Multiple sequence alignment - TraesCS1A01G036900

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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 TraesCS1A01G036900 chr1A 100.000 2330 0 0 1 2330 20841533 20843862 0.000000e+00 4303.0
1 TraesCS1A01G036900 chrUn 92.102 1798 116 11 497 2293 10303925 10302153 0.000000e+00 2510.0
2 TraesCS1A01G036900 chrUn 93.182 44 3 0 1117 1160 10303278 10303235 5.370000e-07 65.8
3 TraesCS1A01G036900 chr1B 91.671 1825 97 16 497 2293 27321320 27323117 0.000000e+00 2477.0
4 TraesCS1A01G036900 chr3A 94.153 496 28 1 1 496 542415439 542414945 0.000000e+00 754.0
5 TraesCS1A01G036900 chr3A 93.561 497 31 1 1 497 466224562 466225057 0.000000e+00 739.0
6 TraesCS1A01G036900 chr3A 93.159 497 32 2 1 497 352643563 352644057 0.000000e+00 728.0
7 TraesCS1A01G036900 chr6A 93.561 497 28 3 1 496 191896560 191896067 0.000000e+00 737.0
8 TraesCS1A01G036900 chr6A 93.360 497 27 3 1 496 100708324 100707833 0.000000e+00 730.0
9 TraesCS1A01G036900 chr7A 93.360 497 31 2 1 496 508586456 508586951 0.000000e+00 734.0
10 TraesCS1A01G036900 chr7A 93.159 497 33 1 1 497 308959160 308959655 0.000000e+00 728.0
11 TraesCS1A01G036900 chr2A 92.843 503 33 2 1 500 372856206 372856708 0.000000e+00 726.0
12 TraesCS1A01G036900 chr2A 92.786 499 34 1 1 497 70571658 70571160 0.000000e+00 721.0


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 TraesCS1A01G036900 chr1A 20841533 20843862 2329 False 4303.0 4303 100.000 1 2330 1 chr1A.!!$F1 2329
1 TraesCS1A01G036900 chrUn 10302153 10303925 1772 True 1287.9 2510 92.642 497 2293 2 chrUn.!!$R1 1796
2 TraesCS1A01G036900 chr1B 27321320 27323117 1797 False 2477.0 2477 91.671 497 2293 1 chr1B.!!$F1 1796
3 TraesCS1A01G036900 chr2A 372856206 372856708 502 False 726.0 726 92.843 1 500 1 chr2A.!!$F1 499

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
354 357 0.756903 ATAACGGATGGAACTCGGGG 59.243 55.0 0.0 0.0 0.00 5.73 F
1105 1110 0.391263 GAAACTCCAGGCGGACGATT 60.391 55.0 0.0 0.0 35.91 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1159 1164 0.729690 GCCTCAGAAGAATTGTCGGC 59.270 55.0 0.0 0.0 0.0 5.54 R
2053 2086 0.896019 CAACCACCCCGCCACATTTA 60.896 55.0 0.0 0.0 0.0 1.40 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
39 40 1.210885 AGCAAAGAGGGGAAGGAGGG 61.211 60.000 0.00 0.00 0.00 4.30
96 99 2.520741 GAGAGAGAGAGGGCCCGG 60.521 72.222 18.44 0.00 0.00 5.73
102 105 2.524394 GAGAGGGCCCGGCATCTA 60.524 66.667 18.44 0.00 0.00 1.98
107 110 1.603739 GGGCCCGGCATCTATTTCC 60.604 63.158 5.69 0.00 0.00 3.13
115 118 1.416401 GGCATCTATTTCCGGAGACCA 59.584 52.381 3.34 0.00 0.00 4.02
