Multiple sequence alignment - TraesCS5B01G154900

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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 TraesCS5B01G154900 chr5B 100.000 5833 0 0 1 5833 285500091 285505923 0.000000e+00 10772
1 TraesCS5B01G154900 chr5B 92.135 89 7 0 1914 2002 706306964 706306876 6.140000e-25 126
2 TraesCS5B01G154900 chr5B 90.805 87 8 0 1913 1999 215889682 215889768 3.690000e-22 117
3 TraesCS5B01G154900 chr5D 94.796 5361 180 34 528 5826 253179440 253184763 0.000000e+00 8263
4 TraesCS5B01G154900 chr5D 96.422 531 16 1 3 530 253178870 253179400 0.000000e+00 872
5 TraesCS5B01G154900 chr5A 92.880 3076 103 29 2820 5833 335676120 335679141 0.000000e+00 4361
6 TraesCS5B01G154900 chr5A 95.329 2312 90 7 528 2823 335673689 335675998 0.000000e+00 3655
7 TraesCS5B01G154900 chr5A 96.998 533 13 1 1 530 335673117 335673649 0.000000e+00 893
8 TraesCS5B01G154900 chrUn 84.800 375 43 9 2800 3164 224667104 224666734 1.190000e-96 364
9 TraesCS5B01G154900 chr2B 92.222 90 7 0 1913 2002 764537611 764537700 1.710000e-25 128
10 TraesCS5B01G154900 chr2B 88.776 98 11 0 1914 2011 764537697 764537600 2.850000e-23 121
11 TraesCS5B01G154900 chr6D 93.023 86 6 0 1914 1999 292073457 292073372 6.140000e-25 126
12 TraesCS5B01G154900 chr7D 90.909 88 8 0 1914 2001 419793198 419793111 1.030000e-22 119
13 TraesCS5B01G154900 chr1B 90.805 87 8 0 1913 1999 493871879 493871965 3.690000e-22 117


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 TraesCS5B01G154900 chr5B 285500091 285505923 5832 False 10772.000000 10772 100.000 1 5833 1 chr5B.!!$F2 5832
1 TraesCS5B01G154900 chr5D 253178870 253184763 5893 False 4567.500000 8263 95.609 3 5826 2 chr5D.!!$F1 5823
2 TraesCS5B01G154900 chr5A 335673117 335679141 6024 False 2969.666667 4361 95.069 1 5833 3 chr5A.!!$F1 5832

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
67 68 5.514059 TTTAACCGTGCTTATGTTCGTAC 57.486 39.130 0.00 0.00 0.00 3.67 F
1020 1066 1.215647 CCAGTCTACGGCTGTGACC 59.784 63.158 18.66 4.06 32.41 4.02 F
1725 1774 0.829990 TCACTGTGACTGGTTCTGCA 59.170 50.000 6.36 0.00 0.00 4.41 F
2582 2637 0.640768 GCAGCTGTGATTACGTCGAC 59.359 55.000 16.64 5.18 0.00 4.20 F
2913 3102 1.455822 AAATCCTGGGTGTCCTTGGA 58.544 50.000 0.00 0.00 39.36 3.53 F
3126 3316 2.159324 GCCTCAGCTGCAAAAATAGGAC 60.159 50.000 17.19 6.75 35.50 3.85 F
