Multiple sequence alignment - TraesCS2D01G374800

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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 TraesCS2D01G374800 chr2D 100.000 2805 0 0 1 2805 478697699 478700503 0.000000e+00 5180
1 TraesCS2D01G374800 chr2B 93.248 1866 94 12 1 1850 561260466 561258617 0.000000e+00 2719
2 TraesCS2D01G374800 chr2B 85.515 718 80 10 1909 2617 561234119 561233417 0.000000e+00 728
3 TraesCS2D01G374800 chr2A 89.979 1946 110 27 1 1902 621517055 621515151 0.000000e+00 2435
4 TraesCS2D01G374800 chr2A 82.195 820 79 27 2010 2805 621486030 621485254 0.000000e+00 643
5 TraesCS2D01G374800 chr3D 80.625 640 103 15 1913 2536 19306158 19305524 2.530000e-130 475
6 TraesCS2D01G374800 chr4D 79.935 613 103 16 2021 2620 29975530 29976135 1.540000e-117 433
7 TraesCS2D01G374800 chr5D 79.640 555 92 19 1997 2533 59243611 59243060 2.040000e-101 379
8 TraesCS2D01G374800 chr3B 75.581 430 89 16 1910 2329 805130476 805130899 6.130000e-47 198
9 TraesCS2D01G374800 chrUn 75.349 430 90 16 1910 2329 291742186 291741763 2.850000e-45 193
10 TraesCS2D01G374800 chrUn 81.215 181 28 6 2447 2624 45281451 45281274 1.050000e-29 141
11 TraesCS2D01G374800 chr3A 80.000 160 27 5 2467 2624 691857768 691857612 2.280000e-21 113


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 TraesCS2D01G374800 chr2D 478697699 478700503 2804 False 5180 5180 100.000 1 2805 1 chr2D.!!$F1 2804
1 TraesCS2D01G374800 chr2B 561258617 561260466 1849 True 2719 2719 93.248 1 1850 1 chr2B.!!$R2 1849
2 TraesCS2D01G374800 chr2B 561233417 561234119 702 True 728 728 85.515 1909 2617 1 chr2B.!!$R1 708
3 TraesCS2D01G374800 chr2A 621515151 621517055 1904 True 2435 2435 89.979 1 1902 1 chr2A.!!$R2 1901
4 TraesCS2D01G374800 chr2A 621485254 621486030 776 True 643 643 82.195 2010 2805 1 chr2A.!!$R1 795
5 TraesCS2D01G374800 chr3D 19305524 19306158 634 True 475 475 80.625 1913 2536 1 chr3D.!!$R1 623
6 TraesCS2D01G374800 chr4D 29975530 29976135 605 False 433 433 79.935 2021 2620 1 chr4D.!!$F1 599
7 TraesCS2D01G374800 chr5D 59243060 59243611 551 True 379 379 79.640 1997 2533 1 chr5D.!!$R1 536

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
451 465 0.461339 GCTTCATGCAAATGGGCCTG 60.461 55.0 4.53 0.0 42.31 4.85 F
