Multiple sequence alignment - TraesCS1D01G270400

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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 TraesCS1D01G270400 chr1D 100.000 2294 0 0 1 2294 365434450 365436743 0 4237
1 TraesCS1D01G270400 chr1A 91.054 1755 77 19 1 1712 464247900 464249617 0 2298
2 TraesCS1D01G270400 chr1A 92.869 589 38 4 1709 2294 464249656 464250243 0 852
3 TraesCS1D01G270400 chr1B 95.203 1084 36 3 632 1712 488819072 488820142 0 1700
4 TraesCS1D01G270400 chr1B 93.015 587 38 3 1709 2294 488820181 488820765 0 854
5 TraesCS1D01G270400 chr1B 86.022 651 39 11 1 613 488818184 488818820 0 651


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 TraesCS1D01G270400 chr1D 365434450 365436743 2293 False 4237.000000 4237 100.000000 1 2294 1 chr1D.!!$F1 2293
1 TraesCS1D01G270400 chr1A 464247900 464250243 2343 False 1575.000000 2298 91.961500 1 2294 2 chr1A.!!$F1 2293
2 TraesCS1D01G270400 chr1B 488818184 488820765 2581 False 1068.333333 1700 91.413333 1 2294 3 chr1B.!!$F1 2293

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
350 374 0.546122 TTGGCATACTGGTAGCTGGG 59.454 55.0 0.0 0.0 0.0 4.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1438 1726 0.39034 GCTCGTGAGAAGTGCCATCA 60.39 55.0 0.0 0.0 41.32 3.07 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
28 29 9.332502 TCATAGTGTTTGTAGCTTCAACTTAAA 57.667 29.630 5.13 0.00 0.00 1.52
31 32 7.425606 AGTGTTTGTAGCTTCAACTTAAATGG 58.574 34.615 5.13 0.00 0.00 3.16
36 37 7.391148 TGTAGCTTCAACTTAAATGGGAATC 57.609 36.000 0.00 0.00 0.00 2.52
39 40 6.248433 AGCTTCAACTTAAATGGGAATCAGA 58.752 36.000 0.00 0.00 0.00 3.27
44 45 7.689299 TCAACTTAAATGGGAATCAGAGAGAA 58.311 34.615 0.00 0.00 0.00 2.87
59 60 4.038642 CAGAGAGAAGGTTATAGAGGTGCC 59.961 50.000 0.00 0.00 0.00 5.01
136 137 7.708051 TGTAGATCATCTGTTTGAGCTAGTAC 58.292 38.462 0.00 0.00 43.22 2.73
176 178 4.269523 AAAGCCTGCCCGTCTGCA 62.270 61.111 0.00 0.00 39.37 4.41
211 213 6.555315 AGAAATCGATTTGCATTTACCTGTC 58.445 36.000 27.27 8.62 0.00 3.51
214 216 5.092554 TCGATTTGCATTTACCTGTCCTA 57.907 39.130 0.00 0.00 0.00 2.94
260 262 6.816640 AGCTCAATAGTTGCTTATGACGTTTA 59.183 34.615 0.00 0.00 32.61 2.01
261 263 7.495934 AGCTCAATAGTTGCTTATGACGTTTAT 59.504 33.333 0.00 0.00 32.61 1.40
