Multiple sequence alignment - TraesCS6D01G272500

Loading Multiple Alignment...

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 TraesCS6D01G272500 chr6D 100.000 4546 0 0 1 4546 381343459 381348004 0.000000e+00 8395.0
1 TraesCS6D01G272500 chr6D 82.065 184 24 4 3959 4134 353638212 353638030 1.020000e-31 148.0
2 TraesCS6D01G272500 chr6D 77.070 157 26 6 563 711 263045242 263045088 1.050000e-11 82.4
3 TraesCS6D01G272500 chr6A 92.736 3056 141 27 367 3347 522607296 522610345 0.000000e+00 4338.0
4 TraesCS6D01G272500 chr6A 93.141 729 22 5 3342 4047 522610295 522611018 0.000000e+00 1044.0
5 TraesCS6D01G272500 chr6A 88.367 490 34 10 4069 4543 522611010 522611491 6.600000e-158 568.0
6 TraesCS6D01G272500 chr6A 88.095 126 14 1 3966 4091 90360058 90360182 1.020000e-31 148.0
7 TraesCS6D01G272500 chr6A 87.597 129 15 1 3963 4091 105585571 105585698 1.020000e-31 148.0
8 TraesCS6D01G272500 chr6A 87.023 131 15 2 3962 4091 441830410 441830281 3.660000e-31 147.0
9 TraesCS6D01G272500 chr6A 79.755 163 21 5 534 688 176992618 176992776 1.730000e-19 108.0
10 TraesCS6D01G272500 chr6B 95.407 1829 64 9 1394 3218 569047046 569045234 0.000000e+00 2894.0
11 TraesCS6D01G272500 chr6B 93.422 1353 46 10 3175 4517 569045196 569043877 0.000000e+00 1965.0
12 TraesCS6D01G272500 chr6B 94.005 834 43 4 1 828 569048940 569048108 0.000000e+00 1256.0
13 TraesCS6D01G272500 chr6B 93.082 636 21 6 821 1439 569047669 569047040 0.000000e+00 909.0
14 TraesCS6D01G272500 chr6B 90.909 44 4 0 3175 3218 569045250 569045207 4.910000e-05 60.2
15 TraesCS6D01G272500 chr6B 100.000 30 0 0 4517 4546 569043853 569043824 6.350000e-04 56.5
16 TraesCS6D01G272500 chr4A 88.710 124 12 2 3969 4091 546123838 546123716 2.830000e-32 150.0
17 TraesCS6D01G272500 chr1D 87.597 129 15 1 3963 4091 290446042 290446169 1.020000e-31 148.0
18 TraesCS6D01G272500 chr5A 87.023 131 16 1 3961 4091 151066928 151067057 3.660000e-31 147.0
19 TraesCS6D01G272500 chr7D 89.535 86 5 3 557 640 182992699 182992782 6.220000e-19 106.0
20 TraesCS6D01G272500 chr2D 77.348 181 28 11 550 719 628612532 628612354 1.350000e-15 95.3
21 TraesCS6D01G272500 chr5D 83.117 77 9 4 645 719 490163027 490163101 2.940000e-07 67.6
22 TraesCS6D01G272500 chr3B 92.500 40 3 0 3919 3958 663125127 663125166 1.770000e-04 58.4