4169 4379 2.294195 TGGATACAGAAATCCCAGGGGA 60.294 50.000 10.00 10.00 46.55 4.81 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1592 1641 0.595095 CCACTGACAAAAGAGCAGGC 59.405 55.000 0.00 0.00 34.05 4.85 R
2360 2415 0.029300 CCGCAATTTGGCCATCTACG 59.971 55.000 6.09 7.53 0.00 3.51 R
2901 3090 1.073199 CAGTGGTCCAAGGACACCC 59.927 63.158 20.03 4.56 46.20 4.61 R
4169 4379 0.179076 GCTGTTGGCTTGCTTGGTTT 60.179 50.000 0.00 0.00 38.06 3.27 R
4317 4533 1.625818 ACATCTTGGAGGTCAGGACAC 59.374 52.381 1.41 0.00 34.20 3.67 R
4324 4540 2.039084 ACCTGACAACATCTTGGAGGTC 59.961 50.000 2.11 0.00 38.88 3.85 R
5244 5489 1.229464 AGCTGAAGGGAGCAGGAGT 60.229 57.895 0.00 0.00 41.83 3.85 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
67 68 5.514059 TTTAACCGTGCTTATGTTCGTAC 57.486 39.130 0.00 0.00 0.00 3.67
227 228 7.553044 ACAAGTTCTTTTACTACTGCTCTTTGT 59.447 33.333 0.00 0.00 0.00 2.83
244 245 9.102757 TGCTCTTTGTTAAAATGTTGCAATAAA 57.897 25.926 0.59 0.00 0.00 1.40
382 383 7.074502 CAGAAAGAACAAAGCTATGACAGTTC 58.925 38.462 0.00 0.00 36.52 3.01
388 389 6.639632 ACAAAGCTATGACAGTTCAATGTT 57.360 33.333 0.00 0.00 34.61 2.71
423 424 7.656137 TCTTCAGTTGTAGTGTATGTTTCTTCC 59.344 37.037 0.00 0.00 0.00 3.46
573 619 7.755582 AACATGTTTCTTTGTACTTTTCTGC 57.244 32.000 4.92 0.00 0.00 4.26
649 695 7.936847 AGGTGAAGTGATGATAAACAAACACTA 59.063 33.333 0.00 0.00 43.38 2.74
658 704 7.899178 TGATAAACAAACACTATGATGTCGT 57.101 32.000 0.00 0.00 30.55 4.34
663 709 8.547967 AAACAAACACTATGATGTCGTATTCT 57.452 30.769 0.00 0.00 30.55 2.40
672 718 8.197439 ACTATGATGTCGTATTCTGTCATTTCA 58.803 33.333 0.00 0.00 0.00 2.69
725 771 7.174772 TGAGATTGTTTGCTGCAAAGTATTCTA 59.825 33.333 26.63 12.54 33.82 2.10
776 822 7.147461 TGGTACAATGAATACAATGGGCTACTA 60.147 37.037 0.00 0.00 31.92 1.82
1020 1066 1.215647 CCAGTCTACGGCTGTGACC 59.784 63.158 18.66 4.06 32.41 4.02
1146 1193 6.874664 TCATACGTGCATAACAGGAAAGTAAA 59.125 34.615 0.00 0.00 37.59 2.01
1216 1263 5.534207 TGTTGCTTGATCAACCTTCAAAT 57.466 34.783 3.38 0.00 44.15 2.32
1221 1268 6.761312 TGCTTGATCAACCTTCAAATTTCAT 58.239 32.000 3.38 0.00 32.98 2.57
1283 1330 9.624373 ATTCATTCATGTTCTAATCTAGCAAGT 57.376 29.630 0.00 0.00 0.00 3.16
1363 1412 9.465199 TCATCTCAAATTCTCAATGGTTTCATA 57.535 29.630 0.00 0.00 32.44 2.15
1366 1415 9.246670 TCTCAAATTCTCAATGGTTTCATACAT 57.753 29.630 0.00 0.00 32.44 2.29
1454 1503 5.473504 TGCAATCCCAGTCTCTTTCTTTAAC 59.526 40.000 0.00 0.00 0.00 2.01
