Multiple sequence alignment - TraesCS6D01G368400

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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 TraesCS6D01G368400 chr6D 100.000 2688 0 0 1 2688 455620586 455623273 0.000000e+00 4964.0
1 TraesCS6D01G368400 chr6B 88.174 1911 118 49 449 2299 692798722 692800584 0.000000e+00 2178.0
2 TraesCS6D01G368400 chr6B 86.747 498 50 8 1810 2299 692811146 692811635 8.470000e-150 540.0
3 TraesCS6D01G368400 chr6B 90.385 416 18 12 1 413 692798327 692798723 6.590000e-146 527.0
4 TraesCS6D01G368400 chr6B 86.873 259 26 3 2430 2685 692800690 692800943 1.580000e-72 283.0
5 TraesCS6D01G368400 chr6B 86.873 259 27 2 2430 2685 692811741 692811995 1.580000e-72 283.0
6 TraesCS6D01G368400 chr6A 88.854 942 60 16 822 1733 602479717 602480643 0.000000e+00 1116.0
7 TraesCS6D01G368400 chr6A 93.762 513 27 3 1739 2251 602480963 602481470 0.000000e+00 765.0
8 TraesCS6D01G368400 chr6A 91.745 424 34 1 379 802 602479310 602479732 2.980000e-164 588.0
9 TraesCS6D01G368400 chr6A 91.123 383 25 8 1 381 602476149 602476524 6.640000e-141 510.0
10 TraesCS6D01G368400 chr6A 93.125 320 9 5 2369 2688 602481479 602481785 8.770000e-125 457.0
11 TraesCS6D01G368400 chr7D 80.153 131 19 4 420 546 603061650 603061777 1.020000e-14 91.6


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 TraesCS6D01G368400 chr6D 455620586 455623273 2687 False 4964.0 4964 100.000000 1 2688 1 chr6D.!!$F1 2687
1 TraesCS6D01G368400 chr6B 692798327 692800943 2616 False 996.0 2178 88.477333 1 2685 3 chr6B.!!$F1 2684
2 TraesCS6D01G368400 chr6B 692811146 692811995 849 False 411.5 540 86.810000 1810 2685 2 chr6B.!!$F2 875
3 TraesCS6D01G368400 chr6A 602476149 602481785 5636 False 687.2 1116 91.721800 1 2688 5 chr6A.!!$F1 2687

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
546 3338 0.529992 GGGTTGTATCGAAGCGGGAG 60.53 60.0 0.0 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2329 5498 0.105246 TTTTTGCAGGGGGTGGTCAT 60.105 50.0 0.0 0.0 0.0 3.06 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
68 69 8.598509 TGTTTGCATTTTTCAGAAAAATTTCG 57.401 26.923 25.26 17.47 46.01 3.46
169 170 4.936411 TGTTCAAACAACTGTCGGAGTTTA 59.064 37.500 6.66 0.00 42.70 2.01
271 274 5.588648 TGTGTTGCACTTAGCTCTTAAAGTT 59.411 36.000 0.00 0.00 45.94 2.66
283 286 2.997303 TCTTAAAGTTGCGCGCTCAATA 59.003 40.909 33.29 15.51 0.00 1.90
290 293 1.128513 TGCGCGCTCAATATTAGTCG 58.871 50.000 33.29 0.00 0.00 4.18
337 340 4.968812 GAGCTATATAGGTCCGGAGTTC 57.031 50.000 25.20 0.00 43.17 3.01