23 TraesCS6D01G272500 chr3A 100.000 29 0 0 591 619 696236066 696236038 2.000000e-03 54.7


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 TraesCS6D01G272500 chr6D 381343459 381348004 4545 False 8395.000000 8395 100.000000 1 4546 1 chr6D.!!$F1 4545
1 TraesCS6D01G272500 chr6A 522607296 522611491 4195 False 1983.333333 4338 91.414667 367 4543 3 chr6A.!!$F4 4176
2 TraesCS6D01G272500 chr6B 569043824 569048940 5116 True 1190.116667 2894 94.470833 1 4546 6 chr6B.!!$R1 4545


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
316 320 0.229500 CCAAAACTTTGCTTTCGCGC 59.771 50.0 0.00 0.00 39.65 6.86 F
321 325 0.790814 ACTTTGCTTTCGCGCTAGAC 59.209 50.0 5.56 0.00 39.65 2.59 F
1653 2203 0.808755 GATTTCCGTTGGCCGTCATT 59.191 50.0 0.00 0.00 33.66 2.57 F
2562 3120 0.179127 CAGTTAGCTGCGCTGCTCTA 60.179 55.0 39.70 27.23 42.97 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1326 1830 0.954452 CAAGCCTCCACAACAAGGTC 59.046 55.000 0.0 0.0 34.96 3.85 R
2011 2566 1.424403 TTGAACGTACCTGCATGTCG 58.576 50.000 0.0 5.3 0.00 4.35 R
3463 4099 1.689273 CCCTAGCACCATAGAGTCCAC 59.311 57.143 0.0 0.0 0.00 4.02 R
4180 4840 1.544537 CGTTCAGTTTGGTGGGGATGA 60.545 52.381 0.0 0.0 0.00 2.92 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
22 23 3.385755 GGGCTCAATTTGATGGCTACAAT 59.614 43.478 16.20 0.00 0.00 2.71
40 41 2.240493 ATGGCTAAGCGACCACATAC 57.760 50.000 0.00 0.00 39.19 2.39
41 42 0.899019 TGGCTAAGCGACCACATACA 59.101 50.000 0.00 0.00 0.00 2.29
56 57 2.603110 ACATACATTGATGTCGACGCAC 59.397 45.455 11.62 5.34 41.97 5.34
57 58 2.355717 TACATTGATGTCGACGCACA 57.644 45.000 11.62 7.99 41.97 4.57
109 113 1.183030 ATGTCCGTGAGAACCACCGA 61.183 55.000 0.00 0.00 42.76 4.69
144 148 1.022735 GATGCCATGACTTGCCTCTG 58.977 55.000 0.00 0.00 0.00 3.35
182 186 2.027625 CTTCGTCTCCACAACGCCC 61.028 63.158 0.00 0.00 39.90 6.13
184 188 4.351938 CGTCTCCACAACGCCCGA 62.352 66.667 0.00 0.00 32.84 5.14
187 191 0.953960 GTCTCCACAACGCCCGATTT 60.954 55.000 0.00 0.00 0.00 2.17
198 202 4.204891 CCGATTTCGACGCGGTGC 62.205 66.667 12.47 0.00 43.02 5.01
276 280 0.707822 CGCCATGTTGTTTTTAGCGC 59.292 50.000 0.00 0.00 35.33 5.92
314 318 1.285578 TGCCAAAACTTTGCTTTCGC 58.714 45.000 0.00 0.00 36.86 4.70
316 320 0.229500 CCAAAACTTTGCTTTCGCGC 59.771 50.000 0.00 0.00 39.65 6.86
321 325 0.790814 ACTTTGCTTTCGCGCTAGAC 59.209 50.000 5.56 0.00 39.65 2.59