161 164 6.103997 GCTATAATGCCGCTATAGTTAACCA 58.896 40.000 0.88 0.00 33.58 3.67
169 172 2.812011 GCTATAGTTAACCATTGGGGCG 59.188 50.000 7.78 0.00 42.05 6.13
178 181 1.519751 CCATTGGGGCGTCAAACGAA 61.520 55.000 3.28 0.00 46.05 3.85
199 202 3.857052 ACTCCGAATGCGATGAAACTTA 58.143 40.909 0.00 0.00 40.82 2.24
205 208 3.764885 ATGCGATGAAACTTAACAGGC 57.235 42.857 0.00 0.00 0.00 4.85
236 239 6.732154 TCTACACTATAATAAGACCACACGC 58.268 40.000 0.00 0.00 0.00 5.34
255 258 1.064463 GCCAACTCTCATCCCATTCCA 60.064 52.381 0.00 0.00 0.00 3.53
267 270 5.187576 TCATCCCATTCCAAGAACATTTTCC 59.812 40.000 0.00 0.00 31.28 3.13
295 298 9.537848 GCCACTTATAAAATAATATTTCGGACG 57.462 33.333 0.00 0.00 0.00 4.79
324 327 2.896801 GCGTGCAAGTGTGTCTGGG 61.897 63.158 0.59 0.00 0.00 4.45
336 339 4.461119 TCTGGGCTCAGAACGGAT 57.539 55.556 15.68 0.00 46.08 4.18
354 357 0.756903 ATAACGGATGGAACTCGGGG 59.243 55.000 0.00 0.00 0.00 5.73
376 379 1.644786 CCCGGACGGATGCAAGTTTC 61.645 60.000 13.13 0.00 37.50 2.78
411 414 1.335597 GCAATGCGGATGATGACATGG 60.336 52.381 0.00 0.00 36.82 3.66
439 442 2.191802 CAACACGCAAGCAAATGACAA 58.808 42.857 0.00 0.00 45.62 3.18
440 443 1.838913 ACACGCAAGCAAATGACAAC 58.161 45.000 0.00 0.00 45.62 3.32
450 453 2.034675 GCAAATGACAACGCAACAACAG 60.035 45.455 0.00 0.00 0.00 3.16
463 466 3.667960 GCAACAACAGCGAATAACTGGAG 60.668 47.826 0.00 0.00 39.55 3.86
479 482 1.679311 GAGGACACCTGGCACATCA 59.321 57.895 0.00 0.00 38.20 3.07
492 495 2.105128 CATCAGTCTCGGGGCGTC 59.895 66.667 0.00 0.00 0.00 5.19
721 724 3.224269 CATCCACATGGCCAATGACATA 58.776 45.455 19.46 4.99 38.72 2.29
729 732 1.406539 GGCCAATGACATACAAGCCTG 59.593 52.381 0.00 0.00 38.97 4.85
742 745 4.258702 ACAAGCCTGCCGTATAATAGAG 57.741 45.455 0.00 0.00 0.00 2.43
743 746 3.895656 ACAAGCCTGCCGTATAATAGAGA 59.104 43.478 0.00 0.00 0.00 3.10
744 747 4.021894 ACAAGCCTGCCGTATAATAGAGAG 60.022 45.833 0.00 0.00 0.00 3.20
806 811 5.026121 TCTATCTTGTCTCCTGTCCAATGT 58.974 41.667 0.00 0.00 0.00 2.71
859 864 6.544931 AGACACTAACCTATCTACATGCGTTA 59.455 38.462 0.00 0.00 0.00 3.18
962 967 4.563786 CCTTTCCACCACCTCTAGTTCTTC 60.564 50.000 0.00 0.00 0.00 2.87
1008 1013 5.543507 TGCCACAATTTTGAATGGTAACT 57.456 34.783 0.00 0.00 34.50 2.24
1038 1043 3.945921 CTCGAGGTCTCACCATTGTAGTA 59.054 47.826 3.91 0.00 41.95 1.82
1105 1110 0.391263 GAAACTCCAGGCGGACGATT 60.391 55.000 0.00 0.00 35.91 3.34
1251 1256 1.003580 CCAGCTTCCAGCCTTAACTCA 59.996 52.381 0.00 0.00 43.77 3.41
1275 1307 2.124695 GATGGCCTCCCGGTTGAC 60.125 66.667 3.32 0.00 0.00 3.18
1308 1340 1.685224 GCTCCCTGTTGATCCCACA 59.315 57.895 0.00 0.00 0.00 4.17
1453 1485 7.831691 TTGAAGGATACATGGAAAACTTTGA 57.168 32.000 0.00 0.00 41.41 2.69