1496 1545 5.660629 TTGATTTGCAATTTTCAGCACAG 57.339 34.783 0.00 0.00 41.05 3.66
1527 1576 9.587772 TTCTGTTACTAGCTGAAAGATATTGAC 57.412 33.333 0.00 0.00 32.43 3.18
1545 1594 9.722056 GATATTGACGATAAACTTGCTTTTCAT 57.278 29.630 0.00 0.00 0.00 2.57
1555 1604 7.582667 AAACTTGCTTTTCATGTAACCTAGT 57.417 32.000 0.00 0.00 33.32 2.57
1695 1744 4.281182 AGTTTCACTTCCTTCTCGAAGCTA 59.719 41.667 1.13 0.00 42.57 3.32
1712 1761 5.406780 CGAAGCTATTGAAAGACTTCACTGT 59.593 40.000 0.00 0.00 41.34 3.55
1725 1774 0.829990 TCACTGTGACTGGTTCTGCA 59.170 50.000 6.36 0.00 0.00 4.41
1727 1776 1.331756 CACTGTGACTGGTTCTGCAAC 59.668 52.381 0.32 0.00 0.00 4.17
1728 1777 1.065491 ACTGTGACTGGTTCTGCAACA 60.065 47.619 0.00 0.00 33.70 3.33
1732 1781 2.880890 GTGACTGGTTCTGCAACAATCT 59.119 45.455 0.00 0.00 33.70 2.40
1767 1816 2.101917 GACTGTTATAGTTAGGCGGCCA 59.898 50.000 23.09 4.27 40.53 5.36
1813 1862 3.776969 ACCAAGTGATCTATCTGCAGGAA 59.223 43.478 15.13 0.91 0.00 3.36
1830 1879 1.002315 GGAATTGCTGCAACCATGGTT 59.998 47.619 24.86 24.86 39.13 3.67
1935 1984 6.094061 GCTACTCACTCCGATCCATAATAAC 58.906 44.000 0.00 0.00 0.00 1.89
1940 1989 4.917998 CACTCCGATCCATAATAACTGTCG 59.082 45.833 0.00 0.00 0.00 4.35
1942 1991 5.766670 ACTCCGATCCATAATAACTGTCGTA 59.233 40.000 0.00 0.00 0.00 3.43
2002 2051 5.964477 TGTTATGGATCTGAGGGAGTACTTT 59.036 40.000 0.00 0.00 0.00 2.66
2137 2192 4.513442 GATGCTGGTTTAGATACCACACA 58.487 43.478 0.00 0.00 43.14 3.72
2210 2265 3.303329 CGGCATTCCACGATATCAACAAG 60.303 47.826 3.12 0.00 0.00 3.16
2219 2274 5.221106 CCACGATATCAACAAGCCAATTCAT 60.221 40.000 3.12 0.00 0.00 2.57
2220 2275 5.684184 CACGATATCAACAAGCCAATTCATG 59.316 40.000 3.12 0.00 0.00 3.07
2360 2415 3.142174 CAAGAGGAAAGTGGAGACAACC 58.858 50.000 0.00 0.00 46.06 3.77
2582 2637 0.640768 GCAGCTGTGATTACGTCGAC 59.359 55.000 16.64 5.18 0.00 4.20
2586 2641 1.980844 GCTGTGATTACGTCGACGAAA 59.019 47.619 41.52 26.30 43.02 3.46
2593 2648 4.325204 TGATTACGTCGACGAAATTGGAAG 59.675 41.667 41.52 11.46 43.02 3.46
2692 2747 1.774254 AGAACATGTGGAGGTTGTGGA 59.226 47.619 0.00 0.00 0.00 4.02
2797 2861 4.202161 TGTCGTGGTTGCCAATTTGTTATT 60.202 37.500 0.00 0.00 34.18 1.40
2878 3065 3.118408 ACACTGAGTGGACTGCAACTTTA 60.118 43.478 17.92 0.00 37.94 1.85
2879 3066 4.067896 CACTGAGTGGACTGCAACTTTAT 58.932 43.478 4.28 0.00 0.00 1.40
2913 3102 1.455822 AAATCCTGGGTGTCCTTGGA 58.544 50.000 0.00 0.00 39.36 3.53
