Multiple sequence alignment - TraesCS6A01G161700

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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 TraesCS6A01G161700 chr6A 100.000 2942 0 0 1 2942 157025446 157028387 0.000000 5433.0
1 TraesCS6A01G161700 chr6D 94.749 2209 83 19 2 2200 124146129 124143944 0.000000 3406.0
2 TraesCS6A01G161700 chr6D 90.532 771 46 10 2194 2942 124143835 124143070 0.000000 994.0
3 TraesCS6A01G161700 chr6B 92.416 2057 108 24 151 2200 219217633 219215618 0.000000 2891.0
4 TraesCS6A01G161700 chr6B 90.815 773 44 10 2193 2942 219215507 219214739 0.000000 1009.0
5 TraesCS6A01G161700 chr2B 88.000 50 6 0 118 167 736965160 736965111 0.000032 60.2
6 TraesCS6A01G161700 chr7D 100.000 30 0 0 124 153 38257470 38257441 0.000410 56.5
7 TraesCS6A01G161700 chr3A 96.970 33 1 0 124 156 13857134 13857166 0.000410 56.5


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 TraesCS6A01G161700 chr6A 157025446 157028387 2941 False 5433 5433 100.0000 1 2942 1 chr6A.!!$F1 2941
1 TraesCS6A01G161700 chr6D 124143070 124146129 3059 True 2200 3406 92.6405 2 2942 2 chr6D.!!$R1 2940
2 TraesCS6A01G161700 chr6B 219214739 219217633 2894 True 1950 2891 91.6155 151 2942 2 chr6B.!!$R1 2791

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
125 128 0.758123 CACCAATGCAAAACCCTGGT 59.242 50.0 0.0 0.0 41.08 4.0 F
1149 1159 0.245539 CCACGATGACGGTGTACCTT 59.754 55.0 0.0 0.0 44.46 3.5 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1773 1783 0.388520 CGAAGATCCAGTCGTGCACA 60.389 55.0 18.64 0.81 32.61 4.57 R
2744 2894 0.179018 GTTCTCAAGGTGGTGCAGGT 60.179 55.0 0.00 0.00 0.00 4.00 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
21 22 2.903855 GGGCCGGCATCACATCTG 60.904 66.667 30.85 0.00 0.00 2.90
22 23 2.903855 GGCCGGCATCACATCTGG 60.904 66.667 30.85 0.00 0.00 3.86
24 25 1.890979 GCCGGCATCACATCTGGAG 60.891 63.158 24.80 0.00 0.00 3.86
29 30 2.484241 CGGCATCACATCTGGAGATTGA 60.484 50.000 0.00 0.00 31.21 2.57
34 35 5.425630 CATCACATCTGGAGATTGACAAGA 58.574 41.667 0.00 0.00 31.21 3.02
35 36 5.082251 TCACATCTGGAGATTGACAAGAG 57.918 43.478 0.00 0.00 31.21 2.85
52 53 2.048127 GTCACCACAGGCGACTCC 60.048 66.667 0.00 0.00 40.21 3.85
59 60 1.754803 CCACAGGCGACTCCATAGTTA 59.245 52.381 0.00 0.00 40.21 2.24