1234 1283 1.848652 CCGTCTTCTCCTCCTACCAA 58.151 55.0 0.00 0.0 0.00 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1449 1498 0.036388 TTCCTCCTCAACCACATCGC 60.036 55.0 0.0 0.0 0.0 4.58 R
2271 2344 0.109179 GCAAATGTGATCGGCAGCAA 60.109 50.0 0.0 0.0 0.0 3.91 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
35 36 9.344772 TCTAAAATTTCCTTAGTGCACACTTTA 57.655 29.630 21.04 0.00 42.54 1.85
62 64 4.521146 ACTATGCTTATGCCATCCTATGC 58.479 43.478 0.00 0.00 38.71 3.14
63 65 2.205022 TGCTTATGCCATCCTATGCC 57.795 50.000 0.00 0.00 38.71 4.40
64 66 1.424684 TGCTTATGCCATCCTATGCCA 59.575 47.619 0.00 0.00 38.71 4.92
82 84 3.512724 TGCCACTACTACTACCTTGAACC 59.487 47.826 0.00 0.00 0.00 3.62
174 176 5.049886 ACACGTTGATGCATGATCATATCAC 60.050 40.000 17.16 12.52 43.01 3.06
182 184 3.863780 GCATGATCATATCACTGCGGAGT 60.864 47.826 8.15 2.68 43.01 3.85
184 186 4.505313 TGATCATATCACTGCGGAGTAC 57.495 45.455 10.03 0.00 33.59 2.73
195 197 2.875485 GGAGTACGTGCGCTCTCA 59.125 61.111 9.73 0.00 32.67 3.27
212 214 5.169295 GCTCTCATCCGTTACAAACTTACT 58.831 41.667 0.00 0.00 0.00 2.24
215 217 7.218228 TCTCATCCGTTACAAACTTACTACA 57.782 36.000 0.00 0.00 0.00 2.74
216 218 7.660112 TCTCATCCGTTACAAACTTACTACAA 58.340 34.615 0.00 0.00 0.00 2.41
217 219 7.596248 TCTCATCCGTTACAAACTTACTACAAC 59.404 37.037 0.00 0.00 0.00 3.32
224 226 3.313249 ACAAACTTACTACAACCCGCAAC 59.687 43.478 0.00 0.00 0.00 4.17
236 240 1.528309 CCGCAACCCACAACTCCTT 60.528 57.895 0.00 0.00 0.00 3.36
253 257 6.097915 ACTCCTTCAGAATTACACGAAGAA 57.902 37.500 0.00 0.00 37.63 2.52
264 268 1.076332 CACGAAGAAGGGGTAAAGCG 58.924 55.000 0.00 0.00 0.00 4.68
394 402 0.474660 AGAACCCTGGTCTTCTGGCT 60.475 55.000 3.67 0.00 33.61 4.75
429 443 5.584913 TCTTCTCCTCAAGTAACTCCTCAT 58.415 41.667 0.00 0.00 0.00 2.90
451 465 0.461339 GCTTCATGCAAATGGGCCTG 60.461 55.000 4.53 0.00 42.31 4.85
510 525 7.881142 TGCATGGGATTATTTTAGTATTTCCG 58.119 34.615 0.00 0.00 0.00 4.30
588 603 1.896220 AAAATGGAGAGAGTTGCGCA 58.104 45.000 5.66 5.66 0.00 6.09
764 808 5.221986 TGGAATGTCATCTTGATATGGAGGG 60.222 44.000 0.00 0.00 28.42 4.30
1017 1066 6.100279 AGGTCAGAAATTCCTCATGCTACATA 59.900 38.462 0.00 0.00 0.00 2.29
1173 1222 2.820787 ACCTCAAGTACCTCTTCACGAG 59.179 50.000 0.00 0.00 39.57 4.18
1213 1262 4.814294 GTGGCGAGGCGTACCCAG 62.814 72.222 3.60 0.00 36.11 4.45
