesCS6A01G260900 chr5B 636900670 636901905 1235 True 294 294 72.1170 1024 2223 1 chr5B.!!$R1 1199
19 TraesCS6A01G260900 chr5D 506162077 506163269 1192 True 217 217 71.0200 1024 2195 1 chr5D.!!$R1 1171

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
621 1995 0.249031 GTTTCAGTGCCACTTGTGCC 60.249 55.0 0.0 0.0 0.0 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2401 5442 0.107165 GCTCGGACTAGGGGCAAAAT 60.107 55.0 0.0 0.0 0.0 1.82 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
49 50 8.365060 AGATTTTGAATGGGTATGACATTTCA 57.635 30.769 0.00 0.00 38.57 2.69
50 51 8.984855 AGATTTTGAATGGGTATGACATTTCAT 58.015 29.630 0.00 0.00 45.04 2.57
91 92 7.977853 CCTTTTATTGATGGAGAAATCTTGTGG 59.022 37.037 0.00 0.00 0.00 4.17
96 97 6.331369 TGATGGAGAAATCTTGTGGTTTTC 57.669 37.500 0.00 0.00 35.18 2.29
104 1467 7.593825 AGAAATCTTGTGGTTTTCCTTATTCG 58.406 34.615 0.00 0.00 41.38 3.34
160 1524 6.073167 GCCCTTAGAAAATTAGATTCTACGGC 60.073 42.308 12.36 13.38 42.82 5.68
170 1534 3.251571 AGATTCTACGGCGTTTCTTCAC 58.748 45.455 21.24 4.57 0.00 3.18
173 1537 2.400399 TCTACGGCGTTTCTTCACAAG 58.600 47.619 21.24 6.03 0.00 3.16
202 1566 4.051922 CAGATACTTACATCCAGAACGCC 58.948 47.826 0.00 0.00 0.00 5.68
283 1647 4.477780 GTTATCTAGCACTCCGTCTATGC 58.522 47.826 0.00 0.00 39.74 3.14
349 1713 6.866248 GGAACCAATAAAATTGTCGTGACATT 59.134 34.615 3.14 0.00 41.52 2.71
364 1728 3.125316 GTGACATTCCTCGGTTCATGTTC 59.875 47.826 0.00 0.00 29.81 3.18
402 1767 5.976458 TCCTTTTTATGGGATGATGTTTGC 58.024 37.500 0.00 0.00 0.00 3.68
456 1821 3.040147 TCACCGTCTTTCACATCCTTC 57.960 47.619 0.00 0.00 0.00 3.46
621 1995 0.249031 GTTTCAGTGCCACTTGTGCC 60.249 55.000 0.00 0.00 0.00 5.01
622 1996 1.391157 TTTCAGTGCCACTTGTGCCC 61.391 55.000 0.00 0.00 0.00 5.36
623 1997 3.663176 CAGTGCCACTTGTGCCCG 61.663 66.667 0.00 0.00 0.00 6.13
624 1998 3.872603 AGTGCCACTTGTGCCCGA 61.873 61.111 0.00 0.00 0.00 5.14
627 2001 4.643387 GCCACTTGTGCCCGACCT 62.643 66.667 0.00 0.00 0.00 3.85
629 2003 2.260869 CCACTTGTGCCCGACCTTG 61.261 63.158 0.00 0.00 0.00 3.61
635 2009 4.947147 TGCCCGACCTTGCGCTTT 62.947 61.111 9.73 0.00 0.00 3.51
636 2010 4.404654 GCCCGACCTTGCGCTTTG 62.405 66.667 9.73 0.00 0.00 2.77
637 2011 2.978010 CCCGACCTTGCGCTTTGT 60.978 61.111 9.73 1.87 0.00 2.83
638 2012 2.556287 CCGACCTTGCGCTTTGTC 59.444 61.111 9.73 11.13 0.00 3.18
639 2013 1.961277 CCGACCTTGCGCTTTGTCT 60.961 57.895 9.73 0.00 0.00 3.41
641 2015 1.221466 CGACCTTGCGCTTTGTCTGA 61.221 55.000 9.73 0.00 0.00 3.27
