Multiple sequence alignment - TraesCS5B01G096000

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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 TraesCS5B01G096000 chr5B 100.000 6670 0 0 1 6670 126610774 126604105 0.000000e+00 12318.0
1 TraesCS5B01G096000 chr5D 97.427 5480 74 17 769 6218 115411626 115406184 0.000000e+00 9276.0
2 TraesCS5B01G096000 chr5D 92.857 756 54 0 1 756 189237998 189237243 0.000000e+00 1098.0
3 TraesCS5B01G096000 chr5D 93.314 344 16 5 6330 6668 115405827 115405486 9.990000e-138 501.0
4 TraesCS5B01G096000 chr5D 84.655 391 55 4 6216 6602 51923844 51923455 1.050000e-102 385.0
5 TraesCS5B01G096000 chr5A 91.611 3147 176 28 1400 4519 121420469 121417384 0.000000e+00 4268.0
6 TraesCS5B01G096000 chr5A 92.966 725 45 1 4727 5445 121417384 121416660 0.000000e+00 1051.0
7 TraesCS5B01G096000 chr5A 90.468 598 33 11 771 1357 121421048 121420464 0.000000e+00 767.0
8 TraesCS5B01G096000 chr5A 91.111 315 23 3 5444 5754 121416499 121416186 8.000000e-114 422.0
9 TraesCS5B01G096000 chr5A 88.841 233 17 5 5785 6008 121416187 121415955 1.830000e-70 278.0
10 TraesCS5B01G096000 chr2B 96.561 756 25 1 1 756 14342106 14342860 0.000000e+00 1251.0
11 TraesCS5B01G096000 chr2B 85.347 389 53 4 6218 6602 361289982 361289594 3.750000e-107 399.0
12 TraesCS5B01G096000 chr6B 95.635 756 33 0 1 756 149423539 149422784 0.000000e+00 1214.0
13 TraesCS5B01G096000 chr6B 95.370 756 35 0 1 756 120154497 120155252 0.000000e+00 1203.0
14 TraesCS5B01G096000 chr6B 86.667 60 8 0 2061 2120 476731242 476731183 4.320000e-07 67.6
15 TraesCS5B01G096000 chr7B 94.702 755 40 0 1 755 458562692 458563446 0.000000e+00 1173.0
16 TraesCS5B01G096000 chr7A 93.625 753 48 0 1 753 152848444 152849196 0.000000e+00 1125.0
17 TraesCS5B01G096000 chr3D 93.386 756 44 3 1 756 366248449 366249198 0.000000e+00 1114.0
18 TraesCS5B01G096000 chr4A 91.931 756 61 0 1 756 201620119 201619364 0.000000e+00 1059.0
19 TraesCS5B01G096000 chr1B 91.942 757 60 1 1 756 432109917 432109161 0.000000e+00 1059.0
20 TraesCS5B01G096000 chrUn 100.000 386 0 0 2201 2586 480650113 480650498 0.000000e+00 713.0
21 TraesCS5B01G096000 chrUn 89.873 395 35 5 6215 6607 126748874 126748483 2.780000e-138 503.0
22 TraesCS5B01G096000 chrUn 100.000 31 0 0 6142 6172 338224344 338224374 2.600000e-04 58.4