61 62 3.181465 CCACAGGCGACTCCATAGTTAAT 60.181 47.826 0.00 0.00 40.21 1.40
76 77 7.235430 CATAGTTAATGGAAACGTCTTCTCC 57.765 40.000 0.00 0.00 34.46 3.71
81 82 1.202604 TGGAAACGTCTTCTCCCACAC 60.203 52.381 0.00 0.00 0.00 3.82
125 128 0.758123 CACCAATGCAAAACCCTGGT 59.242 50.000 0.00 0.00 41.08 4.00
137 140 3.579302 CCTGGTGGGCTGGTTCCA 61.579 66.667 0.00 0.00 0.00 3.53
167 170 4.101119 AGAACCTAACCCATGAAGATACGG 59.899 45.833 0.00 0.00 0.00 4.02
178 181 2.163412 TGAAGATACGGTTTTGGCATGC 59.837 45.455 9.90 9.90 0.00 4.06
182 185 1.448985 TACGGTTTTGGCATGCTCTC 58.551 50.000 18.92 0.95 0.00 3.20
218 221 8.331022 CAAACAATCACATACACTACTCTATGC 58.669 37.037 0.00 0.00 0.00 3.14
266 269 4.727507 ACACTATGTTTTGTTGTTGGCA 57.272 36.364 0.00 0.00 0.00 4.92
280 283 1.273048 GTTGGCATCATGGTGCAGAAA 59.727 47.619 30.97 18.95 46.81 2.52
289 292 5.125100 TCATGGTGCAGAAAAAGATTGTC 57.875 39.130 0.00 0.00 0.00 3.18
441 444 2.539547 CCTGTTCTATTTTCATGGCGCG 60.540 50.000 0.00 0.00 0.00 6.86
456 459 2.517598 CGCGTCCAGTGCATATACC 58.482 57.895 0.00 0.00 0.00 2.73
600 603 2.034221 GCCCAAGCCGGAGTTTCT 59.966 61.111 5.05 0.00 36.56 2.52
601 604 2.041115 GCCCAAGCCGGAGTTTCTC 61.041 63.158 5.05 0.00 36.56 2.87
626 630 3.931907 TTCCTCCCACGATTGATCAAT 57.068 42.857 20.85 20.85 0.00 2.57
654 658 2.136196 CTCGAGACCAGATAGGCGCC 62.136 65.000 21.89 21.89 43.14 6.53
688 692 3.773630 CGCCAAGCCACGTACGTG 61.774 66.667 35.57 35.57 45.02 4.49
746 751 4.189188 GCTCTTGCATGCTGCCCG 62.189 66.667 20.33 4.81 44.23 6.13
769 774 6.183360 CCGTAAAAATCAATCGCCGAATTTTT 60.183 34.615 18.91 18.91 35.94 1.94
789 794 5.594724 TTTTGGTACTATTTCGTTGTCCG 57.405 39.130 0.00 0.00 38.13 4.79
802 807 4.496360 TCGTTGTCCGCTTGATTGTTATA 58.504 39.130 0.00 0.00 36.19 0.98
1149 1159 0.245539 CCACGATGACGGTGTACCTT 59.754 55.000 0.00 0.00 44.46 3.50
1608 1618 2.507992 CTCGACGCCAGCAGGAAG 60.508 66.667 0.00 0.00 36.89 3.46
1613 1623 2.587194 CGCCAGCAGGAAGGATCG 60.587 66.667 0.00 0.00 36.89 3.69
1631 1641 0.802222 CGCGACATTGTCATCGAGGT 60.802 55.000 16.61 0.00 40.86 3.85
1773 1783 2.673523 GTGCAGGTGCTCTGGGAT 59.326 61.111 3.18 0.00 43.54 3.85
1830 1840 0.603707 CAGTCTTCGCCTTCAAGCCA 60.604 55.000 0.00 0.00 0.00 4.75
1890 1900 4.473520 AGCGGGAGTGGCATTCCG 62.474 66.667 21.09 19.17 44.70 4.30
