Multiple sequence alignment - TraesCS7A01G322200

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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 TraesCS7A01G322200 chr7A 100.000 4594 0 0 1 4594 466250779 466246186 0.000000e+00 8484.0
1 TraesCS7A01G322200 chr7B 93.817 3752 157 34 887 4594 419038209 419034489 0.000000e+00 5574.0
2 TraesCS7A01G322200 chr7B 91.897 543 17 9 1 539 419039188 419038669 0.000000e+00 734.0
3 TraesCS7A01G322200 chr7B 83.442 308 15 15 560 833 419038681 419038376 2.120000e-63 254.0
4 TraesCS7A01G322200 chr7D 93.524 3258 126 32 1 3207 407853261 407850038 0.000000e+00 4769.0
5 TraesCS7A01G322200 chr7D 94.239 1354 47 10 3253 4594 407850028 407848694 0.000000e+00 2039.0
6 TraesCS7A01G322200 chr6A 93.224 428 24 5 3962 4387 265993261 265993685 3.900000e-175 625.0
7 TraesCS7A01G322200 chr3B 97.872 47 1 0 734 780 122823338 122823292 1.060000e-11 82.4


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 TraesCS7A01G322200 chr7A 466246186 466250779 4593 True 8484.000000 8484 100.000000 1 4594 1 chr7A.!!$R1 4593
1 TraesCS7A01G322200 chr7B 419034489 419039188 4699 True 2187.333333 5574 89.718667 1 4594 3 chr7B.!!$R1 4593
2 TraesCS7A01G322200 chr7D 407848694 407853261 4567 True 3404.000000 4769 93.881500 1 4594 2 chr7D.!!$R1 4593

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
951 1113 0.590195 CAGACCAGCAAGACAGCAAC 59.410 55.0 0.00 0.0 36.85 4.17 F
2576 2773 0.323360 TAGCAGTGATTGGGGTTGGC 60.323 55.0 0.00 0.0 0.00 4.52 F
3241 3466 2.898729 AGGTCCTGCAGATATGTTCG 57.101 50.0 17.39 0.0 0.00 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2668 2872 0.304705 GTAATGAGGATGCGCCAACG 59.695 55.000 4.18 0.00 44.07 4.10 R
3531 3760 0.681733 TTGAGATCCTCATAGGCGCC 59.318 55.000 21.89 21.89 40.39 6.53 R
4432 4672 7.486551 TCTTGTTGTTGTTAAATTCCTTGTTCG 59.513 33.333 0.00 0.00 0.00 3.95 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
267 268 6.803320 CAGATTGCTACAACATTCGTCAATTT 59.197 34.615 0.00 0.00 0.00 1.82
354 355 4.751767 TTTTTGTTGGGAGCAAACAGAT 57.248 36.364 0.00 0.00 38.67 2.90
400 401 5.032846 GGATGGATATAGGAGGATTGGACA 58.967 45.833 0.00 0.00 0.00 4.02
402 403 6.352565 GGATGGATATAGGAGGATTGGACAAG 60.353 46.154 0.00 0.00 0.00 3.16