367 370 3.003275 TGCATGGTCGTTCTTTGTTCTTC 59.997 43.478 0.00 0.00 0.00 2.87
413 3205 2.736721 ACTGTATGTGTGCGTTTGCTAG 59.263 45.455 0.00 0.00 43.34 3.42
418 3210 1.006688 TGTGCGTTTGCTAGAGCGA 60.007 52.632 0.00 0.00 45.83 4.93
419 3211 1.282248 TGTGCGTTTGCTAGAGCGAC 61.282 55.000 0.00 0.00 45.83 5.19
422 3214 1.956620 GCGTTTGCTAGAGCGACCAC 61.957 60.000 0.00 0.00 45.83 4.16
426 3218 1.605058 TTGCTAGAGCGACCACCTCC 61.605 60.000 0.00 0.00 45.83 4.30
455 3247 2.596904 CCCAGTCAAGGGTACATACG 57.403 55.000 0.00 0.00 44.24 3.06
490 3282 8.788806 CATGTAAAAGTGGGTATAACTTGTCAA 58.211 33.333 0.00 0.00 37.90 3.18
535 3327 7.691993 ATGTTTATAGTGAGAGGGGTTGTAT 57.308 36.000 0.00 0.00 0.00 2.29
541 3333 1.480954 TGAGAGGGGTTGTATCGAAGC 59.519 52.381 0.00 0.00 0.00 3.86
546 3338 0.529992 GGGTTGTATCGAAGCGGGAG 60.530 60.000 0.00 0.00 0.00 4.30
579 3371 5.185442 TGCATAAAGTTCTGAAATGCCATGA 59.815 36.000 17.47 1.97 41.72 3.07
696 3488 8.314751 ACTCCCTCCGATTCATATTAAGTTATG 58.685 37.037 0.00 0.00 0.00 1.90
811 3608 7.493367 CAGGAAGGTAAAGAAAGATATCGTCT 58.507 38.462 6.23 6.23 39.43 4.18
812 3609 7.650104 CAGGAAGGTAAAGAAAGATATCGTCTC 59.350 40.741 11.12 3.75 35.67 3.36
813 3610 7.342284 AGGAAGGTAAAGAAAGATATCGTCTCA 59.658 37.037 11.12 2.52 35.67 3.27
814 3611 7.435784 GGAAGGTAAAGAAAGATATCGTCTCAC 59.564 40.741 11.12 11.43 35.67 3.51
815 3612 7.648039 AGGTAAAGAAAGATATCGTCTCACT 57.352 36.000 11.12 6.13 35.67 3.41
816 3613 8.068892 AGGTAAAGAAAGATATCGTCTCACTT 57.931 34.615 11.12 7.34 35.67 3.16
841 3638 6.418101 TCATCAGGAAGGTAAAGAAATGGAG 58.582 40.000 0.00 0.00 0.00 3.86
842 3639 5.843019 TCAGGAAGGTAAAGAAATGGAGT 57.157 39.130 0.00 0.00 0.00 3.85
844 3641 5.548056 TCAGGAAGGTAAAGAAATGGAGTCT 59.452 40.000 0.00 0.00 0.00 3.24
868 3668 5.105106 TGCTGTTATTCCTTCCGATTCTGTA 60.105 40.000 0.00 0.00 0.00 2.74
927 3727 4.020662 ACCACAAGAGAGAGACAAATCCTC 60.021 45.833 0.00 0.00 0.00 3.71
936 3736 6.897986 AGAGAGACAAATCCTCTGCATTTAT 58.102 36.000 0.00 0.00 40.78 1.40
955 3755 0.904649 TCAGGCGGATCACAATCAGT 59.095 50.000 0.00 0.00 33.21 3.41
956 3756 1.278985 TCAGGCGGATCACAATCAGTT 59.721 47.619 0.00 0.00 33.21 3.16
958 3758 2.096496 CAGGCGGATCACAATCAGTTTC 59.904 50.000 0.00 0.00 33.21 2.78
1016 3826 4.128643 CAAATCACAGGCCAAACACAAAT 58.871 39.130 5.01 0.00 0.00 2.32
1074 3888 1.801178 CCAGAGGAAAAAGCAGTCGTC 59.199 52.381 0.00 0.00 0.00 4.20
1075 3889 2.548920 CCAGAGGAAAAAGCAGTCGTCT 60.549 50.000 0.00 0.00 39.05 4.18
1076 3890 3.306088 CCAGAGGAAAAAGCAGTCGTCTA 60.306 47.826 0.00 0.00 36.99 2.59
1077 3891 3.675698 CAGAGGAAAAAGCAGTCGTCTAC 59.324 47.826 0.00 0.00 36.99 2.59