1456 1488 6.272822 AGGATACATGGAAAACTTTGAAGC 57.727 37.500 0.00 0.00 41.41 3.86
1479 1511 4.515361 CATTTCATCTCTCTTCAGGTGCT 58.485 43.478 0.00 0.00 0.00 4.40
1532 1564 3.489059 CCATGTGATTTGTATTGGTCCGC 60.489 47.826 0.00 0.00 0.00 5.54
1647 1679 4.764050 TGTTTGACCCAGTTTAGTGAGA 57.236 40.909 0.00 0.00 0.00 3.27
1903 1935 1.599606 CTCTAGTGGCACGTGGAGCT 61.600 60.000 18.88 0.00 0.00 4.09
1920 1952 1.379044 CTGATGTGAGGTTGGGGGC 60.379 63.158 0.00 0.00 0.00 5.80
1960 1992 4.848660 AGCTACAATATCATCCCAGGTCAT 59.151 41.667 0.00 0.00 0.00 3.06
2005 2038 0.250234 CCATCTCGGAGGTTGCTTGA 59.750 55.000 4.96 0.00 36.56 3.02
2044 2077 4.052518 AGTGGTGGGCCCTCATGC 62.053 66.667 25.70 12.93 0.00 4.06
2054 2087 4.155733 CCTCATGCGCCACCCGTA 62.156 66.667 4.18 0.00 39.71 4.02
2055 2088 2.125310 CTCATGCGCCACCCGTAA 60.125 61.111 4.18 0.00 39.71 3.18
2056 2089 1.743623 CTCATGCGCCACCCGTAAA 60.744 57.895 4.18 0.00 39.71 2.01
2057 2090 1.078072 TCATGCGCCACCCGTAAAT 60.078 52.632 4.18 0.00 39.71 1.40
2058 2091 1.063972 CATGCGCCACCCGTAAATG 59.936 57.895 4.18 0.00 39.71 2.32
2059 2092 1.377987 ATGCGCCACCCGTAAATGT 60.378 52.632 4.18 0.00 39.71 2.71
2060 2093 1.653094 ATGCGCCACCCGTAAATGTG 61.653 55.000 4.18 0.00 39.71 3.21
2123 2172 2.756691 TGTGATGCATGGCAGGCC 60.757 61.111 22.49 7.60 43.65 5.19
2169 2218 0.531532 CCAGCGTGAGATCCACATCC 60.532 60.000 12.80 3.27 45.98 3.51
2172 2221 1.137872 AGCGTGAGATCCACATCCTTC 59.862 52.381 12.80 0.00 45.98 3.46
2236 2285 8.894731 TGCAATATGATTCATTTTGATTTTGGG 58.105 29.630 24.94 5.18 35.75 4.12
2293 2342 7.379098 CCTTTTAGGGAAAGTCTGATACAAC 57.621 40.000 0.00 0.00 42.63 3.32
2294 2343 6.940298 CCTTTTAGGGAAAGTCTGATACAACA 59.060 38.462 0.00 0.00 42.63 3.33
2295 2344 7.094762 CCTTTTAGGGAAAGTCTGATACAACAC 60.095 40.741 0.00 0.00 42.63 3.32
2296 2345 4.974645 AGGGAAAGTCTGATACAACACA 57.025 40.909 0.00 0.00 0.00 3.72
2297 2346 5.304686 AGGGAAAGTCTGATACAACACAA 57.695 39.130 0.00 0.00 0.00 3.33
2298 2347 5.308825 AGGGAAAGTCTGATACAACACAAG 58.691 41.667 0.00 0.00 0.00 3.16
2299 2348 5.063880 GGGAAAGTCTGATACAACACAAGT 58.936 41.667 0.00 0.00 0.00 3.16
2300 2349 6.042781 AGGGAAAGTCTGATACAACACAAGTA 59.957 38.462 0.00 0.00 0.00 2.24
2301 2350 6.369065 GGGAAAGTCTGATACAACACAAGTAG 59.631 42.308 0.00 0.00 0.00 2.57
2302 2351 7.152645 GGAAAGTCTGATACAACACAAGTAGA 58.847 38.462 0.00 0.00 0.00 2.59
2303 2352 7.656137 GGAAAGTCTGATACAACACAAGTAGAA 59.344 37.037 0.00 0.00 0.00 2.10
2304 2353 8.958119 AAAGTCTGATACAACACAAGTAGAAA 57.042 30.769 0.00 0.00 0.00 2.52
2305 2354 8.958119 AAGTCTGATACAACACAAGTAGAAAA 57.042 30.769 0.00 0.00 0.00 2.29