642 2016 1.160137 GACCTTGCGCTTTGTCTGAT 58.840 50.000 9.73 0.00 0.00 2.90
643 2017 0.877071 ACCTTGCGCTTTGTCTGATG 59.123 50.000 9.73 0.00 0.00 3.07
644 2018 0.877071 CCTTGCGCTTTGTCTGATGT 59.123 50.000 9.73 0.00 0.00 3.06
645 2019 1.135859 CCTTGCGCTTTGTCTGATGTC 60.136 52.381 9.73 0.00 0.00 3.06
647 2021 0.250252 TGCGCTTTGTCTGATGTCCA 60.250 50.000 9.73 0.00 0.00 4.02
649 2023 1.266718 GCGCTTTGTCTGATGTCCAAA 59.733 47.619 0.00 0.00 0.00 3.28
650 2024 2.095059 GCGCTTTGTCTGATGTCCAAAT 60.095 45.455 0.00 0.00 0.00 2.32
651 2025 3.751621 CGCTTTGTCTGATGTCCAAATC 58.248 45.455 0.00 0.00 0.00 2.17
652 2026 3.189080 CGCTTTGTCTGATGTCCAAATCA 59.811 43.478 0.00 0.00 35.31 2.57
653 2027 4.142534 CGCTTTGTCTGATGTCCAAATCAT 60.143 41.667 0.00 0.00 36.03 2.45
654 2028 5.065090 CGCTTTGTCTGATGTCCAAATCATA 59.935 40.000 0.00 0.00 36.03 2.15
655 2029 6.238566 CGCTTTGTCTGATGTCCAAATCATAT 60.239 38.462 0.00 0.00 36.03 1.78
656 2030 6.916387 GCTTTGTCTGATGTCCAAATCATATG 59.084 38.462 0.00 0.00 36.03 1.78
657 2031 7.201758 GCTTTGTCTGATGTCCAAATCATATGA 60.202 37.037 8.10 8.10 36.03 2.15
658 2032 8.756486 TTTGTCTGATGTCCAAATCATATGAT 57.244 30.769 12.62 12.62 36.03 2.45
697 2519 2.325484 TGTATACATGGCGTCCATCCT 58.675 47.619 0.08 1.04 43.15 3.24
698 2520 2.703536 TGTATACATGGCGTCCATCCTT 59.296 45.455 0.08 0.55 43.15 3.36
699 2521 3.135712 TGTATACATGGCGTCCATCCTTT 59.864 43.478 0.08 0.00 43.15 3.11
700 2522 2.799126 TACATGGCGTCCATCCTTTT 57.201 45.000 8.21 0.00 43.15 2.27
701 2523 1.176527 ACATGGCGTCCATCCTTTTG 58.823 50.000 8.21 1.91 43.15 2.44
702 2524 1.176527 CATGGCGTCCATCCTTTTGT 58.823 50.000 8.21 0.00 43.15 2.83
703 2525 1.133025 CATGGCGTCCATCCTTTTGTC 59.867 52.381 8.21 0.00 43.15 3.18
704 2526 0.400213 TGGCGTCCATCCTTTTGTCT 59.600 50.000 0.00 0.00 0.00 3.41
705 2527 0.804989 GGCGTCCATCCTTTTGTCTG 59.195 55.000 0.00 0.00 0.00 3.51
706 2528 0.804989 GCGTCCATCCTTTTGTCTGG 59.195 55.000 0.00 0.00 0.00 3.86
707 2529 1.882352 GCGTCCATCCTTTTGTCTGGT 60.882 52.381 0.00 0.00 0.00 4.00
709 2531 2.884639 CGTCCATCCTTTTGTCTGGTTT 59.115 45.455 0.00 0.00 0.00 3.27
710 2532 3.304659 CGTCCATCCTTTTGTCTGGTTTG 60.305 47.826 0.00 0.00 0.00 2.93
711 2533 3.888930 GTCCATCCTTTTGTCTGGTTTGA 59.111 43.478 0.00 0.00 0.00 2.69
713 2535 4.141274 TCCATCCTTTTGTCTGGTTTGAGA 60.141 41.667 0.00 0.00 0.00 3.27
717 2539 4.037923 TCCTTTTGTCTGGTTTGAGATTGC 59.962 41.667 0.00 0.00 0.00 3.56