1234 1283 1.848652 CCGTCTTCTCCTCCTACCAA 58.151 55.000 0.00 0.00 0.00 3.67
1424 1473 2.512974 CCGTTGGGGCATCGTACC 60.513 66.667 0.00 0.00 0.00 3.34
1449 1498 4.154347 GCCAGCGACAGAGGAGGG 62.154 72.222 0.00 0.00 0.00 4.30
1507 1556 1.875813 CTGCTACGAGCTTGAGCCG 60.876 63.158 8.31 5.33 42.97 5.52
1513 1562 2.882876 GAGCTTGAGCCGGACGTA 59.117 61.111 5.05 0.00 43.38 3.57
1671 1727 4.398673 GTCAGGTACGTGTTAAGAGGAGAT 59.601 45.833 14.78 0.00 0.00 2.75
1853 1909 7.042389 TGCCTTTCGAAATTTGGTTTCAATAAC 60.042 33.333 11.70 0.00 45.24 1.89
1855 1911 8.487176 CCTTTCGAAATTTGGTTTCAATAACAG 58.513 33.333 11.70 0.00 45.24 3.16
1858 1914 8.934507 TCGAAATTTGGTTTCAATAACAGTTT 57.065 26.923 0.00 0.00 45.24 2.66
1860 1916 9.419737 CGAAATTTGGTTTCAATAACAGTTTTG 57.580 29.630 0.00 0.00 45.24 2.44
1861 1917 9.220635 GAAATTTGGTTTCAATAACAGTTTTGC 57.779 29.630 0.00 0.00 44.53 3.68
1862 1918 8.504812 AATTTGGTTTCAATAACAGTTTTGCT 57.495 26.923 0.00 0.00 32.28 3.91
1863 1919 7.532682 TTTGGTTTCAATAACAGTTTTGCTC 57.467 32.000 0.00 0.00 32.28 4.26
1864 1920 5.596845 TGGTTTCAATAACAGTTTTGCTCC 58.403 37.500 0.00 1.71 0.00 4.70
1865 1921 5.362430 TGGTTTCAATAACAGTTTTGCTCCT 59.638 36.000 0.00 0.00 0.00 3.69
1885 1941 5.003804 TCCTTTTCTTTTGGCTAGTGCTAG 58.996 41.667 2.04 2.04 39.59 3.42
1907 1963 4.003788 CAGTCGACCGGCCCAACT 62.004 66.667 13.01 0.00 0.00 3.16
1977 2033 1.298340 CAGCGTGTCCCCATGGTTA 59.702 57.895 11.73 0.00 36.19 2.85
1981 2037 0.611200 CGTGTCCCCATGGTTACAGA 59.389 55.000 14.87 0.00 0.00 3.41
2060 2119 3.680786 TCACAGCACCTCCGACGG 61.681 66.667 7.84 7.84 0.00 4.79
2151 2217 3.790089 AAAAGGGTGTCAGTTCTAGGG 57.210 47.619 0.00 0.00 0.00 3.53
2192 2259 0.397941 CACCCCATCGCCATCATAGT 59.602 55.000 0.00 0.00 0.00 2.12
2219 2286 1.717194 CTCGCCGGTTGTAGCTTTTA 58.283 50.000 1.90 0.00 0.00 1.52
2256 2327 3.190535 AGCAAGACAAAACGACACAGTTT 59.809 39.130 0.00 0.00 45.21 2.66
2287 2361 2.231964 ACAAATTGCTGCCGATCACATT 59.768 40.909 0.00 0.00 0.00 2.71
2354 2430 3.452474 TGTGTGGTTGCAGCAAAATAAC 58.548 40.909 10.11 7.31 0.00 1.89
2358 2434 3.060607 GTGGTTGCAGCAAAATAACGTTG 60.061 43.478 10.11 0.00 0.00 4.10
2365 2441 3.562567 GCAAAATAACGTTGCTACCCA 57.437 42.857 11.99 0.00 46.31 4.51
2368 2445 2.863132 AATAACGTTGCTACCCACCA 57.137 45.000 11.99 0.00 0.00 4.17
