Multiple sequence alignment - TraesCS6B01G312600

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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 TraesCS6B01G312600 chr6B 100.000 2355 0 0 1 2355 560185092 560187446 0.000000e+00 4349
1 TraesCS6B01G312600 chr6B 76.667 1350 294 17 1 1345 49987573 49988906 0.000000e+00 728
2 TraesCS6B01G312600 chr6B 90.291 515 16 12 1345 1833 540603763 540603257 0.000000e+00 643
3 TraesCS6B01G312600 chr6B 90.215 419 41 0 926 1344 678887004 678886586 4.420000e-152 547
4 TraesCS6B01G312600 chr6B 93.015 272 19 0 2084 2355 540598287 540598016 4.720000e-107 398
5 TraesCS6B01G312600 chr6B 93.651 252 12 3 1830 2077 540599798 540599547 7.950000e-100 374
6 TraesCS6B01G312600 chr5B 85.138 1339 197 2 1 1338 700272849 700274186 0.000000e+00 1369
7 TraesCS6B01G312600 chr5B 84.615 1339 204 2 1 1338 700304803 700306140 0.000000e+00 1330
8 TraesCS6B01G312600 chrUn 85.011 1341 195 5 1 1338 212368502 212367165 0.000000e+00 1358
9 TraesCS6B01G312600 chr7A 84.113 1347 210 4 2 1346 536954513 536953169 0.000000e+00 1299
10 TraesCS6B01G312600 chr1A 83.952 1346 211 5 1 1344 12014066 12012724 0.000000e+00 1284
11 TraesCS6B01G312600 chr1A 78.756 1351 277 7 1 1346 510530853 510532198 0.000000e+00 896
12 TraesCS6B01G312600 chr6A 83.048 1345 222 6 2 1343 560582767 560584108 0.000000e+00 1216
13 TraesCS6B01G312600 chr6A 85.714 392 17 8 1468 1859 500515124 500514772 6.140000e-101 377
14 TraesCS6B01G312600 chr6A 78.889 270 48 7 2090 2354 500512286 500512021 8.650000e-40 174
15 TraesCS6B01G312600 chr3A 84.680 1064 156 7 282 1343 143471770 143470712 0.000000e+00 1055
16 TraesCS6B01G312600 chr3A 79.362 1347 268 9 1 1342 403633220 403631879 0.000000e+00 939
17 TraesCS6B01G312600 chr1D 81.165 807 152 0 537 1343 476668271 476669077 0.000000e+00 649
18 TraesCS6B01G312600 chr1D 80.183 328 59 3 1 325 476598208 476598532 8.410000e-60 241
19 TraesCS6B01G312600 chr6D 91.375 371 7 10 1468 1834 359007876 359007527 3.520000e-133 484
20 TraesCS6B01G312600 chr6D 92.473 93 7 0 1985 2077 359005480 359005388 1.470000e-27 134
21 TraesCS6B01G312600 chr6D 82.653 98 4 2 1384 1468 359007999 359007902 9.030000e-10 75


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 TraesCS6B01G312600 chr6B 560185092 560187446 2354 False 4349.000000 4349 100.000000 1 2355 1 chr6B.!!$F2 2354
1 TraesCS6B01G312600 chr6B 49987573 49988906 1333 False 728.000000 728 76.667000 1 1345 1 chr6B.!!$F1 1344