403 404 5.726560 TGGATATAGGAGGATTGGACAAGA 58.273 41.667 0.00 0.00 0.00 3.02
404 405 5.544176 TGGATATAGGAGGATTGGACAAGAC 59.456 44.000 0.00 0.00 0.00 3.01
893 1055 7.500892 TGAAAAGTTGGAGTGCTCAGTATAAAA 59.499 33.333 1.41 0.00 0.00 1.52
894 1056 7.817418 AAAGTTGGAGTGCTCAGTATAAAAA 57.183 32.000 1.41 0.00 0.00 1.94
895 1057 8.409358 AAAGTTGGAGTGCTCAGTATAAAAAT 57.591 30.769 1.41 0.00 0.00 1.82
896 1058 7.383102 AGTTGGAGTGCTCAGTATAAAAATG 57.617 36.000 1.41 0.00 0.00 2.32
897 1059 5.818136 TGGAGTGCTCAGTATAAAAATGC 57.182 39.130 1.41 0.00 0.00 3.56
898 1060 5.500234 TGGAGTGCTCAGTATAAAAATGCT 58.500 37.500 1.41 0.00 0.00 3.79
899 1061 5.945784 TGGAGTGCTCAGTATAAAAATGCTT 59.054 36.000 1.41 0.00 0.00 3.91
900 1062 6.127925 TGGAGTGCTCAGTATAAAAATGCTTG 60.128 38.462 1.41 0.00 0.00 4.01
901 1063 6.094048 GGAGTGCTCAGTATAAAAATGCTTGA 59.906 38.462 1.41 0.00 0.00 3.02
951 1113 0.590195 CAGACCAGCAAGACAGCAAC 59.410 55.000 0.00 0.00 36.85 4.17
1067 1229 4.452733 CCTCCGGCGGTCCTTGTC 62.453 72.222 27.32 0.00 0.00 3.18
1068 1230 4.796231 CTCCGGCGGTCCTTGTCG 62.796 72.222 27.32 0.00 0.00 4.35
1231 1399 1.766496 TCCTCGTCAAGACCAAAGGTT 59.234 47.619 9.44 0.00 35.25 3.50
1256 1425 3.787001 CCCGCCACTCCTCCTTCC 61.787 72.222 0.00 0.00 0.00 3.46
1257 1426 3.787001 CCGCCACTCCTCCTTCCC 61.787 72.222 0.00 0.00 0.00 3.97
1258 1427 4.148825 CGCCACTCCTCCTTCCCG 62.149 72.222 0.00 0.00 0.00 5.14
1259 1428 2.683933 GCCACTCCTCCTTCCCGA 60.684 66.667 0.00 0.00 0.00 5.14
1260 1429 2.066999 GCCACTCCTCCTTCCCGAT 61.067 63.158 0.00 0.00 0.00 4.18
1282 1456 7.362574 CCGATAGATTTAGATGAACTCCCTCTC 60.363 44.444 0.00 0.00 39.76 3.20
1300 1477 1.852965 CTCTTCTCCCCTCCTCTCTCT 59.147 57.143 0.00 0.00 0.00 3.10
1324 1501 9.243105 TCTCCCTAATTTACAAGAGAAATTTGG 57.757 33.333 11.81 11.81 43.20 3.28
1338 1515 7.373493 AGAGAAATTTGGAGTAAATGTTGCTG 58.627 34.615 0.00 0.00 38.93 4.41
1339 1516 7.231317 AGAGAAATTTGGAGTAAATGTTGCTGA 59.769 33.333 0.00 0.00 38.93 4.26
1340 1517 7.147976 AGAAATTTGGAGTAAATGTTGCTGAC 58.852 34.615 0.00 0.00 38.93 3.51
1341 1518 6.655078 AATTTGGAGTAAATGTTGCTGACT 57.345 33.333 0.00 0.00 38.93 3.41
1342 1519 6.655078 ATTTGGAGTAAATGTTGCTGACTT 57.345 33.333 0.00 0.00 37.59 3.01
1343 1520 7.759489 ATTTGGAGTAAATGTTGCTGACTTA 57.241 32.000 0.00 0.00 37.59 2.24