2439 2531 4.250464 CCGGTAGTAGCAAATGAAGTCAA 58.750 43.478 0.00 0.00 0.00 3.18
2440 2532 4.876107 CCGGTAGTAGCAAATGAAGTCAAT 59.124 41.667 0.00 0.00 0.00 2.57
2442 2535 5.220662 CGGTAGTAGCAAATGAAGTCAATGG 60.221 44.000 0.00 0.00 0.00 3.16
2460 2553 5.304101 TCAATGGAGTAGCAAAACCAAATGT 59.696 36.000 0.00 0.00 36.00 2.71
2467 2560 2.428890 AGCAAAACCAAATGTCGGTTCA 59.571 40.909 0.00 0.00 46.12 3.18
2468 2561 2.794350 GCAAAACCAAATGTCGGTTCAG 59.206 45.455 0.00 0.00 46.12 3.02
2469 2562 2.793278 AAACCAAATGTCGGTTCAGC 57.207 45.000 0.00 0.00 46.12 4.26
2470 2563 1.686355 AACCAAATGTCGGTTCAGCA 58.314 45.000 0.00 0.00 43.36 4.41
2481 2576 4.932200 TGTCGGTTCAGCAAAACAAAATTT 59.068 33.333 3.98 0.00 0.00 1.82
2482 2577 5.163913 TGTCGGTTCAGCAAAACAAAATTTG 60.164 36.000 3.89 3.89 42.01 2.32
2524 2621 4.249661 GGTTCCAGCAAAAAGTTTGTCAA 58.750 39.130 2.92 0.00 0.00 3.18
2537 2635 6.655078 AAGTTTGTCAATTGTAGCATCCTT 57.345 33.333 5.13 6.01 0.00 3.36
2565 2663 2.896685 GGATGTAGCATCTCTAGTGGCT 59.103 50.000 8.72 0.00 40.26 4.75
2618 2716 2.867109 CTCCCATGAGTGAAAGGTGT 57.133 50.000 0.00 0.00 33.70 4.16
2622 2720 1.881973 CCATGAGTGAAAGGTGTGTGG 59.118 52.381 0.00 0.00 0.00 4.17
2625 2723 0.472471 GAGTGAAAGGTGTGTGGGGA 59.528 55.000 0.00 0.00 0.00 4.81
2666 2764 0.388778 TGCTGCATCGCCATGTTTTG 60.389 50.000 0.00 0.00 31.86 2.44
2678 2776 3.189287 GCCATGTTTTGTAGACCTCACAG 59.811 47.826 0.00 0.00 0.00 3.66
2680 2778 2.479837 TGTTTTGTAGACCTCACAGCG 58.520 47.619 0.00 0.00 0.00 5.18
2717 2831 1.216710 CTCGTCCTTGAGGTGGCTC 59.783 63.158 0.00 0.00 36.34 4.70
2722 2836 1.374758 CCTTGAGGTGGCTCACGTC 60.375 63.158 16.34 16.34 45.70 4.34
2732 2846 4.363990 CTCACGTCCAGCACCGCT 62.364 66.667 0.00 0.00 40.77 5.52
2755 2869 1.006102 CCCTTAGCATACCTCGCCG 60.006 63.158 0.00 0.00 0.00 6.46
2756 2870 1.664965 CCTTAGCATACCTCGCCGC 60.665 63.158 0.00 0.00 0.00 6.53
2758 2872 0.319900 CTTAGCATACCTCGCCGCAT 60.320 55.000 0.00 0.00 0.00 4.73
2775 2889 2.735772 ATCCCTGCAGCACCGGTAG 61.736 63.158 6.87 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 6.192970 AGGATGGCATAAGCATAGTTTAGT 57.807 37.500 0.00 0.00 44.61 2.24
62 64 5.733620 TTGGTTCAAGGTAGTAGTAGTGG 57.266 43.478 0.00 0.00 0.00 4.00