2 TraesCS6B01G312600 chr6B 540598016 540603763 5747 True 471.666667 643 92.319000 1345 2355 3 chr6B.!!$R2 1010
3 TraesCS6B01G312600 chr5B 700272849 700274186 1337 False 1369.000000 1369 85.138000 1 1338 1 chr5B.!!$F1 1337
4 TraesCS6B01G312600 chr5B 700304803 700306140 1337 False 1330.000000 1330 84.615000 1 1338 1 chr5B.!!$F2 1337
5 TraesCS6B01G312600 chrUn 212367165 212368502 1337 True 1358.000000 1358 85.011000 1 1338 1 chrUn.!!$R1 1337
6 TraesCS6B01G312600 chr7A 536953169 536954513 1344 True 1299.000000 1299 84.113000 2 1346 1 chr7A.!!$R1 1344
7 TraesCS6B01G312600 chr1A 12012724 12014066 1342 True 1284.000000 1284 83.952000 1 1344 1 chr1A.!!$R1 1343
8 TraesCS6B01G312600 chr1A 510530853 510532198 1345 False 896.000000 896 78.756000 1 1346 1 chr1A.!!$F1 1345
9 TraesCS6B01G312600 chr6A 560582767 560584108 1341 False 1216.000000 1216 83.048000 2 1343 1 chr6A.!!$F1 1341
10 TraesCS6B01G312600 chr6A 500512021 500515124 3103 True 275.500000 377 82.301500 1468 2354 2 chr6A.!!$R1 886
11 TraesCS6B01G312600 chr3A 143470712 143471770 1058 True 1055.000000 1055 84.680000 282 1343 1 chr3A.!!$R1 1061
12 TraesCS6B01G312600 chr3A 403631879 403633220 1341 True 939.000000 939 79.362000 1 1342 1 chr3A.!!$R2 1341
13 TraesCS6B01G312600 chr1D 476668271 476669077 806 False 649.000000 649 81.165000 537 1343 1 chr1D.!!$F2 806
14 TraesCS6B01G312600 chr6D 359005388 359007999 2611 True 231.000000 484 88.833667 1384 2077 3 chr6D.!!$R1 693

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
636 638 0.03582 TGGTCTGGCGTATTTGGTCC 60.036 55.0 0.0 0.0 0.0 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2146 8440 1.067213 TGCGTCGATCTCCATGAACAA 60.067 47.619 0.0 0.0 0.0 2.83 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
40 41 1.174712 ACCAAAGCGCAACTGCAGAT 61.175 50.000 23.35 5.41 42.21 2.90
41 42 0.804364 CCAAAGCGCAACTGCAGATA 59.196 50.000 23.35 0.00 42.21 1.98
90 92 0.038166 ATGGTGCTTGGGACGAACAT 59.962 50.000 0.00 0.00 0.00 2.71
126 128 1.745232 TTTGGGACATGGATGTACGC 58.255 50.000 0.00 0.00 42.67 4.42
154 156 8.254508 AGATTCTTAAGATCTGTACTTCACCAC 58.745 37.037 5.89 0.00 0.00 4.16
174 176 2.489329 ACGAAATGGCCAAGACTTCATG 59.511 45.455 10.96 1.98 0.00 3.07
212 214 1.269448 GAGCGGCCAATTTTCTGTCAA 59.731 47.619 2.24 0.00 0.00 3.18
224 226 6.882610 ATTTTCTGTCAAGAGTGCATACAA 57.117 33.333 0.00 0.00 32.79 2.41