1979 1989 8.721478 TCATCTTCTTTTACTTTCATGTACTGC 58.279 33.333 0.00 0.00 0.00 4.40
2045 2055 3.691609 GGAACTTCAAATCAGTAGGCTGG 59.308 47.826 0.00 0.00 42.78 4.85
2060 2070 3.524826 AGGCTGGATGAGGATATGCTAA 58.475 45.455 0.00 0.00 0.00 3.09
2061 2071 3.518705 AGGCTGGATGAGGATATGCTAAG 59.481 47.826 0.00 0.00 0.00 2.18
2063 2073 4.019860 GGCTGGATGAGGATATGCTAAGAA 60.020 45.833 0.00 0.00 0.00 2.52
2064 2074 5.339035 GGCTGGATGAGGATATGCTAAGAAT 60.339 44.000 0.00 0.00 0.00 2.40
2066 2076 7.419981 GGCTGGATGAGGATATGCTAAGAATAT 60.420 40.741 0.00 0.00 0.00 1.28
2067 2077 7.992033 GCTGGATGAGGATATGCTAAGAATATT 59.008 37.037 0.00 0.00 0.00 1.28
2085 2095 8.996651 AGAATATTTTCCTGGTAAGTATTGGG 57.003 34.615 15.23 0.00 31.84 4.12
2094 2104 2.427095 GGTAAGTATTGGGGCAAAGCAG 59.573 50.000 0.00 0.00 0.00 4.24
2102 2112 0.613012 GGGGCAAAGCAGAACAGGAT 60.613 55.000 0.00 0.00 0.00 3.24
2152 2162 6.846325 AGCTACAGGTTCGCTATAAAAATC 57.154 37.500 0.00 0.00 31.12 2.17
2183 2193 5.568482 GTTTCAAATCAAACACCAAAAGGC 58.432 37.500 0.00 0.00 36.44 4.35
2217 2345 6.618287 AATGATTCACAATACATACCACCG 57.382 37.500 0.00 0.00 0.00 4.94
2219 2347 5.113383 TGATTCACAATACATACCACCGAC 58.887 41.667 0.00 0.00 0.00 4.79
2232 2360 1.474879 CCACCGACACAAACAAAAGGT 59.525 47.619 0.00 0.00 0.00 3.50
2237 2365 4.825085 ACCGACACAAACAAAAGGTATCAT 59.175 37.500 0.00 0.00 0.00 2.45
2262 2390 8.120140 TCATCACATTCATAAAAATGGTGTCA 57.880 30.769 2.11 0.00 40.28 3.58
2273 2401 9.132521 CATAAAAATGGTGTCAGACATTTCTTC 57.867 33.333 6.51 0.00 44.11 2.87
2275 2403 2.766313 TGGTGTCAGACATTTCTTCCG 58.234 47.619 6.51 0.00 0.00 4.30
2283 2411 1.200020 GACATTTCTTCCGCCCAGTTG 59.800 52.381 0.00 0.00 0.00 3.16
2284 2412 1.247567 CATTTCTTCCGCCCAGTTGT 58.752 50.000 0.00 0.00 0.00 3.32
2296 2424 3.270877 GCCCAGTTGTAGTATCAACAGG 58.729 50.000 12.00 12.00 46.95 4.00
2297 2425 3.307480 GCCCAGTTGTAGTATCAACAGGT 60.307 47.826 15.78 0.00 46.41 4.00
2298 2426 4.253685 CCCAGTTGTAGTATCAACAGGTG 58.746 47.826 15.78 7.31 46.41 4.00
2299 2427 4.020573 CCCAGTTGTAGTATCAACAGGTGA 60.021 45.833 15.78 0.00 46.41 4.02
2300 2428 5.338381 CCCAGTTGTAGTATCAACAGGTGAT 60.338 44.000 6.14 6.14 46.41 3.06
2302 2430 5.812642 CAGTTGTAGTATCAACAGGTGATCC 59.187 44.000 3.51 0.00 44.01 3.36
2303 2431 4.649088 TGTAGTATCAACAGGTGATCCG 57.351 45.455 3.51 0.00 44.01 4.18