63 65 5.581085 GCATTGGTTCAAGGTAGTAGTAGTG 59.419 44.000 0.00 0.00 0.00 2.74
64 66 5.623824 CGCATTGGTTCAAGGTAGTAGTAGT 60.624 44.000 0.00 0.00 0.00 2.73
182 184 1.929806 AACGGATGAGAGCGCACGTA 61.930 55.000 11.47 0.00 33.85 3.57
184 186 1.226575 TAACGGATGAGAGCGCACG 60.227 57.895 11.47 4.72 0.00 5.34
195 197 5.934043 GGGTTGTAGTAAGTTTGTAACGGAT 59.066 40.000 0.00 0.00 36.23 4.18
212 214 1.102222 GTTGTGGGTTGCGGGTTGTA 61.102 55.000 0.00 0.00 0.00 2.41
215 217 1.826487 GAGTTGTGGGTTGCGGGTT 60.826 57.895 0.00 0.00 0.00 4.11
216 218 2.203294 GAGTTGTGGGTTGCGGGT 60.203 61.111 0.00 0.00 0.00 5.28
217 219 2.976494 AAGGAGTTGTGGGTTGCGGG 62.976 60.000 0.00 0.00 0.00 6.13
224 226 4.455877 GTGTAATTCTGAAGGAGTTGTGGG 59.544 45.833 0.00 0.00 0.00 4.61
236 240 3.581332 ACCCCTTCTTCGTGTAATTCTGA 59.419 43.478 0.00 0.00 0.00 3.27
253 257 1.079612 GTACGTGCGCTTTACCCCT 60.080 57.895 9.73 0.00 0.00 4.79
394 402 2.499289 GAGGAGAAGATGCTGGAGAACA 59.501 50.000 0.00 0.00 0.00 3.18
405 413 5.584913 TGAGGAGTTACTTGAGGAGAAGAT 58.415 41.667 0.00 0.00 0.00 2.40
429 443 0.036199 GCCCATTTGCATGAAGCCAA 60.036 50.000 0.00 0.00 44.83 4.52
474 488 2.053865 CCCATGCATGTCCCACACC 61.054 63.158 24.58 0.00 0.00 4.16
510 525 3.332493 CTTCACCATGCTGCACGCC 62.332 63.158 3.57 0.00 38.05 5.68
588 603 1.502231 GCCATCACGATTGCGAGTAT 58.498 50.000 0.00 0.00 41.64 2.12
699 714 6.094603 GTGTGAGAAATGGATGCTGTTTCTAT 59.905 38.462 14.60 0.00 41.01 1.98
1017 1066 5.280521 CCTGGTAGGGTTTTTGTCAGTCTAT 60.281 44.000 0.00 0.00 0.00 1.98
1075 1124 1.300233 GCGCCGGAATCGATCTTCT 60.300 57.895 5.05 0.00 39.00 2.85
1213 1262 1.393487 GGTAGGAGGAGAAGACGGCC 61.393 65.000 0.00 0.00 0.00 6.13
1220 1269 1.909302 CTTGCCTTGGTAGGAGGAGAA 59.091 52.381 0.00 0.00 45.05 2.87
1234 1283 1.510480 GACGCTTGTTGCTCTTGCCT 61.510 55.000 0.00 0.00 40.11 4.75
1388 1437 4.426112 GGCGCCAAAGCAGGAAGC 62.426 66.667 24.80 0.00 46.19 3.86
1435 1484 4.742649 TCGCCCTCCTCTGTCGCT 62.743 66.667 0.00 0.00 0.00 4.93
1449 1498 0.036388 TTCCTCCTCAACCACATCGC 60.036 55.000 0.00 0.00 0.00 4.58
1507 1556 1.722636 CCGCCCTGTAGTCTACGTCC 61.723 65.000 5.55 0.00 0.00 4.79
1513 1562 1.076632 CTCCTCCGCCCTGTAGTCT 60.077 63.158 0.00 0.00 0.00 3.24
1604 1653 0.248417 CTCTCATGTCTCAGCGTCGG 60.248 60.000 0.00 0.00 0.00 4.79
1671 1727 6.245115 TCATCGAAAGTAAGAACGTACTCA 57.755 37.500 0.00 0.00 33.05 3.41