718 2540 4.038402 CCTTTTGTCTGGTTTGAGATTGCT 59.962 41.667 0.00 0.00 0.00 3.91
719 2541 5.452356 CCTTTTGTCTGGTTTGAGATTGCTT 60.452 40.000 0.00 0.00 0.00 3.91
720 2542 5.596836 TTTGTCTGGTTTGAGATTGCTTT 57.403 34.783 0.00 0.00 0.00 3.51
721 2543 4.836125 TGTCTGGTTTGAGATTGCTTTC 57.164 40.909 0.00 0.00 0.00 2.62
722 2544 4.206375 TGTCTGGTTTGAGATTGCTTTCA 58.794 39.130 0.00 0.00 0.00 2.69
723 2545 4.036734 TGTCTGGTTTGAGATTGCTTTCAC 59.963 41.667 0.00 0.00 0.00 3.18
725 2547 2.287547 TGGTTTGAGATTGCTTTCACGC 60.288 45.455 0.00 0.00 0.00 5.34
726 2548 2.030805 GGTTTGAGATTGCTTTCACGCT 60.031 45.455 0.00 0.00 0.00 5.07
756 2578 9.899661 ACATGTGGTAAGCTATCTGTAAAATAA 57.100 29.630 0.00 0.00 0.00 1.40
808 3197 2.578495 GCGAGAGAAAGAACGTTCGTA 58.422 47.619 21.87 0.00 32.50 3.43
809 3198 2.588973 GCGAGAGAAAGAACGTTCGTAG 59.411 50.000 21.87 10.06 32.50 3.51
810 3199 3.808095 CGAGAGAAAGAACGTTCGTAGT 58.192 45.455 21.87 9.97 32.50 2.73
811 3200 4.217497 CGAGAGAAAGAACGTTCGTAGTT 58.783 43.478 21.87 14.45 32.50 2.24
812 3201 4.086804 CGAGAGAAAGAACGTTCGTAGTTG 59.913 45.833 21.87 6.90 32.50 3.16
885 3274 4.555709 TCAAACTGGCGGCCGTGT 62.556 61.111 28.70 19.86 0.00 4.49
952 3341 5.843673 TTATTTATGCTTTGGCGGATCAA 57.156 34.783 0.00 0.00 42.25 2.57
1006 3410 5.616488 ACGAAACAACACCAATATGTACC 57.384 39.130 0.00 0.00 30.75 3.34
1028 3432 2.203153 ATCGGCATTACGGGTGGC 60.203 61.111 0.00 0.00 38.63 5.01
1334 3750 4.492160 TGATCGCACCGTCGAGGC 62.492 66.667 0.00 0.00 46.52 4.70
1413 3835 1.364721 CGTCGTCCATTATGTTGGCA 58.635 50.000 0.00 0.00 36.66 4.92
1440 4321 2.158813 GGTCACCTTCTTGAAGTGTGGA 60.159 50.000 20.74 11.77 33.21 4.02
1617 4507 2.998949 GCCATCCTCCCCGAAACT 59.001 61.111 0.00 0.00 0.00 2.66
1704 4621 2.668632 GCCATCTCCGGTGACCAA 59.331 61.111 8.68 0.00 0.00 3.67
1709 4626 2.483714 CCATCTCCGGTGACCAACTATG 60.484 54.545 8.68 1.25 0.00 2.23
1987 5010 4.103103 CGACGGAGCAGCTCGACA 62.103 66.667 16.47 0.00 0.00 4.35
2293 5334 2.422597 CTGTATGCGGAGTTCAAACCA 58.577 47.619 0.00 0.00 0.00 3.67
2298 5339 1.271108 TGCGGAGTTCAAACCAGCATA 60.271 47.619 0.00 0.00 33.58 3.14
2350 5391 7.591821 TCATAGGGTTAATTATCCTTTTGCCT 58.408 34.615 11.51 3.26 32.46 4.75
2378 5419 2.358898 GTGTCCATGTGCTCAGTTTTGT 59.641 45.455 0.00 0.00 0.00 2.83
2383 5424 1.581934 TGTGCTCAGTTTTGTCCTCG 58.418 50.000 0.00 0.00 0.00 4.63
2397 5438 0.824109 TCCTCGGATGCGAATTGTCT 59.176 50.000 11.42 0.00 0.00 3.41
2401 5442 2.672874 CTCGGATGCGAATTGTCTTCAA 59.327 45.455 11.42 0.00 37.98 2.69
