Multiple sequence alignment - TraesCS3A01G302800

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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 TraesCS3A01G302800 chr3A 100.000 2405 0 0 1 2405 536773492 536775896 0.000000e+00 4442.0
1 TraesCS3A01G302800 chr3B 91.657 1642 87 12 771 2405 540192518 540190920 0.000000e+00 2228.0
2 TraesCS3A01G302800 chr3D 95.055 991 42 6 711 1696 414164673 414163685 0.000000e+00 1552.0
3 TraesCS3A01G302800 chr3D 90.332 662 50 6 1744 2405 414163537 414162890 0.000000e+00 856.0
4 TraesCS3A01G302800 chr3D 94.186 86 4 1 2176 2260 602861968 602862053 1.940000e-26 130.0
5 TraesCS3A01G302800 chr4D 95.531 716 29 2 1 715 27564499 27565212 0.000000e+00 1142.0
6 TraesCS3A01G302800 chr4D 91.667 96 5 3 2176 2268 123399311 123399216 1.940000e-26 130.0
7 TraesCS3A01G302800 chr4D 91.667 96 5 3 2176 2268 134960801 134960706 1.940000e-26 130.0
8 TraesCS3A01G302800 chr7A 94.498 418 21 2 300 715 43494507 43494924 0.000000e+00 643.0
9 TraesCS3A01G302800 chr7A 94.258 418 22 2 300 715 45730515 45730932 2.610000e-179 638.0
10 TraesCS3A01G302800 chr7A 95.676 185 5 2 534 715 628665134 628664950 6.500000e-76 294.0
11 TraesCS3A01G302800 chr2A 94.695 377 19 1 339 714 753383454 753383830 3.450000e-163 584.0
12 TraesCS3A01G302800 chr7D 80.992 363 65 3 356 716 622393329 622392969 3.910000e-73 285.0
13 TraesCS3A01G302800 chr7D 91.667 96 5 3 2176 2268 382087591 382087496 1.940000e-26 130.0
14 TraesCS3A01G302800 chr7D 94.186 86 4 1 2176 2260 626713403 626713488 1.940000e-26 130.0
15 TraesCS3A01G302800 chr7D 88.710 62 4 2 655 715 459753428 459753487 3.320000e-09 73.1
16 TraesCS3A01G302800 chr5B 92.248 129 10 0 2045 2173 429040012 429040140 1.470000e-42 183.0
17 TraesCS3A01G302800 chr5D 95.604 91 3 1 626 715 530167405 530167315 6.930000e-31 145.0
18 TraesCS3A01G302800 chrUn 91.667 96 5 3 2176 2268 171006073 171005978 1.940000e-26 130.0
19 TraesCS3A01G302800 chr1D 94.186 86 4 1 2176 2260 212447781 212447866 1.940000e-26 130.0
20 TraesCS3A01G302800 chr6D 93.617 47 2 1 2295 2341 57940293 57940338 4.290000e-08 69.4


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 TraesCS3A01G302800 chr3A 536773492 536775896 2404 False 4442 4442 100.0000 1 2405 1 chr3A.!!$F1 2404
1 TraesCS3A01G302800 chr3B 540190920 540192518 1598 True 2228 2228 91.6570 771 2405 1 chr3B.!!$R1 1634
2 TraesCS3A01G302800 chr3D 414162890 414164673 1783 True 1204 1552 92.6935 711 2405 2 chr3D.!!$R1 1694
