Multiple sequence alignment - TraesCS2A01G283900

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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 TraesCS2A01G283900 chr2A 100.000 3918 0 0 1 3918 475881978 475878061 0.000000e+00 7236.0
1 TraesCS2A01G283900 chr2A 95.745 47 1 1 3514 3560 475878420 475878375 1.510000e-09 75.0
2 TraesCS2A01G283900 chr2A 95.745 47 1 1 3559 3604 475878465 475878419 1.510000e-09 75.0
3 TraesCS2A01G283900 chr2D 95.278 3113 77 26 821 3899 355687992 355684916 0.000000e+00 4870.0
4 TraesCS2A01G283900 chr2D 89.216 510 40 8 1 510 355701983 355701489 1.200000e-174 623.0
5 TraesCS2A01G283900 chr2D 94.704 321 11 5 498 812 355689914 355689594 9.780000e-136 494.0
6 TraesCS2A01G283900 chr2D 82.919 322 45 6 2 321 348620377 348620690 8.290000e-72 281.0
7 TraesCS2A01G283900 chr2D 95.745 47 0 1 3514 3560 355685255 355685211 1.510000e-09 75.0
8 TraesCS2A01G283900 chr2D 95.745 47 1 1 3559 3604 355685300 355685254 1.510000e-09 75.0
9 TraesCS2A01G283900 chr2B 92.857 2184 91 34 1418 3559 423668952 423666792 0.000000e+00 3109.0
10 TraesCS2A01G283900 chr2B 93.976 913 26 9 535 1419 423669924 423669013 0.000000e+00 1354.0
11 TraesCS2A01G283900 chr2B 89.416 548 55 3 1 548 423670508 423669964 0.000000e+00 688.0
12 TraesCS2A01G283900 chr2B 90.489 368 26 3 3559 3918 423666837 423666471 9.850000e-131 477.0
13 TraesCS2A01G283900 chr2B 93.182 44 0 1 2625 2665 115903419 115903462 1.180000e-05 62.1
14 TraesCS2A01G283900 chr1B 75.605 537 102 25 4 527 31865303 31865823 5.060000e-59 239.0
15 TraesCS2A01G283900 chr6D 76.293 464 86 18 40 491 455014337 455014788 3.940000e-55 226.0
16 TraesCS2A01G283900 chr6A 77.033 418 70 13 63 471 180588981 180589381 2.370000e-52 217.0
17 TraesCS2A01G283900 chr4A 79.801 302 48 8 66 364 628610279 628609988 1.430000e-49 207.0
18 TraesCS2A01G283900 chr3B 74.105 475 99 19 62 525 497466323 497465862 1.450000e-39 174.0
19 TraesCS2A01G283900 chr1D 76.573 286 54 9 251 527 385901330 385901049 1.130000e-30 145.0


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 TraesCS2A01G283900 chr2A 475878061 475881978 3917 True 2462.000000 7236 97.163333 1 3918 3 chr2A.!!$R1 3917
1 TraesCS2A01G283900 chr2D 355684916 355687992 3076 True 1673.333333 4870 95.589333 821 3899 3 chr2D.!!$R3 3078
2 TraesCS2A01G283900 chr2B 423666471 423670508 4037 True 1407.000000 3109 91.684500 1 3918 4 chr2B.!!$R1 3917
3 TraesCS2A01G283900 chr1B 31865303 31865823 520 False 239.000000 239 75.605000 4 527 1 chr1B.!!$F1 523

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
760 827 0.889186 ATTCCGTGACAACCACTGGC 60.889 55.000 0.0 0.0 43.53 4.85 F