262 264 7.584123 GCTCAATAGTTGCTTATGACGTTTATG 59.416 37.037 0.00 0.00 0.00 1.90
263 265 8.710835 TCAATAGTTGCTTATGACGTTTATGA 57.289 30.769 0.00 0.00 0.00 2.15
264 266 8.600625 TCAATAGTTGCTTATGACGTTTATGAC 58.399 33.333 0.00 0.00 0.00 3.06
265 267 8.387354 CAATAGTTGCTTATGACGTTTATGACA 58.613 33.333 0.00 0.00 0.00 3.58
266 268 6.795098 AGTTGCTTATGACGTTTATGACAA 57.205 33.333 0.00 0.00 0.00 3.18
267 269 7.377766 AGTTGCTTATGACGTTTATGACAAT 57.622 32.000 0.00 0.00 0.00 2.71
268 270 7.464358 AGTTGCTTATGACGTTTATGACAATC 58.536 34.615 0.00 0.00 0.00 2.67
269 271 6.358118 TGCTTATGACGTTTATGACAATCC 57.642 37.500 0.00 0.00 0.00 3.01
270 272 6.112734 TGCTTATGACGTTTATGACAATCCT 58.887 36.000 0.00 0.00 0.00 3.24
271 273 6.257849 TGCTTATGACGTTTATGACAATCCTC 59.742 38.462 0.00 0.00 0.00 3.71
302 304 7.023575 GCAATAATACTGAAGTCTTTGGTGTG 58.976 38.462 0.00 0.00 0.00 3.82
338 362 4.081406 AGAAAGTGCTGATTGTTGGCATA 58.919 39.130 0.00 0.00 38.27 3.14
350 374 0.546122 TTGGCATACTGGTAGCTGGG 59.454 55.000 0.00 0.00 0.00 4.45
361 385 6.321821 ACTGGTAGCTGGGTTGAATTATTA 57.678 37.500 0.00 0.00 0.00 0.98
372 396 6.897966 TGGGTTGAATTATTATGCACCCTAAA 59.102 34.615 6.06 0.00 34.31 1.85
375 399 9.476202 GGTTGAATTATTATGCACCCTAAAATC 57.524 33.333 0.00 0.00 0.00 2.17
396 420 9.787532 AAAATCGTATGTTGGATCAGTAAAATG 57.212 29.630 0.00 0.00 0.00 2.32
416 440 7.692460 AAATGTCTAGATGATTGTTCTGCAA 57.308 32.000 0.00 0.00 41.89 4.08
615 654 3.653539 CCATGGTGTGGCATGATATTG 57.346 47.619 2.57 0.00 42.12 1.90
621 660 3.758554 GGTGTGGCATGATATTGATACCC 59.241 47.826 0.00 0.00 0.00 3.69
628 667 5.220854 GGCATGATATTGATACCCGTTATGC 60.221 44.000 0.00 0.00 37.16 3.14
687 970 3.994392 AGCTTGTAACTCACGTTGTATGG 59.006 43.478 0.00 0.00 34.59 2.74
690 973 5.277634 GCTTGTAACTCACGTTGTATGGTTT 60.278 40.000 0.00 0.00 34.59 3.27
720 1003 9.250624 CCTCATTAGTTAGTACTGAAGCAATAC 57.749 37.037 5.39 0.00 35.78 1.89
782 1065 8.353423 AGATTATGACTGTTTAAAATGCCTGT 57.647 30.769 0.00 0.00 0.00 4.00
848 1131 7.271653 CCGCGTTGATAGAGATATTTCTACTTC 59.728 40.741 4.92 1.89 32.78 3.01
863 1146 7.435068 TTTCTACTTCCTAATGAAACTGTGC 57.565 36.000 0.00 0.00 31.06 4.57
912 1195 5.189539 TCAAGGTATTGACCATGATGTGAGA 59.810 40.000 0.00 0.00 46.12 3.27