2304 2432 4.021229 TGTAGTATCAACAGGTGATCCGT 58.979 43.478 3.51 0.00 44.01 4.69
2305 2433 3.802948 AGTATCAACAGGTGATCCGTC 57.197 47.619 3.51 0.00 44.01 4.79
2306 2434 3.096852 AGTATCAACAGGTGATCCGTCA 58.903 45.455 3.51 0.00 44.01 4.35
2307 2435 3.513912 AGTATCAACAGGTGATCCGTCAA 59.486 43.478 3.51 0.00 44.01 3.18
2308 2436 2.455674 TCAACAGGTGATCCGTCAAG 57.544 50.000 0.00 0.00 35.80 3.02
2310 2438 2.367241 TCAACAGGTGATCCGTCAAGAA 59.633 45.455 0.00 0.00 35.80 2.52
2311 2439 3.138304 CAACAGGTGATCCGTCAAGAAA 58.862 45.455 0.00 0.00 35.80 2.52
2312 2440 3.045601 ACAGGTGATCCGTCAAGAAAG 57.954 47.619 0.00 0.00 35.80 2.62
2389 2517 2.476873 TCTAGTTCGCATCTCGCTTC 57.523 50.000 0.00 0.00 39.08 3.86
2404 2532 1.429463 GCTTCCGTTACCTGTCACAG 58.571 55.000 0.00 0.00 0.00 3.66
2405 2533 1.000506 GCTTCCGTTACCTGTCACAGA 59.999 52.381 6.30 0.00 32.44 3.41
2406 2534 2.547218 GCTTCCGTTACCTGTCACAGAA 60.547 50.000 6.30 0.00 32.44 3.02
2407 2535 3.864921 GCTTCCGTTACCTGTCACAGAAT 60.865 47.826 6.30 0.00 32.44 2.40
2409 2537 5.661458 CTTCCGTTACCTGTCACAGAATAT 58.339 41.667 6.30 0.00 32.44 1.28
2418 2567 6.619464 ACCTGTCACAGAATATAGATCCTCT 58.381 40.000 6.30 0.00 32.44 3.69
2422 2571 7.062957 TGTCACAGAATATAGATCCTCTGACA 58.937 38.462 6.14 0.00 38.91 3.58
2456 2606 7.541162 TCCATCATGCTAACAAAATCAGAAAG 58.459 34.615 0.00 0.00 0.00 2.62
2462 2612 9.467258 CATGCTAACAAAATCAGAAAGAGAAAA 57.533 29.630 0.00 0.00 0.00 2.29
2489 2639 7.117397 AGATTTGTGATGTCCAGAATCTGATT 58.883 34.615 12.53 1.81 37.41 2.57
2540 2690 2.615447 TGCCTTGATCTTTGCGATGATC 59.385 45.455 18.69 18.69 39.43 2.92
2573 2723 1.412710 TCCTTCGTGAGTGACTGCTTT 59.587 47.619 0.00 0.00 0.00 3.51
2627 2777 1.961435 GCATCCTTCAGCCCCAAATCA 60.961 52.381 0.00 0.00 0.00 2.57
2672 2822 3.687572 ATCTTAATCTTTGCAGCAGCG 57.312 42.857 0.00 0.00 46.23 5.18
2732 2882 5.059833 TCAGCCTTTTTCTCTTCAGACTTC 58.940 41.667 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.720902 TGTGATGCCGGCCCAGTG 62.721 66.667 26.77 0.00 0.00 3.66
29 30 1.069765 CGCCTGTGGTGACTCTTGT 59.930 57.895 0.00 0.00 34.74 3.16
52 53 6.258068 GGGAGAAGACGTTTCCATTAACTATG 59.742 42.308 10.26 0.00 32.50 2.23
59 60 2.105821 TGTGGGAGAAGACGTTTCCATT 59.894 45.455 10.26 0.00 32.50 3.16
61 62 1.124780 TGTGGGAGAAGACGTTTCCA 58.875 50.000 10.26 0.00 32.50 3.53
