Multiple sequence alignment - TraesCS7A01G387200

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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 TraesCS7A01G387200 chr7A 100.000 2267 0 0 1 2267 563477367 563475101 0.000000e+00 4187.0
1 TraesCS7A01G387200 chr7B 93.007 1473 75 15 1 1461 526387110 526385654 0.000000e+00 2124.0
2 TraesCS7A01G387200 chr7B 87.124 1429 83 40 1 1398 526239715 526238357 0.000000e+00 1526.0
3 TraesCS7A01G387200 chr7B 88.312 770 62 8 610 1371 526234782 526234033 0.000000e+00 898.0
4 TraesCS7A01G387200 chr7B 88.283 367 40 3 1610 1975 526384658 526384294 9.610000e-119 436.0
5 TraesCS7A01G387200 chr7B 93.089 246 9 4 368 612 526235697 526235459 9.960000e-94 353.0
6 TraesCS7A01G387200 chr7B 88.259 247 26 1 2021 2267 526384296 526384053 2.200000e-75 292.0
7 TraesCS7A01G387200 chr7B 96.825 126 4 0 1459 1584 526384930 526384805 6.340000e-51 211.0
8 TraesCS7A01G387200 chr7D 92.823 1449 65 20 1 1432 497901343 497899917 0.000000e+00 2063.0
9 TraesCS7A01G387200 chr7D 95.192 416 9 5 360 774 497899917 497899512 0.000000e+00 647.0
10 TraesCS7A01G387200 chr7D 91.403 442 30 4 936 1371 497895355 497894916 1.160000e-167 599.0
11 TraesCS7A01G387200 chr6B 88.259 247 29 0 992 1238 116108135 116108381 1.700000e-76 296.0
12 TraesCS7A01G387200 chr3D 83.451 284 29 8 765 1037 603233007 603232731 4.840000e-62 248.0
13 TraesCS7A01G387200 chr5D 90.476 63 6 0 992 1054 507375397 507375335 1.440000e-12 84.2
14 TraesCS7A01G387200 chr1B 94.737 38 1 1 1620 1657 671610305 671610269 8.750000e-05 58.4


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 TraesCS7A01G387200 chr7A 563475101 563477367 2266 True 4187.000000 4187 100.000000 1 2267 1 chr7A.!!$R1 2266
1 TraesCS7A01G387200 chr7B 526234033 526239715 5682 True 925.666667 1526 89.508333 1 1398 3 chr7B.!!$R1 1397
2 TraesCS7A01G387200 chr7B 526384053 526387110 3057 True 765.750000 2124 91.593500 1 2267 4 chr7B.!!$R2 2266
3 TraesCS7A01G387200 chr7D 497899512 497901343 1831 True 1355.000000 2063 94.007500 1 1432 2 chr7D.!!$R2 1431

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
800 816 0.242017 GCTGCTGATTTTCCAACGCT 59.758 50.0 0.0 0.0 0.0 5.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2012 5273 0.027324 GGAGTCGAGGTACGTAAGCG 59.973 60.0 0.0 1.53 43.13 4.68 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 0.601046 CGCAGCCCGTACATCATCAT 60.601 55.000 0.00 0.00 0.00 2.45
78 79 2.218603 ACGTGTTTAACAAGCCAGAGG 58.781 47.619 10.68 0.00 30.59 3.69
180 183 0.323908 ACCGGACCAGAGAAGAGAGG 60.324 60.000 9.46 0.00 0.00 3.69