3024 3214 7.759489 AATGTAAGAGAACTATGGTGCAAAA 57.241 32.000 0.00 0.00 0.00 2.44
3108 3298 3.358118 GTTCAGGTCTAGTCAGTAGCCT 58.642 50.000 0.00 0.00 36.34 4.58
3126 3316 2.159324 GCCTCAGCTGCAAAAATAGGAC 60.159 50.000 17.19 6.75 35.50 3.85
3129 3319 3.002791 TCAGCTGCAAAAATAGGACGAG 58.997 45.455 9.47 0.00 0.00 4.18
3131 3321 3.932710 CAGCTGCAAAAATAGGACGAGTA 59.067 43.478 0.00 0.00 0.00 2.59
3156 3346 4.380531 TGTCAGACTAGTTGCTTTCTTGG 58.619 43.478 0.00 0.00 0.00 3.61
3278 3470 7.067615 TGCAAGTTACCTACATCTGTTTGAAAA 59.932 33.333 0.00 0.00 0.00 2.29
3306 3498 2.665165 TCAGCCAAAAGGAGAAGCAAA 58.335 42.857 0.00 0.00 0.00 3.68
3315 3507 2.867624 AGGAGAAGCAAACAAGCATCA 58.132 42.857 0.00 0.00 34.86 3.07
3513 3708 3.115554 CCTTGTGTTTTTCTTTCAGGCG 58.884 45.455 0.00 0.00 0.00 5.52
3602 3797 5.477510 AGAACTGCATTCAACAAACACAAA 58.522 33.333 10.26 0.00 40.09 2.83
3642 3837 4.669206 AGAGCTACATCATCAACTCCTG 57.331 45.455 0.00 0.00 0.00 3.86
4169 4379 2.294195 TGGATACAGAAATCCCAGGGGA 60.294 50.000 10.00 10.00 46.55 4.81
4268 4478 9.772605 TGCAAGGATATAAATTATCATCCCAAT 57.227 29.630 13.18 3.97 38.16 3.16
4310 4526 5.889289 AGGAAGGTACAAAAGCAAACAACTA 59.111 36.000 0.00 0.00 0.00 2.24
4317 4533 9.341899 GGTACAAAAGCAAACAACTATGATAAG 57.658 33.333 0.00 0.00 0.00 1.73
4324 4540 6.372659 AGCAAACAACTATGATAAGTGTCCTG 59.627 38.462 0.00 0.00 0.00 3.86
4673 4889 7.172361 ACAAACCGCTGCAACAAAATTATAAAT 59.828 29.630 0.00 0.00 0.00 1.40
4797 5015 2.486472 ATGTTGGCTCAGGTTCAGAG 57.514 50.000 0.00 0.00 36.21 3.35
4847 5065 7.307989 CCTCGTTTGAGACAAATTCTACACAAT 60.308 37.037 0.00 0.00 45.57 2.71
4896 5114 4.640201 GCACTGATGGCAGATAAAGGTTTA 59.360 41.667 0.00 0.00 45.17 2.01
4980 5198 8.547967 TTTGTAAATTCTACACTGAGATCCAC 57.452 34.615 0.00 0.00 0.00 4.02
4994 5212 6.375455 ACTGAGATCCACACCAAATACATTTC 59.625 38.462 0.00 0.00 0.00 2.17
4995 5213 5.652014 TGAGATCCACACCAAATACATTTCC 59.348 40.000 0.00 0.00 0.00 3.13
4996 5214 4.640201 AGATCCACACCAAATACATTTCCG 59.360 41.667 0.00 0.00 0.00 4.30
5053 5297 3.245443 TGCCCTTACCAAGCCTCATAAAA 60.245 43.478 0.00 0.00 0.00 1.52
5067 5312 8.422577 AGCCTCATAAAACTTTTTCTTATGGT 57.577 30.769 0.00 0.00 34.95 3.55
5077 5322 8.409358 AACTTTTTCTTATGGTTAGACATGCT 57.591 30.769 0.00 0.00 32.39 3.79
5132 5377 7.754924 ACAAATACTAAATCAAGAAATGTGCCG 59.245 33.333 0.00 0.00 0.00 5.69