23 TraesCS5B01G096000 chrUn 100.000 31 0 0 6142 6172 338234768 338234798 2.600000e-04 58.4
24 TraesCS5B01G096000 chrUn 90.698 43 3 1 2097 2139 23426655 23426696 1.000000e-03 56.5
25 TraesCS5B01G096000 chrUn 100.000 28 0 0 2107 2134 162265238 162265211 1.200000e-02 52.8
26 TraesCS5B01G096000 chr3A 88.114 387 40 6 6215 6597 747734293 747734677 7.880000e-124 455.0
27 TraesCS5B01G096000 chr6D 86.445 391 49 4 6219 6606 471477186 471476797 6.180000e-115 425.0
28 TraesCS5B01G096000 chr3B 85.222 406 37 14 6215 6607 487561547 487561152 4.850000e-106 396.0
29 TraesCS5B01G096000 chr3B 100.000 28 0 0 2092 2119 677312267 677312294 1.200000e-02 52.8
30 TraesCS5B01G096000 chr2D 85.302 381 51 3 6216 6596 559249726 559249351 8.110000e-104 388.0
31 TraesCS5B01G096000 chr2D 96.774 31 1 0 2089 2119 23474731 23474761 1.200000e-02 52.8
32 TraesCS5B01G096000 chr7D 83.586 396 57 7 6215 6607 531645344 531644954 1.370000e-96 364.0


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 TraesCS5B01G096000 chr5B 126604105 126610774 6669 True 12318.0 12318 100.0000 1 6670 1 chr5B.!!$R1 6669
1 TraesCS5B01G096000 chr5D 115405486 115411626 6140 True 4888.5 9276 95.3705 769 6668 2 chr5D.!!$R3 5899
2 TraesCS5B01G096000 chr5D 189237243 189237998 755 True 1098.0 1098 92.8570 1 756 1 chr5D.!!$R2 755
3 TraesCS5B01G096000 chr5A 121415955 121421048 5093 True 1357.2 4268 90.9994 771 6008 5 chr5A.!!$R1 5237
4 TraesCS5B01G096000 chr2B 14342106 14342860 754 False 1251.0 1251 96.5610 1 756 1 chr2B.!!$F1 755
5 TraesCS5B01G096000 chr6B 149422784 149423539 755 True 1214.0 1214 95.6350 1 756 1 chr6B.!!$R1 755
6 TraesCS5B01G096000 chr6B 120154497 120155252 755 False 1203.0 1203 95.3700 1 756 1 chr6B.!!$F1 755
7 TraesCS5B01G096000 chr7B 458562692 458563446 754 False 1173.0 1173 94.7020 1 755 1 chr7B.!!$F1 754
8 TraesCS5B01G096000 chr7A 152848444 152849196 752 False 1125.0 1125 93.6250 1 753 1 chr7A.!!$F1 752
9 TraesCS5B01G096000 chr3D 366248449 366249198 749 False 1114.0 1114 93.3860 1 756 1 chr3D.!!$F1 755
10 TraesCS5B01G096000 chr4A 201619364 201620119 755 True 1059.0 1059 91.9310 1 756 1 chr4A.!!$R1 755
11 TraesCS5B01G096000 chr1B 432109161 432109917 756 True 1059.0 1059 91.9420 1 756 1 chr1B.!!$R1 755