184 187 2.745968 GGACCAGAGAAGAGAGGATGT 58.254 52.381 0.00 0.00 0.00 3.06
197 200 3.554692 GATGTTCGGCCAGTCGCG 61.555 66.667 2.24 0.00 38.94 5.87
241 244 3.461982 GCACGTCAGTCAGCGTCG 61.462 66.667 0.00 0.00 39.48 5.12
242 245 2.051256 CACGTCAGTCAGCGTCGT 60.051 61.111 0.00 0.00 39.48 4.34
243 246 2.075489 CACGTCAGTCAGCGTCGTC 61.075 63.158 0.00 0.00 39.48 4.20
281 284 2.049433 GTCAGCACGTGTAGGCGT 60.049 61.111 18.38 0.00 46.88 5.68
338 342 0.529555 GATCCTGCCGCTGACTTCTC 60.530 60.000 0.00 0.00 0.00 2.87
460 466 1.062148 GCCGAGGCACGTAATTTCTTC 59.938 52.381 9.58 0.00 41.49 2.87
461 467 2.343101 CCGAGGCACGTAATTTCTTCA 58.657 47.619 3.22 0.00 40.78 3.02
462 468 2.348666 CCGAGGCACGTAATTTCTTCAG 59.651 50.000 3.22 0.00 40.78 3.02
558 574 3.220658 TCAGGTGTCACGTCGGCA 61.221 61.111 0.00 0.00 0.00 5.69
633 649 2.620251 TCCACGCTAGAATTCCATGG 57.380 50.000 4.97 4.97 0.00 3.66
656 672 3.449227 CACGGCTGGCGACCTAGA 61.449 66.667 30.58 0.00 0.00 2.43
657 673 2.442272 ACGGCTGGCGACCTAGAT 60.442 61.111 30.58 2.32 0.00 1.98
800 816 0.242017 GCTGCTGATTTTCCAACGCT 59.758 50.000 0.00 0.00 0.00 5.07
876 892 3.773119 TCGATCCCTATATAACAAGCCCC 59.227 47.826 0.00 0.00 0.00 5.80
910 940 2.053627 CGGCAAACAAAGCATCAGAAC 58.946 47.619 0.00 0.00 0.00 3.01
940 977 1.702299 GCACATAGACGACACACGC 59.298 57.895 0.00 0.00 46.94 5.34
970 1007 1.267582 GCTGCGGCGTATTTCTTCTTC 60.268 52.381 9.37 0.00 0.00 2.87
975 1012 2.603560 CGGCGTATTTCTTCTTCACCTC 59.396 50.000 0.00 0.00 0.00 3.85
982 1019 1.267121 TCTTCTTCACCTCCTTCCCG 58.733 55.000 0.00 0.00 0.00 5.14
1065 1102 2.594592 GTGGCGTGCCTGGTTCTT 60.595 61.111 12.84 0.00 36.94 2.52
1126 1163 4.475135 GGGAGGAAGGCGGCACTC 62.475 72.222 13.08 15.18 0.00 3.51
1201 1238 2.104331 CCGTCGAGCGCAGGTTAT 59.896 61.111 11.47 0.00 39.88 1.89
1204 1241 1.752501 CGTCGAGCGCAGGTTATTGG 61.753 60.000 11.47 0.00 39.88 3.16
1303 1340 3.454573 ATGCCACGGCTGCCATTG 61.455 61.111 20.29 14.46 42.51 2.82
1393 1432 2.626088 ACACGAGTAACGGAGTAAGC 57.374 50.000 0.00 0.00 45.00 3.09
1409 1448 5.811100 GGAGTAAGCACCATAGTTTAGTGTC 59.189 44.000 0.00 0.00 33.96 3.67
1410 1449 6.351117 GGAGTAAGCACCATAGTTTAGTGTCT 60.351 42.308 0.00 0.00 33.96 3.41
1575 3971 7.882791 TGATCCTGTTTAGTTTTTAGATGCTGA 59.117 33.333 0.00 0.00 0.00 4.26
1583 4106 8.635765 TTAGTTTTTAGATGCTGATTTCACCT 57.364 30.769 0.00 0.00 0.00 4.00
1589 4112 4.310769 AGATGCTGATTTCACCTATACGC 58.689 43.478 0.00 0.00 0.00 4.42
1599 4122 1.873591 CACCTATACGCAAAGCATCCC 59.126 52.381 0.00 0.00 0.00 3.85