920 1203 5.315348 TGACCATGATGTGAGATGAAACAA 58.685 37.500 0.00 0.00 0.00 2.83
964 1247 9.277565 CACATTTTCTAACTATTGTTCATTCCG 57.722 33.333 0.00 0.00 37.59 4.30
1095 1378 0.460987 CAGAGGAGGACAACCGATGC 60.461 60.000 0.00 0.00 41.83 3.91
1331 1614 1.081892 CCAGTTGGATTCTGCACTCG 58.918 55.000 0.00 0.00 37.39 4.18
1337 1620 2.959516 TGGATTCTGCACTCGTACTTG 58.040 47.619 0.00 0.00 0.00 3.16
1415 1703 5.568620 ATCAGTACTTTTCAGTTGGGACT 57.431 39.130 0.00 0.00 36.25 3.85
1416 1704 4.957296 TCAGTACTTTTCAGTTGGGACTC 58.043 43.478 0.00 0.00 32.54 3.36
1417 1705 4.654262 TCAGTACTTTTCAGTTGGGACTCT 59.346 41.667 0.00 0.00 32.54 3.24
1434 1722 4.278669 GGACTCTTATCGGTCTATGCTCAA 59.721 45.833 0.00 0.00 33.46 3.02
1435 1723 5.446143 ACTCTTATCGGTCTATGCTCAAG 57.554 43.478 0.00 0.00 0.00 3.02
1436 1724 5.133941 ACTCTTATCGGTCTATGCTCAAGA 58.866 41.667 0.00 0.00 0.00 3.02
1437 1725 5.240623 ACTCTTATCGGTCTATGCTCAAGAG 59.759 44.000 0.00 0.00 42.10 2.85
1438 1726 5.133941 TCTTATCGGTCTATGCTCAAGAGT 58.866 41.667 0.00 0.00 0.00 3.24
1439 1727 3.724508 ATCGGTCTATGCTCAAGAGTG 57.275 47.619 0.00 0.00 0.00 3.51
1440 1728 2.723273 TCGGTCTATGCTCAAGAGTGA 58.277 47.619 0.00 0.00 0.00 3.41
1441 1729 3.291584 TCGGTCTATGCTCAAGAGTGAT 58.708 45.455 0.00 0.00 31.85 3.06
1442 1730 3.067320 TCGGTCTATGCTCAAGAGTGATG 59.933 47.826 0.00 0.00 31.85 3.07
1443 1731 3.726607 GGTCTATGCTCAAGAGTGATGG 58.273 50.000 0.00 0.00 31.85 3.51
1444 1732 3.129871 GTCTATGCTCAAGAGTGATGGC 58.870 50.000 0.00 0.00 31.85 4.40
1445 1733 2.767960 TCTATGCTCAAGAGTGATGGCA 59.232 45.455 0.00 0.00 38.76 4.92
1555 1843 9.154632 TCTAAAAGTGGATATGCTATCCTGTAA 57.845 33.333 17.66 1.82 38.95 2.41
1628 1916 2.030007 CACTGGGATTTTCATGCGTTGT 60.030 45.455 0.00 0.00 0.00 3.32
1634 1922 2.949451 TTTTCATGCGTTGTGGTTGT 57.051 40.000 0.00 0.00 0.00 3.32
1649 1937 2.223688 TGGTTGTCATTTCTTTGCCACG 60.224 45.455 0.00 0.00 0.00 4.94
1661 1949 0.601576 TTGCCACGTGATAACGCTGT 60.602 50.000 19.30 0.00 36.44 4.40
1700 1988 5.474532 TCAGCTATTTCTCTTGTGCACAAAT 59.525 36.000 30.62 22.60 35.15 2.32
1727 2058 5.878116 TGCGTAAAAGCAGGATGTTAAGTAT 59.122 36.000 0.00 0.00 42.92 2.12
1728 2059 6.183360 TGCGTAAAAGCAGGATGTTAAGTATG 60.183 38.462 0.00 0.00 42.92 2.39
1729 2060 6.036735 GCGTAAAAGCAGGATGTTAAGTATGA 59.963 38.462 0.00 0.00 39.31 2.15