335 339 1.806623 GCTAGACCATTTCGCGACCAT 60.807 52.381 9.15 0.00 0.00 3.55
391 395 3.473647 CGCTCCTCATCTGCCCCA 61.474 66.667 0.00 0.00 0.00 4.96
460 464 1.034838 AGTGAAGCGGCGAGAGAGAT 61.035 55.000 12.98 0.00 0.00 2.75
462 466 1.065701 GTGAAGCGGCGAGAGAGATAA 59.934 52.381 12.98 0.00 0.00 1.75
532 537 1.061131 CATCACAAATCCGACGTCAGC 59.939 52.381 17.16 0.00 0.00 4.26
544 549 2.734606 CGACGTCAGCTTTTTGACCATA 59.265 45.455 17.16 0.00 43.56 2.74
590 595 2.472695 TGTGTTTGCCGAGAATAGCT 57.527 45.000 0.00 0.00 0.00 3.32
623 628 2.476854 GCAAGCATGACAAATCCGTCTC 60.477 50.000 0.00 0.00 36.82 3.36
670 677 7.664318 TGCTCGTAAACTATATCTGTCATCCTA 59.336 37.037 0.00 0.00 0.00 2.94
719 726 9.513727 AAACATTTGATTTGCCATGTTTAAAAC 57.486 25.926 7.22 0.00 44.33 2.43
731 738 8.263640 TGCCATGTTTAAAACTATTATGCCAAT 58.736 29.630 0.00 0.00 0.00 3.16
778 794 2.649129 GCCCCATGTTGAGTTGGCC 61.649 63.158 0.00 0.00 32.74 5.36
1166 1669 2.153645 TCGTGCAGCAAGATGTTCATT 58.846 42.857 6.97 0.00 0.00 2.57
1229 1732 5.014858 TCCGTTCTAGACTTGACCTTGTAT 58.985 41.667 0.00 0.00 0.00 2.29
1241 1744 9.485206 GACTTGACCTTGTATCTTGTTTACTTA 57.515 33.333 0.00 0.00 0.00 2.24
1291 1794 4.263911 CGTTAGGTTCCGTTCGTATTCTTC 59.736 45.833 0.00 0.00 0.00 2.87
1315 1819 2.450609 TCTAGTCGTTGTTTGCCCTC 57.549 50.000 0.00 0.00 0.00 4.30
1575 2125 9.301153 GGGTGCATATGTTAACTGATTAAAAAG 57.699 33.333 7.22 0.00 32.04 2.27
1653 2203 0.808755 GATTTCCGTTGGCCGTCATT 59.191 50.000 0.00 0.00 33.66 2.57
1719 2269 1.409064 AGTGTCGTACATGCATCGGAT 59.591 47.619 0.00 0.00 0.00 4.18
1727 2277 2.989909 ACATGCATCGGATGAGAAACA 58.010 42.857 21.69 9.62 0.00 2.83
1767 2318 4.451096 GGATTTGTGAACACATGTCGTACT 59.549 41.667 8.46 0.00 41.52 2.73
1801 2352 6.828502 TTATGCAGTTATTAAGTCGAGCAG 57.171 37.500 0.00 0.00 33.94 4.24
1823 2374 6.347888 GCAGTAGTTAAAGCGTTCCACAATTA 60.348 38.462 0.00 0.00 0.00 1.40
1835 2386 7.754924 AGCGTTCCACAATTAATATTCACTTTG 59.245 33.333 0.00 0.00 0.00 2.77
1858 2409 8.737168 TTGTTCTGATGTCTTATTATCTTGGG 57.263 34.615 0.00 0.00 0.00 4.12
2011 2566 6.969473 GCTACTAATTGATTTGCTTGGTTCTC 59.031 38.462 0.00 0.00 0.00 2.87
2015 2570 2.844946 TGATTTGCTTGGTTCTCGACA 58.155 42.857 0.00 0.00 0.00 4.35
2226 2781 9.593134 CCTATTACTGCTGGAATTATATCAGTC 57.407 37.037 6.34 0.00 36.37 3.51