1602 4125 2.146342 CTATACGCAAAGCATCCCTGG 58.854 52.381 0.00 0.00 0.00 4.45
1605 4128 2.768492 CGCAAAGCATCCCTGGCTC 61.768 63.158 0.00 0.00 41.66 4.70
1607 4130 1.382692 GCAAAGCATCCCTGGCTCTC 61.383 60.000 0.00 0.00 41.66 3.20
1609 4132 0.545646 AAAGCATCCCTGGCTCTCTC 59.454 55.000 0.00 0.00 41.66 3.20
1611 4134 0.326427 AGCATCCCTGGCTCTCTCTT 60.326 55.000 0.00 0.00 36.81 2.85
1612 4135 0.545646 GCATCCCTGGCTCTCTCTTT 59.454 55.000 0.00 0.00 0.00 2.52
1613 4136 1.064832 GCATCCCTGGCTCTCTCTTTT 60.065 52.381 0.00 0.00 0.00 2.27
1614 4137 2.620108 GCATCCCTGGCTCTCTCTTTTT 60.620 50.000 0.00 0.00 0.00 1.94
1656 4179 6.653320 CCTCGCTTTATATTATAAGGCAACCA 59.347 38.462 22.72 8.70 31.04 3.67
1700 4223 3.272334 GTCACGATCATGCCCGCC 61.272 66.667 6.50 0.00 0.00 6.13
1703 4226 3.785859 ACGATCATGCCCGCCTGT 61.786 61.111 6.50 0.00 0.00 4.00
1704 4227 2.514592 CGATCATGCCCGCCTGTT 60.515 61.111 0.00 0.00 0.00 3.16
1708 4338 3.818787 CATGCCCGCCTGTTGAGC 61.819 66.667 0.00 0.00 0.00 4.26
1712 4342 4.711949 CCCGCCTGTTGAGCAGCT 62.712 66.667 0.00 0.00 43.71 4.24
1738 4368 3.276857 CAGCTATGAGAAGCCACACATT 58.723 45.455 0.00 0.00 43.86 2.71
1765 4680 4.946784 AATAACAACAGTGGATCGAAGC 57.053 40.909 0.00 0.00 0.00 3.86
1809 4724 8.064222 CACAAGTTTAATGCGAATAGTCCATAG 58.936 37.037 0.00 0.00 0.00 2.23
1810 4725 6.787085 AGTTTAATGCGAATAGTCCATAGC 57.213 37.500 0.00 0.00 0.00 2.97
1838 4753 2.939353 GCACCCCAACCCCTACCT 60.939 66.667 0.00 0.00 0.00 3.08
1842 4757 1.711942 CACCCCAACCCCTACCTAAAA 59.288 52.381 0.00 0.00 0.00 1.52
1858 5119 7.447238 CCTACCTAAAAAGATTGAACTTCCACA 59.553 37.037 0.00 0.00 0.00 4.17
1868 5129 3.664107 TGAACTTCCACAAAGAGATCCG 58.336 45.455 0.00 0.00 38.44 4.18
1887 5148 2.355310 CCGGAAAGTTAGTATGGCACCA 60.355 50.000 0.00 0.00 0.00 4.17
1893 5154 2.770232 AGTTAGTATGGCACCACCTACC 59.230 50.000 0.00 0.00 40.22 3.18
1902 5163 0.036306 CACCACCTACCTCCCAACAC 59.964 60.000 0.00 0.00 0.00 3.32
1906 5167 0.192566 ACCTACCTCCCAACACTCCA 59.807 55.000 0.00 0.00 0.00 3.86
1942 5203 2.746277 AATTGCGCCGAGGGACAC 60.746 61.111 4.18 0.00 0.00 3.67
1977 5238 6.577103 TGTGATTTGAGTCTCCATCTACATC 58.423 40.000 0.00 0.00 0.00 3.06
1978 5239 6.155049 TGTGATTTGAGTCTCCATCTACATCA 59.845 38.462 0.00 0.00 0.00 3.07
1979 5240 6.478344 GTGATTTGAGTCTCCATCTACATCAC 59.522 42.308 0.00 0.00 0.00 3.06
1980 5241 6.155049 TGATTTGAGTCTCCATCTACATCACA 59.845 38.462 0.00 0.00 0.00 3.58
1981 5242 4.991153 TGAGTCTCCATCTACATCACAC 57.009 45.455 0.00 0.00 0.00 3.82
1982 5243 4.344104 TGAGTCTCCATCTACATCACACA 58.656 43.478 0.00 0.00 0.00 3.72
