Multiple sequence alignment - TraesCS7D01G349500

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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 TraesCS7D01G349500 chr7D 100.000 2429 0 0 1 2429 449457885 449455457 0.000000e+00 4486.0
1 TraesCS7D01G349500 chr7B 93.137 1865 76 15 29 1881 467424778 467422954 0.000000e+00 2687.0
2 TraesCS7D01G349500 chr7B 91.153 373 31 2 420 791 685614494 685614865 2.790000e-139 505.0
3 TraesCS7D01G349500 chr7B 96.797 281 7 1 2151 2429 467422646 467422366 3.660000e-128 468.0
4 TraesCS7D01G349500 chr7B 93.548 248 15 1 1879 2126 467422892 467422646 3.820000e-98 368.0
5 TraesCS7D01G349500 chr7A 87.007 1470 103 40 405 1834 546634927 546636348 0.000000e+00 1576.0
6 TraesCS7D01G349500 chr7A 86.986 292 29 4 2147 2429 546636667 546636958 1.080000e-83 320.0
7 TraesCS7D01G349500 chr7A 86.139 303 28 6 100 391 546634663 546634962 5.040000e-82 315.0
8 TraesCS7D01G349500 chr6D 92.463 544 23 6 417 959 322696623 322697149 0.000000e+00 761.0
9 TraesCS7D01G349500 chr6D 92.193 538 24 6 423 959 384197590 384197070 0.000000e+00 745.0
10 TraesCS7D01G349500 chr3D 92.096 544 25 6 417 959 596627359 596627885 0.000000e+00 750.0
11 TraesCS7D01G349500 chrUn 91.636 538 27 6 423 959 102601224 102600704 0.000000e+00 728.0
12 TraesCS7D01G349500 chrUn 92.340 470 24 4 417 885 162675393 162675851 0.000000e+00 658.0
13 TraesCS7D01G349500 chrUn 88.462 78 1 3 882 959 162681515 162681584 1.200000e-13 87.9
14 TraesCS7D01G349500 chr4B 88.848 538 29 11 423 959 608368226 608367719 1.230000e-177 632.0
15 TraesCS7D01G349500 chr1D 86.055 545 28 8 415 959 353179744 353180240 2.120000e-150 542.0
16 TraesCS7D01G349500 chr2B 91.957 373 28 2 423 794 50582121 50581750 2.770000e-144 521.0
17 TraesCS7D01G349500 chr2B 100.000 45 0 0 917 961 50581737 50581693 1.550000e-12 84.2
18 TraesCS7D01G349500 chr2B 97.778 45 1 0 917 961 795857419 795857463 7.200000e-11 78.7


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 TraesCS7D01G349500 chr7D 449455457 449457885 2428 True 4486.000000 4486 100.000000 1 2429 1 chr7D.!!$R1 2428
1 TraesCS7D01G349500 chr7B 467422366 467424778 2412 True 1174.333333 2687 94.494000 29 2429 3 chr7B.!!$R1 2400
2 TraesCS7D01G349500 chr7A 546634663 546636958 2295 False 737.000000 1576 86.710667 100 2429 3 chr7A.!!$F1 2329