2260 2815 5.384063 TCATCGCTTTTCCTTGCATTTTA 57.616 34.783 0.00 0.00 0.00 1.52
2352 2907 8.736751 TGTATCTTTAATGCGGTTTCTTTTTC 57.263 30.769 0.00 0.00 0.00 2.29
2526 3081 8.589338 CCTACTGCTCTAACAGATGGTATTATT 58.411 37.037 0.00 0.00 40.25 1.40
2531 3086 9.461312 TGCTCTAACAGATGGTATTATTTGTTT 57.539 29.630 0.00 0.00 36.89 2.83
2555 3113 1.019278 TTACTGCCAGTTAGCTGCGC 61.019 55.000 1.02 0.00 41.26 6.09
2562 3120 0.179127 CAGTTAGCTGCGCTGCTCTA 60.179 55.000 39.70 27.23 42.97 2.43
2805 3363 5.570234 TCGTTGGTGCTTTCTAAACTTTT 57.430 34.783 0.00 0.00 0.00 2.27
2835 3393 5.628193 CCTAGTTTCGTACAACACACACTAG 59.372 44.000 0.00 0.00 34.64 2.57
2907 3465 5.499139 TGATTTGCTCTTTCGTTTGAGTT 57.501 34.783 0.00 0.00 33.22 3.01
3219 3855 4.606210 TGTTCCTGGTGACTATAGTAGCA 58.394 43.478 5.09 9.19 0.00 3.49
3276 3912 1.746470 TGGAGAATCGTCGCTCTACA 58.254 50.000 5.29 5.29 34.37 2.74
3407 4043 4.040952 CCTTATGGCACTTCTAGCTATGGT 59.959 45.833 0.00 0.00 34.83 3.55
3463 4099 1.375523 GTGTTAGGTCTGGCGTGGG 60.376 63.158 0.00 0.00 0.00 4.61
3734 4392 4.529377 AGATGCCAAGTTCCATGTGAAATT 59.471 37.500 4.47 4.47 41.66 1.82
3775 4434 6.175712 TGCTTGTTTTTGGTTGTTGATTTC 57.824 33.333 0.00 0.00 0.00 2.17
3786 4445 4.803613 GGTTGTTGATTTCGAAGTTGCTTT 59.196 37.500 0.00 0.00 0.00 3.51
3812 4471 1.679680 CAGCATTGCCAACCTATCCAG 59.320 52.381 4.70 0.00 0.00 3.86
3859 4518 4.649674 CCTATAGTGCTCTAGGTTGGTGAA 59.350 45.833 1.55 0.00 31.60 3.18
3964 4624 1.359130 CAAGGGGATTGGAGAGGGTTT 59.641 52.381 0.00 0.00 35.08 3.27
3965 4625 2.580783 CAAGGGGATTGGAGAGGGTTTA 59.419 50.000 0.00 0.00 35.08 2.01
3966 4626 2.493091 AGGGGATTGGAGAGGGTTTAG 58.507 52.381 0.00 0.00 0.00 1.85
3967 4627 2.047296 AGGGGATTGGAGAGGGTTTAGA 59.953 50.000 0.00 0.00 0.00 2.10
3968 4628 2.172930 GGGGATTGGAGAGGGTTTAGAC 59.827 54.545 0.00 0.00 0.00 2.59
3969 4629 2.172930 GGGATTGGAGAGGGTTTAGACC 59.827 54.545 0.00 0.00 45.75 3.85
3970 4630 3.116174 GGATTGGAGAGGGTTTAGACCT 58.884 50.000 1.94 0.00 45.75 3.85
4043 4703 3.724478 GGAAATTTCCCTTTGGATCCCT 58.276 45.455 24.44 0.00 41.40 4.20
4044 4704 4.104086 GGAAATTTCCCTTTGGATCCCTT 58.896 43.478 24.44 0.00 41.40 3.95
4045 4705 4.536090 GGAAATTTCCCTTTGGATCCCTTT 59.464 41.667 24.44 0.00 41.40 3.11
4046 4706 5.491070 GAAATTTCCCTTTGGATCCCTTTG 58.509 41.667 9.90 0.00 41.40 2.77
4047 4707 2.621556 TTCCCTTTGGATCCCTTTGG 57.378 50.000 9.90 5.21 41.40 3.28