246 248 3.733337 ACTTGCAACTCTAAGTGTGGAG 58.267 45.455 0.00 0.00 38.30 3.86
250 252 1.272490 CAACTCTAAGTGTGGAGCCGA 59.728 52.381 0.00 0.00 35.82 5.54
270 272 3.191581 CGAAGGATATACCAGCGATGAGT 59.808 47.826 0.06 0.47 42.04 3.41
271 273 4.489810 GAAGGATATACCAGCGATGAGTG 58.510 47.826 0.06 0.00 42.04 3.51
272 274 2.232452 AGGATATACCAGCGATGAGTGC 59.768 50.000 0.06 0.00 42.04 4.40
423 425 7.313646 GCCATATATCTACACGTGATACTTGT 58.686 38.462 25.01 0.00 34.78 3.16
427 429 4.696899 TCTACACGTGATACTTGTCCTG 57.303 45.455 25.01 0.00 32.59 3.86
438 440 3.334583 ACTTGTCCTGTATGTGCGAAT 57.665 42.857 0.00 0.00 0.00 3.34
443 445 3.684305 TGTCCTGTATGTGCGAATGAAAG 59.316 43.478 0.00 0.00 0.00 2.62
450 452 1.347707 TGTGCGAATGAAAGGGAGTCT 59.652 47.619 0.00 0.00 0.00 3.24
465 467 0.622665 AGTCTTCCTTCCATGCCCTG 59.377 55.000 0.00 0.00 0.00 4.45
528 530 1.966451 GGTGTGGAACTTGCCGAGG 60.966 63.158 0.00 0.00 38.04 4.63
529 531 1.070786 GTGTGGAACTTGCCGAGGA 59.929 57.895 0.00 0.00 38.04 3.71
534 536 0.391793 GGAACTTGCCGAGGAAGGAG 60.392 60.000 9.29 0.00 0.00 3.69
535 537 0.608640 GAACTTGCCGAGGAAGGAGA 59.391 55.000 9.29 0.00 0.00 3.71
591 593 5.437289 ACGTGTTGACAAATTGTGATGAT 57.563 34.783 2.20 0.00 0.00 2.45
609 611 6.093219 GTGATGATTATATGAGGGCATGTGTC 59.907 42.308 0.00 0.00 35.94 3.67
612 614 7.256494 TGATTATATGAGGGCATGTGTCATA 57.744 36.000 13.02 13.02 37.53 2.15
619 621 1.338973 GGGCATGTGTCATAATGCTGG 59.661 52.381 17.90 0.00 46.72 4.85
636 638 0.035820 TGGTCTGGCGTATTTGGTCC 60.036 55.000 0.00 0.00 0.00 4.46
639 641 1.483415 GTCTGGCGTATTTGGTCCCTA 59.517 52.381 0.00 0.00 0.00 3.53
643 645 0.461135 GCGTATTTGGTCCCTACGGA 59.539 55.000 14.14 0.00 38.84 4.69
654 656 0.666913 CCCTACGGACGGACATAGTG 59.333 60.000 0.00 0.00 0.00 2.74
660 662 0.532862 GGACGGACATAGTGCATGGG 60.533 60.000 0.00 0.00 39.13 4.00
665 667 1.312815 GACATAGTGCATGGGAAGGC 58.687 55.000 0.00 0.00 39.13 4.35
678 680 1.153881 GAAGGCAGTACCGTCGGTC 60.154 63.158 22.74 12.71 46.52 4.79
680 682 3.434319 GGCAGTACCGTCGGTCGA 61.434 66.667 22.74 0.24 42.86 4.20
683 685 0.590195 GCAGTACCGTCGGTCGATAT 59.410 55.000 22.74 0.24 42.86 1.63
798 800 2.045926 GAGGTGCCATCAGCCGTT 60.046 61.111 0.00 0.00 42.71 4.44
800 802 2.045926 GGTGCCATCAGCCGTTCT 60.046 61.111 0.00 0.00 42.71 3.01
809 811 3.305709 CAGCCGTTCTGAAGGTGAA 57.694 52.632 9.02 0.00 45.72 3.18
813 815 1.197721 GCCGTTCTGAAGGTGAACATG 59.802 52.381 9.02 0.00 42.63 3.21
917 919 0.320160 GCGGGGATGGTATTACGGAC 60.320 60.000 0.00 0.00 0.00 4.79