64 65 2.285977 GTTGTGTGGGAGAAGACGTTT 58.714 47.619 0.00 0.00 0.00 3.60
75 76 5.786401 TTTTTGATTTTTCGTTGTGTGGG 57.214 34.783 0.00 0.00 0.00 4.61
121 122 1.379044 GATGGAACCAGCCCACCAG 60.379 63.158 0.00 0.00 36.36 4.00
125 128 0.187117 TTTGTGATGGAACCAGCCCA 59.813 50.000 6.64 0.00 38.19 5.36
137 140 5.255397 TCATGGGTTAGGTTCTTTGTGAT 57.745 39.130 0.00 0.00 0.00 3.06
167 170 1.135859 CGTGAGAGAGCATGCCAAAAC 60.136 52.381 15.66 4.96 0.00 2.43
182 185 2.226200 TGTGATTGTTTGGCATCGTGAG 59.774 45.455 0.00 0.00 0.00 3.51
231 234 2.719531 TAGTGTTCCCTGCAACAACA 57.280 45.000 1.57 1.57 38.01 3.33
232 235 2.884639 ACATAGTGTTCCCTGCAACAAC 59.115 45.455 0.00 0.00 38.01 3.32
233 236 3.222173 ACATAGTGTTCCCTGCAACAA 57.778 42.857 0.00 0.00 38.01 2.83
234 237 2.949177 ACATAGTGTTCCCTGCAACA 57.051 45.000 0.00 0.00 33.75 3.33
236 239 3.957497 ACAAAACATAGTGTTCCCTGCAA 59.043 39.130 0.00 0.00 40.14 4.08
237 240 3.561143 ACAAAACATAGTGTTCCCTGCA 58.439 40.909 0.00 0.00 40.14 4.41
266 269 5.337009 GGACAATCTTTTTCTGCACCATGAT 60.337 40.000 0.00 0.00 0.00 2.45
280 283 2.554370 TCGAAACGGGGACAATCTTT 57.446 45.000 0.00 0.00 0.00 2.52
441 444 2.561569 GTGGTGGTATATGCACTGGAC 58.438 52.381 0.00 0.00 0.00 4.02
452 455 1.063070 TGTGGTGGTGGTGGTGGTAT 61.063 55.000 0.00 0.00 0.00 2.73
453 456 1.063070 ATGTGGTGGTGGTGGTGGTA 61.063 55.000 0.00 0.00 0.00 3.25
454 457 1.063070 TATGTGGTGGTGGTGGTGGT 61.063 55.000 0.00 0.00 0.00 4.16
455 458 0.111446 TTATGTGGTGGTGGTGGTGG 59.889 55.000 0.00 0.00 0.00 4.61
456 459 1.988293 TTTATGTGGTGGTGGTGGTG 58.012 50.000 0.00 0.00 0.00 4.17
526 529 3.829601 AGAATAATTGGACGGTTTTGCCA 59.170 39.130 0.00 0.00 36.97 4.92
600 603 2.307392 TCAATCGTGGGAGGAAAATGGA 59.693 45.455 0.00 0.00 0.00 3.41
601 604 2.722094 TCAATCGTGGGAGGAAAATGG 58.278 47.619 0.00 0.00 0.00 3.16
626 630 1.951602 TCTGGTCTCGAGAACACGAAA 59.048 47.619 28.98 11.97 41.67 3.46
688 692 7.718213 ATCGAACAAAACAAAACAAAAATGC 57.282 28.000 0.00 0.00 0.00 3.56
1121 1131 1.374631 GTCATCGTGGAGCACTGCA 60.375 57.895 3.30 0.00 31.34 4.41
1149 1159 1.003839 GGTGCCGTTGATCCTGACA 60.004 57.895 0.00 0.00 0.00 3.58
1491 1501 1.639298 GGCACTTGCTCCGCTTGTAG 61.639 60.000 0.38 0.00 41.70 2.74
1597 1607 2.899339 GCGATCCTTCCTGCTGGC 60.899 66.667 4.42 0.00 0.00 4.85