4058 4718 6.606241 TGGATCCCTTTGGTTTATAGGAAT 57.394 37.500 9.90 0.00 0.00 3.01
4180 4840 1.068352 AACACCCCTCAGCCCTCTTT 61.068 55.000 0.00 0.00 0.00 2.52
4208 4868 0.744281 CCAAACTGAACGTGCCCTTT 59.256 50.000 0.00 0.00 0.00 3.11
4209 4869 1.136110 CCAAACTGAACGTGCCCTTTT 59.864 47.619 0.00 0.00 0.00 2.27
4210 4870 2.359531 CCAAACTGAACGTGCCCTTTTA 59.640 45.455 0.00 0.00 0.00 1.52
4213 4874 1.202770 ACTGAACGTGCCCTTTTAGCT 60.203 47.619 0.00 0.00 0.00 3.32
4217 4878 0.313987 ACGTGCCCTTTTAGCTTTGC 59.686 50.000 0.00 0.00 0.00 3.68
4343 5006 7.591426 AGCACTTTTTCACGTCTTTCAATTATC 59.409 33.333 0.00 0.00 0.00 1.75
4352 5015 5.470098 ACGTCTTTCAATTATCACTGCTGTT 59.530 36.000 0.00 0.00 0.00 3.16
4356 5019 8.289618 GTCTTTCAATTATCACTGCTGTTAACA 58.710 33.333 8.28 8.28 0.00 2.41
4363 5026 9.762933 AATTATCACTGCTGTTAACAAAATGTT 57.237 25.926 10.03 0.99 43.88 2.71
4369 5032 3.799420 GCTGTTAACAAAATGTTTCCGCA 59.201 39.130 10.03 0.00 41.45 5.69
4396 5059 8.258007 TCTGAGATATGGAACTAAATTGACGTT 58.742 33.333 0.00 0.00 0.00 3.99
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 0.899019 TGTATGTGGTCGCTTAGCCA 59.101 50.000 0.00 0.00 0.00 4.75
40 41 2.433808 CATTGTGCGTCGACATCAATG 58.566 47.619 26.74 26.74 39.14 2.82
41 42 1.202065 GCATTGTGCGTCGACATCAAT 60.202 47.619 17.16 17.59 31.71 2.57
56 57 0.166597 ATCGCACAGTTGTCGCATTG 59.833 50.000 7.22 0.00 0.00 2.82
57 58 0.166597 CATCGCACAGTTGTCGCATT 59.833 50.000 7.22 0.00 0.00 3.56
66 67 0.681733 AGAGTGAACCATCGCACAGT 59.318 50.000 0.00 0.00 38.58 3.55
109 113 0.036010 CATCCTGGAAGCGGAGTTGT 60.036 55.000 0.00 0.00 33.29 3.32
266 270 1.080772 GGGTGCCAGCGCTAAAAAC 60.081 57.895 10.99 6.36 35.36 2.43
276 280 4.720902 TGTCATGCGGGGTGCCAG 62.721 66.667 0.00 0.00 45.60 4.85
316 320 2.128035 GATGGTCGCGAAATGGTCTAG 58.872 52.381 12.06 0.00 0.00 2.43
321 325 1.490693 CTCCGATGGTCGCGAAATGG 61.491 60.000 12.06 9.25 38.82 3.16
391 395 1.198408 CTTGGCGCATATGCATCGATT 59.802 47.619 26.52 0.00 42.21 3.34
413 417 5.006358 CCTTTTGATTGATTACTACGACGGG 59.994 44.000 0.00 0.00 0.00 5.28
460 464 7.698506 TCTCGTTCTTACCTCAATCTCTTTA 57.301 36.000 0.00 0.00 0.00 1.85
462 466 6.591750 TTCTCGTTCTTACCTCAATCTCTT 57.408 37.500 0.00 0.00 0.00 2.85
532 537 7.951530 AGTTTGATTTGCTATGGTCAAAAAG 57.048 32.000 1.46 0.00 40.85 2.27