1853 1909 4.034394 GCCAAAAGAAAAGGAGCAAAACTG 59.966 41.667 0.00 0.00 0.00 3.16
1855 1911 4.191544 AGCCAAAAGAAAAGGAGCAAAAC 58.808 39.130 0.00 0.00 0.00 2.43
1858 1914 4.037923 CACTAGCCAAAAGAAAAGGAGCAA 59.962 41.667 0.00 0.00 0.00 3.91
1860 1916 3.612717 GCACTAGCCAAAAGAAAAGGAGC 60.613 47.826 0.00 0.00 33.58 4.70
1861 1917 3.823304 AGCACTAGCCAAAAGAAAAGGAG 59.177 43.478 0.00 0.00 43.56 3.69
1862 1918 3.832527 AGCACTAGCCAAAAGAAAAGGA 58.167 40.909 0.00 0.00 43.56 3.36
1863 1919 5.302357 CTAGCACTAGCCAAAAGAAAAGG 57.698 43.478 0.00 0.00 43.56 3.11
1891 1947 3.239253 AAGTTGGGCCGGTCGACT 61.239 61.111 16.46 7.80 0.00 4.18
1921 1977 3.731264 CGGTGAGAAATACAGGAGACGAC 60.731 52.174 0.00 0.00 0.00 4.34
1924 1980 2.738964 GCCGGTGAGAAATACAGGAGAC 60.739 54.545 1.90 0.00 35.73 3.36
1927 1983 1.480954 GAGCCGGTGAGAAATACAGGA 59.519 52.381 1.90 0.00 35.73 3.86
1977 2033 2.348888 GGTCGTCACGGGGATCTGT 61.349 63.158 0.00 0.00 0.00 3.41
1981 2037 3.446570 GACGGTCGTCACGGGGAT 61.447 66.667 17.26 0.00 44.02 3.85
2091 2155 0.528017 TTTTGCTGCAACCGACAACA 59.472 45.000 15.72 0.00 0.00 3.33
2192 2259 1.159098 ACAACCGGCGAGCGTTTTTA 61.159 50.000 9.30 0.00 0.00 1.52
2219 2286 0.538516 TTGCTACAACCGGCAACCAT 60.539 50.000 0.00 0.00 42.45 3.55
2267 2338 2.572191 ATGTGATCGGCAGCAATTTG 57.428 45.000 0.00 0.00 0.00 2.32
2271 2344 0.109179 GCAAATGTGATCGGCAGCAA 60.109 50.000 0.00 0.00 0.00 3.91
2274 2348 3.561503 CATATGCAAATGTGATCGGCAG 58.438 45.455 0.00 0.00 37.96 4.85
2287 2361 6.183360 ACAGTTTTTGTTACCACCATATGCAA 60.183 34.615 0.00 0.00 36.31 4.08
2354 2430 0.744414 CCTGATGGTGGGTAGCAACG 60.744 60.000 0.00 0.00 37.91 4.10
2368 2445 3.657398 TGAAGATGATGCAACCCTGAT 57.343 42.857 0.00 0.00 0.00 2.90
2439 2531 4.082787 CGACATTTGGTTTTGCTACTCCAT 60.083 41.667 0.00 0.00 0.00 3.41
2440 2532 3.252215 CGACATTTGGTTTTGCTACTCCA 59.748 43.478 0.00 0.00 0.00 3.86
2442 2535 3.252458 ACCGACATTTGGTTTTGCTACTC 59.748 43.478 0.00 0.00 35.82 2.59
2460 2553 5.062809 GTCAAATTTTGTTTTGCTGAACCGA 59.937 36.000 8.89 0.00 36.69 4.69
2467 2560 6.147000 AGTTCGTTGTCAAATTTTGTTTTGCT 59.853 30.769 8.89 0.00 36.69 3.91
2468 2561 6.303370 AGTTCGTTGTCAAATTTTGTTTTGC 58.697 32.000 8.89 0.00 36.69 3.68
2469 2562 6.953189 GGAGTTCGTTGTCAAATTTTGTTTTG 59.047 34.615 8.89 0.00 37.83 2.44