1608 1618 0.504384 CGATGACAATGTCGCGATCC 59.496 55.000 14.06 0.00 35.89 3.36
1613 1623 0.924090 GACCTCGATGACAATGTCGC 59.076 55.000 9.00 2.61 37.74 5.19
1773 1783 0.388520 CGAAGATCCAGTCGTGCACA 60.389 55.000 18.64 0.81 32.61 4.57
2004 2014 6.415573 AGTTCCTTTTGAATAAGCTATCCGT 58.584 36.000 0.00 0.00 34.90 4.69
2005 2015 6.927294 AGTTCCTTTTGAATAAGCTATCCG 57.073 37.500 0.00 0.00 34.90 4.18
2006 2016 8.281212 TGAAGTTCCTTTTGAATAAGCTATCC 57.719 34.615 0.00 0.00 34.90 2.59
2037 2047 2.836981 AGCATATCCTCATCCAGCCTAC 59.163 50.000 0.00 0.00 0.00 3.18
2060 2070 8.004801 CCCCAATACTTACCAGGAAAATATTCT 58.995 37.037 0.00 0.00 35.79 2.40
2061 2071 7.255836 GCCCCAATACTTACCAGGAAAATATTC 60.256 40.741 0.00 0.00 34.66 1.75
2063 2073 6.075315 GCCCCAATACTTACCAGGAAAATAT 58.925 40.000 0.00 0.00 0.00 1.28
2064 2074 5.044030 TGCCCCAATACTTACCAGGAAAATA 60.044 40.000 0.00 0.00 0.00 1.40
2066 2076 3.076182 TGCCCCAATACTTACCAGGAAAA 59.924 43.478 0.00 0.00 0.00 2.29
2067 2077 2.650322 TGCCCCAATACTTACCAGGAAA 59.350 45.455 0.00 0.00 0.00 3.13
2077 2087 2.171003 GTTCTGCTTTGCCCCAATACT 58.829 47.619 0.00 0.00 0.00 2.12
2078 2088 1.892474 TGTTCTGCTTTGCCCCAATAC 59.108 47.619 0.00 0.00 0.00 1.89
2080 2090 0.971386 CTGTTCTGCTTTGCCCCAAT 59.029 50.000 0.00 0.00 0.00 3.16
2082 2092 1.531365 CCTGTTCTGCTTTGCCCCA 60.531 57.895 0.00 0.00 0.00 4.96
2083 2093 0.613012 ATCCTGTTCTGCTTTGCCCC 60.613 55.000 0.00 0.00 0.00 5.80
2084 2094 0.529378 CATCCTGTTCTGCTTTGCCC 59.471 55.000 0.00 0.00 0.00 5.36
2085 2095 1.068055 CACATCCTGTTCTGCTTTGCC 60.068 52.381 0.00 0.00 0.00 4.52
2094 2104 6.992123 TGTTCCATATATGTCACATCCTGTTC 59.008 38.462 11.73 0.00 0.00 3.18
2117 2127 4.910458 ACCTGTAGCTACAAGGAAATGT 57.090 40.909 31.89 17.78 35.50 2.71
2123 2133 1.204941 AGCGAACCTGTAGCTACAAGG 59.795 52.381 25.95 26.72 39.74 3.61
2127 2137 7.358187 CGATTTTTATAGCGAACCTGTAGCTAC 60.358 40.741 17.30 17.30 44.85 3.58
2131 2141 5.233476 TGCGATTTTTATAGCGAACCTGTAG 59.767 40.000 0.00 0.00 0.00 2.74
2183 2193 9.566530 TGTATTGTGAATCATTTTAAATCACGG 57.433 29.630 12.06 0.00 42.47 4.94
2213 2341 2.931512 ACCTTTTGTTTGTGTCGGTG 57.068 45.000 0.00 0.00 0.00 4.94
2214 2342 4.200874 TGATACCTTTTGTTTGTGTCGGT 58.799 39.130 0.00 0.00 0.00 4.69
2217 2345 7.538678 GTGATGATGATACCTTTTGTTTGTGTC 59.461 37.037 0.00 0.00 0.00 3.67