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
442 443 0.678395 CCTGTCCTCCCTCATCATCG 59.322 60.0 0.00 0.0 0.00 3.84 F
1356 1368 0.178958 ACCTGTGAGTCTCCCGTCTT 60.179 55.0 0.00 0.0 0.00 3.01 F
1357 1369 0.528470 CCTGTGAGTCTCCCGTCTTC 59.472 60.0 0.00 0.0 0.00 2.87 F
1358 1370 1.540267 CTGTGAGTCTCCCGTCTTCT 58.460 55.0 0.00 0.0 0.00 2.85 F
2989 3021 0.462789 GCAGGATCCCAAAAGCATGG 59.537 55.0 8.55 0.0 40.35 3.66 F
4691 4730 0.343372 TGGATGGGAGGGCTCTTACT 59.657 55.0 0.00 0.0 0.00 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2199 2220 0.456221 ACCGCTTCTGGTATCTGTCG 59.544 55.000 0.0 0.0 41.55 4.35 R
2586 2618 3.980775 CGCCATCGAGAACAACAATTTTT 59.019 39.130 0.0 0.0 38.10 1.94 R
2947 2979 7.909267 TGCAAGTACAAGAAATAGATTGATCG 58.091 34.615 0.0 0.0 0.00 3.69 R
3397 3429 0.249120 TGCATCCGTTGATCGAGGTT 59.751 50.000 2.1 0.0 42.86 3.50 R
4895 4934 0.670546 AATGGAGCGTGACTGAACCG 60.671 55.000 0.0 0.0 0.00 4.44 R
6218 6665 4.037923 GCATTTATGGGTTGGTATCACCTG 59.962 45.833 0.0 0.0 39.58 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
123 124 3.150949 CCACACTGGAGGCTCACA 58.849 61.111 17.69 10.86 40.96 3.58
159 160 2.542595 ACCACTTCGCGTTAAGTTCTTG 59.457 45.455 10.21 0.67 37.61 3.02
193 194 2.625314 CTCCAAGATAGATGCTGGACGA 59.375 50.000 0.00 0.00 0.00 4.20
277 278 1.674359 TGAAACGATGCAACACCTGT 58.326 45.000 0.00 0.00 0.00 4.00
442 443 0.678395 CCTGTCCTCCCTCATCATCG 59.322 60.000 0.00 0.00 0.00 3.84
844 848 4.469657 TGTTGAAGGTGCTCTTACCAAAT 58.530 39.130 0.00 0.00 43.37 2.32
848 852 6.757897 TGAAGGTGCTCTTACCAAATATTG 57.242 37.500 0.00 0.00 43.37 1.90
851 855 3.699038 GGTGCTCTTACCAAATATTGCCA 59.301 43.478 0.00 0.00 40.54 4.92
920 924 8.238860 AGTTTTGGACTTGGATCCTGATGGAT 62.239 42.308 14.23 0.00 45.52 3.41
939 943 3.681897 GGATGAAGATATCACACATCGGC 59.318 47.826 20.02 10.84 41.93 5.54
1021 1025 2.284151 GGAGGGGGAGAGGAGGAC 59.716 72.222 0.00 0.00 0.00 3.85
1094 1104 1.457831 GCCGATACTCCCCACTCCT 60.458 63.158 0.00 0.00 0.00 3.69
1163 1175 0.797249 GAGCAGCAATCAAGCAAGCG 60.797 55.000 0.00 0.00 40.97 4.68
1353 1365 1.972223 CGACCTGTGAGTCTCCCGT 60.972 63.158 0.00 0.00 34.46 5.28
1354 1366 1.884444 GACCTGTGAGTCTCCCGTC 59.116 63.158 0.00 0.00 33.79 4.79
1355 1367 0.609681 GACCTGTGAGTCTCCCGTCT 60.610 60.000 0.00 0.00 33.79 4.18