3 TraesCS3A01G302800 chr4D 27564499 27565212 713 False 1142 1142 95.5310 1 715 1 chr4D.!!$F1 714

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
578 579 0.39113 TGGTCGCACATCACTTAGCC 60.391 55.0 0.0 0.0 0.0 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1443 1451 0.03601 GCATGACACAGCACCCTAGT 60.036 55.0 0.0 0.0 0.0 2.57 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
40 41 2.119495 AGGGCTACAGGAATCAATCGT 58.881 47.619 0.00 0.00 0.00 3.73
41 42 2.103263 AGGGCTACAGGAATCAATCGTC 59.897 50.000 0.00 0.00 0.00 4.20
50 51 2.104144 GAATCAATCGTCGTTGCATGC 58.896 47.619 11.82 11.82 0.00 4.06
117 118 2.742372 CCGCCCCAACTCGAACAG 60.742 66.667 0.00 0.00 0.00 3.16
154 155 5.473039 AGCTCTAACATCAAATTTTGGTGC 58.527 37.500 19.81 7.08 45.65 5.01
160 161 3.244976 CATCAAATTTTGGTGCCGTCTC 58.755 45.455 9.34 0.00 34.60 3.36
185 186 3.327757 TCTCTAGTGCACCACCTGAAATT 59.672 43.478 14.63 0.00 34.49 1.82
204 205 4.510167 ATTATGTGGACAAAGCCTAGCT 57.490 40.909 0.00 0.00 42.56 3.32
281 282 3.643398 GGAGTAGTCCCCCGCAAT 58.357 61.111 5.14 0.00 36.76 3.56
290 291 1.304052 CCCCCGCAATTGTTCTGGA 60.304 57.895 7.40 0.00 0.00 3.86
388 389 4.779993 AAGGAATGGATCTACTGGAACC 57.220 45.455 0.00 0.00 37.40 3.62
418 419 0.971386 TCGTGGGTTACCTTGGAGTC 59.029 55.000 0.00 0.00 37.76 3.36
424 425 3.181415 TGGGTTACCTTGGAGTCTGACTA 60.181 47.826 10.86 0.00 37.76 2.59
431 432 4.597507 ACCTTGGAGTCTGACTATTTGGAA 59.402 41.667 10.86 0.00 0.00 3.53
520 521 0.868406 GCTAGAGCAAAGCACGTTGT 59.132 50.000 0.00 0.00 39.83 3.32
578 579 0.391130 TGGTCGCACATCACTTAGCC 60.391 55.000 0.00 0.00 0.00 3.93
584 585 2.665519 CGCACATCACTTAGCCAAACAC 60.666 50.000 0.00 0.00 0.00 3.32
585 586 2.554032 GCACATCACTTAGCCAAACACT 59.446 45.455 0.00 0.00 0.00 3.55
640 641 6.732896 TGATGATCCTCCTAGTTTCTTACC 57.267 41.667 0.00 0.00 0.00 2.85
769 773 4.019174 AGTTCCATTGATCCATTCACCAC 58.981 43.478 0.00 0.00 32.84 4.16
1237 1245 3.386867 AAGTACTACCCGCGCGACG 62.387 63.158 34.63 23.06 43.15 5.12
1422 1430 2.605854 GATCCAGGTGAGGGCTGCTG 62.606 65.000 0.00 0.00 0.00 4.41
1443 1451 4.108570 TGCCTTTAGATCTGGGGTTAGAA 58.891 43.478 5.18 0.00 0.00 2.10
1451 1459 2.829023 TCTGGGGTTAGAACTAGGGTG 58.171 52.381 0.00 0.00 0.00 4.61
1453 1461 1.203389 TGGGGTTAGAACTAGGGTGCT 60.203 52.381 0.00 0.00 35.16 4.40
1466 1474 2.338015 GGTGCTGTGTCATGCAGGG 61.338 63.158 0.00 0.00 40.06 4.45
1474 1482 2.094675 GTGTCATGCAGGGCTAATTGT 58.905 47.619 3.97 0.00 0.00 2.71