1593 1756 1.886542 TGAGCAGTTGAAGACGCTAGA 59.113 47.619 0.0 0.0 37.93 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2127 2292 0.323633 TGGGGGTGCATCTGACATTG 60.324 55.0 0.00 0.0 0.00 2.82 R
2962 3137 0.323360 GCCTTGGCACCCATCTAACA 60.323 55.0 6.79 0.0 31.53 2.41 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
37 38 9.750125 GAATTTTATTGACTTTTCTGTGGTTCT 57.250 29.630 0.00 0.00 0.00 3.01
38 39 9.533253 AATTTTATTGACTTTTCTGTGGTTCTG 57.467 29.630 0.00 0.00 0.00 3.02
63 64 6.908870 TTGCTGCATAACTAAGTAGTCATG 57.091 37.500 1.84 0.00 35.48 3.07
74 75 2.113807 AGTAGTCATGCATGCTCTCCA 58.886 47.619 22.25 0.00 0.00 3.86
105 106 4.853924 TCTTCTTTGGCCAAGTTTGATC 57.146 40.909 19.48 0.00 33.66 2.92
140 141 5.358160 CAGAGTGAGTGGTGTATGATAGTGA 59.642 44.000 0.00 0.00 0.00 3.41
179 183 5.537300 TTCTATATCCCAGTGACAAGAGC 57.463 43.478 0.00 0.00 0.00 4.09
249 253 7.667043 ATAGTGTTTTCTTTATCACGCTTGA 57.333 32.000 0.00 0.00 36.16 3.02
310 314 3.577667 TGCAATGCTCTGTTTGTTATGC 58.422 40.909 6.82 0.00 0.00 3.14
319 323 8.279970 TGCTCTGTTTGTTATGCACTTAATAT 57.720 30.769 0.00 0.00 0.00 1.28
325 329 9.407380 TGTTTGTTATGCACTTAATATCCTGAT 57.593 29.630 0.00 0.00 0.00 2.90
398 403 6.625873 TGCATTAACAGTTTACATGTCACA 57.374 33.333 0.00 0.00 0.00 3.58
399 404 7.032377 TGCATTAACAGTTTACATGTCACAA 57.968 32.000 0.00 0.00 0.00 3.33
403 408 8.957028 CATTAACAGTTTACATGTCACAAACAG 58.043 33.333 19.71 15.58 42.37 3.16
404 409 5.499139 ACAGTTTACATGTCACAAACAGG 57.501 39.130 19.71 14.78 45.14 4.00
409 414 1.536766 ACATGTCACAAACAGGATGCG 59.463 47.619 0.00 0.00 42.26 4.73
417 422 6.819146 TGTCACAAACAGGATGCGTATATTAA 59.181 34.615 0.00 0.00 42.53 1.40
426 431 7.125755 CAGGATGCGTATATTAAATTATGCCG 58.874 38.462 8.80 0.00 30.84 5.69
432 437 7.813627 TGCGTATATTAAATTATGCCGTGAGTA 59.186 33.333 8.80 0.00 30.84 2.59
469 480 6.805016 ATATTGCAATTTAATCACCACCCA 57.195 33.333 18.75 0.00 0.00 4.51
487 498 5.163457 CCACCCAAACTGTAATTTGTTCACT 60.163 40.000 0.00 0.00 37.79 3.41
494 505 9.515020 CAAACTGTAATTTGTTCACTACAACAT 57.485 29.630 0.00 0.00 46.09 2.71
548 559 9.770097 AGTGATGAGACTATGTACCATTTTATG 57.230 33.333 0.00 0.00 0.00 1.90
549 560 9.764363 GTGATGAGACTATGTACCATTTTATGA 57.236 33.333 0.00 0.00 0.00 2.15
559 623 6.716284 TGTACCATTTTATGATGTGAGTGGA 58.284 36.000 0.00 0.00 0.00 4.02
562 626 5.882557 ACCATTTTATGATGTGAGTGGAGAC 59.117 40.000 0.00 0.00 0.00 3.36
563 627 6.118170 CCATTTTATGATGTGAGTGGAGACT 58.882 40.000 0.00 0.00 33.98 3.24
564 628 7.092891 ACCATTTTATGATGTGAGTGGAGACTA 60.093 37.037 0.00 0.00 30.16 2.59
566 630 8.771766 CATTTTATGATGTGAGTGGAGACTATG 58.228 37.037 0.00 0.00 30.16 2.23
567 631 7.660030 TTTATGATGTGAGTGGAGACTATGA 57.340 36.000 0.00 0.00 30.16 2.15