2306 2355 8.594881 AGTCTGATACAACACAAGTAGAAAAG 57.405 34.615 0.00 0.00 0.00 2.27
2307 2356 7.657761 AGTCTGATACAACACAAGTAGAAAAGG 59.342 37.037 0.00 0.00 0.00 3.11
2308 2357 7.656137 GTCTGATACAACACAAGTAGAAAAGGA 59.344 37.037 0.00 0.00 0.00 3.36
2309 2358 7.872993 TCTGATACAACACAAGTAGAAAAGGAG 59.127 37.037 0.00 0.00 0.00 3.69
2310 2359 6.426937 TGATACAACACAAGTAGAAAAGGAGC 59.573 38.462 0.00 0.00 0.00 4.70
2311 2360 3.883489 ACAACACAAGTAGAAAAGGAGCC 59.117 43.478 0.00 0.00 0.00 4.70
2312 2361 3.857157 ACACAAGTAGAAAAGGAGCCA 57.143 42.857 0.00 0.00 0.00 4.75
2313 2362 4.373156 ACACAAGTAGAAAAGGAGCCAT 57.627 40.909 0.00 0.00 0.00 4.40
2314 2363 4.729868 ACACAAGTAGAAAAGGAGCCATT 58.270 39.130 0.00 0.00 0.00 3.16
2315 2364 5.140454 ACACAAGTAGAAAAGGAGCCATTT 58.860 37.500 0.00 0.00 0.00 2.32
2316 2365 5.010012 ACACAAGTAGAAAAGGAGCCATTTG 59.990 40.000 0.00 0.00 0.00 2.32
2317 2366 4.021981 ACAAGTAGAAAAGGAGCCATTTGC 60.022 41.667 0.00 0.00 41.71 3.68
2318 2367 3.092301 AGTAGAAAAGGAGCCATTTGCC 58.908 45.455 0.00 0.00 42.71 4.52
2319 2368 1.269958 AGAAAAGGAGCCATTTGCCC 58.730 50.000 0.00 0.00 42.71 5.36
2320 2369 0.250234 GAAAAGGAGCCATTTGCCCC 59.750 55.000 0.00 0.00 42.71 5.80
2321 2370 1.543944 AAAAGGAGCCATTTGCCCCG 61.544 55.000 0.00 0.00 44.04 5.73
2322 2371 3.963124 AAGGAGCCATTTGCCCCGG 62.963 63.158 0.00 0.00 44.04 5.73
2323 2372 4.759205 GGAGCCATTTGCCCCGGT 62.759 66.667 0.00 0.00 42.71 5.28
2324 2373 2.679996 GAGCCATTTGCCCCGGTT 60.680 61.111 0.00 0.00 42.71 4.44
2325 2374 2.679996 AGCCATTTGCCCCGGTTC 60.680 61.111 0.00 0.00 42.71 3.62
2326 2375 4.128388 GCCATTTGCCCCGGTTCG 62.128 66.667 0.00 0.00 0.00 3.95
2327 2376 2.675075 CCATTTGCCCCGGTTCGT 60.675 61.111 0.00 0.00 0.00 3.85
2328 2377 1.377463 CCATTTGCCCCGGTTCGTA 60.377 57.895 0.00 0.00 0.00 3.43
2329 2378 0.961358 CCATTTGCCCCGGTTCGTAA 60.961 55.000 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 0.846870 CCACCCTCCTTCCCCTCTTT 60.847 60.000 0.00 0.00 0.00 2.52
39 40 1.296715 CACAGCCCACCTAGTCCAC 59.703 63.158 0.00 0.00 0.00 4.02
96 99 2.910688 TGGTCTCCGGAAATAGATGC 57.089 50.000 5.23 0.00 0.00 3.91
102 105 2.551032 GACGTTTTTGGTCTCCGGAAAT 59.449 45.455 5.23 0.00 0.00 2.17
107 110 0.598158 TCGGACGTTTTTGGTCTCCG 60.598 55.000 0.00 0.00 44.35 4.63
158 161 2.265182 CGTTTGACGCCCCAATGGT 61.265 57.895 0.00 0.00 33.65 3.55
161 164 0.536460 AGTTCGTTTGACGCCCCAAT 60.536 50.000 0.00 0.00 42.21 3.16
169 172 1.461888 CGCATTCGGAGTTCGTTTGAC 60.462 52.381 0.00 0.00 40.32 3.18
178 181 2.386661 AGTTTCATCGCATTCGGAGT 57.613 45.000 0.00 0.00 36.13 3.85
199 202 2.736347 AGTGTAGATAGACCGCCTGTT 58.264 47.619 0.00 0.00 0.00 3.16