1499 1507 9.495754 GTAATCTTTATCTGAATCAGTGTTTGC 57.504 33.333 10.36 0.00 32.61 3.68
1554 1566 4.715896 CGTCAGTACGTGTGTATAGTTGT 58.284 43.478 0.00 0.00 44.21 3.32
1558 1570 7.482743 CGTCAGTACGTGTGTATAGTTGTTAAT 59.517 37.037 0.00 0.00 44.21 1.40
1565 1577 6.183360 CGTGTGTATAGTTGTTAATCCAACCC 60.183 42.308 5.56 0.00 44.60 4.11
1590 1602 6.558009 TGCTTTGTGAAATGAGATATTCTGC 58.442 36.000 0.00 0.00 0.00 4.26
1637 1649 7.226720 AGTTAGCTAATTATGATGGTTGGTTCG 59.773 37.037 9.88 0.00 0.00 3.95
1696 1708 1.721487 GCATCATGCGGCGTAAGTT 59.279 52.632 9.37 0.00 34.04 2.66
1697 1709 0.098728 GCATCATGCGGCGTAAGTTT 59.901 50.000 9.37 0.00 34.04 2.66
1698 1710 1.467374 GCATCATGCGGCGTAAGTTTT 60.467 47.619 9.37 0.00 34.04 2.43
1699 1711 2.862512 CATCATGCGGCGTAAGTTTTT 58.137 42.857 9.37 0.00 41.68 1.94
1700 1712 3.729462 GCATCATGCGGCGTAAGTTTTTA 60.729 43.478 9.37 0.00 34.04 1.52
1701 1713 3.733024 TCATGCGGCGTAAGTTTTTAG 57.267 42.857 9.37 0.00 41.68 1.85
1702 1714 3.068560 TCATGCGGCGTAAGTTTTTAGT 58.931 40.909 9.37 0.00 41.68 2.24
1703 1715 3.499157 TCATGCGGCGTAAGTTTTTAGTT 59.501 39.130 9.37 0.00 41.68 2.24
1704 1716 4.689812 TCATGCGGCGTAAGTTTTTAGTTA 59.310 37.500 9.37 0.00 41.68 2.24
1705 1717 5.352016 TCATGCGGCGTAAGTTTTTAGTTAT 59.648 36.000 9.37 0.00 41.68 1.89
1706 1718 4.960329 TGCGGCGTAAGTTTTTAGTTATG 58.040 39.130 9.37 0.00 41.68 1.90
1707 1719 4.142859 TGCGGCGTAAGTTTTTAGTTATGG 60.143 41.667 9.37 0.00 41.68 2.74
1708 1720 4.336932 CGGCGTAAGTTTTTAGTTATGGC 58.663 43.478 0.00 0.00 37.36 4.40
1709 1721 4.665212 GGCGTAAGTTTTTAGTTATGGCC 58.335 43.478 0.00 0.00 35.63 5.36
1710 1722 4.439153 GGCGTAAGTTTTTAGTTATGGCCC 60.439 45.833 0.00 0.00 35.63 5.80
1711 1723 4.728595 GCGTAAGTTTTTAGTTATGGCCCG 60.729 45.833 0.00 0.00 41.68 6.13
1712 1724 4.630940 CGTAAGTTTTTAGTTATGGCCCGA 59.369 41.667 0.00 0.00 0.00 5.14
1713 1725 5.122082 CGTAAGTTTTTAGTTATGGCCCGAA 59.878 40.000 0.00 0.00 0.00 4.30
1714 1726 5.638596 AAGTTTTTAGTTATGGCCCGAAG 57.361 39.130 0.00 0.00 0.00 3.79
1715 1727 4.659115 AGTTTTTAGTTATGGCCCGAAGT 58.341 39.130 0.00 0.00 0.00 3.01
1803 1947 3.006940 GGTTGGCTTGAACATCGTGATA 58.993 45.455 0.00 0.00 0.00 2.15
1818 1962 8.908786 ACATCGTGATATAAAATGAGGATGTT 57.091 30.769 6.87 0.00 38.39 2.71
1819 1963 8.777413 ACATCGTGATATAAAATGAGGATGTTG 58.223 33.333 6.87 0.00 38.39 3.33
1878 2022 2.024176 TCCCTTTGAGCCTACTGACA 57.976 50.000 0.00 0.00 0.00 3.58