1344 1521 6.554334 TTGGAGTAAATGTTGCTGACTTAC 57.446 37.500 0.00 0.00 0.00 2.34
1368 1551 1.668419 CTGGTTAGGTATGCTGTGCC 58.332 55.000 0.00 0.00 0.00 5.01
1385 1568 6.183360 TGCTGTGCCATAATGCATAACAAATA 60.183 34.615 0.00 0.00 44.30 1.40
1387 1570 7.306749 GCTGTGCCATAATGCATAACAAATAAC 60.307 37.037 0.00 0.00 44.30 1.89
1388 1571 7.550712 TGTGCCATAATGCATAACAAATAACA 58.449 30.769 0.00 0.00 44.30 2.41
1390 1573 8.877779 GTGCCATAATGCATAACAAATAACAAA 58.122 29.630 0.00 0.00 44.30 2.83
1515 1700 0.688087 AGGACTCTCGGAATGGGGTC 60.688 60.000 0.00 0.00 0.00 4.46
1532 1717 2.124403 CTCACAGCTCCCATGGGC 60.124 66.667 27.41 15.62 34.68 5.36
1542 1734 0.764890 TCCCATGGGCGAATCCTAAG 59.235 55.000 27.41 0.00 34.68 2.18
1569 1762 3.519107 TCATCTGACATGGGCTCAACTTA 59.481 43.478 0.00 0.00 0.00 2.24
1585 1778 3.146104 ACTTATGCAGCTTGTGGAGTT 57.854 42.857 0.00 0.00 0.00 3.01
1737 1930 1.267806 ACCGATGCAGCTGAAAACAAG 59.732 47.619 20.43 4.59 0.00 3.16
1817 2012 5.967088 TGATAACTAGAGGTGCTTCAGTTC 58.033 41.667 0.00 0.00 32.09 3.01
1833 2028 2.163010 CAGTTCGATTGAATGCTTGGCT 59.837 45.455 0.00 0.00 36.29 4.75
1868 2063 6.148948 TGCACAAAATTTACAGCACAGATAC 58.851 36.000 7.11 0.00 0.00 2.24
1885 2080 5.067954 CAGATACATGCTGGATTTCCATCA 58.932 41.667 5.66 5.66 46.46 3.07
1957 2152 1.242076 AAGCATGGAAGCACTGTCAC 58.758 50.000 0.00 0.00 36.85 3.67
1971 2166 1.732259 CTGTCACCAACGCTATTCACC 59.268 52.381 0.00 0.00 0.00 4.02
1975 2170 4.189231 GTCACCAACGCTATTCACCTATT 58.811 43.478 0.00 0.00 0.00 1.73
2001 2196 3.891366 ACTTTCTGATGGTGGTTTTCTGG 59.109 43.478 0.00 0.00 0.00 3.86
2129 2325 1.047002 CCGCCTTCTCTGGATCAGAT 58.953 55.000 0.00 0.00 39.92 2.90
2139 2335 7.038160 CCTTCTCTGGATCAGATCATCCTTTAT 60.038 40.741 12.66 0.00 42.79 1.40
2227 2424 4.049186 TCTGTGAGTCTTTCTTTGCGTAC 58.951 43.478 0.00 0.00 0.00 3.67
2251 2448 7.272978 ACAATCGTGCTAAAGGAACACTATAT 58.727 34.615 0.00 0.00 32.07 0.86
2293 2490 2.669434 TCTACGCAGCAACGGTAATTTC 59.331 45.455 3.39 0.00 37.37 2.17
2369 2566 5.165676 AGTGTTGCTGATGTTATTGCAATG 58.834 37.500 22.27 4.27 45.25 2.82
2442 2639 2.996153 TTGTGCCGGCCAATGCAT 60.996 55.556 26.77 0.00 40.07 3.96
2576 2773 0.323360 TAGCAGTGATTGGGGTTGGC 60.323 55.000 0.00 0.00 0.00 4.52
2582 2779 3.897681 GATTGGGGTTGGCGGGGTT 62.898 63.158 0.00 0.00 0.00 4.11