1078 3892 3.574826 AGAGGAAAAAGCAGTCGTCTACT 59.425 43.478 0.00 0.00 37.26 2.57
1079 3893 3.915536 AGGAAAAAGCAGTCGTCTACTC 58.084 45.455 0.00 0.00 35.76 2.59
1081 3895 3.554337 GGAAAAAGCAGTCGTCTACTCCA 60.554 47.826 0.00 0.00 35.76 3.86
1082 3896 3.746045 AAAAGCAGTCGTCTACTCCAA 57.254 42.857 0.00 0.00 35.76 3.53
1083 3897 3.305398 AAAGCAGTCGTCTACTCCAAG 57.695 47.619 0.00 0.00 35.76 3.61
1090 3911 1.202964 TCGTCTACTCCAAGTCCCACA 60.203 52.381 0.00 0.00 0.00 4.17
1135 3965 2.277404 GCTCCTCCTCCTCCTCGT 59.723 66.667 0.00 0.00 0.00 4.18
1138 3968 2.260088 CTCCTCCTCCTCCTCGTCGT 62.260 65.000 0.00 0.00 0.00 4.34
1139 3969 1.820481 CCTCCTCCTCCTCGTCGTC 60.820 68.421 0.00 0.00 0.00 4.20
1279 4111 6.347563 GCACATGTTTTCTCTCTCTCTTTCTG 60.348 42.308 0.00 0.00 0.00 3.02
1280 4112 6.927936 CACATGTTTTCTCTCTCTCTTTCTGA 59.072 38.462 0.00 0.00 0.00 3.27
1282 4114 5.524284 TGTTTTCTCTCTCTCTTTCTGACG 58.476 41.667 0.00 0.00 0.00 4.35
1283 4115 5.067936 TGTTTTCTCTCTCTCTTTCTGACGT 59.932 40.000 0.00 0.00 0.00 4.34
1310 4150 4.072088 GCCTCGACGTTTGTGCGG 62.072 66.667 0.00 0.00 35.98 5.69
1354 4194 1.079750 GAGAAGTCGCACAGGGACC 60.080 63.158 10.11 0.00 44.82 4.46
1568 4408 2.667969 CCGGTTTAGTTTAGCCACGTAC 59.332 50.000 0.00 0.00 0.00 3.67
1594 4434 1.141657 GCTGGATCTTCATGCCCACTA 59.858 52.381 0.00 0.00 0.00 2.74
1595 4435 2.843701 CTGGATCTTCATGCCCACTAC 58.156 52.381 0.00 0.00 0.00 2.73
1596 4436 2.437281 CTGGATCTTCATGCCCACTACT 59.563 50.000 0.00 0.00 0.00 2.57
1597 4437 2.171237 TGGATCTTCATGCCCACTACTG 59.829 50.000 0.00 0.00 0.00 2.74
1599 4439 0.253044 TCTTCATGCCCACTACTGCC 59.747 55.000 0.00 0.00 0.00 4.85
1600 4440 0.749454 CTTCATGCCCACTACTGCCC 60.749 60.000 0.00 0.00 0.00 5.36
1601 4441 2.514592 CATGCCCACTACTGCCCG 60.515 66.667 0.00 0.00 0.00 6.13
1602 4442 2.687200 ATGCCCACTACTGCCCGA 60.687 61.111 0.00 0.00 0.00 5.14
1615 4455 2.989639 CCCGAGTGGAATGAGCCA 59.010 61.111 0.00 0.00 37.49 4.75
1761 4919 2.604139 TGTGTGTGTGACTATCAGGGA 58.396 47.619 0.00 0.00 0.00 4.20
1770 4928 2.768527 TGACTATCAGGGAGAAAGGCTG 59.231 50.000 0.00 0.00 0.00 4.85
1806 4964 7.475771 TTTTTCATTTCAAATGAACGGAAGG 57.524 32.000 22.66 0.00 37.71 3.46
1807 4965 4.782019 TCATTTCAAATGAACGGAAGGG 57.218 40.909 10.55 0.00 33.13 3.95
1808 4966 4.148838 TCATTTCAAATGAACGGAAGGGT 58.851 39.130 10.55 0.00 33.13 4.34
2008 5177 5.728637 TTCCATAGCACGATGAGTATGAT 57.271 39.130 0.00 0.00 0.00 2.45
2009 5178 5.064441 TCCATAGCACGATGAGTATGATG 57.936 43.478 0.00 0.00 0.00 3.07
2010 5179 4.766891 TCCATAGCACGATGAGTATGATGA 59.233 41.667 0.00 0.00 0.00 2.92