581 648 6.381133 TGGAGACTATGAGCTGAAATAACTCA 59.619 38.462 0.00 0.00 44.06 3.41
746 813 9.840427 ATTTATCTTTCACAGTTTTGTATTCCG 57.160 29.630 0.00 0.00 35.25 4.30
754 821 4.035909 ACAGTTTTGTATTCCGTGACAACC 59.964 41.667 0.00 0.00 35.35 3.77
755 822 4.035792 CAGTTTTGTATTCCGTGACAACCA 59.964 41.667 0.00 0.00 35.35 3.67
756 823 4.035909 AGTTTTGTATTCCGTGACAACCAC 59.964 41.667 0.00 0.00 42.30 4.16
757 824 3.478857 TTGTATTCCGTGACAACCACT 57.521 42.857 0.00 0.00 43.53 4.00
758 825 2.761559 TGTATTCCGTGACAACCACTG 58.238 47.619 0.00 0.00 43.53 3.66
760 827 0.889186 ATTCCGTGACAACCACTGGC 60.889 55.000 0.00 0.00 43.53 4.85
761 828 3.345808 CCGTGACAACCACTGGCG 61.346 66.667 0.00 0.00 43.53 5.69
777 845 4.870426 CACTGGCGTTCAAATAGTAGACAT 59.130 41.667 0.00 0.00 0.00 3.06
779 847 6.199154 CACTGGCGTTCAAATAGTAGACATAG 59.801 42.308 0.00 0.00 0.00 2.23
838 919 9.230122 TGAGCAACTTTTGAGACATATAAATGA 57.770 29.630 0.00 0.00 36.54 2.57
1234 1326 3.274586 CCGACTCCGACGCCGATA 61.275 66.667 0.00 0.00 38.22 2.92
1338 1430 4.015406 TCCATTGCCGCGGTGTCT 62.015 61.111 28.70 6.41 0.00 3.41
1419 1511 2.483013 CGTGTGTGAACCTGAGGAGAAA 60.483 50.000 4.99 0.00 0.00 2.52
1420 1512 2.872858 GTGTGTGAACCTGAGGAGAAAC 59.127 50.000 4.99 0.00 0.00 2.78
1459 1613 6.815089 TGGTACAGCTTTGAATGAAAAATGT 58.185 32.000 0.00 0.00 0.00 2.71
1502 1656 3.628032 GGGCCTATTTGAAACTAGTGAGC 59.372 47.826 0.84 0.00 0.00 4.26
1503 1657 4.518249 GGCCTATTTGAAACTAGTGAGCT 58.482 43.478 0.00 0.00 0.00 4.09
1587 1750 3.854784 GCCACATTTGAGCAGTTGAAGAC 60.855 47.826 0.00 0.00 0.00 3.01
1592 1755 2.354109 TGAGCAGTTGAAGACGCTAG 57.646 50.000 0.00 0.00 37.93 3.42
1593 1756 1.886542 TGAGCAGTTGAAGACGCTAGA 59.113 47.619 0.00 0.00 37.93 2.43
1651 1814 2.104170 GGTCATTAAATGGGGGCGAAA 58.896 47.619 0.00 0.00 0.00 3.46
1688 1853 5.927281 AGCCGACTTGTTTATCCTACTAA 57.073 39.130 0.00 0.00 0.00 2.24
1689 1854 5.658468 AGCCGACTTGTTTATCCTACTAAC 58.342 41.667 0.00 0.00 0.00 2.34
1690 1855 5.421374 AGCCGACTTGTTTATCCTACTAACT 59.579 40.000 0.00 0.00 0.00 2.24
1691 1856 6.604795 AGCCGACTTGTTTATCCTACTAACTA 59.395 38.462 0.00 0.00 0.00 2.24
1692 1857 6.694844 GCCGACTTGTTTATCCTACTAACTAC 59.305 42.308 0.00 0.00 0.00 2.73
1693 1858 7.416101 GCCGACTTGTTTATCCTACTAACTACT 60.416 40.741 0.00 0.00 0.00 2.57
1694 1859 9.113838 CCGACTTGTTTATCCTACTAACTACTA 57.886 37.037 0.00 0.00 0.00 1.82
1860 2025 4.651503 ACATCCAGTGTCGATCTAATTCCT 59.348 41.667 0.00 0.00 35.77 3.36
1919 2084 9.562408 TGATTACTAGGTTCACATTTTGTTACA 57.438 29.630 0.00 0.00 0.00 2.41
2127 2292 0.963962 TGGTACCAGGTCAGTCGTTC 59.036 55.000 11.60 0.00 0.00 3.95
2160 2325 4.044317 TGCACCCCCAAGTAACCTATTTTA 59.956 41.667 0.00 0.00 0.00 1.52