5244 5489 1.985614 CATGGGACCACTCTCAGCA 59.014 57.895 0.00 0.00 0.00 4.41
5593 5839 6.381481 TCAACATTGAAGGCATATGTGATC 57.619 37.500 4.29 1.14 33.10 2.92
5626 5872 8.170553 GGAAGCAACATAAACAAATGCAATAAG 58.829 33.333 0.00 0.00 39.42 1.73
5627 5873 8.606040 AAGCAACATAAACAAATGCAATAAGT 57.394 26.923 0.00 0.00 39.42 2.24
5628 5874 8.606040 AGCAACATAAACAAATGCAATAAGTT 57.394 26.923 0.00 0.00 39.42 2.66
5629 5875 8.497554 AGCAACATAAACAAATGCAATAAGTTG 58.502 29.630 0.00 0.00 39.42 3.16
5682 5928 6.942532 ACAGATGCTTCTTTCAGTTAACAA 57.057 33.333 8.61 0.00 0.00 2.83
5688 5934 5.414454 TGCTTCTTTCAGTTAACAACAGTGT 59.586 36.000 8.61 0.00 40.75 3.55
5827 6079 9.788960 GAGTTCCATTATTGTTAGCTAAAAAGG 57.211 33.333 14.31 9.94 0.00 3.11
5828 6080 9.309224 AGTTCCATTATTGTTAGCTAAAAAGGT 57.691 29.630 14.31 1.96 0.00 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 68 5.221244 TGTGATCCACTATACTTCATCACCG 60.221 44.000 7.26 0.00 39.50 4.94
423 424 1.808411 ATTAGACTGCCACACCAACG 58.192 50.000 0.00 0.00 0.00 4.10
620 666 7.041167 TGTTTGTTTATCATCACTTCACCTCAG 60.041 37.037 0.00 0.00 0.00 3.35
634 680 7.899178 ACGACATCATAGTGTTTGTTTATCA 57.101 32.000 0.00 0.00 31.16 2.15
649 695 7.044181 ACTGAAATGACAGAATACGACATCAT 58.956 34.615 0.00 0.00 40.63 2.45
658 704 8.675705 TCAAACAGAACTGAAATGACAGAATA 57.324 30.769 8.87 0.00 40.63 1.75
663 709 6.096705 ACCAATCAAACAGAACTGAAATGACA 59.903 34.615 8.87 0.00 0.00 3.58
672 718 8.859090 TCATTCAAATACCAATCAAACAGAACT 58.141 29.630 0.00 0.00 0.00 3.01
776 822 2.158534 TGTAAGGGAAACTGCACACCAT 60.159 45.455 0.00 0.00 0.00 3.55
1020 1066 3.177920 GTGCTCTGTGCTCGCTCG 61.178 66.667 3.20 0.00 43.37 5.03
1110 1156 2.223144 TGCACGTATGAACAACTTGAGC 59.777 45.455 0.00 0.00 0.00 4.26
1146 1193 4.202010 ACAACGCAACTTCAAAGTGCTAAT 60.202 37.500 12.29 1.04 39.66 1.73
1283 1330 7.950124 AGGAAATGGAGGATCAAAGTAAAGAAA 59.050 33.333 0.00 0.00 36.25 2.52
1527 1576 7.305474 AGGTTACATGAAAAGCAAGTTTATCG 58.695 34.615 0.00 0.00 30.03 2.92
1545 1594 7.490657 ACCTAATCAATCACACTAGGTTACA 57.509 36.000 0.00 0.00 39.45 2.41
1589 1638 1.229428 CTGACAAAAGAGCAGGCGAA 58.771 50.000 0.00 0.00 0.00 4.70
1592 1641 0.595095 CCACTGACAAAAGAGCAGGC 59.405 55.000 0.00 0.00 34.05 4.85
1695 1744 4.818546 CCAGTCACAGTGAAGTCTTTCAAT 59.181 41.667 4.32 0.00 44.49 2.57
1712 1761 3.141398 GAGATTGTTGCAGAACCAGTCA 58.859 45.455 0.00 0.00 0.00 3.41