3 TraesCS7D01G349500 chr6D 322696623 322697149 526 False 761.000000 761 92.463000 417 959 1 chr6D.!!$F1 542
4 TraesCS7D01G349500 chr6D 384197070 384197590 520 True 745.000000 745 92.193000 423 959 1 chr6D.!!$R1 536
5 TraesCS7D01G349500 chr3D 596627359 596627885 526 False 750.000000 750 92.096000 417 959 1 chr3D.!!$F1 542
6 TraesCS7D01G349500 chrUn 102600704 102601224 520 True 728.000000 728 91.636000 423 959 1 chrUn.!!$R1 536
7 TraesCS7D01G349500 chr4B 608367719 608368226 507 True 632.000000 632 88.848000 423 959 1 chr4B.!!$R1 536

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
470 482 1.122632 TCCTGGACCCTGTTGCGTTA 61.123 55.0 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2258 2549 0.173708 CTGGCTGTTACTCGGACCTC 59.826 60.0 0.0 0.0 0.0 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
20 21 2.449764 TGAGTGGATATAGGGGGAGGA 58.550 52.381 0.00 0.00 0.00 3.71
21 22 2.801394 TGAGTGGATATAGGGGGAGGAA 59.199 50.000 0.00 0.00 0.00 3.36
22 23 3.181406 TGAGTGGATATAGGGGGAGGAAG 60.181 52.174 0.00 0.00 0.00 3.46
23 24 3.077695 GAGTGGATATAGGGGGAGGAAGA 59.922 52.174 0.00 0.00 0.00 2.87
24 25 3.475174 AGTGGATATAGGGGGAGGAAGAA 59.525 47.826 0.00 0.00 0.00 2.52
25 26 4.077387 AGTGGATATAGGGGGAGGAAGAAA 60.077 45.833 0.00 0.00 0.00 2.52
26 27 4.852697 GTGGATATAGGGGGAGGAAGAAAT 59.147 45.833 0.00 0.00 0.00 2.17
27 28 5.313506 GTGGATATAGGGGGAGGAAGAAATT 59.686 44.000 0.00 0.00 0.00 1.82
36 37 4.838423 GGGGAGGAAGAAATTGGAAGAAAA 59.162 41.667 0.00 0.00 0.00 2.29
38 39 6.223852 GGGAGGAAGAAATTGGAAGAAAAAC 58.776 40.000 0.00 0.00 0.00 2.43
54 55 3.896648 AAAACGTTGGCAGTCTGTATG 57.103 42.857 0.00 0.00 0.00 2.39
55 56 2.543777 AACGTTGGCAGTCTGTATGT 57.456 45.000 0.00 0.00 0.00 2.29
56 57 3.671008 AACGTTGGCAGTCTGTATGTA 57.329 42.857 0.00 0.00 0.00 2.29
57 58 3.887621 ACGTTGGCAGTCTGTATGTAT 57.112 42.857 0.93 0.00 0.00 2.29
66 67 6.539826 TGGCAGTCTGTATGTATCATTTTCTG 59.460 38.462 0.93 0.00 0.00 3.02
67 68 6.763135 GGCAGTCTGTATGTATCATTTTCTGA 59.237 38.462 0.93 0.00 38.53 3.27
139 140 7.968246 ACACATCTCTTTATTGACAATCTTCG 58.032 34.615 3.36 0.00 0.00 3.79
218 219 1.268539 CGGAGCCGAAATACAATTGCC 60.269 52.381 5.05 0.00 42.83 4.52
260 266 3.791586 GGGCCCTCTGCACTCCTC 61.792 72.222 17.04 0.00 41.53 3.71