1983 5244 4.400567 TGAGTCTCCATCTACATCACACAG 59.599 45.833 0.00 0.00 0.00 3.66
1984 5245 3.703556 AGTCTCCATCTACATCACACAGG 59.296 47.826 0.00 0.00 0.00 4.00
1986 5247 2.103771 CTCCATCTACATCACACAGGGG 59.896 54.545 0.00 0.00 0.00 4.79
1987 5248 2.118679 CCATCTACATCACACAGGGGA 58.881 52.381 0.00 0.00 0.00 4.81
1988 5249 2.158900 CCATCTACATCACACAGGGGAC 60.159 54.545 0.00 0.00 0.00 4.46
1989 5250 2.319025 TCTACATCACACAGGGGACA 57.681 50.000 0.00 0.00 0.00 4.02
1990 5251 2.615391 TCTACATCACACAGGGGACAA 58.385 47.619 0.00 0.00 0.00 3.18
1992 5253 0.843309 ACATCACACAGGGGACAACA 59.157 50.000 0.00 0.00 0.00 3.33
1993 5254 1.214175 ACATCACACAGGGGACAACAA 59.786 47.619 0.00 0.00 0.00 2.83
1994 5255 1.608590 CATCACACAGGGGACAACAAC 59.391 52.381 0.00 0.00 0.00 3.32
1995 5256 0.106918 TCACACAGGGGACAACAACC 60.107 55.000 0.00 0.00 0.00 3.77
1996 5257 0.395036 CACACAGGGGACAACAACCA 60.395 55.000 0.00 0.00 0.00 3.67
1998 5259 1.063266 ACACAGGGGACAACAACCATT 60.063 47.619 0.00 0.00 0.00 3.16
2001 5262 0.114364 AGGGGACAACAACCATTCCC 59.886 55.000 0.00 0.00 46.37 3.97
2003 5264 1.248101 GGGACAACAACCATTCCCGG 61.248 60.000 0.00 0.00 38.55 5.73
2004 5265 1.248101 GGACAACAACCATTCCCGGG 61.248 60.000 16.85 16.85 0.00 5.73
2005 5266 1.873270 GACAACAACCATTCCCGGGC 61.873 60.000 18.49 0.00 0.00 6.13
2007 5268 3.897681 AACAACCATTCCCGGGCCC 62.898 63.158 18.49 13.57 0.00 5.80
2008 5269 4.374584 CAACCATTCCCGGGCCCA 62.375 66.667 24.92 1.02 0.00 5.36
2009 5270 3.355344 AACCATTCCCGGGCCCAT 61.355 61.111 24.92 4.13 0.00 4.00
2011 5272 1.585651 AACCATTCCCGGGCCCATTA 61.586 55.000 24.92 1.96 0.00 1.90
2012 5273 1.530655 CCATTCCCGGGCCCATTAC 60.531 63.158 24.92 0.00 0.00 1.89
2013 5274 1.896660 CATTCCCGGGCCCATTACG 60.897 63.158 24.92 7.03 0.00 3.18
2014 5275 3.785122 ATTCCCGGGCCCATTACGC 62.785 63.158 24.92 0.00 0.00 4.42
2017 5278 2.506962 CCGGGCCCATTACGCTTA 59.493 61.111 24.92 0.00 0.00 3.09
2112 5373 6.816140 GCTTAATCTCACAAAGAAGAGCTAGT 59.184 38.462 0.00 0.00 37.61 2.57
2115 5376 5.791336 TCTCACAAAGAAGAGCTAGTTCA 57.209 39.130 9.43 0.00 0.00 3.18
2117 5378 6.393990 TCTCACAAAGAAGAGCTAGTTCATC 58.606 40.000 9.43 6.54 0.00 2.92
2118 5379 5.482908 TCACAAAGAAGAGCTAGTTCATCC 58.517 41.667 9.43 0.00 0.00 3.51
2119 5380 4.328440 CACAAAGAAGAGCTAGTTCATCCG 59.672 45.833 9.43 1.46 0.00 4.18
2120 5381 3.810310 AAGAAGAGCTAGTTCATCCGG 57.190 47.619 9.43 0.00 0.00 5.14
2159 5543 5.707242 ATCGCTCTATAAAACGATCCAGA 57.293 39.130 0.00 0.00 41.06 3.86
2160 5544 5.109662 TCGCTCTATAAAACGATCCAGAG 57.890 43.478 0.00 0.00 34.08 3.35