1730 2061 7.254795 GCGTAAAAGCAGGATGTTAAGTATGAT 60.255 37.037 0.00 0.00 39.31 2.45
1790 2121 6.435430 TCAGTGAACATCAATTATTTCCCG 57.565 37.500 0.00 0.00 0.00 5.14
1803 2134 5.486735 TTATTTCCCGTCTTAGGTTGTCA 57.513 39.130 0.00 0.00 0.00 3.58
1861 2192 9.010029 AGGTAAAGACAATTACATTACACCAAG 57.990 33.333 10.07 0.00 37.48 3.61
1865 2196 7.672983 AGACAATTACATTACACCAAGTGAG 57.327 36.000 0.96 0.00 36.96 3.51
1886 2217 7.603784 AGTGAGAAGTTTGAAACAAAGCAAATT 59.396 29.630 11.02 0.00 36.51 1.82
1963 2295 4.329638 TGCTTCCTATTTTCCCAATGGA 57.670 40.909 0.00 0.00 39.54 3.41
1976 2308 5.341872 TCCCAATGGACATGCTTTTAATG 57.658 39.130 0.00 0.00 35.03 1.90
1981 2313 7.769970 CCCAATGGACATGCTTTTAATGTAATT 59.230 33.333 0.00 0.00 38.37 1.40
1983 2315 8.819974 CAATGGACATGCTTTTAATGTAATTCC 58.180 33.333 0.00 0.00 38.37 3.01
2023 2356 4.407818 CACGCTATTTTTATTGAACCGCA 58.592 39.130 0.00 0.00 0.00 5.69
2043 2376 2.123632 AGGGGCCTTGAGCAGAGA 59.876 61.111 0.84 0.00 46.50 3.10
2068 2401 5.801350 TTGCGTCTTTTATCTTCTCCATG 57.199 39.130 0.00 0.00 0.00 3.66
2092 2425 0.790207 ATTGTAGCGTTGACAGTGCG 59.210 50.000 0.00 0.00 0.00 5.34
2125 2458 3.513912 AGATACGAACACCCTTGTCATCA 59.486 43.478 0.00 0.00 33.55 3.07
2181 2514 4.216257 TGATGCAAGAGAAAACACCTTAGC 59.784 41.667 0.00 0.00 0.00 3.09
2196 2529 1.761198 CTTAGCTACCCACCTACCCAC 59.239 57.143 0.00 0.00 0.00 4.61
2218 2551 5.062683 CACTGATCTTGTTTATGTCGACTGG 59.937 44.000 17.92 0.00 0.00 4.00
2222 2555 1.343821 GTTTATGTCGACTGGCGCG 59.656 57.895 17.92 0.00 40.61 6.86
2240 2573 1.539827 GCGCTCAAAATGGGTGTAACT 59.460 47.619 0.00 0.00 36.74 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 6.945435 TGATTCCCATTTAAGTTGAAGCTACA 59.055 34.615 0.00 0.00 0.00 2.74
28 29 7.309091 TCTATAACCTTCTCTCTGATTCCCAT 58.691 38.462 0.00 0.00 0.00 4.00
31 32 6.780522 ACCTCTATAACCTTCTCTCTGATTCC 59.219 42.308 0.00 0.00 0.00 3.01
36 37 4.038642 GGCACCTCTATAACCTTCTCTCTG 59.961 50.000 0.00 0.00 0.00 3.35
39 40 4.219919 GAGGCACCTCTATAACCTTCTCT 58.780 47.826 9.54 0.00 39.80 3.10
44 45 1.294068 TGGGAGGCACCTCTATAACCT 59.706 52.381 16.08 0.00 42.38 3.50
136 137 4.092237 TGAAACATAAACATGACGCTACGG 59.908 41.667 0.00 0.00 0.00 4.02
176 178 6.149973 TGCAAATCGATTTCTTCATTCTCTGT 59.850 34.615 20.31 0.00 0.00 3.41