2470 2563 6.647067 TGGAGTTCGTTGTCAAATTTTGTTTT 59.353 30.769 8.89 0.00 0.00 2.43
2481 2576 3.713288 CAACTACTGGAGTTCGTTGTCA 58.287 45.455 1.30 0.00 45.81 3.58
2482 2577 6.748175 GAACCAACTACTGGAGTTCGTTGTC 61.748 48.000 18.56 3.89 45.89 3.18
2537 2635 1.001293 GAGATGCTACATCCGATGGCA 59.999 52.381 13.00 12.90 37.32 4.92
2586 2684 1.729267 ATGGGAGTGTTGCAACCCCT 61.729 55.000 30.64 24.23 41.44 4.79
2609 2707 0.696143 TCCTCCCCACACACCTTTCA 60.696 55.000 0.00 0.00 0.00 2.69
2613 2711 2.203998 CCTCCTCCCCACACACCT 60.204 66.667 0.00 0.00 0.00 4.00
2614 2712 3.330720 CCCTCCTCCCCACACACC 61.331 72.222 0.00 0.00 0.00 4.16
2615 2713 2.529389 ACCCTCCTCCCCACACAC 60.529 66.667 0.00 0.00 0.00 3.82
2616 2714 2.529136 CACCCTCCTCCCCACACA 60.529 66.667 0.00 0.00 0.00 3.72
2617 2715 4.035102 GCACCCTCCTCCCCACAC 62.035 72.222 0.00 0.00 0.00 3.82
2618 2716 3.889525 ATGCACCCTCCTCCCCACA 62.890 63.158 0.00 0.00 0.00 4.17
2622 2720 2.081161 ATGGATGCACCCTCCTCCC 61.081 63.158 0.00 0.00 38.00 4.30
2625 2723 3.065787 GCCATGGATGCACCCTCCT 62.066 63.158 18.40 0.00 38.00 3.69
2657 2755 3.189287 GCTGTGAGGTCTACAAAACATGG 59.811 47.826 0.00 0.00 0.00 3.66
2659 2757 3.067106 CGCTGTGAGGTCTACAAAACAT 58.933 45.455 0.00 0.00 0.00 2.71
2666 2764 1.965219 ACACCGCTGTGAGGTCTAC 59.035 57.895 15.72 0.00 45.76 2.59
2687 2785 2.113243 AGGACGAGCCTCCGCTTTTT 62.113 55.000 0.00 0.00 46.97 1.94
2688 2786 2.584391 AGGACGAGCCTCCGCTTTT 61.584 57.895 0.00 0.00 46.97 2.27
2689 2787 2.997897 AGGACGAGCCTCCGCTTT 60.998 61.111 0.00 0.00 46.97 3.51
2738 2852 1.664965 GCGGCGAGGTATGCTAAGG 60.665 63.158 12.98 0.00 0.00 2.69
2739 2853 0.319900 ATGCGGCGAGGTATGCTAAG 60.320 55.000 12.98 0.00 0.00 2.18
2740 2854 0.319555 GATGCGGCGAGGTATGCTAA 60.320 55.000 12.98 0.00 0.00 3.09
2756 2870 2.930385 CTACCGGTGCTGCAGGGATG 62.930 65.000 19.93 12.20 36.71 3.51
2758 2872 3.390521 CTACCGGTGCTGCAGGGA 61.391 66.667 19.93 9.36 36.71 4.20
2771 2885 2.047560 AAACCACCGCGAGCTACC 60.048 61.111 8.23 0.00 0.00 3.18
2772 2886 1.373748 TGAAACCACCGCGAGCTAC 60.374 57.895 8.23 0.00 0.00 3.58
2775 2889 2.665185 AGTGAAACCACCGCGAGC 60.665 61.111 8.23 0.00 37.80 5.03


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

AutoCloner maintained by Alex Coulton.