2170 2335 9.736023 CCAAGTAACCTATTTTAAATGAGATGC 57.264 33.333 0.00 0.00 0.00 3.91
2183 2348 1.496001 TGAGATGCCCATATTGGTGCT 59.504 47.619 0.00 0.00 35.17 4.40
2262 2428 1.112916 AAAACAGGCCGGTCTTTGGG 61.113 55.000 5.38 0.00 0.00 4.12
2364 2530 9.283768 TGTCTTGTTCATTCTGTTGTATACATT 57.716 29.630 6.36 0.00 35.85 2.71
2454 2620 0.396556 TTGCCATCATCTGCATGCCT 60.397 50.000 16.68 0.00 37.33 4.75
2455 2621 0.396556 TGCCATCATCTGCATGCCTT 60.397 50.000 16.68 0.00 31.31 4.35
2611 2780 6.786759 TTCCAGTGTGTCCCTAGTGGAAGA 62.787 50.000 8.94 0.00 46.28 2.87
2690 2862 2.994186 TAATTTGGGACGGAGGTAGC 57.006 50.000 0.00 0.00 0.00 3.58
2729 2901 3.938963 GGAAGTTCAAATCGGCTGTATGA 59.061 43.478 5.01 0.00 0.00 2.15
2748 2920 9.524106 CTGTATGACAACTTACAATATCCGTTA 57.476 33.333 0.00 0.00 36.63 3.18
2767 2939 9.621629 ATCCGTTATTTTAATCCAGTAACATGA 57.378 29.630 0.00 0.00 0.00 3.07
2768 2940 8.885722 TCCGTTATTTTAATCCAGTAACATGAC 58.114 33.333 0.00 0.00 0.00 3.06
3052 3227 4.100963 ACCAAAGTAGATGCGATATGACCA 59.899 41.667 0.00 0.00 0.00 4.02
3056 3231 7.315890 CAAAGTAGATGCGATATGACCAGATA 58.684 38.462 0.00 0.00 0.00 1.98
3130 3329 8.891671 AGAAATGTAACTAGTAACCGAAACAA 57.108 30.769 0.00 0.00 0.00 2.83
3323 3522 7.472543 TCTTTTAAGTGAAAGTGCTGAAAGAC 58.527 34.615 0.00 0.00 37.76 3.01
3341 3540 4.060038 AGACCGTGATATGCCTGTAAAG 57.940 45.455 0.00 0.00 0.00 1.85
3375 3575 2.283145 AGCTGTGCAATTTGGTCTCT 57.717 45.000 0.00 0.00 0.00 3.10
3384 3584 4.701651 TGCAATTTGGTCTCTCATTCGATT 59.298 37.500 0.00 0.00 0.00 3.34
3403 3605 8.801882 TTCGATTGTATTTATTCAGGGAGTTT 57.198 30.769 0.00 0.00 0.00 2.66
3568 3775 4.446371 GCAATACTGTAGTGCCATTCTCT 58.554 43.478 25.05 0.00 43.36 3.10
3689 3896 6.254589 TGCATTGTTTAGTTTTCCTTGTTTCG 59.745 34.615 0.00 0.00 0.00 3.46
3781 3988 4.058124 TGTGAACAATCTGGTTCTCGAAG 58.942 43.478 7.47 0.00 45.74 3.79
3790 3997 0.944311 GGTTCTCGAAGTTGCGCAGA 60.944 55.000 11.31 2.66 0.00 4.26
3792 3999 0.032130 TTCTCGAAGTTGCGCAGACT 59.968 50.000 11.31 14.44 0.00 3.24
3853 4060 6.127730 CCAAATTCTACCGAGCAACCTTTAAT 60.128 38.462 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 6.227522 TGACTACTTAGTTATGCAGCAAACA 58.772 36.000 17.38 0.00 36.50 2.83
38 39 6.721571 TGACTACTTAGTTATGCAGCAAAC 57.278 37.500 0.00 5.78 36.50 2.93
63 64 6.388435 AGAAAAATAGATTGGAGAGCATGC 57.612 37.500 10.51 10.51 0.00 4.06
74 75 7.966812 ACTTGGCCAAAGAAGAAAAATAGATT 58.033 30.769 20.91 0.00 39.38 2.40
105 106 4.279671 ACCACTCACTCTGAAGAACTACTG 59.720 45.833 0.00 0.00 0.00 2.74
156 157 5.843421 AGCTCTTGTCACTGGGATATAGAAT 59.157 40.000 0.00 0.00 0.00 2.40
158 159 4.586421 CAGCTCTTGTCACTGGGATATAGA 59.414 45.833 0.00 0.00 0.00 1.98