2664 2868 6.834451 TCATTCCTAAACTCTGGAGTAGTAGG 59.166 42.308 21.97 21.97 43.66 3.18
2668 2872 7.115414 TCCTAAACTCTGGAGTAGTAGGTTAC 58.885 42.308 24.35 0.00 43.25 2.50
2860 3085 6.183360 GGATCAAGGTATACAACAAGTTCTGC 60.183 42.308 5.01 0.00 0.00 4.26
2879 3104 7.284489 AGTTCTGCAGTTTTAAACCACTCAATA 59.716 33.333 14.67 0.00 0.00 1.90
2898 3123 7.387948 ACTCAATACAGTTTGTTTAGGTAGCAG 59.612 37.037 0.00 0.00 0.00 4.24
2961 3186 4.524714 TGCTTCTTCAGTCTTAGCTAGTGT 59.475 41.667 0.00 0.00 33.15 3.55
3219 3444 4.124238 TCGTTTGTTGTCCAGACCTTAAG 58.876 43.478 0.00 0.00 0.00 1.85
3224 3449 3.260884 TGTTGTCCAGACCTTAAGCTAGG 59.739 47.826 0.62 0.62 41.31 3.02
3241 3466 2.898729 AGGTCCTGCAGATATGTTCG 57.101 50.000 17.39 0.00 0.00 3.95
3249 3474 5.105513 TCCTGCAGATATGTTCGAACTTACA 60.106 40.000 27.32 17.23 0.00 2.41
3251 3476 6.074088 CCTGCAGATATGTTCGAACTTACATC 60.074 42.308 27.32 19.96 36.46 3.06
3295 3521 7.438459 CCCTTTCCTCAATTTACTCGTATAGTG 59.562 40.741 0.00 0.00 39.39 2.74
3330 3557 5.708230 ACCATTGCATCAATTTTCAATGCTT 59.292 32.000 7.92 0.00 44.75 3.91
3332 3559 5.866335 TTGCATCAATTTTCAATGCTTCC 57.134 34.783 7.92 0.00 44.75 3.46
3333 3560 3.927758 TGCATCAATTTTCAATGCTTCCG 59.072 39.130 7.92 0.00 44.75 4.30
3347 3576 5.722021 ATGCTTCCGTTTTACTTGGATTT 57.278 34.783 0.00 0.00 0.00 2.17
3601 3837 5.308014 AGTTGAAATCATGTAGTGCTGACA 58.692 37.500 0.00 0.00 0.00 3.58
3700 3936 1.222936 GCATGGTCTCACTCCCTGG 59.777 63.158 0.00 0.00 0.00 4.45
3758 3996 2.798976 TTGTGCTCACAAGGAAATGC 57.201 45.000 11.03 0.00 45.42 3.56
3759 3997 0.592637 TGTGCTCACAAGGAAATGCG 59.407 50.000 0.00 0.00 38.56 4.73
3871 4111 6.356417 TGTAATGTTACAAAATCGTCACACG 58.644 36.000 3.25 0.00 40.43 4.49
3908 4148 5.627182 AGCATCAGAAATACCTGACAGAT 57.373 39.130 3.32 0.00 44.93 2.90
4319 4559 9.950496 ACAGTGAAAGAGATACATGAAAGTTAT 57.050 29.630 0.00 0.00 0.00 1.89
4432 4672 7.573968 AAGTAGAATAAAGAATGCCATGGAC 57.426 36.000 18.40 7.64 0.00 4.02
4474 4714 2.962421 ACAAGAGCTACTCCATCTAGGC 59.038 50.000 0.00 0.00 37.29 3.93
4499 4740 9.090692 GCAGCAGAACAAAAATATGTTAATGAT 57.909 29.630 8.29 1.31 43.31 2.45
4568 4809 9.547753 GTTATGATGATTTAGTTCCTTAGCTCA 57.452 33.333 0.00 0.00 0.00 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