2219 2347 7.369607 TGTGATGATGATACCTTTTGTTTGTG 58.630 34.615 0.00 0.00 0.00 3.33
2237 2365 8.120140 TGACACCATTTTTATGAATGTGATGA 57.880 30.769 0.00 0.00 35.68 2.92
2255 2383 2.766313 CGGAAGAAATGTCTGACACCA 58.234 47.619 13.50 0.00 33.05 4.17
2258 2386 1.610624 GGGCGGAAGAAATGTCTGACA 60.611 52.381 13.60 13.60 33.05 3.58
2262 2390 0.693049 ACTGGGCGGAAGAAATGTCT 59.307 50.000 0.00 0.00 34.72 3.41
2273 2401 2.277084 GTTGATACTACAACTGGGCGG 58.723 52.381 0.00 0.00 44.34 6.13
2283 2411 4.097437 TGACGGATCACCTGTTGATACTAC 59.903 45.833 0.00 0.00 45.67 2.73
2284 2412 4.274978 TGACGGATCACCTGTTGATACTA 58.725 43.478 0.00 0.00 45.67 1.82
2296 2424 6.199908 CACATATCTCTTTCTTGACGGATCAC 59.800 42.308 0.00 0.00 33.38 3.06
2297 2425 6.096846 TCACATATCTCTTTCTTGACGGATCA 59.903 38.462 0.00 0.00 0.00 2.92
2298 2426 6.507900 TCACATATCTCTTTCTTGACGGATC 58.492 40.000 0.00 0.00 0.00 3.36
2299 2427 6.471233 TCACATATCTCTTTCTTGACGGAT 57.529 37.500 0.00 0.00 0.00 4.18
2300 2428 5.914898 TCACATATCTCTTTCTTGACGGA 57.085 39.130 0.00 0.00 0.00 4.69
2302 2430 8.131731 TCAGTATCACATATCTCTTTCTTGACG 58.868 37.037 0.00 0.00 0.00 4.35
2303 2431 9.809096 TTCAGTATCACATATCTCTTTCTTGAC 57.191 33.333 0.00 0.00 0.00 3.18
2350 2478 7.779073 ACTAGATATTTAGTTGCTACGTTGGT 58.221 34.615 0.00 0.00 29.72 3.67
2389 2517 6.387041 TCTATATTCTGTGACAGGTAACGG 57.613 41.667 13.33 0.48 46.39 4.44
2418 2567 2.985957 TGATGGAGCATTCGATGTCA 57.014 45.000 0.00 0.00 0.00 3.58
2422 2571 2.563261 AGCATGATGGAGCATTCGAT 57.437 45.000 0.00 0.00 0.00 3.59
2462 2612 6.944290 TCAGATTCTGGACATCACAAATCTTT 59.056 34.615 13.59 0.00 32.62 2.52
2466 2616 7.330900 GAATCAGATTCTGGACATCACAAAT 57.669 36.000 15.03 0.00 36.37 2.32
2467 2617 6.748333 GAATCAGATTCTGGACATCACAAA 57.252 37.500 15.03 0.00 36.37 2.83
2484 2634 3.622163 GCTGTGATGGAGTGAAGAATCAG 59.378 47.826 0.00 0.00 35.88 2.90
2489 2639 2.104622 TGTTGCTGTGATGGAGTGAAGA 59.895 45.455 0.00 0.00 0.00 2.87
2573 2723 2.119495 GAGAAGGCCCCTGTCATTCTA 58.881 52.381 0.00 0.00 30.62 2.10
2627 2777 5.723672 TCAAGGAGATCAGAACGTTTACT 57.276 39.130 0.46 0.00 0.00 2.24
2744 2894 0.179018 GTTCTCAAGGTGGTGCAGGT 60.179 55.000 0.00 0.00 0.00 4.00


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

AutoCloner maintained by Alex Coulton.