167 171 2.799412 GTCTTGTCAGCTCTTGTCACTG 59.201 50.000 0.00 0.00 0.00 3.66
225 229 7.667043 TCAAGCGTGATAAAGAAAACACTAT 57.333 32.000 0.00 0.00 0.00 2.12
226 230 7.485418 TTCAAGCGTGATAAAGAAAACACTA 57.515 32.000 2.36 0.00 32.48 2.74
228 232 6.855914 TCATTCAAGCGTGATAAAGAAAACAC 59.144 34.615 2.36 0.00 32.48 3.32
229 233 6.964908 TCATTCAAGCGTGATAAAGAAAACA 58.035 32.000 2.36 0.00 32.48 2.83
310 314 7.825761 TCCACATGCATATCAGGATATTAAGTG 59.174 37.037 0.00 0.00 31.98 3.16
319 323 5.072193 ACTGTTATCCACATGCATATCAGGA 59.928 40.000 0.00 4.94 33.76 3.86
325 329 5.589855 CCAAAGACTGTTATCCACATGCATA 59.410 40.000 0.00 0.00 33.76 3.14
377 382 8.848948 TGTTTGTGACATGTAAACTGTTAATG 57.151 30.769 18.70 1.71 35.80 1.90
398 403 9.840427 GCATAATTTAATATACGCATCCTGTTT 57.160 29.630 0.00 0.00 0.00 2.83
399 404 8.458843 GGCATAATTTAATATACGCATCCTGTT 58.541 33.333 0.00 0.00 0.00 3.16
403 408 6.905076 CACGGCATAATTTAATATACGCATCC 59.095 38.462 0.00 0.00 0.00 3.51
404 409 7.680982 TCACGGCATAATTTAATATACGCATC 58.319 34.615 0.00 0.00 0.00 3.91
417 422 8.846943 TGATTATGATTACTCACGGCATAATT 57.153 30.769 0.00 0.00 40.35 1.40
462 473 4.712337 TGAACAAATTACAGTTTGGGTGGT 59.288 37.500 4.63 0.00 42.07 4.16
465 476 6.603997 TGTAGTGAACAAATTACAGTTTGGGT 59.396 34.615 4.63 0.00 42.07 4.51
487 498 9.330063 CTCTCCAAGCAAAATAGATATGTTGTA 57.670 33.333 4.99 0.00 34.20 2.41
494 505 6.000219 GCCATCTCTCCAAGCAAAATAGATA 59.000 40.000 0.00 0.00 0.00 1.98
497 508 4.205587 AGCCATCTCTCCAAGCAAAATAG 58.794 43.478 0.00 0.00 0.00 1.73
548 559 3.636300 AGCTCATAGTCTCCACTCACATC 59.364 47.826 0.00 0.00 33.62 3.06
549 560 3.384146 CAGCTCATAGTCTCCACTCACAT 59.616 47.826 0.00 0.00 33.62 3.21
566 630 6.917217 AGTAAGCATGAGTTATTTCAGCTC 57.083 37.500 0.00 0.00 33.48 4.09
567 631 7.560368 AGTAGTAAGCATGAGTTATTTCAGCT 58.440 34.615 0.00 0.00 34.95 4.24
638 705 9.453572 AACAACATCAGCTGAATAGAGAAAATA 57.546 29.630 22.50 0.00 0.00 1.40
746 813 1.092921 TGAACGCCAGTGGTTGTCAC 61.093 55.000 11.74 8.51 46.39 3.67
754 821 4.242475 TGTCTACTATTTGAACGCCAGTG 58.758 43.478 0.00 0.00 0.00 3.66
755 822 4.530710 TGTCTACTATTTGAACGCCAGT 57.469 40.909 0.00 0.00 0.00 4.00
756 823 6.504398 TCTATGTCTACTATTTGAACGCCAG 58.496 40.000 0.00 0.00 0.00 4.85
757 824 6.459670 TCTATGTCTACTATTTGAACGCCA 57.540 37.500 0.00 0.00 0.00 5.69
758 825 7.948278 AATCTATGTCTACTATTTGAACGCC 57.052 36.000 0.00 0.00 0.00 5.68
939 1022 1.904032 AGCTTAGCTCAGTCCTGGC 59.096 57.895 0.00 0.00 30.62 4.85
1338 1430 2.650322 AGTTCTCACCTGAGTAGAGGGA 59.350 50.000 2.25 0.00 42.60 4.20
1419 1511 5.745227 CTGTACCATTGAAATGTCCCTAGT 58.255 41.667 2.55 0.00 34.60 2.57
1420 1512 4.576463 GCTGTACCATTGAAATGTCCCTAG 59.424 45.833 2.55 0.00 34.60 3.02