590 595 4.824537 TGTCATGCTTGCCAACTAAACTTA 59.175 37.500 0.00 0.00 0.00 2.24
670 677 1.616159 AGGCACATTTAGTTGGCGTT 58.384 45.000 0.00 0.00 0.00 4.84
1073 1573 1.800586 GCAGTCGAGATGCAGAAAACA 59.199 47.619 15.76 0.00 43.31 2.83
1229 1732 5.526111 GCGGCAGGATAATAAGTAAACAAGA 59.474 40.000 0.00 0.00 0.00 3.02
1241 1744 1.133976 AGAAGCTTGCGGCAGGATAAT 60.134 47.619 16.93 0.00 44.79 1.28
1291 1794 2.673368 GGCAAACAACGACTAGATCTGG 59.327 50.000 5.18 4.69 0.00 3.86
1315 1819 2.736721 ACAACAAGGTCAATCGACATCG 59.263 45.455 0.00 0.00 44.54 3.84
1326 1830 0.954452 CAAGCCTCCACAACAAGGTC 59.046 55.000 0.00 0.00 34.96 3.85
1330 1834 1.604604 GCTACAAGCCTCCACAACAA 58.395 50.000 0.00 0.00 34.48 2.83
1331 1835 3.322514 GCTACAAGCCTCCACAACA 57.677 52.632 0.00 0.00 34.48 3.33
1653 2203 1.731709 CACAAGCAAATCCGACGATGA 59.268 47.619 0.00 0.00 0.00 2.92
1719 2269 6.312672 CCACAATGTACATACGATGTTTCTCA 59.687 38.462 9.21 3.20 41.63 3.27
1727 2277 6.038161 CACAAATCCCACAATGTACATACGAT 59.962 38.462 9.21 3.40 0.00 3.73
1835 2386 7.659390 CCTCCCAAGATAATAAGACATCAGAAC 59.341 40.741 0.00 0.00 0.00 3.01
1858 2409 3.606595 AGGTTAGCGTTTTAGGTCCTC 57.393 47.619 0.00 0.00 0.00 3.71
1981 2536 6.350445 CCAAGCAAATCAATTAGTAGCAGGTT 60.350 38.462 0.00 0.00 0.00 3.50
1984 2539 6.199937 ACCAAGCAAATCAATTAGTAGCAG 57.800 37.500 0.00 0.00 0.00 4.24
2011 2566 1.424403 TTGAACGTACCTGCATGTCG 58.576 50.000 0.00 5.30 0.00 4.35
2015 2570 3.402628 ACTCTTTGAACGTACCTGCAT 57.597 42.857 0.00 0.00 0.00 3.96
2052 2607 7.543756 TCATTATTACCGCATCGATTATCTCA 58.456 34.615 0.00 0.00 0.00 3.27
2226 2781 1.890979 GCGATGAGCTCCCATGTGG 60.891 63.158 12.15 0.00 44.04 4.17
2325 2880 8.742554 AAAAGAAACCGCATTAAAGATACAAG 57.257 30.769 0.00 0.00 0.00 3.16
2328 2883 8.736751 TGAAAAAGAAACCGCATTAAAGATAC 57.263 30.769 0.00 0.00 0.00 2.24
2552 3110 4.181309 ACCTAATTATCTAGAGCAGCGC 57.819 45.455 0.00 0.00 0.00 5.92
2555 3113 7.870445 GGACTTCAACCTAATTATCTAGAGCAG 59.130 40.741 0.00 0.00 0.00 4.24
2805 3363 3.068448 TGTTGTACGAAACTAGGCTCACA 59.932 43.478 0.00 0.00 0.00 3.58
2835 3393 2.697229 ACTGGAGGCCCGTACTAATTAC 59.303 50.000 0.00 0.00 34.29 1.89
2907 3465 4.202419 ACCTATGTAAGAACACAACTGGCA 60.202 41.667 0.00 0.00 38.78 4.92
3219 3855 3.244700 GCTCCATCATAACCACCATAGCT 60.245 47.826 0.00 0.00 0.00 3.32