326 335 8.012241 GCGATTGTTCATATGAAAGGTAAGATC 58.988 37.037 19.55 12.76 35.58 2.75
346 355 1.401931 CCCTGCTGCACAATTTTCTCG 60.402 52.381 0.00 0.00 0.00 4.04
397 409 7.545615 ACGCATATCATACATACACCTTACATG 59.454 37.037 0.00 0.00 0.00 3.21
413 425 9.927668 CACCTTACATGTTTTTCCATCTTTATT 57.072 29.630 2.30 0.00 0.00 1.40
421 433 7.254852 TGTTTTTCCATCTTTATTATGCCGAC 58.745 34.615 0.00 0.00 0.00 4.79
462 474 5.594317 CCTTACATATTTTTCCTGGACCCTG 59.406 44.000 0.00 0.00 0.00 4.45
470 482 1.122632 TCCTGGACCCTGTTGCGTTA 61.123 55.000 0.00 0.00 0.00 3.18
575 593 3.617284 CCCTGTAGTGGGTTTGGTTATC 58.383 50.000 0.00 0.00 42.25 1.75
590 608 3.844211 TGGTTATCCTTACCAGTTGCTCT 59.156 43.478 0.00 0.00 40.65 4.09
663 681 1.723870 GGCGCATGTGGATCAGAAC 59.276 57.895 10.83 0.00 0.00 3.01
756 775 5.209659 ACAGAGTAGTAGGTTATTGGAGGG 58.790 45.833 0.00 0.00 0.00 4.30
851 870 6.759356 CCTTTCGGTTCACATATATACACACA 59.241 38.462 0.00 0.00 0.00 3.72
904 923 2.093235 CCCCTCAAGAGACACATCCTTC 60.093 54.545 0.00 0.00 0.00 3.46
905 924 2.568956 CCCTCAAGAGACACATCCTTCA 59.431 50.000 0.00 0.00 0.00 3.02
906 925 3.369261 CCCTCAAGAGACACATCCTTCAG 60.369 52.174 0.00 0.00 0.00 3.02
907 926 3.260740 CTCAAGAGACACATCCTTCAGC 58.739 50.000 0.00 0.00 0.00 4.26
908 927 2.902486 TCAAGAGACACATCCTTCAGCT 59.098 45.455 0.00 0.00 0.00 4.24
909 928 3.056250 TCAAGAGACACATCCTTCAGCTC 60.056 47.826 0.00 0.00 0.00 4.09
910 929 2.533916 AGAGACACATCCTTCAGCTCA 58.466 47.619 0.00 0.00 0.00 4.26
911 930 3.106054 AGAGACACATCCTTCAGCTCAT 58.894 45.455 0.00 0.00 0.00 2.90
968 988 4.929808 CAGATAAGTAAGCTTGTCCGTTGT 59.070 41.667 9.86 0.00 41.81 3.32
999 1019 2.230750 GGAGGCGGATAGGTACATACAC 59.769 54.545 0.00 0.00 0.00 2.90
1222 1248 0.666577 GCAGCAGCAGCAGAAAAAGG 60.667 55.000 4.63 0.00 45.49 3.11
1225 1251 0.388263 GCAGCAGCAGAAAAAGGAGC 60.388 55.000 0.00 0.00 41.58 4.70
1231 1257 1.612463 AGCAGAAAAAGGAGCAGCAAG 59.388 47.619 0.00 0.00 0.00 4.01
1232 1258 1.336609 GCAGAAAAAGGAGCAGCAAGG 60.337 52.381 0.00 0.00 0.00 3.61
1233 1259 0.964700 AGAAAAAGGAGCAGCAAGGC 59.035 50.000 0.00 0.00 0.00 4.35
1234 1260 0.037882 GAAAAAGGAGCAGCAAGGCC 60.038 55.000 0.00 0.00 0.00 5.19
1235 1261 0.760189 AAAAAGGAGCAGCAAGGCCA 60.760 50.000 5.01 0.00 0.00 5.36
1236 1262 1.183676 AAAAGGAGCAGCAAGGCCAG 61.184 55.000 5.01 0.00 0.00 4.85
1237 1263 2.072874 AAAGGAGCAGCAAGGCCAGA 62.073 55.000 5.01 0.00 0.00 3.86