2011 5180 4.861462 CCATAGCACGATGAGTATGATGAC 59.139 45.833 0.00 0.00 0.00 3.06
2066 5235 3.561120 AAAGGTCCGCCGAATGCCA 62.561 57.895 0.00 0.00 40.50 4.92
2148 5317 0.615544 AACATCCGGGGTAGGTCGAA 60.616 55.000 0.00 0.00 0.00 3.71
2184 5353 3.468071 TTTCTGTAGAGGGTCCAGCTA 57.532 47.619 0.00 0.00 0.00 3.32
2190 5359 4.362677 TGTAGAGGGTCCAGCTAAAGATT 58.637 43.478 0.00 0.00 0.00 2.40
2204 5373 4.982295 GCTAAAGATTTTGAACTTTGCCGT 59.018 37.500 0.00 0.00 37.03 5.68
2207 5376 4.853924 AGATTTTGAACTTTGCCGTCAT 57.146 36.364 0.00 0.00 0.00 3.06
2225 5394 2.029918 TCATACGCGATTCTCAGATGGG 60.030 50.000 15.93 0.00 0.00 4.00
2282 5451 2.628106 GTATGCATGCCGACTGCG 59.372 61.111 16.68 0.00 45.60 5.18
2299 5468 0.960364 GCGGAAACTTGAGCCATCCA 60.960 55.000 0.00 0.00 0.00 3.41
2300 5469 1.755179 CGGAAACTTGAGCCATCCAT 58.245 50.000 0.00 0.00 0.00 3.41
2301 5470 1.672881 CGGAAACTTGAGCCATCCATC 59.327 52.381 0.00 0.00 0.00 3.51
2302 5471 2.027385 GGAAACTTGAGCCATCCATCC 58.973 52.381 0.00 0.00 0.00 3.51
2303 5472 1.672881 GAAACTTGAGCCATCCATCCG 59.327 52.381 0.00 0.00 0.00 4.18
2304 5473 0.620556 AACTTGAGCCATCCATCCGT 59.379 50.000 0.00 0.00 0.00 4.69
2307 5476 1.414181 CTTGAGCCATCCATCCGTACT 59.586 52.381 0.00 0.00 0.00 2.73
2308 5477 1.496060 TGAGCCATCCATCCGTACTT 58.504 50.000 0.00 0.00 0.00 2.24
2309 5478 1.138859 TGAGCCATCCATCCGTACTTG 59.861 52.381 0.00 0.00 0.00 3.16
2310 5479 1.412710 GAGCCATCCATCCGTACTTGA 59.587 52.381 0.00 0.00 0.00 3.02
2311 5480 1.837439 AGCCATCCATCCGTACTTGAA 59.163 47.619 0.00 0.00 0.00 2.69
2312 5481 1.940613 GCCATCCATCCGTACTTGAAC 59.059 52.381 0.00 0.00 0.00 3.18
2313 5482 2.679639 GCCATCCATCCGTACTTGAACA 60.680 50.000 0.00 0.00 0.00 3.18
2314 5483 3.808728 CCATCCATCCGTACTTGAACAT 58.191 45.455 0.00 0.00 0.00 2.71
2315 5484 4.199310 CCATCCATCCGTACTTGAACATT 58.801 43.478 0.00 0.00 0.00 2.71
2316 5485 4.640201 CCATCCATCCGTACTTGAACATTT 59.360 41.667 0.00 0.00 0.00 2.32
2317 5486 5.125417 CCATCCATCCGTACTTGAACATTTT 59.875 40.000 0.00 0.00 0.00 1.82
2318 5487 5.621197 TCCATCCGTACTTGAACATTTTG 57.379 39.130 0.00 0.00 0.00 2.44
2319 5488 4.083003 TCCATCCGTACTTGAACATTTTGC 60.083 41.667 0.00 0.00 0.00 3.68
2320 5489 4.320861 CCATCCGTACTTGAACATTTTGCA 60.321 41.667 0.00 0.00 0.00 4.08
2321 5490 4.481930 TCCGTACTTGAACATTTTGCAG 57.518 40.909 0.00 0.00 0.00 4.41
2322 5491 4.130857 TCCGTACTTGAACATTTTGCAGA 58.869 39.130 0.00 0.00 0.00 4.26
2323 5492 4.213270 TCCGTACTTGAACATTTTGCAGAG 59.787 41.667 0.00 0.00 0.00 3.35