3395 4031 7.527796 AGTCATAACTAGGACCATAGCTAGAA 58.472 38.462 0.00 0.00 37.70 2.10
3407 4043 4.402793 GCACCTGAAGAGTCATAACTAGGA 59.597 45.833 0.00 0.00 35.28 2.94
3463 4099 1.689273 CCCTAGCACCATAGAGTCCAC 59.311 57.143 0.00 0.00 0.00 4.02
3734 4392 7.461182 ACAAGCAAAACCTATATAGCAAACA 57.539 32.000 4.04 0.00 0.00 2.83
3736 4394 9.771534 AAAAACAAGCAAAACCTATATAGCAAA 57.228 25.926 4.04 0.00 0.00 3.68
3746 4404 4.393834 ACAACCAAAAACAAGCAAAACCT 58.606 34.783 0.00 0.00 0.00 3.50
3775 4434 4.661993 TGCTGTATGTAAAGCAACTTCG 57.338 40.909 2.44 0.00 46.06 3.79
3786 4445 3.364460 AGGTTGGCAATGCTGTATGTA 57.636 42.857 1.92 0.00 0.00 2.29
3812 4471 3.735240 TCAACAATTGAAAACTGCGATGC 59.265 39.130 13.59 0.00 36.59 3.91
3964 4624 2.821437 CTCCAAACCAGAGGAGGTCTA 58.179 52.381 0.00 0.00 46.11 2.59
3965 4625 1.650528 CTCCAAACCAGAGGAGGTCT 58.349 55.000 0.00 0.00 46.11 3.85
4038 4698 5.438386 TCCCATTCCTATAAACCAAAGGGAT 59.562 40.000 0.00 0.00 36.71 3.85
4039 4699 4.796816 TCCCATTCCTATAAACCAAAGGGA 59.203 41.667 0.00 0.00 39.16 4.20
4040 4700 5.137412 TCCCATTCCTATAAACCAAAGGG 57.863 43.478 0.00 0.00 41.29 3.95
4041 4701 7.290110 GAATCCCATTCCTATAAACCAAAGG 57.710 40.000 0.00 0.00 33.17 3.11
4145 4805 3.004944 GGGTGTTAAATCTTGGTTCGCAA 59.995 43.478 0.00 0.00 0.00 4.85
4148 4808 3.418047 AGGGGTGTTAAATCTTGGTTCG 58.582 45.455 0.00 0.00 0.00 3.95
4180 4840 1.544537 CGTTCAGTTTGGTGGGGATGA 60.545 52.381 0.00 0.00 0.00 2.92
4208 4868 7.378461 CAGATTTAAACAAGTTCGCAAAGCTAA 59.622 33.333 0.00 0.00 0.00 3.09
4209 4869 6.855914 CAGATTTAAACAAGTTCGCAAAGCTA 59.144 34.615 0.00 0.00 0.00 3.32
4210 4870 5.687285 CAGATTTAAACAAGTTCGCAAAGCT 59.313 36.000 0.00 0.00 0.00 3.74
4213 4874 7.476667 TCTTCAGATTTAAACAAGTTCGCAAA 58.523 30.769 0.00 0.00 0.00 3.68
4343 5006 5.051774 CGGAAACATTTTGTTAACAGCAGTG 60.052 40.000 8.56 9.14 40.14 3.66
4352 5015 5.471797 TCTCAGATGCGGAAACATTTTGTTA 59.528 36.000 0.00 0.00 40.14 2.41
4356 5019 6.238842 CCATATCTCAGATGCGGAAACATTTT 60.239 38.462 0.00 0.00 0.00 1.82
4363 5026 3.643320 AGTTCCATATCTCAGATGCGGAA 59.357 43.478 13.24 13.24 0.00 4.30
4369 5032 8.424918 ACGTCAATTTAGTTCCATATCTCAGAT 58.575 33.333 0.00 0.00 0.00 2.90
4396 5059 5.833406 ATCAACCATTGAACGCATGAATA 57.167 34.783 0.00 0.00 43.95 1.75



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

AutoCloner maintained by Alex Coulton.