267 268 1.018148 ACACGCACGATGAAACCAAA 58.982 45.000 0.00 0.00 0.00 3.28
354 355 3.245371 ACAAAGGCCTCCAAGAATGATCA 60.245 43.478 5.23 0.00 0.00 2.92
400 401 3.067461 GTGTCTGTCTGTCTGTCTGTCTT 59.933 47.826 0.00 0.00 0.00 3.01
402 403 2.603412 CGTGTCTGTCTGTCTGTCTGTC 60.603 54.545 0.00 0.00 0.00 3.51
403 404 1.335182 CGTGTCTGTCTGTCTGTCTGT 59.665 52.381 0.00 0.00 0.00 3.41
404 405 1.335415 CCGTGTCTGTCTGTCTGTCTG 60.335 57.143 0.00 0.00 0.00 3.51
895 1057 8.892723 CCATATTTATACAACAACTCTCAAGCA 58.107 33.333 0.00 0.00 0.00 3.91
896 1058 8.893727 ACCATATTTATACAACAACTCTCAAGC 58.106 33.333 0.00 0.00 0.00 4.01
899 1061 9.817809 GAGACCATATTTATACAACAACTCTCA 57.182 33.333 0.00 0.00 0.00 3.27
951 1113 3.757493 ACTTCACCAACTACTCTACTCCG 59.243 47.826 0.00 0.00 0.00 4.63
1249 1418 6.842437 TCATCTAAATCTATCGGGAAGGAG 57.158 41.667 0.00 0.00 0.00 3.69
1256 1425 6.435904 AGAGGGAGTTCATCTAAATCTATCGG 59.564 42.308 0.00 0.00 32.72 4.18
1257 1426 7.393234 AGAGAGGGAGTTCATCTAAATCTATCG 59.607 40.741 0.00 0.00 32.72 2.92
1258 1427 8.650143 AGAGAGGGAGTTCATCTAAATCTATC 57.350 38.462 0.00 0.00 32.72 2.08
1259 1428 9.088987 GAAGAGAGGGAGTTCATCTAAATCTAT 57.911 37.037 0.00 0.00 32.72 1.98
1260 1429 8.285891 AGAAGAGAGGGAGTTCATCTAAATCTA 58.714 37.037 0.00 0.00 32.72 1.98
1282 1456 1.133482 GGAGAGAGAGGAGGGGAGAAG 60.133 61.905 0.00 0.00 0.00 2.85
1300 1477 9.243105 CTCCAAATTTCTCTTGTAAATTAGGGA 57.757 33.333 0.00 0.00 37.45 4.20
1323 1500 5.701290 AGTGTAAGTCAGCAACATTTACTCC 59.299 40.000 0.00 0.00 0.00 3.85
1324 1501 6.593978 CAGTGTAAGTCAGCAACATTTACTC 58.406 40.000 0.00 0.00 0.00 2.59
1331 1508 2.212652 CAGCAGTGTAAGTCAGCAACA 58.787 47.619 0.00 0.00 0.00 3.33
1333 1510 1.140852 ACCAGCAGTGTAAGTCAGCAA 59.859 47.619 0.00 0.00 0.00 3.91
1338 1515 3.679824 ACCTAACCAGCAGTGTAAGTC 57.320 47.619 0.00 0.00 0.00 3.01
1339 1516 4.623171 GCATACCTAACCAGCAGTGTAAGT 60.623 45.833 0.00 0.00 0.00 2.24
1340 1517 3.871594 GCATACCTAACCAGCAGTGTAAG 59.128 47.826 0.00 0.00 0.00 2.34
1341 1518 3.517901 AGCATACCTAACCAGCAGTGTAA 59.482 43.478 0.00 0.00 0.00 2.41
1342 1519 3.104512 AGCATACCTAACCAGCAGTGTA 58.895 45.455 0.00 0.00 0.00 2.90
1343 1520 1.909302 AGCATACCTAACCAGCAGTGT 59.091 47.619 0.00 0.00 0.00 3.55
1344 1521 2.283298 CAGCATACCTAACCAGCAGTG 58.717 52.381 0.00 0.00 0.00 3.66