1459 1613 5.241506 GCCCATATCTCCAAAATCGAAATGA 59.758 40.000 0.00 0.00 0.00 2.57
1503 1657 8.591122 CTTGAGTCAGACAAGAAAAGGCACTTA 61.591 40.741 2.66 0.00 46.61 2.24
1587 1750 6.513180 TGTTCTAGGGAAATAATGTCTAGCG 58.487 40.000 0.00 0.00 32.81 4.26
1592 1755 8.478877 TCTCTTCTGTTCTAGGGAAATAATGTC 58.521 37.037 0.00 0.00 32.81 3.06
1593 1756 8.380742 TCTCTTCTGTTCTAGGGAAATAATGT 57.619 34.615 0.00 0.00 32.81 2.71
1651 1814 1.418637 TCGGCTACCCAAAGTTCTTGT 59.581 47.619 0.00 0.00 0.00 3.16
1708 1873 0.727398 CTCGGAACCAAAATCTCGGC 59.273 55.000 0.00 0.00 0.00 5.54
2127 2292 0.323633 TGGGGGTGCATCTGACATTG 60.324 55.000 0.00 0.00 0.00 2.82
2160 2325 3.322828 GCACCAATATGGGCATCTCATTT 59.677 43.478 0.00 0.00 43.37 2.32
2170 2335 7.394077 TCAATATGTCATAAGCACCAATATGGG 59.606 37.037 0.00 0.00 43.37 4.00
2454 2620 9.703892 CATACATCAACCTTGGTAAATTCAAAA 57.296 29.630 0.00 0.00 0.00 2.44
2455 2621 8.865090 ACATACATCAACCTTGGTAAATTCAAA 58.135 29.630 0.00 0.00 0.00 2.69
2547 2715 6.655425 GCTAGGGGTACTTAAATGATCCATTC 59.345 42.308 0.00 0.00 32.43 2.67
2748 2920 9.391006 ACGTATGTCATGTTACTGGATTAAAAT 57.609 29.630 0.00 0.00 0.00 1.82
2767 2939 7.388437 TCCTTACCAGAAAAATGTACGTATGT 58.612 34.615 0.00 0.00 0.00 2.29
2768 2940 7.837202 TCCTTACCAGAAAAATGTACGTATG 57.163 36.000 0.00 0.00 0.00 2.39
2770 2942 7.444299 ACTTCCTTACCAGAAAAATGTACGTA 58.556 34.615 0.00 0.00 0.00 3.57
2911 3086 1.593196 TAGCAGCAACAACTCACACC 58.407 50.000 0.00 0.00 0.00 4.16
2962 3137 0.323360 GCCTTGGCACCCATCTAACA 60.323 55.000 6.79 0.00 31.53 2.41
3056 3231 7.219917 CACGATTTCACAATTTTGTAACAGTGT 59.780 33.333 0.00 0.00 39.91 3.55
3130 3329 3.371595 GGGTCCAATATGCACCTTACACT 60.372 47.826 0.00 0.00 0.00 3.55
3323 3522 6.861065 AAATACTTTACAGGCATATCACGG 57.139 37.500 0.00 0.00 0.00 4.94
3341 3540 6.677781 TGCACAGCTAATGGACTAAAATAC 57.322 37.500 0.00 0.00 0.00 1.89
3375 3575 8.210946 ACTCCCTGAATAAATACAATCGAATGA 58.789 33.333 7.64 0.00 0.00 2.57
3384 3584 8.607713 TCCTACAAAACTCCCTGAATAAATACA 58.392 33.333 0.00 0.00 0.00 2.29
3568 3775 7.048629 TGCATGAAGATGTTTCTTGGTTAAA 57.951 32.000 0.00 0.00 42.34 1.52
3637 3844 5.904984 TTGTATGGCATATCTACTGGGTT 57.095 39.130 10.92 0.00 0.00 4.11
3717 3924 7.403312 AATTGGTTGTTCGATGATCCATTAA 57.597 32.000 0.00 0.00 0.00 1.40
3718 3925 7.403312 AAATTGGTTGTTCGATGATCCATTA 57.597 32.000 0.00 0.00 0.00 1.90
3721 3928 5.943416 ACTAAATTGGTTGTTCGATGATCCA 59.057 36.000 0.00 0.00 0.00 3.41
3790 3997 6.124340 TCATTTCCACTGAATGATGCATAGT 58.876 36.000 0.00 0.00 38.29 2.12
3792 3999 7.339976 TCTTTCATTTCCACTGAATGATGCATA 59.660 33.333 0.00 0.00 41.61 3.14


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

AutoCloner maintained by Alex Coulton.