1901 2045 3.449737 CCACAAGAATCCATTTCCAGCAT 59.550 43.478 0.00 0.00 34.67 3.79
1904 2048 4.401519 ACAAGAATCCATTTCCAGCATCAG 59.598 41.667 0.00 0.00 34.67 2.90
1928 2072 5.572885 GCCTACCCTATCCTTTCAAAACAGA 60.573 44.000 0.00 0.00 0.00 3.41
1948 2092 2.180017 GCTTGCGCCTGATGGTTG 59.820 61.111 4.18 0.00 35.27 3.77
1953 2097 1.307355 TGCGCCTGATGGTTGATGTG 61.307 55.000 4.18 0.00 35.27 3.21
1981 2125 4.062293 CCATTCGAACCACTCACAACTTA 58.938 43.478 0.00 0.00 0.00 2.24
1984 2128 5.666969 TTCGAACCACTCACAACTTATTG 57.333 39.130 0.00 0.00 41.98 1.90
2020 2164 8.181904 TCTAATCAAAGCAAAAGAAAGGATGT 57.818 30.769 0.00 0.00 0.00 3.06
2078 2222 1.191535 TGTATACTGCAGGCGGTTCT 58.808 50.000 19.93 2.45 36.80 3.01
2104 2248 3.832490 TCTTTCTTGATCGGAGTTCTGGA 59.168 43.478 0.00 0.00 0.00 3.86
2123 2267 5.097742 TGGATATGGGCTTATATGGTTCG 57.902 43.478 0.67 0.00 0.00 3.95
2147 2291 5.749462 AGTGAACCAGGATTAGATTTGGAG 58.251 41.667 0.00 0.00 34.76 3.86
2190 2334 0.477597 TGGACTTCCCCCAAGGTGAT 60.478 55.000 0.00 0.00 36.26 3.06
2215 2359 3.219281 GAAGGTTACCTCCTTTTGTGCA 58.781 45.455 3.62 0.00 46.38 4.57
2227 2374 2.351924 TTTGTGCACCCCTCACCTCC 62.352 60.000 15.69 0.00 33.71 4.30
2228 2375 2.930562 GTGCACCCCTCACCTCCT 60.931 66.667 5.22 0.00 0.00 3.69
2229 2376 2.607750 TGCACCCCTCACCTCCTC 60.608 66.667 0.00 0.00 0.00 3.71
2270 2417 4.278170 GGATTCATTGCAAATATGGACGGA 59.722 41.667 1.71 0.00 0.00 4.69
2277 2424 0.249911 AAATATGGACGGAGAGCGGC 60.250 55.000 0.00 0.00 0.00 6.53
2328 2475 3.553096 CGCATTTTAGGCCGAGTAGAGAT 60.553 47.826 0.00 0.00 0.00 2.75
2332 2479 2.366640 TAGGCCGAGTAGAGATGCTT 57.633 50.000 0.00 0.00 0.00 3.91
2341 2488 4.465886 GAGTAGAGATGCTTGGGAGTCTA 58.534 47.826 0.00 0.00 0.00 2.59
2350 2497 5.452078 TGCTTGGGAGTCTAAAACAAATG 57.548 39.130 0.00 0.00 0.00 2.32
2356 2503 4.438744 GGGAGTCTAAAACAAATGCGATGG 60.439 45.833 0.00 0.00 0.00 3.51
2361 2508 5.512788 GTCTAAAACAAATGCGATGGACATG 59.487 40.000 0.00 0.00 0.00 3.21
2362 2509 2.945447 AACAAATGCGATGGACATGG 57.055 45.000 0.00 0.00 0.00 3.66
2363 2510 2.127271 ACAAATGCGATGGACATGGA 57.873 45.000 0.00 0.00 0.00 3.41
2364 2511 1.745087 ACAAATGCGATGGACATGGAC 59.255 47.619 0.00 0.00 0.00 4.02
2365 2512 1.744522 CAAATGCGATGGACATGGACA 59.255 47.619 0.00 0.00 0.00 4.02
2366 2513 2.353357 AATGCGATGGACATGGACAT 57.647 45.000 0.00 0.23 0.00 3.06
2367 2514 1.601166 ATGCGATGGACATGGACATG 58.399 50.000 10.57 10.57 44.15 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 0.044855 AGCCCTAGACCACCAAGGAT 59.955 55.000 0.00 0.00 41.22 3.24