1356 1368 0.178958 ACCTGTGAGTCTCCCGTCTT 60.179 55.000 0.00 0.00 0.00 3.01
1357 1369 0.528470 CCTGTGAGTCTCCCGTCTTC 59.472 60.000 0.00 0.00 0.00 2.87
1358 1370 1.540267 CTGTGAGTCTCCCGTCTTCT 58.460 55.000 0.00 0.00 0.00 2.85
1359 1371 1.889829 CTGTGAGTCTCCCGTCTTCTT 59.110 52.381 0.00 0.00 0.00 2.52
1360 1372 1.887198 TGTGAGTCTCCCGTCTTCTTC 59.113 52.381 0.00 0.00 0.00 2.87
1361 1373 2.164338 GTGAGTCTCCCGTCTTCTTCT 58.836 52.381 0.00 0.00 0.00 2.85
1362 1374 2.559231 GTGAGTCTCCCGTCTTCTTCTT 59.441 50.000 0.00 0.00 0.00 2.52
1363 1375 2.820787 TGAGTCTCCCGTCTTCTTCTTC 59.179 50.000 0.00 0.00 0.00 2.87
1364 1376 3.086282 GAGTCTCCCGTCTTCTTCTTCT 58.914 50.000 0.00 0.00 0.00 2.85
1365 1377 3.502356 AGTCTCCCGTCTTCTTCTTCTT 58.498 45.455 0.00 0.00 0.00 2.52
1366 1378 3.508402 AGTCTCCCGTCTTCTTCTTCTTC 59.492 47.826 0.00 0.00 0.00 2.87
1367 1379 3.508402 GTCTCCCGTCTTCTTCTTCTTCT 59.492 47.826 0.00 0.00 0.00 2.85
1368 1380 4.021807 GTCTCCCGTCTTCTTCTTCTTCTT 60.022 45.833 0.00 0.00 0.00 2.52
1369 1381 4.218852 TCTCCCGTCTTCTTCTTCTTCTTC 59.781 45.833 0.00 0.00 0.00 2.87
1370 1382 4.153411 TCCCGTCTTCTTCTTCTTCTTCT 58.847 43.478 0.00 0.00 0.00 2.85
1371 1383 4.589374 TCCCGTCTTCTTCTTCTTCTTCTT 59.411 41.667 0.00 0.00 0.00 2.52
1372 1384 4.926832 CCCGTCTTCTTCTTCTTCTTCTTC 59.073 45.833 0.00 0.00 0.00 2.87
1373 1385 5.279256 CCCGTCTTCTTCTTCTTCTTCTTCT 60.279 44.000 0.00 0.00 0.00 2.85
1374 1386 6.220201 CCGTCTTCTTCTTCTTCTTCTTCTT 58.780 40.000 0.00 0.00 0.00 2.52
1375 1387 6.364976 CCGTCTTCTTCTTCTTCTTCTTCTTC 59.635 42.308 0.00 0.00 0.00 2.87
1376 1388 7.145323 CGTCTTCTTCTTCTTCTTCTTCTTCT 58.855 38.462 0.00 0.00 0.00 2.85
1377 1389 7.651704 CGTCTTCTTCTTCTTCTTCTTCTTCTT 59.348 37.037 0.00 0.00 0.00 2.52
1378 1390 8.978539 GTCTTCTTCTTCTTCTTCTTCTTCTTC 58.021 37.037 0.00 0.00 0.00 2.87
1379 1391 8.923270 TCTTCTTCTTCTTCTTCTTCTTCTTCT 58.077 33.333 0.00 0.00 0.00 2.85
1380 1392 9.546428 CTTCTTCTTCTTCTTCTTCTTCTTCTT 57.454 33.333 0.00 0.00 0.00 2.52
1381 1393 9.541143 TTCTTCTTCTTCTTCTTCTTCTTCTTC 57.459 33.333 0.00 0.00 0.00 2.87
1382 1394 8.923270 TCTTCTTCTTCTTCTTCTTCTTCTTCT 58.077 33.333 0.00 0.00 0.00 2.85
1883 1903 2.754552 TGGATCTTCGGCCAAATTGAAG 59.245 45.455 2.24 7.30 40.30 3.02
1980 2001 5.692115 TCATTAACAGAGGGTGCTATTGA 57.308 39.130 0.00 0.00 0.00 2.57