179 181 7.982371 AATGCAAATCGATTTCTTCATTCTC 57.018 32.000 20.31 2.97 0.00 2.87
211 213 9.160496 GCTCTATATTCCAAGATGAAACATAGG 57.840 37.037 0.00 0.00 31.14 2.57
214 216 8.435187 TGAGCTCTATATTCCAAGATGAAACAT 58.565 33.333 16.19 0.00 0.00 2.71
234 236 4.806247 ACGTCATAAGCAACTATTGAGCTC 59.194 41.667 6.82 6.82 37.70 4.09
260 262 2.905415 TGCAAAGGGAGGATTGTCAT 57.095 45.000 0.00 0.00 0.00 3.06
261 263 2.673775 TTGCAAAGGGAGGATTGTCA 57.326 45.000 0.00 0.00 0.00 3.58
262 264 5.859205 ATTATTGCAAAGGGAGGATTGTC 57.141 39.130 1.71 0.00 0.00 3.18
263 265 6.322201 CAGTATTATTGCAAAGGGAGGATTGT 59.678 38.462 1.71 0.00 0.00 2.71
264 266 6.547141 TCAGTATTATTGCAAAGGGAGGATTG 59.453 38.462 1.71 0.00 0.00 2.67
265 267 6.672593 TCAGTATTATTGCAAAGGGAGGATT 58.327 36.000 1.71 0.00 0.00 3.01
266 268 6.266131 TCAGTATTATTGCAAAGGGAGGAT 57.734 37.500 1.71 0.00 0.00 3.24
267 269 5.708736 TCAGTATTATTGCAAAGGGAGGA 57.291 39.130 1.71 0.00 0.00 3.71
268 270 5.888161 ACTTCAGTATTATTGCAAAGGGAGG 59.112 40.000 1.71 0.00 0.00 4.30
269 271 6.825721 AGACTTCAGTATTATTGCAAAGGGAG 59.174 38.462 1.71 0.00 0.00 4.30
270 272 6.721318 AGACTTCAGTATTATTGCAAAGGGA 58.279 36.000 1.71 0.00 0.00 4.20
271 273 7.396540 AAGACTTCAGTATTATTGCAAAGGG 57.603 36.000 1.71 0.00 0.00 3.95
309 311 4.965814 ACAATCAGCACTTTCTCAGAGAA 58.034 39.130 8.95 8.95 31.28 2.87
323 325 2.094675 ACCAGTATGCCAACAATCAGC 58.905 47.619 0.00 0.00 31.97 4.26
338 362 4.862641 ATAATTCAACCCAGCTACCAGT 57.137 40.909 0.00 0.00 0.00 4.00
350 374 9.180678 CGATTTTAGGGTGCATAATAATTCAAC 57.819 33.333 0.00 0.00 0.00 3.18
361 385 4.338118 CCAACATACGATTTTAGGGTGCAT 59.662 41.667 0.00 0.00 0.00 3.96
372 396 8.506168 ACATTTTACTGATCCAACATACGATT 57.494 30.769 0.00 0.00 0.00 3.34
375 399 7.539712 AGACATTTTACTGATCCAACATACG 57.460 36.000 0.00 0.00 0.00 3.06
396 420 4.333926 GGGTTGCAGAACAATCATCTAGAC 59.666 45.833 0.00 0.00 41.53 2.59
485 522 7.141758 TGTTCAGGGCTCATATTTCTAAGAT 57.858 36.000 0.00 0.00 0.00 2.40
604 643 5.220854 GCATAACGGGTATCAATATCATGCC 60.221 44.000 0.00 0.00 31.22 4.40
610 649 7.324935 TGTTATCGCATAACGGGTATCAATAT 58.675 34.615 11.73 0.00 46.22 1.28
611 650 6.689554 TGTTATCGCATAACGGGTATCAATA 58.310 36.000 11.73 0.00 46.22 1.90
612 651 5.543714 TGTTATCGCATAACGGGTATCAAT 58.456 37.500 11.73 0.00 46.22 2.57