2324 5493 4.024048 CCGTACTTGAACATTTTGCAGAGT 60.024 41.667 0.00 0.00 0.00 3.24
2325 5494 5.178623 CCGTACTTGAACATTTTGCAGAGTA 59.821 40.000 0.00 0.00 0.00 2.59
2326 5495 6.299604 CGTACTTGAACATTTTGCAGAGTAG 58.700 40.000 0.00 0.00 0.00 2.57
2327 5496 5.695851 ACTTGAACATTTTGCAGAGTAGG 57.304 39.130 0.00 0.00 0.00 3.18
2328 5497 4.520492 ACTTGAACATTTTGCAGAGTAGGG 59.480 41.667 0.00 0.00 0.00 3.53
2329 5498 4.365514 TGAACATTTTGCAGAGTAGGGA 57.634 40.909 0.00 0.00 0.00 4.20
2330 5499 4.922206 TGAACATTTTGCAGAGTAGGGAT 58.078 39.130 0.00 0.00 0.00 3.85
2331 5500 4.701651 TGAACATTTTGCAGAGTAGGGATG 59.298 41.667 0.00 0.00 0.00 3.51
2332 5501 4.574674 ACATTTTGCAGAGTAGGGATGA 57.425 40.909 0.00 0.00 0.00 2.92
2333 5502 4.265073 ACATTTTGCAGAGTAGGGATGAC 58.735 43.478 0.00 0.00 0.00 3.06
2334 5503 3.350219 TTTTGCAGAGTAGGGATGACC 57.650 47.619 0.00 0.00 40.67 4.02
2335 5504 1.951209 TTGCAGAGTAGGGATGACCA 58.049 50.000 0.00 0.00 43.89 4.02
2336 5505 1.195115 TGCAGAGTAGGGATGACCAC 58.805 55.000 0.00 0.00 43.89 4.16
2337 5506 0.466124 GCAGAGTAGGGATGACCACC 59.534 60.000 0.00 0.00 43.89 4.61
2343 5512 4.129148 GGGATGACCACCCCCTGC 62.129 72.222 0.00 0.00 41.38 4.85
2344 5513 3.338250 GGATGACCACCCCCTGCA 61.338 66.667 0.00 0.00 35.97 4.41
2370 5539 3.032017 TCTCAAGGAAGAAAGCTCACG 57.968 47.619 0.00 0.00 0.00 4.35
2373 5542 2.158813 TCAAGGAAGAAAGCTCACGGTT 60.159 45.455 0.00 0.00 0.00 4.44
2399 5568 5.647658 CACTTATGTCAAGGATTTGGCTACA 59.352 40.000 0.00 0.00 39.65 2.74
2463 5659 7.703058 AAATTACCGGACAAAATCTCTGAAT 57.297 32.000 9.46 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 65 8.394121 CAGAAACAATTTTTGAAAATCCCGAAA 58.606 29.630 2.46 0.00 37.62 3.46
66 67 7.044798 ACAGAAACAATTTTTGAAAATCCCGA 58.955 30.769 2.46 0.00 37.62 5.14
67 68 7.010923 TGACAGAAACAATTTTTGAAAATCCCG 59.989 33.333 2.46 0.00 37.62 5.14
68 69 8.207521 TGACAGAAACAATTTTTGAAAATCCC 57.792 30.769 2.46 0.00 37.62 3.85
271 274 1.128513 CGACTAATATTGAGCGCGCA 58.871 50.000 35.10 10.65 0.00 6.09
283 286 0.456221 CGACCTGACTGGCGACTAAT 59.544 55.000 8.72 0.00 40.22 1.73
290 293 1.882989 AAGAGCTCGACCTGACTGGC 61.883 60.000 8.37 0.00 40.22 4.85
324 327 0.458669 GCATTCGAACTCCGGACCTA 59.541 55.000 0.00 0.00 39.14 3.08
325 328 1.218316 GCATTCGAACTCCGGACCT 59.782 57.895 0.00 0.00 39.14 3.85
337 340 0.168788 AACGACCATGCAAGCATTCG 59.831 50.000 21.06 21.06 40.45 3.34
367 370 3.242870 GGCAGCGATCTAATGTCCAAAAG 60.243 47.826 0.00 0.00 0.00 2.27
413 3205 2.187946 CCATGGAGGTGGTCGCTC 59.812 66.667 5.56 0.00 34.46 5.03
440 3232 0.529119 CGCCCGTATGTACCCTTGAC 60.529 60.000 0.00 0.00 0.00 3.18