1767 1816 1.331447 GGTGCGAAACGTGTTACCTTT 59.669 47.619 0.00 0.00 0.00 3.11
1813 1862 2.231964 CACTAACCATGGTTGCAGCAAT 59.768 45.455 35.49 13.17 38.92 3.56
1823 1872 3.057969 TCAGTGAAGCACTAACCATGG 57.942 47.619 11.19 11.19 43.43 3.66
1890 1939 4.091424 GCAAACATTTGACGCTATCAGAC 58.909 43.478 8.54 0.00 40.55 3.51
1935 1984 9.710979 TTCAAATTTGAACTAAAACTACGACAG 57.289 29.630 26.01 0.00 41.88 3.51
1959 2008 4.870221 ACAAGTGTCGTGGTTTTAGTTC 57.130 40.909 0.00 0.00 0.00 3.01
2002 2051 6.547141 ACTTGATTTGAAGTGTCATTCTTGGA 59.453 34.615 0.00 0.00 34.79 3.53
2219 2274 2.011222 GACAGACGGTTTTTCACACCA 58.989 47.619 0.00 0.00 33.36 4.17
2220 2275 1.332686 GGACAGACGGTTTTTCACACC 59.667 52.381 0.00 0.00 0.00 4.16
2360 2415 0.029300 CCGCAATTTGGCCATCTACG 59.971 55.000 6.09 7.53 0.00 3.51
2443 2498 2.092646 ACCACAACTTCTGTACTTGCCA 60.093 45.455 0.00 0.00 36.10 4.92
2582 2637 2.348666 CGGACTAGTGCTTCCAATTTCG 59.651 50.000 12.91 0.00 0.00 3.46
2586 2641 1.207329 GACCGGACTAGTGCTTCCAAT 59.793 52.381 9.46 0.00 0.00 3.16
2593 2648 2.033550 CAGTGATAGACCGGACTAGTGC 59.966 54.545 18.30 0.73 0.00 4.40
2692 2747 9.499479 CTGTAGTATGATCTTTGCCATTCTAAT 57.501 33.333 0.00 0.00 28.98 1.73
2731 2786 9.494479 CAGAATACGATAAGAACGTAACTGTTA 57.506 33.333 18.78 0.00 46.41 2.41
2749 2813 5.121611 TGGTGCTTGTTCATAACAGAATACG 59.878 40.000 0.00 0.00 43.27 3.06
2878 3065 7.678171 ACCCAGGATTTATTTCTTGTTTACCAT 59.322 33.333 0.00 0.00 0.00 3.55
2879 3066 7.013834 ACCCAGGATTTATTTCTTGTTTACCA 58.986 34.615 0.00 0.00 0.00 3.25
2901 3090 1.073199 CAGTGGTCCAAGGACACCC 59.927 63.158 20.03 4.56 46.20 4.61
2944 3133 5.248640 CCATGAATTCAACAGGTAGACACT 58.751 41.667 13.09 0.00 0.00 3.55
3057 3247 7.800092 AGAGACTGCTATTTTCTTGACCATAT 58.200 34.615 0.00 0.00 0.00 1.78
3066 3256 5.753721 ACCTTGAGAGACTGCTATTTTCT 57.246 39.130 0.00 0.00 0.00 2.52
3072 3262 2.828520 CCTGAACCTTGAGAGACTGCTA 59.171 50.000 0.00 0.00 0.00 3.49
3108 3298 3.002791 CTCGTCCTATTTTTGCAGCTGA 58.997 45.455 20.43 0.00 0.00 4.26
3126 3316 4.334203 AGCAACTAGTCTGACAGATACTCG 59.666 45.833 8.73 1.62 0.00 4.18
3129 3319 6.626302 AGAAAGCAACTAGTCTGACAGATAC 58.374 40.000 8.73 0.00 0.00 2.24
3131 3321 5.736951 AGAAAGCAACTAGTCTGACAGAT 57.263 39.130 8.73 0.81 0.00 2.90
3292 3484 4.099881 TGATGCTTGTTTGCTTCTCCTTTT 59.900 37.500 0.00 0.00 37.79 2.27
3306 3498 1.274167 CAGGCCATTTGTGATGCTTGT 59.726 47.619 5.01 0.00 0.00 3.16