40 41 1.066215 AGATGTACCAGCATGCAACGA 60.066 47.619 21.98 0.00 31.97 3.85
41 42 1.063027 CAGATGTACCAGCATGCAACG 59.937 52.381 21.98 8.82 31.97 4.10
116 117 0.893447 GAGCTTGGATTGCAAAGGCT 59.107 50.000 1.71 4.30 41.91 4.58
117 118 0.893447 AGAGCTTGGATTGCAAAGGC 59.107 50.000 1.71 0.00 41.68 4.35
154 155 1.003331 GTGCACTAGAGATCGAGACGG 60.003 57.143 10.32 0.00 0.00 4.79
160 161 1.107114 AGGTGGTGCACTAGAGATCG 58.893 55.000 17.98 0.00 34.40 3.69
185 186 2.159099 CGAGCTAGGCTTTGTCCACATA 60.159 50.000 0.00 0.00 39.88 2.29
204 205 6.158344 TCCAAATTAAGTTTATAGGACCCCGA 59.842 38.462 0.00 0.00 0.00 5.14
274 275 1.089920 CTCTCCAGAACAATTGCGGG 58.910 55.000 5.05 0.48 0.00 6.13
281 282 1.945819 GCGATTGCCTCTCCAGAACAA 60.946 52.381 0.00 0.00 33.98 2.83
316 317 5.252969 TGCATCCAAAGCATGAGTAATTC 57.747 39.130 0.00 0.00 37.02 2.17
347 348 4.100808 CCTTTAAGCATGGCTAGAGACTCT 59.899 45.833 10.47 10.47 38.25 3.24
388 389 0.537188 AACCCACGAGCATCCTAGTG 59.463 55.000 0.00 0.00 42.29 2.74
418 419 9.976511 ATGCATTAATCAATTCCAAATAGTCAG 57.023 29.630 0.00 0.00 0.00 3.51
424 425 7.867305 TTGCATGCATTAATCAATTCCAAAT 57.133 28.000 23.37 0.00 0.00 2.32
431 432 5.756347 GTCACCATTGCATGCATTAATCAAT 59.244 36.000 23.37 7.12 0.00 2.57
457 458 2.637382 GAGGAGGGGCCAAAAATTTCAA 59.363 45.455 4.39 0.00 40.02 2.69
482 483 4.155063 AGCAAAAATTTCTGCCAAGGTT 57.845 36.364 12.82 0.00 39.47 3.50
520 521 5.304686 ACAGTGTTGGAAAGAGATACCAA 57.695 39.130 0.00 0.00 40.68 3.67
584 585 6.189677 ACAGAAGACTTCGACTCATAAGAG 57.810 41.667 9.53 0.00 40.30 2.85
585 586 6.576662 AACAGAAGACTTCGACTCATAAGA 57.423 37.500 9.53 0.00 34.02 2.10
640 641 7.106239 AGTTACATCCTGAATTACAAGAGGTG 58.894 38.462 0.00 0.00 35.27 4.00
732 734 8.458573 TCAATGGAACTATGTTTAGTTGTTGT 57.541 30.769 3.27 0.00 46.32 3.32
733 735 9.559958 GATCAATGGAACTATGTTTAGTTGTTG 57.440 33.333 3.27 6.19 46.32 3.33
744 748 5.829391 TGGTGAATGGATCAATGGAACTATG 59.171 40.000 0.00 0.00 40.50 2.23
769 773 3.077229 TGTCGATGCAAACCAAAGTTG 57.923 42.857 0.00 0.00 35.97 3.16
838 846 0.755698 GGCCTGATCTGGACCGTCTA 60.756 60.000 21.91 0.00 0.00 2.59
1131 1139 1.078708 CGGGCAGGTTTGACGGTAT 60.079 57.895 0.00 0.00 30.88 2.73
1392 1400 3.417069 CACCTGGATCACTTGGTGTAA 57.583 47.619 0.00 0.00 43.41 2.41
1422 1430 4.164413 AGTTCTAACCCCAGATCTAAAGGC 59.836 45.833 0.00 0.00 0.00 4.35
1443 1451 0.036010 GCATGACACAGCACCCTAGT 60.036 55.000 0.00 0.00 0.00 2.57