2473 5514 1.271127 TGAGTCCATTCCATCCGCCA 61.271 55.000 0.00 0.00 0.00 5.69
2592 5633 4.101448 GCTCACACCCATCCGCCT 62.101 66.667 0.00 0.00 0.00 5.52
2765 5810 1.002134 CCCACCACCTGCTCGATTT 60.002 57.895 0.00 0.00 0.00 2.17
2903 5948 1.748879 TATTTGGCGAGGCAGGCAC 60.749 57.895 8.61 0.00 46.56 5.01
2939 5984 2.736682 GCGTCCACGATTGGGTTCG 61.737 63.158 2.58 0.00 44.11 3.95
3021 6066 4.289238 TCGAGTAGGTTTGCCCAATTAA 57.711 40.909 0.00 0.00 34.66 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.320587 CCTGTGTTGCAGCTCCGAC 61.321 63.158 1.17 0.00 43.71 4.79
5 6 0.250858 TACATGCCTGTGTTGCAGCT 60.251 50.000 4.73 0.00 42.92 4.24
6 7 0.169672 CTACATGCCTGTGTTGCAGC 59.830 55.000 4.73 0.00 42.92 5.25
8 9 2.495155 ATCTACATGCCTGTGTTGCA 57.505 45.000 4.73 0.00 43.97 4.08
10 11 5.375417 TCAAAATCTACATGCCTGTGTTG 57.625 39.130 4.73 2.40 36.79 3.33
11 12 6.392354 CATTCAAAATCTACATGCCTGTGTT 58.608 36.000 4.73 0.00 36.79 3.32
12 13 5.105635 CCATTCAAAATCTACATGCCTGTGT 60.106 40.000 4.73 0.00 36.79 3.72
13 14 5.345702 CCATTCAAAATCTACATGCCTGTG 58.654 41.667 4.73 0.00 36.79 3.66
14 15 4.403432 CCCATTCAAAATCTACATGCCTGT 59.597 41.667 0.00 0.00 39.49 4.00
15 16 4.403432 ACCCATTCAAAATCTACATGCCTG 59.597 41.667 0.00 0.00 0.00 4.85
16 17 4.613437 ACCCATTCAAAATCTACATGCCT 58.387 39.130 0.00 0.00 0.00 4.75
132 1495 9.110502 CGTAGAATCTAATTTTCTAAGGGCTTT 57.889 33.333 0.00 0.00 37.41 3.51
133 1496 7.715686 CCGTAGAATCTAATTTTCTAAGGGCTT 59.284 37.037 16.54 0.00 44.65 4.35
136 1499 6.145696 CGCCGTAGAATCTAATTTTCTAAGGG 59.854 42.308 21.70 15.87 46.58 3.95
146 1510 5.519206 GTGAAGAAACGCCGTAGAATCTAAT 59.481 40.000 0.00 0.00 0.00 1.73
160 1524 7.588143 ATCTGAGATTACTTGTGAAGAAACG 57.412 36.000 0.00 0.00 0.00 3.60
170 1534 9.689976 CTGGATGTAAGTATCTGAGATTACTTG 57.310 37.037 18.83 5.41 38.68 3.16
173 1537 9.685828 GTTCTGGATGTAAGTATCTGAGATTAC 57.314 37.037 0.00 0.00 0.00 1.89
349 1713 0.963225 TGTCGAACATGAACCGAGGA 59.037 50.000 0.00 0.00 32.65 3.71
575 1949 3.626924 AAAGCCCGAGCGACCAGT 61.627 61.111 0.00 0.00 46.67 4.00
576 1950 3.121030 CAAAGCCCGAGCGACCAG 61.121 66.667 0.00 0.00 46.67 4.00
627 2001 0.874390 GGACATCAGACAAAGCGCAA 59.126 50.000 11.47 0.00 0.00 4.85
629 2003 0.874390 TTGGACATCAGACAAAGCGC 59.126 50.000 0.00 0.00 0.00 5.92
633 2007 8.756486 ATCATATGATTTGGACATCAGACAAA 57.244 30.769 12.62 0.00 36.60 2.83
634 2008 8.756486 AATCATATGATTTGGACATCAGACAA 57.244 30.769 22.65 0.00 41.64 3.18