205 208 9.445878 TGGTCTTATTATAGTGTAGATAGACCG 57.554 37.037 0.00 0.00 42.51 4.79
236 239 3.054139 TCTTGGAATGGGATGAGAGTTGG 60.054 47.826 0.00 0.00 0.00 3.77
255 258 1.995376 AGTGGCCGGAAAATGTTCTT 58.005 45.000 5.05 0.00 33.92 2.52
267 270 8.723311 TCCGAAATATTATTTTATAAGTGGCCG 58.277 33.333 0.00 0.00 0.00 6.13
308 311 1.510480 GAGCCCAGACACACTTGCAC 61.510 60.000 0.00 0.00 0.00 4.57
324 327 2.128035 CATCCGTTATCCGTTCTGAGC 58.872 52.381 0.00 0.00 33.66 4.26
336 339 0.324552 TCCCCGAGTTCCATCCGTTA 60.325 55.000 0.00 0.00 0.00 3.18
354 357 2.046700 TTGCATCCGTCCGGGTTC 60.047 61.111 0.00 0.00 37.00 3.62
361 364 2.961522 TTTCGAAACTTGCATCCGTC 57.038 45.000 6.47 0.00 0.00 4.79
376 379 3.061469 CGCATTGCATCATCATGTTTTCG 60.061 43.478 9.69 0.00 31.86 3.46
430 433 2.034675 GCTGTTGTTGCGTTGTCATTTG 60.035 45.455 0.00 0.00 0.00 2.32
431 434 2.192624 GCTGTTGTTGCGTTGTCATTT 58.807 42.857 0.00 0.00 0.00 2.32
450 453 1.207329 AGGTGTCCTCCAGTTATTCGC 59.793 52.381 0.00 0.00 0.00 4.70
463 466 0.674895 GACTGATGTGCCAGGTGTCC 60.675 60.000 0.00 0.00 38.44 4.02
479 482 2.915659 TTGTGACGCCCCGAGACT 60.916 61.111 0.00 0.00 0.00 3.24
570 573 6.710744 GCCGAGGAGGATCTTAATTCATTAAA 59.289 38.462 0.00 0.00 45.00 1.52
574 577 3.008485 GGCCGAGGAGGATCTTAATTCAT 59.992 47.826 0.00 0.00 45.00 2.57
581 584 2.128507 GTCGGCCGAGGAGGATCTT 61.129 63.158 31.97 0.00 45.00 2.40
608 611 3.879892 GTGGCTATTTGAGATGGAGGAAC 59.120 47.826 0.00 0.00 0.00 3.62
721 724 3.895656 TCTCTATTATACGGCAGGCTTGT 59.104 43.478 0.00 0.00 0.00 3.16
729 732 9.209175 ACATGATTTTTCTCTCTATTATACGGC 57.791 33.333 0.00 0.00 0.00 5.68
775 780 4.040095 CAGGAGACAAGATAGATGGCATGA 59.960 45.833 3.81 0.00 0.00 3.07
784 789 5.350504 ACATTGGACAGGAGACAAGATAG 57.649 43.478 0.00 0.00 0.00 2.08
806 811 5.702065 TGGGGCTTTATGTCTACAACATA 57.298 39.130 0.00 0.00 46.95 2.29
930 935 1.205417 GTGGTGGAAAGGGCATGATTG 59.795 52.381 0.00 0.00 0.00 2.67
962 967 9.294030 GCAAATTGTAATAAGAGATTTGGTGAG 57.706 33.333 8.60 0.00 37.87 3.51
1008 1013 1.066858 GTGAGACCTCGAGCCATTGAA 60.067 52.381 6.99 0.00 0.00 2.69
1038 1043 4.794003 GCTGCAACAAACACTAGCAAGAAT 60.794 41.667 0.00 0.00 34.45 2.40
1105 1110 2.070039 CCTCGGCCACATTAGGGGA 61.070 63.158 2.24 0.00 0.00 4.81
1129 1134 1.016653 GCCTCAGAAGAAGTGTCGGC 61.017 60.000 0.00 0.00 0.00 5.54
1159 1164 0.729690 GCCTCAGAAGAATTGTCGGC 59.270 55.000 0.00 0.00 0.00 5.54
1166 1171 1.211456 CCCCTCAGCCTCAGAAGAAT 58.789 55.000 0.00 0.00 0.00 2.40
1251 1256 3.474570 GGGAGGCCATCAGAGCGT 61.475 66.667 5.01 0.00 0.00 5.07
1278 1310 1.542375 AGGGAGCCCATCTGGTGTT 60.542 57.895 8.53 0.00 38.92 3.32
1308 1340 5.986501 TTTATTTAAATTGGCCGTCTGGT 57.013 34.783 5.91 0.00 37.67 4.00