2161 5545 4.023107 TCGCTCTATAAAACGATCCAGAGG 60.023 45.833 0.00 0.00 32.08 3.69
2226 5610 0.610174 CAAGGCTAGGAGTGTGCAGA 59.390 55.000 0.00 0.00 0.00 4.26
2239 5623 0.890542 GTGCAGAGCCACACATTCCA 60.891 55.000 0.00 0.00 36.77 3.53
2241 5625 0.961019 GCAGAGCCACACATTCCAAA 59.039 50.000 0.00 0.00 0.00 3.28
2260 5644 5.550403 TCCAAAAACTCCTACTATTGACCCT 59.450 40.000 0.00 0.00 0.00 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 2.172851 AATTAAACGACCACGAGGCA 57.827 45.000 0.00 0.00 42.66 4.75
180 183 3.554692 CGCGACTGGCCGAACATC 61.555 66.667 0.00 0.00 38.94 3.06
197 200 3.022287 CGTGTGTGTGGTTCAGCC 58.978 61.111 0.00 0.00 37.90 4.85
281 284 3.311511 TAGCTCCGGGGAGAAGCCA 62.312 63.158 18.75 0.00 44.53 4.75
338 342 3.047877 GGGTGCCGAAAGTGACCG 61.048 66.667 0.00 0.00 0.00 4.79
358 362 1.138247 CGTGGTACCTGCGTACTCC 59.862 63.158 14.36 0.00 43.78 3.85
460 466 5.182190 TGTCTAAACTCTGACTAGACTGCTG 59.818 44.000 0.00 0.00 41.34 4.41
461 467 5.182380 GTGTCTAAACTCTGACTAGACTGCT 59.818 44.000 0.00 0.00 41.34 4.24
462 468 5.048643 TGTGTCTAAACTCTGACTAGACTGC 60.049 44.000 0.00 9.45 41.34 4.40
558 574 3.775316 AGTGGGACTTTGAATACTCGGAT 59.225 43.478 0.00 0.00 0.00 4.18
645 661 3.759086 GTGATCTATCATCTAGGTCGCCA 59.241 47.826 0.00 0.00 39.30 5.69
655 671 4.097741 CGAGGATGGAGGTGATCTATCATC 59.902 50.000 5.99 5.99 46.99 2.92
656 672 4.022603 CGAGGATGGAGGTGATCTATCAT 58.977 47.826 0.00 0.00 45.33 2.45
657 673 3.181428 ACGAGGATGGAGGTGATCTATCA 60.181 47.826 0.00 0.00 45.33 2.15
800 816 2.510613 GGAAACTTGGAATGGTCGGAA 58.489 47.619 0.00 0.00 0.00 4.30
876 892 4.622456 GCCGTTGTGTTGTGGCCG 62.622 66.667 0.00 0.00 41.70 6.13
910 940 2.791560 GTCTATGTGCGAGCAGTATGTG 59.208 50.000 0.00 0.00 39.31 3.21
970 1007 0.109723 TTTTGACCGGGAAGGAGGTG 59.890 55.000 6.32 0.00 45.00 4.00
982 1019 4.378874 CGCCATTCTTTCTCTCTTTTGACC 60.379 45.833 0.00 0.00 0.00 4.02
1155 1192 1.662608 CGTCTGGATAGCATCGCCT 59.337 57.895 0.00 0.00 0.00 5.52
1201 1238 2.431771 CATGCCGACGTCGACCAA 60.432 61.111 37.65 19.94 43.02 3.67
1204 1241 3.248171 GAGCATGCCGACGTCGAC 61.248 66.667 37.65 28.25 43.02 4.20
1303 1340 3.839432 CGCCTCCTCCCGAGTTCC 61.839 72.222 0.00 0.00 36.82 3.62
1393 1432 9.871238 ACACTTATAAGACACTAAACTATGGTG 57.129 33.333 19.38 4.44 37.05 4.17
1409 1448 6.744537 GCACTGCAAAATCAGACACTTATAAG 59.255 38.462 11.05 11.05 37.51 1.73
1410 1449 6.206438 TGCACTGCAAAATCAGACACTTATAA 59.794 34.615 0.00 0.00 34.76 0.98
1415 1454 2.300433 TGCACTGCAAAATCAGACACT 58.700 42.857 0.00 0.00 34.76 3.55