649 2023 9.871238 GGTATTGTACTACCGAAATCATATGAT 57.129 33.333 12.62 12.62 32.32 2.45
650 2024 8.862085 TGGTATTGTACTACCGAAATCATATGA 58.138 33.333 8.10 8.10 43.53 2.15
651 2025 9.653287 ATGGTATTGTACTACCGAAATCATATG 57.347 33.333 6.78 0.00 43.53 1.78
652 2026 9.653287 CATGGTATTGTACTACCGAAATCATAT 57.347 33.333 6.78 0.00 43.53 1.78
653 2027 8.644216 ACATGGTATTGTACTACCGAAATCATA 58.356 33.333 0.00 0.00 43.53 2.15
654 2028 7.506114 ACATGGTATTGTACTACCGAAATCAT 58.494 34.615 0.00 0.00 43.53 2.45
655 2029 6.880484 ACATGGTATTGTACTACCGAAATCA 58.120 36.000 0.00 0.00 43.53 2.57
657 2031 9.918630 GTATACATGGTATTGTACTACCGAAAT 57.081 33.333 0.00 2.10 43.53 2.17
658 2032 8.911965 TGTATACATGGTATTGTACTACCGAAA 58.088 33.333 0.08 0.00 43.53 3.46
687 2509 0.804989 CCAGACAAAAGGATGGACGC 59.195 55.000 0.00 0.00 34.60 5.19
688 2510 2.185004 ACCAGACAAAAGGATGGACG 57.815 50.000 0.00 0.00 36.62 4.79
689 2511 3.888930 TCAAACCAGACAAAAGGATGGAC 59.111 43.478 0.00 0.00 36.62 4.02
690 2512 4.141274 TCTCAAACCAGACAAAAGGATGGA 60.141 41.667 0.00 0.00 36.62 3.41
692 2514 5.972107 ATCTCAAACCAGACAAAAGGATG 57.028 39.130 0.00 0.00 0.00 3.51
693 2515 5.279156 GCAATCTCAAACCAGACAAAAGGAT 60.279 40.000 0.00 0.00 0.00 3.24
695 2517 4.038402 AGCAATCTCAAACCAGACAAAAGG 59.962 41.667 0.00 0.00 0.00 3.11
697 2519 5.596836 AAGCAATCTCAAACCAGACAAAA 57.403 34.783 0.00 0.00 0.00 2.44
698 2520 5.126869 TGAAAGCAATCTCAAACCAGACAAA 59.873 36.000 0.00 0.00 0.00 2.83
699 2521 4.644234 TGAAAGCAATCTCAAACCAGACAA 59.356 37.500 0.00 0.00 0.00 3.18
700 2522 4.036734 GTGAAAGCAATCTCAAACCAGACA 59.963 41.667 0.00 0.00 0.00 3.41
701 2523 4.540824 GTGAAAGCAATCTCAAACCAGAC 58.459 43.478 0.00 0.00 0.00 3.51
702 2524 3.250762 CGTGAAAGCAATCTCAAACCAGA 59.749 43.478 0.00 0.00 0.00 3.86
703 2525 3.558505 CGTGAAAGCAATCTCAAACCAG 58.441 45.455 0.00 0.00 0.00 4.00
704 2526 2.287547 GCGTGAAAGCAATCTCAAACCA 60.288 45.455 0.00 0.00 37.05 3.67
705 2527 2.030805 AGCGTGAAAGCAATCTCAAACC 60.031 45.455 0.00 0.00 40.15 3.27
706 2528 3.273919 AGCGTGAAAGCAATCTCAAAC 57.726 42.857 0.00 0.00 40.15 2.93
707 2529 3.188460 GGTAGCGTGAAAGCAATCTCAAA 59.812 43.478 0.00 0.00 40.15 2.69
709 2531 2.289382 TGGTAGCGTGAAAGCAATCTCA 60.289 45.455 0.00 0.00 40.15 3.27
710 2532 2.094417 GTGGTAGCGTGAAAGCAATCTC 59.906 50.000 0.00 0.00 40.15 2.75
711 2533 2.076863 GTGGTAGCGTGAAAGCAATCT 58.923 47.619 0.00 0.00 40.15 2.40
713 2535 1.890876 TGTGGTAGCGTGAAAGCAAT 58.109 45.000 0.00 0.00 40.15 3.56