924 926 4.443739 GGGATGGTATTACGGACACATGAA 60.444 45.833 0.00 0.00 0.00 2.57
963 965 2.159352 GGCGTACCGGTGCATTTTTAAT 60.159 45.455 23.00 0.00 0.00 1.40
975 977 5.940595 TGCATTTTTAATTGCAATGAAGCC 58.059 33.333 13.82 0.65 45.30 4.35
1014 1016 0.751277 CGTTAATGCAGGGGATGGCA 60.751 55.000 0.00 0.00 45.23 4.92
1061 1063 3.753272 CCTGTCATTGTTCAGTCGGATTT 59.247 43.478 9.39 0.00 0.00 2.17
1092 1094 3.057547 CTCTGCCCTGTCGGACGAG 62.058 68.421 3.34 2.54 0.00 4.18
1120 1123 2.891580 TCTAGATCGGCTTATGGACACC 59.108 50.000 0.00 0.00 0.00 4.16
1143 1146 3.119352 TGGTCACTGAGATTCGTCATCTG 60.119 47.826 4.83 0.00 42.92 2.90
1206 1209 2.558795 GCAGAATAGGGTAGCAGATCGA 59.441 50.000 0.00 0.00 0.00 3.59
1239 1242 8.512800 TGTATAGTCGTACAGAGAGTATTACG 57.487 38.462 0.00 0.00 38.91 3.18
1245 1248 3.784701 ACAGAGAGTATTACGGCTGTG 57.215 47.619 8.92 13.23 35.49 3.66
1272 1275 2.355837 CGAGGTCCACCGTGTGTG 60.356 66.667 0.00 0.00 45.01 3.82
1287 1290 2.266055 GTGGAGGACCTCTTGCCG 59.734 66.667 20.97 0.00 37.04 5.69
1303 1306 1.173913 GCCGCTTGATTGTAACCCTT 58.826 50.000 0.00 0.00 0.00 3.95
1309 1312 3.440522 GCTTGATTGTAACCCTTCACCTC 59.559 47.826 0.00 0.00 0.00 3.85
1319 1323 5.536497 AACCCTTCACCTCTGGAATAAAT 57.464 39.130 0.00 0.00 0.00 1.40
1329 1333 7.841729 TCACCTCTGGAATAAATCTCTTCTACT 59.158 37.037 0.00 0.00 0.00 2.57
1416 1420 2.704193 CGACGCGGTTCGAGAACAC 61.704 63.158 12.47 7.93 42.85 3.32
1677 1724 7.923888 ACCAGATCACAAAAAGATCATTATCG 58.076 34.615 6.03 0.00 43.35 2.92
1779 1826 3.037549 TCCCTTTTTCTTGGCACATGTT 58.962 40.909 0.00 0.00 39.30 2.71
1780 1827 3.132925 CCCTTTTTCTTGGCACATGTTG 58.867 45.455 0.00 0.00 39.30 3.33
1781 1828 3.432046 CCCTTTTTCTTGGCACATGTTGT 60.432 43.478 0.00 0.00 39.30 3.32
1782 1829 3.803778 CCTTTTTCTTGGCACATGTTGTC 59.196 43.478 0.00 0.00 39.30 3.18
1783 1830 4.431809 CTTTTTCTTGGCACATGTTGTCA 58.568 39.130 0.00 0.00 38.37 3.58
1784 1831 4.669206 TTTTCTTGGCACATGTTGTCAT 57.331 36.364 0.00 0.00 40.39 3.06
1954 5879 7.556733 TTGTCGTAGTACTGGTTCAAAAATT 57.443 32.000 5.39 0.00 0.00 1.82
2077 6387 3.207778 TGCAAGGCGTGTAAACTAAAGT 58.792 40.909 1.69 0.00 0.00 2.66
2078 6388 4.378774 TGCAAGGCGTGTAAACTAAAGTA 58.621 39.130 1.69 0.00 0.00 2.24
2079 6389 4.815308 TGCAAGGCGTGTAAACTAAAGTAA 59.185 37.500 1.69 0.00 0.00 2.24
2080 6390 5.142265 GCAAGGCGTGTAAACTAAAGTAAC 58.858 41.667 1.69 0.00 0.00 2.50