1401 1584 9.547279 GGTATATAATCATCCATTCCCCTTTTT 57.453 33.333 0.00 0.00 0.00 1.94
1425 1608 6.266558 TGCATACTTGTTTAGTCAAATTGGGT 59.733 34.615 0.00 0.00 38.33 4.51
1435 1618 4.637534 CAGGAGCATGCATACTTGTTTAGT 59.362 41.667 21.98 0.00 41.04 2.24
1515 1700 2.124403 GCCCATGGGAGCTGTGAG 60.124 66.667 36.00 4.56 37.50 3.51
1532 1717 5.874810 TGTCAGATGAAAACCTTAGGATTCG 59.125 40.000 4.77 0.00 0.00 3.34
1542 1734 2.424956 GAGCCCATGTCAGATGAAAACC 59.575 50.000 0.00 0.00 0.00 3.27
1569 1762 0.316204 GCAAACTCCACAAGCTGCAT 59.684 50.000 1.02 0.00 37.19 3.96
1585 1778 1.911357 ACATGGAGATCAGAGTGGCAA 59.089 47.619 0.00 0.00 0.00 4.52
1737 1930 9.654663 AGACTAATAATAAACAGGTGTTGTCTC 57.345 33.333 0.00 0.00 39.73 3.36
1761 1956 5.656416 AGGTGTTGATGTTCCAAAGAAAAGA 59.344 36.000 0.00 0.00 32.58 2.52
1817 2012 1.386533 AGGAGCCAAGCATTCAATCG 58.613 50.000 0.00 0.00 0.00 3.34
1833 2028 2.346766 TTTTGTGCAGCTCTCAAGGA 57.653 45.000 0.00 0.00 30.86 3.36
1843 2038 4.609947 TCTGTGCTGTAAATTTTGTGCAG 58.390 39.130 10.49 8.73 0.00 4.41
1898 2093 6.155827 AGTTGCAAAAATATTTAAGCGCTCA 58.844 32.000 12.06 0.00 0.00 4.26
1902 2097 6.586082 ACAGGAGTTGCAAAAATATTTAAGCG 59.414 34.615 0.00 6.32 0.00 4.68
1957 2152 3.804036 TGGAATAGGTGAATAGCGTTGG 58.196 45.455 0.00 0.00 0.00 3.77
1971 2166 5.256474 ACCACCATCAGAAAGTTGGAATAG 58.744 41.667 0.00 0.00 39.08 1.73
1975 2170 3.593442 AACCACCATCAGAAAGTTGGA 57.407 42.857 0.00 0.00 39.08 3.53
2001 2196 3.902467 AGGGAGGGATAACCGATTAGTTC 59.098 47.826 0.00 0.00 46.96 3.01
2040 2236 1.133823 ACAACATGACTGCCAACTGGA 60.134 47.619 0.00 0.00 37.39 3.86
2139 2335 2.387757 AGAAAACAAAGCAGCCCTTCA 58.612 42.857 0.00 0.00 31.99 3.02
2143 2339 2.473816 GTCAAGAAAACAAAGCAGCCC 58.526 47.619 0.00 0.00 0.00 5.19
2227 2424 7.438160 TCATATAGTGTTCCTTTAGCACGATTG 59.562 37.037 0.00 0.00 43.55 2.67
2251 2448 3.992943 AATAGTCGGGTTTCACCATCA 57.007 42.857 0.00 0.00 41.02 3.07
2269 2466 2.373540 TACCGTTGCTGCGTAGAAAT 57.626 45.000 4.08 0.00 0.00 2.17
2293 2490 9.175060 CGACAGAGTATGTAAGTGAATATTCTG 57.825 37.037 16.24 11.43 44.17 3.02
2369 2566 1.109323 ACACTGGTTTTCCTGCAGGC 61.109 55.000 28.91 13.79 41.75 4.85
2576 2773 2.017113 GCTAACCTTGATCCAACCCCG 61.017 57.143 0.00 0.00 0.00 5.73
2582 2779 6.787458 TCCTTATATCAGCTAACCTTGATCCA 59.213 38.462 0.00 0.00 0.00 3.41