2105 2126 6.476053 GGTTCAATTTAAACTGCCAAAACGTA 59.524 34.615 0.00 0.00 0.00 3.57
2199 2220 6.460261 CCACTCAAAGTTTTCCTCTTCCTTTC 60.460 42.308 0.00 0.00 0.00 2.62
2586 2618 2.236146 TCGCCTTCTTTCTGCCAAGATA 59.764 45.455 0.00 0.00 32.69 1.98
2639 2671 9.011095 CAACATAGATAATGAAGATTGCTGGAT 57.989 33.333 0.00 0.00 39.07 3.41
2989 3021 0.462789 GCAGGATCCCAAAAGCATGG 59.537 55.000 8.55 0.00 40.35 3.66
3397 3429 2.897969 GACCAGTACACTCCCTTCAAGA 59.102 50.000 0.00 0.00 0.00 3.02
3644 3679 5.414144 TCATGACAGTTGTTGACTTTGACAA 59.586 36.000 0.00 0.00 36.10 3.18
3803 3840 5.049405 AGGCCAGCGAATATTTTCTTTATCG 60.049 40.000 5.01 0.00 0.00 2.92
3893 3930 5.649557 TGGTTTCACAAACATGTTCTGAAG 58.350 37.500 21.75 15.25 43.15 3.02
4371 4410 5.304101 CAGCTACTTTCATATCCTCCAGAGT 59.696 44.000 0.00 0.00 0.00 3.24
4603 4642 1.508088 GGGATTGCTCAAACTGGCG 59.492 57.895 0.00 0.00 0.00 5.69
4691 4730 0.343372 TGGATGGGAGGGCTCTTACT 59.657 55.000 0.00 0.00 0.00 2.24
4895 4934 0.381801 CCGCTGCAAATGACATACCC 59.618 55.000 0.00 0.00 0.00 3.69
4928 4973 2.831742 CATTGCCCCGCTGCAGAT 60.832 61.111 20.43 0.00 43.21 2.90
4943 4988 4.499357 GCTGCAGATGAATTTTCAGGATCC 60.499 45.833 20.43 2.48 41.08 3.36
5004 5049 8.141298 TGAGGACTATGACATACCTTTTGTAA 57.859 34.615 6.18 0.00 31.94 2.41
5139 5184 4.508405 CCCTCTTTAATCAACAACCTCCCA 60.508 45.833 0.00 0.00 0.00 4.37
5392 5437 6.009115 ACCATCTGTTTGAAAAATACGACC 57.991 37.500 0.00 0.00 0.00 4.79
5636 5847 2.758736 ACTGAACTAGCTGCTCTTGG 57.241 50.000 4.91 0.00 0.00 3.61
5707 5918 3.244181 TGCTTAACTGAGACATGCAGACA 60.244 43.478 5.90 0.00 36.86 3.41
5884 6107 3.118038 ACCACAACCTAAAGCACAGAGAA 60.118 43.478 0.00 0.00 0.00 2.87
5885 6108 3.882888 CCACAACCTAAAGCACAGAGAAA 59.117 43.478 0.00 0.00 0.00 2.52
6070 6294 1.063616 TCTTAGTCGCATCGAAGACCG 59.936 52.381 13.17 3.87 42.51 4.79
6107 6331 6.915544 TGAGATCAGTGCAAGATTTCATAC 57.084 37.500 15.47 0.14 33.33 2.39
6142 6366 6.593268 AAGAGAGAAAACACTAGTACTCCC 57.407 41.667 0.00 0.00 0.00 4.30
6143 6367 5.894653 AGAGAGAAAACACTAGTACTCCCT 58.105 41.667 0.00 0.00 0.00 4.20
6158 6389 5.839606 AGTACTCCCTCTTACATTATGGGAC 59.160 44.000 0.00 0.00 41.57 4.46
6355 6833 9.987272 CATCCCCTAAAAATTTAGATCCAAATC 57.013 33.333 13.22 0.00 42.05 2.17
6358 6836 8.767436 CCCCTAAAAATTTAGATCCAAATCCAA 58.233 33.333 13.22 0.00 42.05 3.53