1443 1478 1.734163 CGTAAAGTTTGATCGGGCCT 58.266 50.000 0.84 0.00 0.00 5.19
1447 1482 1.250840 AAGTTTGATCGGGCCTTGGC 61.251 55.000 0.84 2.49 0.00 4.52
1448 1483 2.749839 TTTGATCGGGCCTTGGCG 60.750 61.111 0.84 0.00 0.00 5.69
1449 1484 4.794648 TTGATCGGGCCTTGGCGG 62.795 66.667 0.84 0.44 0.00 6.13
1491 1526 5.184287 TGTGTTTATACTGGAGTGACGATGA 59.816 40.000 0.00 0.00 0.00 2.92
1492 1527 6.127451 TGTGTTTATACTGGAGTGACGATGAT 60.127 38.462 0.00 0.00 0.00 2.45
1493 1528 6.199154 GTGTTTATACTGGAGTGACGATGATG 59.801 42.308 0.00 0.00 0.00 3.07
1639 1679 3.412061 GCAGCTGCTGAGATCTGC 58.588 61.111 32.30 12.79 43.95 4.26
1667 1707 2.336945 TTCTTGATCTGGCGCATGAT 57.663 45.000 10.83 12.18 0.00 2.45
1766 1825 2.838386 CACTGTTGCATGTATGGAGC 57.162 50.000 0.00 0.00 0.00 4.70
1835 1894 3.807538 GTGTGCTCATGCTGCCGG 61.808 66.667 0.00 0.00 40.48 6.13
1854 1913 3.044305 GCGCGTTCTGTTCTGGCT 61.044 61.111 8.43 0.00 0.00 4.75
1856 1915 2.720758 CGCGTTCTGTTCTGGCTCG 61.721 63.158 0.00 0.00 0.00 5.03
1881 1940 3.564027 GTGCCGACGCTATGGTGC 61.564 66.667 0.00 0.00 35.36 5.01
1917 2203 6.241645 ACTTTGCTAGGCAGAAAAGAGTTAT 58.758 36.000 18.44 0.51 46.75 1.89
1932 2218 9.995957 GAAAAGAGTTATAAATTTCTCTGCCTC 57.004 33.333 7.65 2.46 37.35 4.70
1939 2225 0.035317 ATTTCTCTGCCTCGCACACA 59.965 50.000 0.00 0.00 33.79 3.72
1974 2260 4.828939 TGAAATTCATGTGCTCCAAACTCT 59.171 37.500 0.00 0.00 0.00 3.24
1996 2282 3.379372 TGTTAGCCGAGCGTAGTTCTATT 59.621 43.478 0.00 0.00 34.89 1.73
2010 2296 1.143183 CTATTGGGTCGGTCCGGTG 59.857 63.158 12.29 0.00 37.00 4.94
2023 2309 2.358125 CGGTGACCGGAACATGCA 60.358 61.111 17.80 0.00 44.15 3.96
2042 2328 1.004918 CCGGTCGGCTCAAGAAACT 60.005 57.895 0.00 0.00 0.00 2.66
2077 2363 1.562783 ACTCTGTTAGCTGGACCTCC 58.437 55.000 0.00 0.00 0.00 4.30
2098 2384 2.882137 CTCCTTTTTCGTAGCCCAAACA 59.118 45.455 0.00 0.00 0.00 2.83
2128 2414 4.686191 ATGACTCATCATGGAGGTTCTC 57.314 45.455 4.31 0.00 44.26 2.87
2129 2415 3.444029 TGACTCATCATGGAGGTTCTCA 58.556 45.455 4.31 0.00 39.27 3.27
2130 2416 3.840078 TGACTCATCATGGAGGTTCTCAA 59.160 43.478 4.31 0.00 39.27 3.02
2131 2417 4.286808 TGACTCATCATGGAGGTTCTCAAA 59.713 41.667 4.31 0.00 39.27 2.69
2132 2418 5.221904 TGACTCATCATGGAGGTTCTCAAAA 60.222 40.000 4.31 0.00 39.27 2.44