2081 6391 5.682869 CAAGGCGTGTAAACTAAAGTAACC 58.317 41.667 0.00 0.00 0.00 2.85
2119 8413 1.818363 CATGAGCGATGGCAGCTGT 60.818 57.895 16.64 0.00 46.13 4.40
2120 8414 1.818363 ATGAGCGATGGCAGCTGTG 60.818 57.895 16.64 1.75 46.13 3.66
2144 8438 3.766691 GCGGGCGGAGAGGTACAA 61.767 66.667 0.00 0.00 0.00 2.41
2145 8439 2.494918 CGGGCGGAGAGGTACAAG 59.505 66.667 0.00 0.00 0.00 3.16
2146 8440 2.348888 CGGGCGGAGAGGTACAAGT 61.349 63.158 0.00 0.00 0.00 3.16
2206 8500 0.719465 GTAGGCGACCAACAACGATG 59.281 55.000 0.00 0.00 0.00 3.84
2268 8562 3.576356 CGCCATGACCACGATGCC 61.576 66.667 0.00 0.00 0.00 4.40
2273 8567 1.069765 ATGACCACGATGCCGATCC 59.930 57.895 0.00 0.00 39.50 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 1.106351 TGCGCTTTGGTGTGATTGGT 61.106 50.000 9.73 0.00 0.00 3.67
40 41 2.775384 AGAAATCCGCCACCCAGTTATA 59.225 45.455 0.00 0.00 0.00 0.98
41 42 1.564348 AGAAATCCGCCACCCAGTTAT 59.436 47.619 0.00 0.00 0.00 1.89
90 92 2.487762 CCAAAAATGTTCTCGCAGCCTA 59.512 45.455 0.00 0.00 0.00 3.93
126 128 7.646130 GGTGAAGTACAGATCTTAAGAATCTCG 59.354 40.741 9.71 9.76 0.00 4.04
154 156 2.159338 CCATGAAGTCTTGGCCATTTCG 60.159 50.000 6.09 0.00 34.93 3.46
174 176 2.269241 CTCTCCGGAAACCAGGCC 59.731 66.667 5.23 0.00 0.00 5.19
198 200 4.572985 TGCACTCTTGACAGAAAATTGG 57.427 40.909 0.00 0.00 0.00 3.16
224 226 4.130118 CTCCACACTTAGAGTTGCAAGTT 58.870 43.478 8.48 0.00 32.72 2.66
237 239 1.568504 TATCCTTCGGCTCCACACTT 58.431 50.000 0.00 0.00 0.00 3.16
246 248 0.601558 TCGCTGGTATATCCTTCGGC 59.398 55.000 0.00 0.00 37.07 5.54
250 252 3.306364 GCACTCATCGCTGGTATATCCTT 60.306 47.826 0.00 0.00 37.07 3.36
254 256 1.970640 TGGCACTCATCGCTGGTATAT 59.029 47.619 0.00 0.00 0.00 0.86
257 259 1.517361 CTGGCACTCATCGCTGGTA 59.483 57.895 0.00 0.00 0.00 3.25
261 263 4.479993 GGGCTGGCACTCATCGCT 62.480 66.667 2.88 0.00 0.00 4.93
266 268 2.752358 CAGAAGGGCTGGCACTCA 59.248 61.111 2.88 0.00 41.07 3.41
285 287 0.033601 ACTGCCAGATCGGTCTCTCT 60.034 55.000 0.00 0.00 36.97 3.10
345 347 2.556287 GAAACTGCCTTCCACGCG 59.444 61.111 3.53 3.53 0.00 6.01
423 425 3.270027 CCTTTCATTCGCACATACAGGA 58.730 45.455 0.00 0.00 0.00 3.86
427 429 3.270877 ACTCCCTTTCATTCGCACATAC 58.729 45.455 0.00 0.00 0.00 2.39
438 440 2.701551 TGGAAGGAAGACTCCCTTTCA 58.298 47.619 0.00 0.00 44.76 2.69
443 445 0.106967 GGCATGGAAGGAAGACTCCC 60.107 60.000 0.00 0.00 43.64 4.30
465 467 1.002366 GAGCGTGATCACATGTGACC 58.998 55.000 30.09 22.32 43.11 4.02