717 2539 1.464608 CCACATGTGGTAGCGTGAAAG 59.535 52.381 32.94 6.34 45.53 2.62
718 2540 1.518325 CCACATGTGGTAGCGTGAAA 58.482 50.000 32.94 0.00 45.53 2.69
719 2541 3.225272 CCACATGTGGTAGCGTGAA 57.775 52.632 32.94 0.00 45.53 3.18
808 3197 3.515562 AGAGGACCTCATCAACTCAACT 58.484 45.455 23.60 0.00 32.06 3.16
809 3198 3.971245 AGAGGACCTCATCAACTCAAC 57.029 47.619 23.60 0.00 32.06 3.18
810 3199 4.707448 GTCTAGAGGACCTCATCAACTCAA 59.293 45.833 23.60 0.00 38.93 3.02
811 3200 4.263949 TGTCTAGAGGACCTCATCAACTCA 60.264 45.833 23.60 9.76 43.89 3.41
812 3201 4.097286 GTGTCTAGAGGACCTCATCAACTC 59.903 50.000 23.60 11.98 43.89 3.01
1018 3422 0.320374 CAAGACTCTGCCACCCGTAA 59.680 55.000 0.00 0.00 0.00 3.18
1028 3432 1.618861 CGTTACGAGGCAAGACTCTG 58.381 55.000 0.00 0.00 35.33 3.35
1122 3526 0.680280 TGTAGACGTGGAGGAGAGGC 60.680 60.000 0.00 0.00 0.00 4.70
1129 3533 2.202623 GGCGCTGTAGACGTGGAG 60.203 66.667 7.64 0.00 0.00 3.86
1271 3687 3.554692 CGCCGTTGCAGTCGATCC 61.555 66.667 13.49 3.03 37.32 3.36
1413 3835 1.131638 TCAAGAAGGTGACCTGTGCT 58.868 50.000 4.15 0.00 32.13 4.40
1440 4321 4.890207 GTCCCTAGGACCACACCT 57.110 61.111 11.48 0.00 46.19 4.00
1607 4497 4.631493 TGGAGACAGTTTCGGGGA 57.369 55.556 0.00 0.00 35.01 4.81
1987 5010 2.259818 CGACCTCAGCAGCTCGTT 59.740 61.111 0.00 0.00 0.00 3.85
2239 5280 2.484889 GAACTTCTTGAGAGTTGCCGT 58.515 47.619 0.00 0.00 0.00 5.68
2244 5285 2.667137 CGCTCGAACTTCTTGAGAGTT 58.333 47.619 0.00 0.00 31.31 3.01
2281 5322 4.575885 TGTACTATGCTGGTTTGAACTCC 58.424 43.478 0.00 0.00 0.00 3.85
2298 5339 5.620738 ATGATCACAACCTAGCATGTACT 57.379 39.130 0.00 0.00 0.00 2.73
2350 5391 0.473755 AGCACATGGACACCACTGAA 59.526 50.000 0.00 0.00 35.80 3.02
2378 5419 0.824109 AGACAATTCGCATCCGAGGA 59.176 50.000 0.00 0.00 45.35 3.71
2397 5438 2.040545 TCGGACTAGGGGCAAAATTGAA 59.959 45.455 0.00 0.00 0.00 2.69
2401 5442 0.107165 GCTCGGACTAGGGGCAAAAT 60.107 55.000 0.00 0.00 0.00 1.82
2473 5514 0.250166 GACCCACAACCACTAACGCT 60.250 55.000 0.00 0.00 0.00 5.07
2750 5795 2.034879 CGCAAATCGAGCAGGTGGT 61.035 57.895 0.00 0.00 41.67 4.16
2822 5867 8.479689 GTTCTTCCTCCTAGTTTAAATAGCTCT 58.520 37.037 0.00 0.00 0.00 4.09
3021 6066 1.338484 ACAGAGACGCAATCAGCACAT 60.338 47.619 0.00 0.00 46.13 3.21
3074 6119 3.956199 CCCTTCTAATGTGCACCATGAAT 59.044 43.478 15.69 0.00 32.82 2.57
3173 6218 3.256631 CCCCAAATTGTCTGAAACTCCAG 59.743 47.826 0.00 0.00 35.55 3.86


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

AutoCloner maintained by Alex Coulton.