1453 1485 4.018597 ACCTGAAGAGAGATGAAATGGCTT 60.019 41.667 0.00 0.00 0.00 4.35
1456 1488 3.626670 GCACCTGAAGAGAGATGAAATGG 59.373 47.826 0.00 0.00 0.00 3.16
1479 1511 4.227300 ACAACCAGTGCCCTTCAATCTATA 59.773 41.667 0.00 0.00 0.00 1.31
1812 1844 8.208575 AGTCTTTTAAGTACTCTTTCCATCCT 57.791 34.615 0.00 0.00 35.36 3.24
1903 1935 2.763215 GCCCCCAACCTCACATCA 59.237 61.111 0.00 0.00 0.00 3.07
1920 1952 1.211818 GCTGAGGCGCTATGAAGTCG 61.212 60.000 7.64 0.00 0.00 4.18
2005 2038 2.032054 CACGCATTAAAGGATCGCATGT 59.968 45.455 0.00 0.00 0.00 3.21
2047 2080 3.183259 CCGCCACATTTACGGGTG 58.817 61.111 0.00 0.00 43.23 4.61
2050 2083 2.045731 ACCCCGCCACATTTACGG 60.046 61.111 0.00 0.00 46.50 4.02
2051 2084 2.403378 CCACCCCGCCACATTTACG 61.403 63.158 0.00 0.00 0.00 3.18
2052 2085 0.896479 AACCACCCCGCCACATTTAC 60.896 55.000 0.00 0.00 0.00 2.01
2053 2086 0.896019 CAACCACCCCGCCACATTTA 60.896 55.000 0.00 0.00 0.00 1.40
2054 2087 2.200092 AACCACCCCGCCACATTT 59.800 55.556 0.00 0.00 0.00 2.32
2055 2088 2.600173 CAACCACCCCGCCACATT 60.600 61.111 0.00 0.00 0.00 2.71
2123 2172 1.915078 AAGAAGGCACCCTCCATCGG 61.915 60.000 0.00 0.00 30.89 4.18
2228 2277 5.388371 CGTGCGAAAGAATTTTCCCAAAATC 60.388 40.000 0.00 0.00 39.27 2.17
2234 2283 2.225727 AGTCGTGCGAAAGAATTTTCCC 59.774 45.455 0.00 0.00 39.27 3.97
2236 2285 6.963017 TTAAAGTCGTGCGAAAGAATTTTC 57.037 33.333 9.97 0.00 39.27 2.29
2251 2300 9.946165 CCTAAAAGGGCTTTATATTTAAAGTCG 57.054 33.333 14.62 2.18 46.46 4.18
2293 2342 5.464168 CAAATGGCTCCTTTTCTACTTGTG 58.536 41.667 0.00 0.00 0.00 3.33
2294 2343 4.021981 GCAAATGGCTCCTTTTCTACTTGT 60.022 41.667 0.00 0.00 40.25 3.16
2295 2344 4.488879 GCAAATGGCTCCTTTTCTACTTG 58.511 43.478 0.00 0.00 40.25 3.16
2296 2345 3.511540 GGCAAATGGCTCCTTTTCTACTT 59.488 43.478 0.00 0.00 44.01 2.24
2297 2346 3.092301 GGCAAATGGCTCCTTTTCTACT 58.908 45.455 0.00 0.00 44.01 2.57
2298 2347 2.166459 GGGCAAATGGCTCCTTTTCTAC 59.834 50.000 6.93 0.00 44.01 2.59
2299 2348 2.456577 GGGCAAATGGCTCCTTTTCTA 58.543 47.619 6.93 0.00 44.01 2.10
2300 2349 1.269958 GGGCAAATGGCTCCTTTTCT 58.730 50.000 6.93 0.00 44.01 2.52
2301 2350 3.840831 GGGCAAATGGCTCCTTTTC 57.159 52.632 6.93 0.00 44.01 2.29
2307 2356 2.679996 AACCGGGGCAAATGGCTC 60.680 61.111 6.32 1.43 44.66 4.70
2308 2357 2.679996 GAACCGGGGCAAATGGCT 60.680 61.111 6.32 0.00 44.01 4.75
2309 2358 4.128388 CGAACCGGGGCAAATGGC 62.128 66.667 6.32 0.00 43.74 4.40
2310 2359 0.961358 TTACGAACCGGGGCAAATGG 60.961 55.000 6.32 0.00 0.00 3.16
2311 2360 2.557451 TTACGAACCGGGGCAAATG 58.443 52.632 6.32 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.