6490 6968 9.389755 TCCATGTGTATTTCGAATTTTGATCTA 57.610 29.630 0.00 0.00 0.00 1.98
6520 6999 3.334691 AGGGTTGTCGACATATGTGTTG 58.665 45.455 20.80 3.47 39.09 3.33
6522 7001 3.120338 GGGTTGTCGACATATGTGTTGTG 60.120 47.826 20.80 0.00 40.13 3.33
6533 7012 5.183522 ACATATGTGTTGTGAACATGCATGA 59.816 36.000 32.75 8.19 44.35 3.07
6628 7108 4.642437 TGAATGCCAGTTTGAGTTGTACAA 59.358 37.500 3.59 3.59 0.00 2.41
6631 7111 3.127895 TGCCAGTTTGAGTTGTACAACAC 59.872 43.478 33.93 28.97 43.47 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
123 124 1.077663 AGTGGTGCCCAAGATTTCCAT 59.922 47.619 0.00 0.00 34.18 3.41
141 142 4.056050 ACATCAAGAACTTAACGCGAAGT 58.944 39.130 15.93 10.74 41.50 3.01
159 160 1.304381 TTGGAGGGCAAGCCACATC 60.304 57.895 13.87 7.46 37.98 3.06
193 194 2.259818 CCTCGCAAGACGCTCTGT 59.740 61.111 0.00 0.00 45.01 3.41
574 575 1.442526 CGCTCTGGGATGATGTTGGC 61.443 60.000 0.00 0.00 0.00 4.52
763 765 4.143221 GCGCCGAAATAGCATTTTCAAAAA 60.143 37.500 0.00 0.00 35.73 1.94
764 766 3.366422 GCGCCGAAATAGCATTTTCAAAA 59.634 39.130 0.00 0.00 35.73 2.44
765 767 2.920490 GCGCCGAAATAGCATTTTCAAA 59.080 40.909 0.00 0.00 35.73 2.69
766 768 2.163412 AGCGCCGAAATAGCATTTTCAA 59.837 40.909 2.29 0.00 35.73 2.69
767 769 1.742831 AGCGCCGAAATAGCATTTTCA 59.257 42.857 2.29 0.00 35.73 2.69
878 882 9.638239 GTCCAAAACTTAAAATTGATGCTCATA 57.362 29.630 0.00 0.00 0.00 2.15
899 903 2.561187 TCCATCAGGATCCAAGTCCAA 58.439 47.619 15.82 0.00 39.61 3.53
900 904 2.268796 TCCATCAGGATCCAAGTCCA 57.731 50.000 15.82 0.00 39.61 4.02
920 924 3.550842 CGAGCCGATGTGTGATATCTTCA 60.551 47.826 3.98 0.94 0.00 3.02
1044 1048 1.344953 ATATGGCCCCGCTTGAGACA 61.345 55.000 0.00 0.00 0.00 3.41
1163 1175 2.526993 TAGTCTCGCTCGCTCGCTC 61.527 63.158 0.00 0.00 0.00 5.03
1353 1365 8.923270 AGAAGAAGAAGAAGAAGAAGAAGAAGA 58.077 33.333 0.00 0.00 0.00 2.87
1354 1366 9.546428 AAGAAGAAGAAGAAGAAGAAGAAGAAG 57.454 33.333 0.00 0.00 0.00 2.85
1355 1367 9.541143 GAAGAAGAAGAAGAAGAAGAAGAAGAA 57.459 33.333 0.00 0.00 0.00 2.52
1356 1368 8.923270 AGAAGAAGAAGAAGAAGAAGAAGAAGA 58.077 33.333 0.00 0.00 0.00 2.87
1357 1369 9.546428 AAGAAGAAGAAGAAGAAGAAGAAGAAG 57.454 33.333 0.00 0.00 0.00 2.85
1358 1370 9.541143 GAAGAAGAAGAAGAAGAAGAAGAAGAA 57.459 33.333 0.00 0.00 0.00 2.52