2133 2419 5.634118 ACTCATCATGGAGGTTCTCAAAAA 58.366 37.500 4.31 0.00 39.27 1.94
2258 2549 2.345760 GGGCAAGACAGGCACATGG 61.346 63.158 0.00 0.00 33.96 3.66
2282 2574 0.737715 CCGAGTAACAGCCAGCAGAC 60.738 60.000 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.449764 TCCTCCCCCTATATCCACTCA 58.550 52.381 0.00 0.00 0.00 3.41
1 2 3.077695 TCTTCCTCCCCCTATATCCACTC 59.922 52.174 0.00 0.00 0.00 3.51
2 3 3.079854 TCTTCCTCCCCCTATATCCACT 58.920 50.000 0.00 0.00 0.00 4.00
3 4 3.562108 TCTTCCTCCCCCTATATCCAC 57.438 52.381 0.00 0.00 0.00 4.02
4 5 4.586675 TTTCTTCCTCCCCCTATATCCA 57.413 45.455 0.00 0.00 0.00 3.41
5 6 5.281245 CCAATTTCTTCCTCCCCCTATATCC 60.281 48.000 0.00 0.00 0.00 2.59
6 7 5.551977 TCCAATTTCTTCCTCCCCCTATATC 59.448 44.000 0.00 0.00 0.00 1.63
7 8 5.495787 TCCAATTTCTTCCTCCCCCTATAT 58.504 41.667 0.00 0.00 0.00 0.86
8 9 4.915454 TCCAATTTCTTCCTCCCCCTATA 58.085 43.478 0.00 0.00 0.00 1.31
9 10 3.759755 TCCAATTTCTTCCTCCCCCTAT 58.240 45.455 0.00 0.00 0.00 2.57
10 11 3.230143 TCCAATTTCTTCCTCCCCCTA 57.770 47.619 0.00 0.00 0.00 3.53
11 12 2.074922 TCCAATTTCTTCCTCCCCCT 57.925 50.000 0.00 0.00 0.00 4.79
12 13 2.311841 TCTTCCAATTTCTTCCTCCCCC 59.688 50.000 0.00 0.00 0.00 5.40
13 14 3.739401 TCTTCCAATTTCTTCCTCCCC 57.261 47.619 0.00 0.00 0.00 4.81
14 15 6.223852 GTTTTTCTTCCAATTTCTTCCTCCC 58.776 40.000 0.00 0.00 0.00 4.30
15 16 5.920840 CGTTTTTCTTCCAATTTCTTCCTCC 59.079 40.000 0.00 0.00 0.00 4.30
16 17 6.504398 ACGTTTTTCTTCCAATTTCTTCCTC 58.496 36.000 0.00 0.00 0.00 3.71
17 18 6.465439 ACGTTTTTCTTCCAATTTCTTCCT 57.535 33.333 0.00 0.00 0.00 3.36
18 19 6.019075 CCAACGTTTTTCTTCCAATTTCTTCC 60.019 38.462 0.00 0.00 0.00 3.46
19 20 6.509517 GCCAACGTTTTTCTTCCAATTTCTTC 60.510 38.462 0.00 0.00 0.00 2.87
20 21 5.293324 GCCAACGTTTTTCTTCCAATTTCTT 59.707 36.000 0.00 0.00 0.00 2.52
21 22 4.808895 GCCAACGTTTTTCTTCCAATTTCT 59.191 37.500 0.00 0.00 0.00 2.52
22 23 4.568760 TGCCAACGTTTTTCTTCCAATTTC 59.431 37.500 0.00 0.00 0.00 2.17
23 24 4.508662 TGCCAACGTTTTTCTTCCAATTT 58.491 34.783 0.00 0.00 0.00 1.82
24 25 4.119136 CTGCCAACGTTTTTCTTCCAATT 58.881 39.130 0.00 0.00 0.00 2.32
25 26 3.132111 ACTGCCAACGTTTTTCTTCCAAT 59.868 39.130 0.00 0.00 0.00 3.16
26 27 2.494073 ACTGCCAACGTTTTTCTTCCAA 59.506 40.909 0.00 0.00 0.00 3.53
27 28 2.096248 ACTGCCAACGTTTTTCTTCCA 58.904 42.857 0.00 0.00 0.00 3.53