613 652 4.946445 TGTTATCGCATAACGGGTATCAA 58.054 39.130 11.73 0.00 46.22 2.57
614 653 4.587584 TGTTATCGCATAACGGGTATCA 57.412 40.909 11.73 0.00 46.22 2.15
615 654 4.927425 ACATGTTATCGCATAACGGGTATC 59.073 41.667 0.00 0.00 46.22 2.24
621 660 4.447724 AGGCTAACATGTTATCGCATAACG 59.552 41.667 23.53 10.38 46.22 3.18
628 667 8.742554 AAAAGAAAAAGGCTAACATGTTATCG 57.257 30.769 18.35 9.33 0.00 2.92
690 973 9.197306 TGCTTCAGTACTAACTAATGAGGAATA 57.803 33.333 0.00 0.00 30.17 1.75
720 1003 8.561738 AAAGGACCACTTATAACAACACTATG 57.438 34.615 0.00 0.00 38.85 2.23
755 1038 8.461222 CAGGCATTTTAAACAGTCATAATCTCA 58.539 33.333 0.00 0.00 0.00 3.27
782 1065 8.049721 AGAAACAATCAACCCCAACAAAATTTA 58.950 29.630 0.00 0.00 0.00 1.40
848 1131 3.896648 AACACGCACAGTTTCATTAGG 57.103 42.857 0.00 0.00 0.00 2.69
863 1146 5.116680 GTGACTAGTGCTACAAAGTAACACG 59.883 44.000 0.00 0.00 36.38 4.49
964 1247 2.357637 TGAAACTGCCAGTAACTGCAAC 59.642 45.455 0.00 0.00 0.00 4.17
1095 1378 0.886490 AGCAGGAAACAACAGCTCCG 60.886 55.000 0.00 0.00 34.22 4.63
1135 1418 1.556911 CCCAACACTAGCAGATCCAGT 59.443 52.381 0.00 0.00 0.00 4.00
1331 1614 4.220821 TGATGGAGTCTCCTGAACAAGTAC 59.779 45.833 19.82 0.00 37.46 2.73
1337 1620 4.397417 CCAAATTGATGGAGTCTCCTGAAC 59.603 45.833 19.82 8.85 43.54 3.18
1384 1670 8.812329 CAACTGAAAAGTACTGATAGACATAGC 58.188 37.037 0.00 0.00 0.00 2.97
1415 1703 5.009110 CACTCTTGAGCATAGACCGATAAGA 59.991 44.000 0.00 0.00 0.00 2.10
1416 1704 5.009110 TCACTCTTGAGCATAGACCGATAAG 59.991 44.000 0.00 0.00 0.00 1.73
1417 1705 4.887655 TCACTCTTGAGCATAGACCGATAA 59.112 41.667 0.00 0.00 0.00 1.75
1437 1725 1.354040 CTCGTGAGAAGTGCCATCAC 58.646 55.000 0.00 0.00 41.32 3.06
1438 1726 0.390340 GCTCGTGAGAAGTGCCATCA 60.390 55.000 0.00 0.00 41.32 3.07
1439 1727 0.390340 TGCTCGTGAGAAGTGCCATC 60.390 55.000 0.00 0.00 41.32 3.51
1440 1728 0.390866 CTGCTCGTGAGAAGTGCCAT 60.391 55.000 0.00 0.00 41.32 4.40
1441 1729 1.005748 CTGCTCGTGAGAAGTGCCA 60.006 57.895 0.00 0.00 41.32 4.92
1442 1730 0.601311 AACTGCTCGTGAGAAGTGCC 60.601 55.000 11.26 0.00 46.47 5.01
1443 1731 1.070309 CAAACTGCTCGTGAGAAGTGC 60.070 52.381 11.26 0.00 46.47 4.40
1444 1732 2.033407 CACAAACTGCTCGTGAGAAGTG 60.033 50.000 11.26 2.95 46.47 3.16
1453 1741 1.283793 CCAAGCCACAAACTGCTCG 59.716 57.895 0.00 0.00 36.66 5.03