1359 1371 8.923270 AGAAGAAGAAGAAGAAGAAGAAGAAGA 58.077 33.333 0.00 0.00 0.00 2.87
1360 1372 9.546428 AAGAAGAAGAAGAAGAAGAAGAAGAAG 57.454 33.333 0.00 0.00 0.00 2.85
1361 1373 9.541143 GAAGAAGAAGAAGAAGAAGAAGAAGAA 57.459 33.333 0.00 0.00 0.00 2.52
1362 1374 8.923270 AGAAGAAGAAGAAGAAGAAGAAGAAGA 58.077 33.333 0.00 0.00 0.00 2.87
1363 1375 9.546428 AAGAAGAAGAAGAAGAAGAAGAAGAAG 57.454 33.333 0.00 0.00 0.00 2.85
1364 1376 9.541143 GAAGAAGAAGAAGAAGAAGAAGAAGAA 57.459 33.333 0.00 0.00 0.00 2.52
1365 1377 8.923270 AGAAGAAGAAGAAGAAGAAGAAGAAGA 58.077 33.333 0.00 0.00 0.00 2.87
1366 1378 9.546428 AAGAAGAAGAAGAAGAAGAAGAAGAAG 57.454 33.333 0.00 0.00 0.00 2.85
1367 1379 9.541143 GAAGAAGAAGAAGAAGAAGAAGAAGAA 57.459 33.333 0.00 0.00 0.00 2.52
1368 1380 8.923270 AGAAGAAGAAGAAGAAGAAGAAGAAGA 58.077 33.333 0.00 0.00 0.00 2.87
1369 1381 9.546428 AAGAAGAAGAAGAAGAAGAAGAAGAAG 57.454 33.333 0.00 0.00 0.00 2.85
1370 1382 9.541143 GAAGAAGAAGAAGAAGAAGAAGAAGAA 57.459 33.333 0.00 0.00 0.00 2.52
1371 1383 8.923270 AGAAGAAGAAGAAGAAGAAGAAGAAGA 58.077 33.333 0.00 0.00 0.00 2.87
1372 1384 9.546428 AAGAAGAAGAAGAAGAAGAAGAAGAAG 57.454 33.333 0.00 0.00 0.00 2.85
1373 1385 9.541143 GAAGAAGAAGAAGAAGAAGAAGAAGAA 57.459 33.333 0.00 0.00 0.00 2.52
1374 1386 8.923270 AGAAGAAGAAGAAGAAGAAGAAGAAGA 58.077 33.333 0.00 0.00 0.00 2.87
1375 1387 9.546428 AAGAAGAAGAAGAAGAAGAAGAAGAAG 57.454 33.333 0.00 0.00 0.00 2.85
1376 1388 9.541143 GAAGAAGAAGAAGAAGAAGAAGAAGAA 57.459 33.333 0.00 0.00 0.00 2.52
1377 1389 8.923270 AGAAGAAGAAGAAGAAGAAGAAGAAGA 58.077 33.333 0.00 0.00 0.00 2.87
1378 1390 9.546428 AAGAAGAAGAAGAAGAAGAAGAAGAAG 57.454 33.333 0.00 0.00 0.00 2.85
1379 1391 9.898152 AAAGAAGAAGAAGAAGAAGAAGAAGAA 57.102 29.630 0.00 0.00 0.00 2.52
1380 1392 9.541143 GAAAGAAGAAGAAGAAGAAGAAGAAGA 57.459 33.333 0.00 0.00 0.00 2.87
1381 1393 8.773645 GGAAAGAAGAAGAAGAAGAAGAAGAAG 58.226 37.037 0.00 0.00 0.00 2.85
1382 1394 7.717436 GGGAAAGAAGAAGAAGAAGAAGAAGAA 59.283 37.037 0.00 0.00 0.00 2.52
1658 1673 5.063438 GCTACTGCTACATGATCAACGAAAA 59.937 40.000 0.00 0.00 36.03 2.29
1883 1903 3.206964 GCCACTGGAATTAGCTAAGGTC 58.793 50.000 12.54 11.21 0.00 3.85
2019 2040 5.710099 GGGAATACAAAAGAACAGGATCACA 59.290 40.000 0.00 0.00 0.00 3.58
2199 2220 0.456221 ACCGCTTCTGGTATCTGTCG 59.544 55.000 0.00 0.00 41.55 4.35