443 3235 1.259840 ACACGCCCGTATGTACCCTT 61.260 55.000 0.00 0.00 0.00 3.95
444 3236 0.395586 TACACGCCCGTATGTACCCT 60.396 55.000 0.00 0.00 0.00 4.34
449 3241 0.533491 ACATGTACACGCCCGTATGT 59.467 50.000 0.00 0.00 0.00 2.29
455 3247 2.160813 CCACTTTTACATGTACACGCCC 59.839 50.000 4.68 0.00 0.00 6.13
535 3327 2.701780 GCAGAGACTCCCGCTTCGA 61.702 63.158 0.00 0.00 0.00 3.71
541 3333 1.395045 TATGCAGGCAGAGACTCCCG 61.395 60.000 0.00 0.00 0.00 5.14
546 3338 3.373439 CAGAACTTTATGCAGGCAGAGAC 59.627 47.826 0.00 0.00 0.00 3.36
696 3488 7.538678 GCATCCAATCCATATTAATTGTCGTTC 59.461 37.037 0.00 0.00 32.20 3.95
784 3581 5.175856 CGATATCTTTCTTTACCTTCCTGCG 59.824 44.000 0.34 0.00 0.00 5.18
811 3608 6.433847 TCTTTACCTTCCTGATGAAAGTGA 57.566 37.500 0.00 0.00 30.34 3.41
812 3609 7.510549 TTTCTTTACCTTCCTGATGAAAGTG 57.489 36.000 0.00 0.00 30.34 3.16
813 3610 7.177392 CCATTTCTTTACCTTCCTGATGAAAGT 59.823 37.037 0.00 0.00 32.43 2.66
814 3611 7.394359 TCCATTTCTTTACCTTCCTGATGAAAG 59.606 37.037 0.00 0.00 31.06 2.62
815 3612 7.237982 TCCATTTCTTTACCTTCCTGATGAAA 58.762 34.615 0.00 0.00 31.06 2.69
816 3613 6.789268 TCCATTTCTTTACCTTCCTGATGAA 58.211 36.000 0.00 0.00 0.00 2.57
820 3617 5.548056 AGACTCCATTTCTTTACCTTCCTGA 59.452 40.000 0.00 0.00 0.00 3.86
841 3638 3.247006 TCGGAAGGAATAACAGCAGAC 57.753 47.619 0.00 0.00 0.00 3.51
842 3639 4.162320 AGAATCGGAAGGAATAACAGCAGA 59.838 41.667 0.00 0.00 0.00 4.26
844 3641 4.191544 CAGAATCGGAAGGAATAACAGCA 58.808 43.478 0.00 0.00 0.00 4.41
868 3668 5.451242 CGCTAAGAAAGGCTAGTGAGATTCT 60.451 44.000 0.00 0.00 0.00 2.40
927 3727 2.225019 GTGATCCGCCTGATAAATGCAG 59.775 50.000 0.00 0.00 32.41 4.41
936 3736 0.904649 ACTGATTGTGATCCGCCTGA 59.095 50.000 0.00 0.00 0.00 3.86
955 3755 8.322828 TGCTATATATAGGCGGGTAAATTGAAA 58.677 33.333 19.19 0.00 0.00 2.69
956 3756 7.853299 TGCTATATATAGGCGGGTAAATTGAA 58.147 34.615 19.19 0.00 0.00 2.69
958 3758 7.387948 GGATGCTATATATAGGCGGGTAAATTG 59.612 40.741 19.19 0.00 0.00 2.32
1037 3851 1.674651 GGGGACGAAGAAGGTTGGC 60.675 63.158 0.00 0.00 0.00 4.52
1074 3888 1.691976 TGTGTGTGGGACTTGGAGTAG 59.308 52.381 0.00 0.00 0.00 2.57
1075 3889 1.796017 TGTGTGTGGGACTTGGAGTA 58.204 50.000 0.00 0.00 0.00 2.59
1076 3890 0.916086 TTGTGTGTGGGACTTGGAGT 59.084 50.000 0.00 0.00 0.00 3.85
1077 3891 1.881973 CATTGTGTGTGGGACTTGGAG 59.118 52.381 0.00 0.00 0.00 3.86
1078 3892 1.478471 CCATTGTGTGTGGGACTTGGA 60.478 52.381 0.00 0.00 32.98 3.53
1079 3893 0.961019 CCATTGTGTGTGGGACTTGG 59.039 55.000 0.00 0.00 32.98 3.61
1081 3895 0.827507 GGCCATTGTGTGTGGGACTT 60.828 55.000 0.00 0.00 37.22 3.01