36 37 2.543777 ACATACAGACTGCCAACGTT 57.456 45.000 1.25 0.00 0.00 3.99
38 39 3.780902 TGATACATACAGACTGCCAACG 58.219 45.455 1.25 0.00 0.00 4.10
90 91 9.596308 TGTACAATCCACTAGCTAAAGGATATA 57.404 33.333 20.97 15.38 39.86 0.86
139 140 3.569200 GAGTGGTGGAAGGTGGCCC 62.569 68.421 0.00 0.00 0.00 5.80
218 219 5.235516 AGAGAAATGAAGCAAAGGCAAATG 58.764 37.500 0.00 0.00 44.61 2.32
260 266 4.556233 TGGAGAAACAGTACGTCTGAATG 58.444 43.478 17.99 2.76 46.27 2.67
326 335 1.401931 CGAGAAAATTGTGCAGCAGGG 60.402 52.381 0.00 0.00 0.00 4.45
346 355 6.371548 TCGGCATAAAGATGATAAACATAGCC 59.628 38.462 0.00 0.00 39.56 3.93
397 409 6.413818 CGTCGGCATAATAAAGATGGAAAAAC 59.586 38.462 0.00 0.00 0.00 2.43
431 443 7.284489 TCCAGGAAAAATATGTAAGGTGTATGC 59.716 37.037 0.00 0.00 0.00 3.14
462 474 3.392769 TGTGTCAACACTTAACGCAAC 57.607 42.857 13.94 0.00 46.55 4.17
470 482 1.949525 GCCACTGATGTGTCAACACTT 59.050 47.619 13.94 7.98 46.55 3.16
572 590 3.678806 CGCAAGAGCAACTGGTAAGGATA 60.679 47.826 0.00 0.00 42.27 2.59
575 593 0.798776 CGCAAGAGCAACTGGTAAGG 59.201 55.000 0.00 0.00 42.27 2.69
663 681 4.080863 AGGGGCTGTCAGATTAAACTACTG 60.081 45.833 3.32 0.00 0.00 2.74
734 752 4.589374 CCCCTCCAATAACCTACTACTCTG 59.411 50.000 0.00 0.00 0.00 3.35
756 775 1.853250 AAAGCTACCAGGGCCTGTCC 61.853 60.000 30.68 15.77 0.00 4.02
851 870 0.947244 CTTTGCCTTCTCTTGTGCGT 59.053 50.000 0.00 0.00 0.00 5.24
904 923 1.380524 CAAGAGGCAAGGATGAGCTG 58.619 55.000 0.00 0.00 0.00 4.24
905 924 0.394080 GCAAGAGGCAAGGATGAGCT 60.394 55.000 0.00 0.00 43.97 4.09
906 925 1.712977 CGCAAGAGGCAAGGATGAGC 61.713 60.000 0.00 0.00 45.17 4.26
907 926 0.392193 ACGCAAGAGGCAAGGATGAG 60.392 55.000 0.00 0.00 45.17 2.90
908 927 0.036732 AACGCAAGAGGCAAGGATGA 59.963 50.000 0.00 0.00 45.17 2.92
909 928 0.449388 GAACGCAAGAGGCAAGGATG 59.551 55.000 0.00 0.00 45.17 3.51
910 929 0.326264 AGAACGCAAGAGGCAAGGAT 59.674 50.000 0.00 0.00 45.17 3.24
911 930 0.320771 GAGAACGCAAGAGGCAAGGA 60.321 55.000 0.00 0.00 45.17 3.36
999 1019 2.295885 GATCTCTGCAACCCTTCCATG 58.704 52.381 0.00 0.00 0.00 3.66
1119 1139 3.764160 CTCCGGCTGGGCTTCATCC 62.764 68.421 12.87 0.00 35.24 3.51
1185 1205 4.287781 TTCTTGTCGTCGCCGCCA 62.288 61.111 0.00 0.00 0.00 5.69
1222 1248 0.607489 TTCTTCTGGCCTTGCTGCTC 60.607 55.000 3.32 0.00 0.00 4.26