2586 2618 3.980775 CGCCATCGAGAACAACAATTTTT 59.019 39.130 0.00 0.00 38.10 1.94
2639 2671 9.631452 CGATATGTCTGCTGAAATTCTCTAATA 57.369 33.333 1.11 0.00 0.00 0.98
2947 2979 7.909267 TGCAAGTACAAGAAATAGATTGATCG 58.091 34.615 0.00 0.00 0.00 3.69
3397 3429 0.249120 TGCATCCGTTGATCGAGGTT 59.751 50.000 2.10 0.00 42.86 3.50
3669 3704 5.242434 ACTGATTGAGGTTATACGTTTGCA 58.758 37.500 0.00 0.00 0.00 4.08
3893 3930 6.865205 GTGAACCCCGATAAGTGTACATATAC 59.135 42.308 0.00 0.00 0.00 1.47
4371 4410 9.699410 AGTAAGATTGGGAATAATGACAATTCA 57.301 29.630 3.01 0.00 35.46 2.57
4603 4642 6.237154 AGGAAAGAGGATATTCTATTGCAGC 58.763 40.000 0.00 0.00 0.00 5.25
4691 4730 7.279615 TCTGTGTTCCTGTTTTGAAAGAGATA 58.720 34.615 2.52 0.00 31.45 1.98
4895 4934 0.670546 AATGGAGCGTGACTGAACCG 60.671 55.000 0.00 0.00 0.00 4.44
4928 4973 8.568676 TTAATAACACGGATCCTGAAAATTCA 57.431 30.769 10.75 0.00 35.57 2.57
4943 4988 5.235305 AGGATGCTTGCTTTAATAACACG 57.765 39.130 0.00 0.00 0.00 4.49
5004 5049 6.869206 ATGTACTGAGTAATTACCACTGGT 57.131 37.500 12.05 5.88 40.16 4.00
5383 5428 0.604243 TTGCAGTGCCGGTCGTATTT 60.604 50.000 13.72 0.00 0.00 1.40
5392 5437 1.440850 CAATGTCGTTGCAGTGCCG 60.441 57.895 13.72 10.16 0.00 5.69
5636 5847 8.713271 ACAAGATCGAAATTCTTTCAGACTTAC 58.287 33.333 0.00 0.00 39.63 2.34
6070 6294 6.709643 CACTGATCTCAATGTTAAATCGGTC 58.290 40.000 0.00 0.00 34.53 4.79
6142 6366 4.901849 TCCCTCTGTCCCATAATGTAAGAG 59.098 45.833 0.00 0.00 0.00 2.85
6143 6367 4.890988 TCCCTCTGTCCCATAATGTAAGA 58.109 43.478 0.00 0.00 0.00 2.10
6218 6665 4.037923 GCATTTATGGGTTGGTATCACCTG 59.962 45.833 0.00 0.00 39.58 4.00
6297 6744 7.664552 ATATGGTGTGAACATCCATGATTTT 57.335 32.000 19.31 4.49 37.86 1.82
6355 6833 8.804688 TTTTTGTTTCTCGGTGTATATTTTGG 57.195 30.769 0.00 0.00 0.00 3.28
6435 6913 7.032580 ACAAAAATGACAAATTCAGACGTGAA 58.967 30.769 0.00 0.00 46.81 3.18
6439 6917 8.118893 AGAAACAAAAATGACAAATTCAGACG 57.881 30.769 0.00 0.00 37.77 4.18
6512 6991 5.900865 ATCATGCATGTTCACAACACATA 57.099 34.783 25.43 2.45 45.50 2.29
6574 7054 4.853468 TGCTCCCATGATACCAACTTAA 57.147 40.909 0.00 0.00 0.00 1.85
6628 7108 9.423061 GCCATTTTAAAAATTGTAGATCAGTGT 57.577 29.630 4.44 0.00 0.00 3.55


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

AutoCloner maintained by Alex Coulton.