1082 3896 1.228552 GGCCATTGTGTGTGGGACT 60.229 57.895 0.00 0.00 37.22 3.85
1083 3897 2.625823 CGGCCATTGTGTGTGGGAC 61.626 63.158 2.24 0.00 37.22 4.46
1090 3911 2.672996 GACTGGCGGCCATTGTGT 60.673 61.111 24.10 16.91 30.82 3.72
1294 4134 3.411351 CCCGCACAAACGTCGAGG 61.411 66.667 3.03 3.03 0.00 4.63
1568 4408 1.793258 CATGAAGATCCAGCTAGGCG 58.207 55.000 0.00 0.00 37.29 5.52
1594 4434 1.599047 CTCATTCCACTCGGGCAGT 59.401 57.895 0.00 0.00 36.21 4.40
1595 4435 1.817099 GCTCATTCCACTCGGGCAG 60.817 63.158 0.00 0.00 36.21 4.85
1596 4436 2.268920 GCTCATTCCACTCGGGCA 59.731 61.111 0.00 0.00 36.21 5.36
1597 4437 2.514824 GGCTCATTCCACTCGGGC 60.515 66.667 0.00 0.00 36.21 6.13
1615 4455 9.747898 TCTACAATGTTGGTAAAAATATGGAGT 57.252 29.630 0.00 0.00 0.00 3.85
1738 4584 4.133820 CCCTGATAGTCACACACACAAAA 58.866 43.478 0.00 0.00 0.00 2.44
1742 4900 2.826128 TCTCCCTGATAGTCACACACAC 59.174 50.000 0.00 0.00 0.00 3.82
1744 4902 4.499183 CTTTCTCCCTGATAGTCACACAC 58.501 47.826 0.00 0.00 0.00 3.82
1749 4907 2.768527 CAGCCTTTCTCCCTGATAGTCA 59.231 50.000 0.00 0.00 0.00 3.41
1750 4908 2.484594 GCAGCCTTTCTCCCTGATAGTC 60.485 54.545 0.00 0.00 0.00 2.59
1806 4964 6.794158 CGATAAGCGTACTTGTATACACTACC 59.206 42.308 4.68 3.48 36.57 3.18
1807 4965 7.757772 CGATAAGCGTACTTGTATACACTAC 57.242 40.000 4.68 7.35 36.57 2.73
1836 4994 5.510690 CCGGTCTATGCCATGATGTACTTTA 60.511 44.000 0.00 0.00 0.00 1.85
1922 5080 0.817654 TAGATGCCTCGGTGACAGTG 59.182 55.000 0.00 0.00 0.00 3.66
2008 5177 3.924013 ATCTCCACCAGCCCCGTCA 62.924 63.158 0.00 0.00 0.00 4.35
2009 5178 3.083997 ATCTCCACCAGCCCCGTC 61.084 66.667 0.00 0.00 0.00 4.79
2010 5179 3.083997 GATCTCCACCAGCCCCGT 61.084 66.667 0.00 0.00 0.00 5.28
2011 5180 2.196997 TTTGATCTCCACCAGCCCCG 62.197 60.000 0.00 0.00 0.00 5.73
2066 5235 1.595382 GGGCATCTCGCGTGCTATT 60.595 57.895 18.06 0.00 43.84 1.73
2092 5261 5.296151 ACACATATCCTTCACATACCCTG 57.704 43.478 0.00 0.00 0.00 4.45
2148 5317 3.632145 ACAGAAAAACCTTGCAAGACGAT 59.368 39.130 28.05 9.52 0.00 3.73
2184 5353 5.004922 TGACGGCAAAGTTCAAAATCTTT 57.995 34.783 0.00 0.00 34.74 2.52
2190 5359 2.350007 GCGTATGACGGCAAAGTTCAAA 60.350 45.455 0.00 0.00 42.82 2.69
2204 5373 2.029918 CCCATCTGAGAATCGCGTATGA 60.030 50.000 5.77 0.00 38.61 2.15
2207 5376 0.673985 CCCCATCTGAGAATCGCGTA 59.326 55.000 5.77 0.00 38.61 4.42
2225 5394 8.561738 TCAAATGAGAAACTCCAAACTATACC 57.438 34.615 0.00 0.00 0.00 2.73
2279 5448 0.960364 GGATGGCTCAAGTTTCCGCA 60.960 55.000 0.00 0.00 0.00 5.69
2282 5451 2.027385 GGATGGATGGCTCAAGTTTCC 58.973 52.381 0.00 0.00 0.00 3.13