1451 1459 0.677731 TTAGCCCTGCATGACACAGC 60.678 55.000 0.00 0.00 33.65 4.40
1453 1461 2.093890 CAATTAGCCCTGCATGACACA 58.906 47.619 0.00 0.00 0.00 3.72
1474 1482 8.677300 GGCAAACACTGATTCAGATAAAGATTA 58.323 33.333 20.33 0.00 35.18 1.75
1496 1504 7.725251 ACATTTGATTCTAAAAGAACAGGCAA 58.275 30.769 0.00 0.00 37.00 4.52
1554 1566 3.838565 TCACAAAGCAGGGTTGGATTAA 58.161 40.909 0.00 0.00 0.00 1.40
1558 1570 2.151502 TTTCACAAAGCAGGGTTGGA 57.848 45.000 0.00 0.00 0.00 3.53
1565 1577 6.691818 GCAGAATATCTCATTTCACAAAGCAG 59.308 38.462 0.00 0.00 0.00 4.24
1590 1602 2.842208 TTTCACGAGTTGCAACAAGG 57.158 45.000 30.11 19.97 0.00 3.61
1637 1649 3.751698 GGTGATGAAGTTGGGTTACTGTC 59.248 47.826 0.00 0.00 0.00 3.51
1690 1702 6.149973 ACTTCGGGCCATAACTAAAAACTTAC 59.850 38.462 4.39 0.00 0.00 2.34
1696 1708 4.289238 TGACTTCGGGCCATAACTAAAA 57.711 40.909 4.39 0.00 0.00 1.52
1697 1709 3.985019 TGACTTCGGGCCATAACTAAA 57.015 42.857 4.39 0.00 0.00 1.85
1698 1710 3.370103 CCTTGACTTCGGGCCATAACTAA 60.370 47.826 4.39 0.00 0.00 2.24
1699 1711 2.169769 CCTTGACTTCGGGCCATAACTA 59.830 50.000 4.39 0.00 0.00 2.24
1700 1712 1.065418 CCTTGACTTCGGGCCATAACT 60.065 52.381 4.39 0.00 0.00 2.24
1701 1713 1.339727 ACCTTGACTTCGGGCCATAAC 60.340 52.381 4.39 0.00 0.00 1.89
1702 1714 0.988832 ACCTTGACTTCGGGCCATAA 59.011 50.000 4.39 0.00 0.00 1.90
1703 1715 0.988832 AACCTTGACTTCGGGCCATA 59.011 50.000 4.39 0.00 0.00 2.74
1704 1716 0.988832 TAACCTTGACTTCGGGCCAT 59.011 50.000 4.39 0.00 0.00 4.40
1705 1717 0.766131 TTAACCTTGACTTCGGGCCA 59.234 50.000 4.39 0.00 0.00 5.36
1706 1718 1.271217 ACTTAACCTTGACTTCGGGCC 60.271 52.381 0.00 0.00 0.00 5.80
1707 1719 2.180432 ACTTAACCTTGACTTCGGGC 57.820 50.000 0.00 0.00 0.00 6.13
1708 1720 6.812998 TGATATACTTAACCTTGACTTCGGG 58.187 40.000 0.00 0.00 0.00 5.14
1709 1721 8.765219 CAATGATATACTTAACCTTGACTTCGG 58.235 37.037 0.00 0.00 0.00 4.30
1710 1722 9.314321 ACAATGATATACTTAACCTTGACTTCG 57.686 33.333 0.00 0.00 0.00 3.79
1713 1725 9.823647 CTCACAATGATATACTTAACCTTGACT 57.176 33.333 0.00 0.00 0.00 3.41
1714 1726 9.601217 ACTCACAATGATATACTTAACCTTGAC 57.399 33.333 0.00 0.00 0.00 3.18
1803 1947 9.840427 CTCGTTTAAACAACATCCTCATTTTAT 57.160 29.630 18.07 0.00 0.00 1.40
1818 1962 5.344128 GTGATTCTCGTAGCTCGTTTAAACA 59.656 40.000 18.07 4.98 40.80 2.83
1819 1963 5.344128 TGTGATTCTCGTAGCTCGTTTAAAC 59.656 40.000 8.35 8.35 40.80 2.01
1878 2022 2.827921 GCTGGAAATGGATTCTTGTGGT 59.172 45.455 0.00 0.00 38.18 4.16