1225 1251 1.811359 CTTCTTCTTCTGGCCTTGCTG 59.189 52.381 3.32 0.00 0.00 4.41
1231 1257 0.608640 TCGTCCTTCTTCTTCTGGCC 59.391 55.000 0.00 0.00 0.00 5.36
1232 1258 1.404851 CCTCGTCCTTCTTCTTCTGGC 60.405 57.143 0.00 0.00 0.00 4.85
1233 1259 2.165437 CTCCTCGTCCTTCTTCTTCTGG 59.835 54.545 0.00 0.00 0.00 3.86
1234 1260 2.416701 GCTCCTCGTCCTTCTTCTTCTG 60.417 54.545 0.00 0.00 0.00 3.02
1235 1261 1.822371 GCTCCTCGTCCTTCTTCTTCT 59.178 52.381 0.00 0.00 0.00 2.85
1236 1262 1.468395 CGCTCCTCGTCCTTCTTCTTC 60.468 57.143 0.00 0.00 0.00 2.87
1237 1263 0.528470 CGCTCCTCGTCCTTCTTCTT 59.472 55.000 0.00 0.00 0.00 2.52
1431 1466 2.749839 CGCCAAGGCCCGATCAAA 60.750 61.111 5.34 0.00 37.98 2.69
1443 1478 1.102809 GCATGACATCCATCCGCCAA 61.103 55.000 0.00 0.00 31.94 4.52
1447 1482 1.563435 GCTCGCATGACATCCATCCG 61.563 60.000 0.00 0.00 37.77 4.18
1448 1483 0.250209 AGCTCGCATGACATCCATCC 60.250 55.000 0.00 0.00 31.94 3.51
1449 1484 0.866427 CAGCTCGCATGACATCCATC 59.134 55.000 0.00 0.00 31.94 3.51
1450 1485 0.179702 ACAGCTCGCATGACATCCAT 59.820 50.000 0.00 0.00 35.44 3.41
1639 1679 3.242220 CGCCAGATCAAGAAAGAACATCG 60.242 47.826 0.00 0.00 0.00 3.84
1766 1825 5.352016 CCCAATTGATTGTTTATGGTTGCAG 59.648 40.000 7.12 0.00 36.06 4.41
1835 1894 2.551270 CCAGAACAGAACGCGCAC 59.449 61.111 5.73 0.00 0.00 5.34
1840 1899 0.318699 TCACGAGCCAGAACAGAACG 60.319 55.000 0.00 0.00 0.00 3.95
1843 1902 1.967535 CCTCACGAGCCAGAACAGA 59.032 57.895 0.00 0.00 0.00 3.41
1906 2192 9.995957 GAGGCAGAGAAATTTATAACTCTTTTC 57.004 33.333 4.77 2.43 37.59 2.29
1917 2203 2.742053 GTGTGCGAGGCAGAGAAATTTA 59.258 45.455 0.00 0.00 40.08 1.40
1932 2218 1.019278 ATAAGAACGGGCTGTGTGCG 61.019 55.000 0.00 0.00 44.05 5.34
1939 2225 4.949856 ACATGAATTTCATAAGAACGGGCT 59.050 37.500 11.44 0.00 34.28 5.19
1974 2260 1.171308 AGAACTACGCTCGGCTAACA 58.829 50.000 0.00 0.00 0.00 2.41
2023 2309 1.301479 GTTTCTTGAGCCGACCGGT 60.301 57.895 6.92 6.92 37.65 5.28
2042 2328 4.041762 GTTGCCACCCCGGGATCA 62.042 66.667 26.32 11.08 33.48 2.92
2077 2363 2.882137 TGTTTGGGCTACGAAAAAGGAG 59.118 45.455 0.00 0.00 0.00 3.69
2258 2549 0.173708 CTGGCTGTTACTCGGACCTC 59.826 60.000 0.00 0.00 0.00 3.85
2282 2574 2.166254 GGCCCATGTGGTGTTTCTATTG 59.834 50.000 0.00 0.00 36.04 1.90


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

AutoCloner maintained by Alex Coulton.