2664 2868 1.017177 TGAGGATGCGCCAACGTAAC 61.017 55.000 4.18 0.00 42.83 2.50
2668 2872 0.304705 GTAATGAGGATGCGCCAACG 59.695 55.000 4.18 0.00 44.07 4.10
2860 3085 9.019764 CAAACTGTATTGAGTGGTTTAAAACTG 57.980 33.333 4.60 0.00 31.84 3.16
2879 3104 5.681639 AGAACTGCTACCTAAACAAACTGT 58.318 37.500 0.00 0.00 0.00 3.55
3002 3227 1.372683 CACACCTCTCCCACCAGTG 59.627 63.158 0.00 0.00 34.61 3.66
3219 3444 3.658709 GAACATATCTGCAGGACCTAGC 58.341 50.000 15.13 0.96 0.00 3.42
3224 3449 3.786635 AGTTCGAACATATCTGCAGGAC 58.213 45.455 28.78 0.00 0.00 3.85
3241 3466 3.064207 TGTGCCAAGACGATGTAAGTTC 58.936 45.455 0.00 0.00 0.00 3.01
3249 3474 3.045601 GCCTATATGTGCCAAGACGAT 57.954 47.619 0.00 0.00 0.00 3.73
3317 3544 7.042119 CCAAGTAAAACGGAAGCATTGAAAATT 60.042 33.333 0.00 0.00 0.00 1.82
3323 3550 4.497473 TCCAAGTAAAACGGAAGCATTG 57.503 40.909 0.00 0.00 0.00 2.82
3330 3557 4.022676 GCAAGGAAATCCAAGTAAAACGGA 60.023 41.667 1.67 0.00 38.89 4.69
3332 3559 5.121221 AGCAAGGAAATCCAAGTAAAACG 57.879 39.130 1.67 0.00 38.89 3.60
3333 3560 5.177511 GCAAGCAAGGAAATCCAAGTAAAAC 59.822 40.000 1.67 0.00 38.89 2.43
3347 3576 3.020274 TGTTACACAAAGCAAGCAAGGA 58.980 40.909 0.00 0.00 0.00 3.36
3531 3760 0.681733 TTGAGATCCTCATAGGCGCC 59.318 55.000 21.89 21.89 40.39 6.53
3601 3837 4.836825 ACTTTCGACCACATGATCATCTT 58.163 39.130 4.86 0.00 0.00 2.40
3754 3992 5.934625 AGAAGAACAAACTGAGATACGCATT 59.065 36.000 0.00 0.00 0.00 3.56
3758 3996 6.423905 TGGAAAGAAGAACAAACTGAGATACG 59.576 38.462 0.00 0.00 0.00 3.06
3759 3997 7.730364 TGGAAAGAAGAACAAACTGAGATAC 57.270 36.000 0.00 0.00 0.00 2.24
3811 4051 4.082787 GGCTGCAGAACTGTATAAGCAAAA 60.083 41.667 20.43 0.00 31.45 2.44
3848 4088 6.583160 TCGTGTGACGATTTTGTAACATTAC 58.417 36.000 0.00 0.00 46.73 1.89
3871 4111 4.039004 TCTGATGCTAGCTGAGGATTCTTC 59.961 45.833 17.23 0.00 36.13 2.87
3908 4148 7.946207 TGCATGTATTTTGTTTTACTCTGGAA 58.054 30.769 0.00 0.00 0.00 3.53
3930 4170 2.094338 TGTGTTGCACAACTTCATTGCA 60.094 40.909 14.16 0.00 41.69 4.08
4432 4672 7.486551 TCTTGTTGTTGTTAAATTCCTTGTTCG 59.513 33.333 0.00 0.00 0.00 3.95
4516 4757 8.500753 TTAGTTTCTGTTCAGAAGTTGCTTAA 57.499 30.769 13.69 6.78 0.00 1.85


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

AutoCloner maintained by Alex Coulton.