1457 1496 6.214191 AGTGTTCCATGTCTAGTACATCTG 57.786 41.667 0.00 1.98 46.15 2.90
1575 3971 4.275936 GGATGCTTTGCGTATAGGTGAAAT 59.724 41.667 0.00 0.00 0.00 2.17
1583 4106 1.813862 GCCAGGGATGCTTTGCGTATA 60.814 52.381 0.00 0.00 0.00 1.47
1589 4112 0.255318 AGAGAGCCAGGGATGCTTTG 59.745 55.000 0.00 0.00 39.69 2.77
1612 4135 6.037726 GCGAGGGAAACTCTTTTTGTAAAAA 58.962 36.000 2.89 2.89 44.33 1.94
1613 4136 5.358725 AGCGAGGGAAACTCTTTTTGTAAAA 59.641 36.000 0.00 0.00 44.33 1.52
1614 4137 4.885325 AGCGAGGGAAACTCTTTTTGTAAA 59.115 37.500 0.00 0.00 44.33 2.01
1615 4138 4.457466 AGCGAGGGAAACTCTTTTTGTAA 58.543 39.130 0.00 0.00 44.33 2.41
1616 4139 4.081322 AGCGAGGGAAACTCTTTTTGTA 57.919 40.909 0.00 0.00 44.33 2.41
1625 4148 7.606839 GCCTTATAATATAAAGCGAGGGAAACT 59.393 37.037 0.00 0.00 0.00 2.66
1632 4155 7.360946 GGTGGTTGCCTTATAATATAAAGCGAG 60.361 40.741 8.54 0.00 0.00 5.03
1633 4156 6.428771 GGTGGTTGCCTTATAATATAAAGCGA 59.571 38.462 8.54 4.74 0.00 4.93
1656 4179 3.453679 GAGCTCTCCTTCGGCGGT 61.454 66.667 7.21 0.00 0.00 5.68
1661 4184 3.422417 TCATTAACGAGCTCTCCTTCG 57.578 47.619 12.85 0.00 0.00 3.79
1674 4197 4.319766 GGGCATGATCGTGACATCATTAAC 60.320 45.833 22.28 0.00 40.86 2.01
1676 4199 3.402110 GGGCATGATCGTGACATCATTA 58.598 45.455 22.28 0.00 40.86 1.90
1712 4342 1.908619 TGGCTTCTCATAGCTGTGGAA 59.091 47.619 10.87 11.41 40.99 3.53
1722 4352 6.403866 TTTACAAAATGTGTGGCTTCTCAT 57.596 33.333 0.00 0.00 41.89 2.90
1723 4353 5.843673 TTTACAAAATGTGTGGCTTCTCA 57.156 34.783 0.00 0.00 41.89 3.27
1724 4354 7.865385 TGTTATTTACAAAATGTGTGGCTTCTC 59.135 33.333 0.00 0.00 41.89 2.87
1765 4680 7.878477 ACTTGTGATTTAGCATGTGATTTTG 57.122 32.000 0.00 0.00 0.00 2.44
1779 4694 7.968405 GGACTATTCGCATTAAACTTGTGATTT 59.032 33.333 0.00 0.00 33.91 2.17
1838 4753 9.184523 TCTCTTTGTGGAAGTTCAATCTTTTTA 57.815 29.630 5.01 0.00 36.70 1.52
1842 4757 6.432472 GGATCTCTTTGTGGAAGTTCAATCTT 59.568 38.462 5.01 0.00 36.70 2.40
1858 5119 6.583562 CCATACTAACTTTCCGGATCTCTTT 58.416 40.000 4.15 0.00 0.00 2.52
1868 5129 3.014623 GGTGGTGCCATACTAACTTTCC 58.985 50.000 0.00 0.00 37.17 3.13
1887 5148 0.192566 TGGAGTGTTGGGAGGTAGGT 59.807 55.000 0.00 0.00 0.00 3.08
1893 5154 3.815809 TGTTTTAGTGGAGTGTTGGGAG 58.184 45.455 0.00 0.00 0.00 4.30
1902 5163 6.648879 TCCTTTGGAATTGTTTTAGTGGAG 57.351 37.500 0.00 0.00 0.00 3.86
1931 5192 2.430382 TTCTTCACGTGTCCCTCGGC 62.430 60.000 16.51 0.00 0.00 5.54
1942 5203 6.662616 AGACTCAAATCACATTTTCTTCACG 58.337 36.000 0.00 0.00 0.00 4.35
1977 5238 0.395036 TGGTTGTTGTCCCCTGTGTG 60.395 55.000 0.00 0.00 0.00 3.82