1584 1872 4.588528 GGCCATTTTCCCAGCAATTATAGA 59.411 41.667 0.00 0.00 0.00 1.98
1628 1916 2.223688 CGTGGCAAAGAAATGACAACCA 60.224 45.455 0.00 0.00 40.79 3.67
1634 1922 4.377943 CGTTATCACGTGGCAAAGAAATGA 60.378 41.667 17.00 0.00 41.84 2.57
1649 1937 3.226346 TGACCACTACAGCGTTATCAC 57.774 47.619 0.00 0.00 0.00 3.06
1661 1949 8.486210 AGAAATAGCTGATACAATTGACCACTA 58.514 33.333 13.59 6.33 0.00 2.74
1700 1988 2.778299 ACATCCTGCTTTTACGCAAGA 58.222 42.857 0.00 0.00 39.80 3.02
1733 2064 9.435688 GAAAAAGGCCTTGTAAATCATTTATGT 57.564 29.630 21.33 0.00 0.00 2.29
1758 2089 7.470935 AATTGATGTTCACTGATTTGGATGA 57.529 32.000 0.00 0.00 0.00 2.92
1761 2092 9.859427 GAAATAATTGATGTTCACTGATTTGGA 57.141 29.630 0.00 0.00 0.00 3.53
1829 2160 3.756434 TGTAATTGTCTTTACCTGCAGGC 59.244 43.478 33.06 15.57 39.32 4.85
1861 2192 6.704512 TTTGCTTTGTTTCAAACTTCTCAC 57.295 33.333 1.10 0.00 0.00 3.51
1865 2196 6.779385 GCAATTTGCTTTGTTTCAAACTTC 57.221 33.333 14.11 0.00 40.96 3.01
1906 2237 8.564574 TGTACAACAGATAGTTCACCATTTTTC 58.435 33.333 0.00 0.00 38.74 2.29
1963 2295 6.151985 TCACCGGAATTACATTAAAAGCATGT 59.848 34.615 9.46 0.00 38.45 3.21
1976 2308 4.082463 TGAAGGCATTTTCACCGGAATTAC 60.082 41.667 9.46 0.00 32.39 1.89
1981 2313 1.533625 CTGAAGGCATTTTCACCGGA 58.466 50.000 9.46 0.00 33.71 5.14
1983 2315 3.406682 GCTGAAGGCATTTTCACCG 57.593 52.632 0.00 0.00 41.35 4.94
2023 2356 4.044439 CTGCTCAAGGCCCCTGCT 62.044 66.667 0.00 0.00 40.92 4.24
2043 2376 5.245531 TGGAGAAGATAAAAGACGCAATGT 58.754 37.500 0.00 0.00 0.00 2.71
2068 2401 1.394917 CTGTCAACGCTACAATCTGCC 59.605 52.381 0.00 0.00 0.00 4.85
2092 2425 4.946411 CGTATCTCCTACGCTGCC 57.054 61.111 0.00 0.00 45.96 4.85
2125 2458 1.076777 CCCCGGAGATGCATTTGGT 60.077 57.895 0.73 0.00 0.00 3.67
2181 2514 2.040178 GATCAGTGGGTAGGTGGGTAG 58.960 57.143 0.00 0.00 0.00 3.18
2196 2529 4.033358 GCCAGTCGACATAAACAAGATCAG 59.967 45.833 19.50 0.00 0.00 2.90
2218 2551 1.917782 TACACCCATTTTGAGCGCGC 61.918 55.000 26.66 26.66 0.00 6.86
2222 2555 3.568007 TGACAGTTACACCCATTTTGAGC 59.432 43.478 0.00 0.00 0.00 4.26
2240 2573 2.289072 GCTAGAGAAAGCACAGGTGACA 60.289 50.000 3.10 0.00 42.30 3.58


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

AutoCloner maintained by Alex Coulton.