528 530 2.103771 TGTATCCTGCAGCATCTCCTTC 59.896 50.000 8.66 0.00 0.00 3.46
529 531 2.104451 CTGTATCCTGCAGCATCTCCTT 59.896 50.000 8.66 0.00 0.00 3.36
534 536 0.888285 GCCCTGTATCCTGCAGCATC 60.888 60.000 8.66 0.00 32.93 3.91
535 537 1.150081 GCCCTGTATCCTGCAGCAT 59.850 57.895 8.66 0.25 32.93 3.79
591 593 6.375174 GCATTATGACACATGCCCTCATATAA 59.625 38.462 9.44 0.00 40.04 0.98
609 611 2.238942 TACGCCAGACCAGCATTATG 57.761 50.000 0.00 0.00 0.00 1.90
612 614 1.745087 CAAATACGCCAGACCAGCATT 59.255 47.619 0.00 0.00 0.00 3.56
619 621 0.252197 AGGGACCAAATACGCCAGAC 59.748 55.000 0.00 0.00 0.00 3.51
636 638 5.933286 CATGCACTATGTCCGTCCGTAGG 62.933 56.522 0.00 0.00 39.82 3.18
639 641 0.179111 CATGCACTATGTCCGTCCGT 60.179 55.000 0.00 0.00 31.92 4.69
643 645 0.908910 TTCCCATGCACTATGTCCGT 59.091 50.000 0.00 0.00 34.87 4.69
648 650 1.315690 CTGCCTTCCCATGCACTATG 58.684 55.000 0.00 0.00 36.50 2.23
649 651 0.921896 ACTGCCTTCCCATGCACTAT 59.078 50.000 0.00 0.00 33.17 2.12
654 656 1.819632 CGGTACTGCCTTCCCATGC 60.820 63.158 0.00 0.00 34.25 4.06
660 662 1.153881 GACCGACGGTACTGCCTTC 60.154 63.158 21.79 0.20 35.25 3.46
665 667 3.681417 TGATATATCGACCGACGGTACTG 59.319 47.826 21.79 13.13 40.48 2.74
678 680 7.941795 TTGCAGATATGATGCTGATATATCG 57.058 36.000 8.19 4.55 44.17 2.92
680 682 7.993758 AGCTTTGCAGATATGATGCTGATATAT 59.006 33.333 10.09 0.00 44.17 0.86
683 685 5.557866 AGCTTTGCAGATATGATGCTGATA 58.442 37.500 10.09 0.00 44.17 2.15
774 776 2.125512 GATGGCACCTCGCTTCGT 60.126 61.111 0.00 0.00 41.91 3.85
777 779 2.437359 GCTGATGGCACCTCGCTT 60.437 61.111 0.00 0.00 41.91 4.68
798 800 3.476552 GTGAACCATGTTCACCTTCAGA 58.523 45.455 23.11 0.00 42.07 3.27
806 808 3.743714 CAGGGGTGAACCATGTTCA 57.256 52.632 5.59 5.59 45.81 3.18
813 815 3.920093 CTTCGGCCAGGGGTGAACC 62.920 68.421 2.24 0.00 39.11 3.62
900 902 1.764134 TGTGTCCGTAATACCATCCCC 59.236 52.381 0.00 0.00 0.00 4.81
917 919 4.763793 AGAAAATCACACTCCCTTCATGTG 59.236 41.667 0.00 0.00 44.14 3.21
924 926 1.339151 GCCGAGAAAATCACACTCCCT 60.339 52.381 0.00 0.00 0.00 4.20
963 965 1.259609 CTTCCAGGGCTTCATTGCAA 58.740 50.000 0.00 0.00 34.04 4.08
975 977 0.531532 CATGTAGCTCCGCTTCCAGG 60.532 60.000 0.00 0.00 40.44 4.45
1061 1063 1.221840 GCAGAGAGGGCGATGGAAA 59.778 57.895 0.00 0.00 0.00 3.13
1092 1094 5.358442 TCCATAAGCCGATCTAGATAAGCTC 59.642 44.000 22.71 5.09 31.31 4.09
1120 1123 3.130164 AGATGACGAATCTCAGTGACCAG 59.870 47.826 0.00 0.00 42.27 4.00