1978 5239 0.555769 ATGGTTGTTGTCCCCTGTGT 59.444 50.000 0.00 0.00 0.00 3.72
1979 5240 1.613437 GAATGGTTGTTGTCCCCTGTG 59.387 52.381 0.00 0.00 0.00 3.66
1980 5241 1.480498 GGAATGGTTGTTGTCCCCTGT 60.480 52.381 0.00 0.00 0.00 4.00
1981 5242 1.256812 GGAATGGTTGTTGTCCCCTG 58.743 55.000 0.00 0.00 0.00 4.45
1982 5243 0.114364 GGGAATGGTTGTTGTCCCCT 59.886 55.000 0.00 0.00 43.53 4.79
1983 5244 1.248101 CGGGAATGGTTGTTGTCCCC 61.248 60.000 2.02 0.00 46.12 4.81
1984 5245 1.248101 CCGGGAATGGTTGTTGTCCC 61.248 60.000 0.00 0.00 45.50 4.46
1986 5247 1.873270 GCCCGGGAATGGTTGTTGTC 61.873 60.000 29.31 0.00 0.00 3.18
1987 5248 1.906333 GCCCGGGAATGGTTGTTGT 60.906 57.895 29.31 0.00 0.00 3.32
1988 5249 2.645192 GGCCCGGGAATGGTTGTTG 61.645 63.158 29.31 0.00 0.00 3.33
1989 5250 2.283604 GGCCCGGGAATGGTTGTT 60.284 61.111 29.31 0.00 0.00 2.83
1990 5251 4.376170 GGGCCCGGGAATGGTTGT 62.376 66.667 29.31 0.00 0.00 3.32
1992 5253 1.585651 TAATGGGCCCGGGAATGGTT 61.586 55.000 29.31 14.00 0.00 3.67
1993 5254 2.009882 TAATGGGCCCGGGAATGGT 61.010 57.895 29.31 8.32 0.00 3.55
1994 5255 1.530655 GTAATGGGCCCGGGAATGG 60.531 63.158 29.31 0.00 0.00 3.16
1995 5256 1.896660 CGTAATGGGCCCGGGAATG 60.897 63.158 29.31 4.06 0.00 2.67
1996 5257 2.513895 CGTAATGGGCCCGGGAAT 59.486 61.111 29.31 11.76 0.00 3.01
2001 5262 2.241880 CGTAAGCGTAATGGGCCCG 61.242 63.158 19.37 5.50 0.00 6.13
2012 5273 0.027324 GGAGTCGAGGTACGTAAGCG 59.973 60.000 0.00 1.53 43.13 4.68
2013 5274 0.380024 GGGAGTCGAGGTACGTAAGC 59.620 60.000 0.00 0.00 43.13 3.09
2014 5275 0.654683 CGGGAGTCGAGGTACGTAAG 59.345 60.000 0.00 0.00 42.43 2.34
2017 5278 2.665000 TCGGGAGTCGAGGTACGT 59.335 61.111 0.00 0.00 43.74 3.57
2093 5354 5.791336 TGAACTAGCTCTTCTTTGTGAGA 57.209 39.130 0.00 0.00 32.44 3.27
2097 5358 4.499183 CGGATGAACTAGCTCTTCTTTGT 58.501 43.478 8.45 0.00 0.00 2.83
2151 5535 1.407258 GGACACTTCTCCTCTGGATCG 59.593 57.143 0.00 0.00 0.00 3.69
2159 5543 4.678256 TGAATCTAGTGGACACTTCTCCT 58.322 43.478 10.57 0.00 42.54 3.69
2160 5544 5.407407 TTGAATCTAGTGGACACTTCTCC 57.593 43.478 10.57 0.00 42.54 3.71
2161 5545 5.046950 ACCTTGAATCTAGTGGACACTTCTC 60.047 44.000 10.57 3.64 42.54 2.87
2202 5586 1.066573 CACACTCCTAGCCTTGTCCAG 60.067 57.143 0.00 0.00 0.00 3.86
2226 5610 2.365293 GGAGTTTTTGGAATGTGTGGCT 59.635 45.455 0.00 0.00 0.00 4.75
2239 5623 5.014228 AGCAGGGTCAATAGTAGGAGTTTTT 59.986 40.000 0.00 0.00 0.00 1.94
2241 5625 4.104831 AGCAGGGTCAATAGTAGGAGTTT 58.895 43.478 0.00 0.00 0.00 2.66


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

AutoCloner maintained by Alex Coulton.