3315 3507 1.145738 ACCAGAAGTCAGGCCATTTGT 59.854 47.619 5.01 0.00 0.00 2.83
3513 3708 9.850198 TGGTATGTACCCCAAAAATTATACTAC 57.150 33.333 6.74 0.00 45.87 2.73
3550 3745 7.450124 TTCACACCTTAAACACAAACACTAA 57.550 32.000 0.00 0.00 0.00 2.24
3642 3837 6.073222 CCACATGTAAACAAGTCTTCAGGTAC 60.073 42.308 0.00 0.00 0.00 3.34
3997 4193 7.951530 AAATTGATTTGATTCAACGAGCTTT 57.048 28.000 0.00 0.00 38.37 3.51
4042 4238 9.823647 CTAGACCTATTCATTGTAATCTTGTGT 57.176 33.333 0.00 0.00 0.00 3.72
4169 4379 0.179076 GCTGTTGGCTTGCTTGGTTT 60.179 50.000 0.00 0.00 38.06 3.27
4310 4526 3.724478 TGGAGGTCAGGACACTTATCAT 58.276 45.455 1.41 0.00 0.00 2.45
4317 4533 1.625818 ACATCTTGGAGGTCAGGACAC 59.374 52.381 1.41 0.00 34.20 3.67
4324 4540 2.039084 ACCTGACAACATCTTGGAGGTC 59.961 50.000 2.11 0.00 38.88 3.85
4673 4889 5.067273 CACTTAACCTACCAATGTTCCACA 58.933 41.667 0.00 0.00 0.00 4.17
4797 5015 3.118261 TGGCTGGTAGGAGAATGATCAAC 60.118 47.826 0.00 0.00 0.00 3.18
4962 5180 4.096681 TGGTGTGGATCTCAGTGTAGAAT 58.903 43.478 0.00 0.00 0.00 2.40
4980 5198 4.165779 GCTCAACGGAAATGTATTTGGTG 58.834 43.478 0.00 0.00 0.00 4.17
4994 5212 3.935203 ACAAGTCTTATGATGCTCAACGG 59.065 43.478 0.00 0.00 0.00 4.44
4995 5213 5.536554 AACAAGTCTTATGATGCTCAACG 57.463 39.130 0.00 0.00 0.00 4.10
4996 5214 7.806690 TGTAAACAAGTCTTATGATGCTCAAC 58.193 34.615 0.00 0.00 0.00 3.18
5053 5297 8.409358 AAGCATGTCTAACCATAAGAAAAAGT 57.591 30.769 0.00 0.00 0.00 2.66
5132 5377 4.021544 TGGGCCTGTGTTAATTTGATGAAC 60.022 41.667 4.53 0.00 0.00 3.18
5244 5489 1.229464 AGCTGAAGGGAGCAGGAGT 60.229 57.895 0.00 0.00 41.83 3.85
5593 5839 3.745975 TGTTTATGTTGCTTCCAGTCTCG 59.254 43.478 0.00 0.00 0.00 4.04
5629 5875 6.177822 GCAACTTATCGCATTTGTAAAATGC 58.822 36.000 21.98 21.98 46.97 3.56
5630 5876 7.275697 TGCAACTTATCGCATTTGTAAAATG 57.724 32.000 8.09 8.09 31.95 2.32
5641 5887 5.871465 TCTGTAAAATGCAACTTATCGCA 57.129 34.783 0.00 0.00 43.45 5.10
5642 5888 5.172053 GCATCTGTAAAATGCAACTTATCGC 59.828 40.000 0.00 0.00 46.93 4.58
5643 5889 6.722972 GCATCTGTAAAATGCAACTTATCG 57.277 37.500 0.00 0.00 46.93 2.92
5662 5908 6.634436 CACTGTTGTTAACTGAAAGAAGCATC 59.366 38.462 7.22 0.00 37.43 3.91
5682 5928 1.947678 GCTGCCATGCTTCTACACTGT 60.948 52.381 0.00 0.00 0.00 3.55
5688 5934 3.198635 AGTCTTTAGCTGCCATGCTTCTA 59.801 43.478 0.00 0.00 43.74 2.10


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

AutoCloner maintained by Alex Coulton.