1126 1129 5.787953 ATCATCAGATGACGAATCTCAGT 57.212 39.130 15.67 0.00 44.24 3.41
1165 1168 2.726241 GCAAACGACTGATTTTGAAGGC 59.274 45.455 0.00 0.00 35.13 4.35
1170 1173 5.796935 CCTATTCTGCAAACGACTGATTTTG 59.203 40.000 0.00 0.00 36.06 2.44
1206 1209 3.302161 TGTACGACTATACAGGGCCAAT 58.698 45.455 6.18 0.00 31.38 3.16
1235 1238 2.031919 CCAGCCACACAGCCGTAA 59.968 61.111 0.00 0.00 0.00 3.18
1254 1257 3.612681 ACACACGGTGGACCTCGG 61.613 66.667 13.48 6.23 37.94 4.63
1272 1275 2.960688 AAGCGGCAAGAGGTCCTCC 61.961 63.158 15.72 0.00 0.00 4.30
1287 1290 3.421844 AGGTGAAGGGTTACAATCAAGC 58.578 45.455 0.00 0.00 0.00 4.01
1303 1306 7.841729 AGTAGAAGAGATTTATTCCAGAGGTGA 59.158 37.037 0.00 0.00 0.00 4.02
1309 1312 6.584563 GCGCTAGTAGAAGAGATTTATTCCAG 59.415 42.308 0.00 0.00 0.00 3.86
1354 1358 9.857957 TGAGTTTTATTTTAAAGTGAAAACGGT 57.142 25.926 18.63 9.88 42.22 4.83
1361 1365 6.263617 ACGGCCTGAGTTTTATTTTAAAGTGA 59.736 34.615 0.00 0.00 0.00 3.41
1677 1724 8.768019 TCATGTTATTTCACTTGATCATCGATC 58.232 33.333 0.00 0.00 39.31 3.69
1783 1830 2.401583 TTCCGCTAGCATGTCAACAT 57.598 45.000 16.45 0.00 36.96 2.71
1784 1831 1.804151 GTTTCCGCTAGCATGTCAACA 59.196 47.619 16.45 0.00 0.00 3.33
1785 1832 2.076863 AGTTTCCGCTAGCATGTCAAC 58.923 47.619 16.45 9.47 0.00 3.18
1786 1833 2.028112 AGAGTTTCCGCTAGCATGTCAA 60.028 45.455 16.45 0.00 0.00 3.18
1842 5727 5.176590 GTCACTCACATTCTTTGTCAGACTC 59.823 44.000 1.31 0.00 36.00 3.36
1844 5729 4.811024 TGTCACTCACATTCTTTGTCAGAC 59.189 41.667 0.00 0.00 36.00 3.51
2077 6387 1.751544 TCTCGCAGGCGCTAGGTTA 60.752 57.895 7.64 0.00 39.59 2.85
2078 6388 3.068691 TCTCGCAGGCGCTAGGTT 61.069 61.111 7.64 0.00 39.59 3.50
2079 6389 3.827898 GTCTCGCAGGCGCTAGGT 61.828 66.667 7.64 0.00 39.59 3.08
2080 6390 4.577246 GGTCTCGCAGGCGCTAGG 62.577 72.222 7.64 0.00 39.59 3.02
2081 6391 4.577246 GGGTCTCGCAGGCGCTAG 62.577 72.222 7.64 2.28 39.59 3.42
2144 8438 2.881074 CGTCGATCTCCATGAACAACT 58.119 47.619 0.00 0.00 0.00 3.16
2145 8439 1.324736 GCGTCGATCTCCATGAACAAC 59.675 52.381 0.00 0.00 0.00 3.32
2146 8440 1.067213 TGCGTCGATCTCCATGAACAA 60.067 47.619 0.00 0.00 0.00 2.83
2268 8562 1.299165 GTCGGACATGGACGGATCG 60.299 63.158 2.62 0.00 0.00 3.69
2273 8567 1.800315 GACGTGTCGGACATGGACG 60.800 63.158 28.48 21.62 39.36 4.79
2296 8591 2.355132 TCTTCCTCGCTCGATTCTGTAC 59.645 50.000 0.00 0.00 0.00 2.90
2297 8592 2.614520 CTCTTCCTCGCTCGATTCTGTA 59.385 50.000 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.