1901 2045 3.414759 TGAAAGGATAGGGTAGGCTGA 57.585 47.619 0.00 0.00 0.00 4.26
1904 2048 4.595986 TGTTTTGAAAGGATAGGGTAGGC 58.404 43.478 0.00 0.00 0.00 3.93
1943 2087 2.245484 TGGTTCCCCACATCAACCA 58.755 52.632 0.00 0.00 45.92 3.67
1948 2092 1.743394 GTTCGAATGGTTCCCCACATC 59.257 52.381 0.00 0.00 45.65 3.06
1953 2097 0.037734 AGTGGTTCGAATGGTTCCCC 59.962 55.000 0.00 0.00 0.00 4.81
1981 2125 6.755141 GCTTTGATTAGATGTTGTCATGCAAT 59.245 34.615 0.00 0.00 39.55 3.56
1984 2128 5.643664 TGCTTTGATTAGATGTTGTCATGC 58.356 37.500 0.00 0.00 34.06 4.06
2078 2222 6.818644 CCAGAACTCCGATCAAGAAAGAAATA 59.181 38.462 0.00 0.00 0.00 1.40
2104 2248 5.483937 TCACTCGAACCATATAAGCCCATAT 59.516 40.000 0.00 0.00 0.00 1.78
2123 2267 5.745227 TCCAAATCTAATCCTGGTTCACTC 58.255 41.667 0.00 0.00 0.00 3.51
2174 2318 1.296002 GGTATCACCTTGGGGGAAGT 58.704 55.000 0.00 0.00 38.76 3.01
2215 2359 1.307343 CATGGAGGAGGTGAGGGGT 60.307 63.158 0.00 0.00 0.00 4.95
2227 2374 2.038689 CCAGTGGATCATCCTCATGGAG 59.961 54.545 14.20 0.00 46.91 3.86
2228 2375 3.699302 ATCCAGTGGATCATCCTCATGGA 60.699 47.826 19.53 20.80 42.00 3.41
2229 2376 2.052468 TCCAGTGGATCATCCTCATGG 58.948 52.381 8.12 10.28 37.46 3.66
2270 2417 3.421567 AAAAACTTGAGGCCGCTCT 57.578 47.368 8.34 0.00 0.00 4.09
2290 2437 2.203167 CGATCTCGAGGACCCCGA 60.203 66.667 13.56 0.00 43.02 5.14
2291 2438 3.967335 GCGATCTCGAGGACCCCG 61.967 72.222 13.56 10.03 43.02 5.73
2328 2475 4.261994 GCATTTGTTTTAGACTCCCAAGCA 60.262 41.667 0.00 0.00 0.00 3.91
2332 2479 3.745799 TCGCATTTGTTTTAGACTCCCA 58.254 40.909 0.00 0.00 0.00 4.37
2341 2488 3.257873 TCCATGTCCATCGCATTTGTTTT 59.742 39.130 0.00 0.00 0.00 2.43
2350 2497 0.179048 TCCATGTCCATGTCCATCGC 60.179 55.000 6.53 0.00 37.11 4.58
2356 2503 1.027357 GCCATGTCCATGTCCATGTC 58.973 55.000 16.31 4.69 37.37 3.06
2361 2508 1.039233 CCTTGGCCATGTCCATGTCC 61.039 60.000 6.09 3.60 37.36 4.02
2362 2509 1.669999 GCCTTGGCCATGTCCATGTC 61.670 60.000 6.09 0.00 37.11 3.06
2363 2510 1.683365 GCCTTGGCCATGTCCATGT 60.683 57.895 6.09 0.00 37.11 3.21
2364 2511 1.380785 AGCCTTGGCCATGTCCATG 60.381 57.895 6.09 0.00 35.77 3.66
2365 2512 1.076485 GAGCCTTGGCCATGTCCAT 60.076 57.895 6.09 0.00 35.77 3.41
2366 2513 0.913934 TAGAGCCTTGGCCATGTCCA 60.914 55.000 6.09 0.00 0.00 4.02
2367 2514 0.179034 CTAGAGCCTTGGCCATGTCC 60.179 60.000 6.09 2.08 0.00 4.02


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

AutoCloner maintained by Alex Coulton.