2299 5468 4.759693 TCTGCAAAATGTTCAAGTACGGAT 59.240 37.500 0.00 0.00 0.00 4.18
2300 5469 4.130857 TCTGCAAAATGTTCAAGTACGGA 58.869 39.130 0.00 0.00 0.00 4.69
2301 5470 4.024048 ACTCTGCAAAATGTTCAAGTACGG 60.024 41.667 0.00 0.00 0.00 4.02
2302 5471 5.095691 ACTCTGCAAAATGTTCAAGTACG 57.904 39.130 0.00 0.00 0.00 3.67
2303 5472 6.348540 CCCTACTCTGCAAAATGTTCAAGTAC 60.349 42.308 0.00 0.00 0.00 2.73
2304 5473 5.705441 CCCTACTCTGCAAAATGTTCAAGTA 59.295 40.000 0.00 0.00 0.00 2.24
2307 5476 4.724399 TCCCTACTCTGCAAAATGTTCAA 58.276 39.130 0.00 0.00 0.00 2.69
2308 5477 4.365514 TCCCTACTCTGCAAAATGTTCA 57.634 40.909 0.00 0.00 0.00 3.18
2309 5478 4.943705 TCATCCCTACTCTGCAAAATGTTC 59.056 41.667 0.00 0.00 0.00 3.18
2310 5479 4.702131 GTCATCCCTACTCTGCAAAATGTT 59.298 41.667 0.00 0.00 0.00 2.71
2311 5480 4.265073 GTCATCCCTACTCTGCAAAATGT 58.735 43.478 0.00 0.00 0.00 2.71
2312 5481 3.629398 GGTCATCCCTACTCTGCAAAATG 59.371 47.826 0.00 0.00 0.00 2.32
2313 5482 3.266772 TGGTCATCCCTACTCTGCAAAAT 59.733 43.478 0.00 0.00 0.00 1.82
2314 5483 2.642311 TGGTCATCCCTACTCTGCAAAA 59.358 45.455 0.00 0.00 0.00 2.44
2315 5484 2.027192 GTGGTCATCCCTACTCTGCAAA 60.027 50.000 0.00 0.00 0.00 3.68
2316 5485 1.555075 GTGGTCATCCCTACTCTGCAA 59.445 52.381 0.00 0.00 0.00 4.08
2317 5486 1.195115 GTGGTCATCCCTACTCTGCA 58.805 55.000 0.00 0.00 0.00 4.41
2318 5487 0.466124 GGTGGTCATCCCTACTCTGC 59.534 60.000 0.00 0.00 0.00 4.26
2319 5488 1.123928 GGGTGGTCATCCCTACTCTG 58.876 60.000 0.00 0.00 41.58 3.35
2320 5489 3.637065 GGGTGGTCATCCCTACTCT 57.363 57.895 0.00 0.00 41.58 3.24
2327 5496 2.439553 TTTGCAGGGGGTGGTCATCC 62.440 60.000 0.00 0.00 0.00 3.51
2328 5497 0.541764 TTTTGCAGGGGGTGGTCATC 60.542 55.000 0.00 0.00 0.00 2.92
2329 5498 0.105246 TTTTTGCAGGGGGTGGTCAT 60.105 50.000 0.00 0.00 0.00 3.06
2330 5499 1.311403 TTTTTGCAGGGGGTGGTCA 59.689 52.632 0.00 0.00 0.00 4.02
2331 5500 4.286447 TTTTTGCAGGGGGTGGTC 57.714 55.556 0.00 0.00 0.00 4.02
2350 5519 2.289072 CCGTGAGCTTTCTTCCTTGAGA 60.289 50.000 0.00 0.00 0.00 3.27
2362 5531 1.806542 CATAAGTGCAACCGTGAGCTT 59.193 47.619 0.00 0.00 37.80 3.74
2370 5539 5.163513 CAAATCCTTGACATAAGTGCAACC 58.836 41.667 0.00 0.00 33.31 3.77
2373 5542 3.193267 GCCAAATCCTTGACATAAGTGCA 59.807 43.478 0.00 0.00 34.14 4.57
2399 5568 4.671207 ACCCCTCCCCGGTAAATATATTTT 59.329 41.667 15.64 1.43 0.00 1.82
2652 5852 9.253832 TCAGATAGAGAATTCTGAGTCTTCTTT 57.746 33.333 14.00 0.00 42.52 2.52


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

AutoCloner maintained by Alex Coulton.