Multiple sequence alignment - TraesCS1D01G028500

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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 TraesCS1D01G028500 chr1D 100.000 2255 0 0 1 2255 11207328 11205074 0.000000e+00 4165
1 TraesCS1D01G028500 chr1D 87.112 1288 136 24 188 1460 11098405 11097133 0.000000e+00 1432
2 TraesCS1D01G028500 chr1D 86.957 1288 137 25 188 1460 11050868 11049597 0.000000e+00 1419
3 TraesCS1D01G028500 chr1D 86.879 1288 139 24 188 1460 11013071 11011799 0.000000e+00 1415
4 TraesCS1D01G028500 chr1D 84.151 1508 171 40 1 1460 11133069 11131582 0.000000e+00 1399
5 TraesCS1D01G028500 chr1D 85.345 1317 132 21 188 1473 11136917 11135631 0.000000e+00 1306
6 TraesCS1D01G028500 chr1D 81.653 714 104 19 1554 2255 11049375 11048677 3.250000e-158 568
7 TraesCS1D01G028500 chr1D 81.513 714 105 19 1554 2255 11011577 11010879 1.510000e-156 562
8 TraesCS1D01G028500 chr1D 81.373 714 106 19 1554 2255 11096911 11096213 7.040000e-155 556
9 TraesCS1D01G028500 chr1B 91.359 1736 122 18 536 2255 17287753 17289476 0.000000e+00 2350
10 TraesCS1D01G028500 chr1B 85.463 1307 139 22 188 1460 16503367 16502078 0.000000e+00 1314
11 TraesCS1D01G028500 chr1B 85.194 1290 153 30 190 1460 16659348 16658078 0.000000e+00 1290
12 TraesCS1D01G028500 chr1B 84.894 1324 135 24 188 1473 16507324 16506028 0.000000e+00 1277
13 TraesCS1D01G028500 chr1B 89.160 821 76 12 536 1351 16668905 16668093 0.000000e+00 1011
14 TraesCS1D01G028500 chr1B 93.277 595 37 2 1487 2079 16820898 16820305 0.000000e+00 874
15 TraesCS1D01G028500 chr1A 86.898 1267 140 16 188 1440 22626376 22627630 0.000000e+00 1397
16 TraesCS1D01G028500 chr1A 81.125 551 77 16 1717 2255 22628146 22628681 1.250000e-112 416
17 TraesCS1D01G028500 chr1A 86.364 132 13 4 1535 1663 22627875 22628004 3.020000e-29 139
18 TraesCS1D01G028500 chrUn 86.232 1242 140 23 188 1415 159664 158440 0.000000e+00 1317
19 TraesCS1D01G028500 chrUn 81.016 748 108 26 1523 2255 158228 157500 4.200000e-157 564


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 TraesCS1D01G028500 chr1D 11205074 11207328 2254 True 4165.000000 4165 100.000000 1 2255 1 chr1D.!!$R1 2254
1 TraesCS1D01G028500 chr1D 11131582 11136917 5335 True 1352.500000 1399 84.748000 1 1473 2 chr1D.!!$R5 1472
2 TraesCS1D01G028500 chr1D 11096213 11098405 2192 True 994.000000 1432 84.242500 188 2255 2 chr1D.!!$R4 2067
3 TraesCS1D01G028500 chr1D 11048677 11050868 2191 True 993.500000 1419 84.305000 188 2255 2 chr1D.!!$R3 2067
4 TraesCS1D01G028500 chr1D 11010879 11013071 2192 True 988.500000 1415 84.196000 188 2255 2 chr1D.!!$R2 2067
5 TraesCS1D01G028500 chr1B 17287753 17289476 1723 False 2350.000000 2350 91.359000 536 2255 1 chr1B.!!$F1 1719
6 TraesCS1D01G028500 chr1B 16502078 16507324 5246 True 1295.500000 1314 85.178500 188 1473 2 chr1B.!!$R4 1285
7 TraesCS1D01G028500 chr1B 16658078 16659348 1270 True 1290.000000 1290 85.194000 190 1460 1 chr1B.!!$R1 1270
8 TraesCS1D01G028500 chr1B 16668093 16668905 812 True 1011.000000 1011 89.160000 536 1351 1 chr1B.!!$R2 815
9 TraesCS1D01G028500 chr1B 16820305 16820898 593 True 874.000000 874 93.277000 1487 2079 1 chr1B.!!$R3 592
10 TraesCS1D01G028500 chr1A 22626376 22628681 2305 False 650.666667 1397 84.795667 188 2255 3 chr1A.!!$F1 2067
11 TraesCS1D01G028500 chrUn 157500 159664 2164 True 940.500000 1317 83.624000 188 2255 2 chrUn.!!$R1 2067

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
580 4474 1.555075 AGTGCACGTGTAATCCAGGAT 59.445 47.619 18.38 0.0 33.18 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1713 6035 0.678048 ATGGAGGCCAACTTCTTCGC 60.678 55.0 5.01 0.0 36.95 4.7 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
74 3923 9.801873 TTAAACGTAGTCCCTATTAACATACAC 57.198 33.333 0.00 0.00 45.00 2.90
97 3946 7.540745 ACACGTAACTTAAATTTGAATCATGCC 59.459 33.333 0.00 0.00 0.00 4.40
98 3947 7.540400 CACGTAACTTAAATTTGAATCATGCCA 59.460 33.333 0.00 0.00 0.00 4.92
99 3948 8.085296 ACGTAACTTAAATTTGAATCATGCCAA 58.915 29.630 0.00 0.00 0.00 4.52
229 4107 4.699925 TTGGAAGCTAGTACACAAGGTT 57.300 40.909 6.95 6.95 36.21 3.50
233 4111 4.895961 GAAGCTAGTACACAAGGTTCCTT 58.104 43.478 17.31 0.00 41.93 3.36
238 4116 4.073293 AGTACACAAGGTTCCTTCACTG 57.927 45.455 0.60 1.00 0.00 3.66
304 4183 7.994911 AGATAGAACATGCAGATATTTTGGTGA 59.005 33.333 0.00 0.00 0.00 4.02
311 4190 6.494893 TGCAGATATTTTGGTGAACACTAC 57.505 37.500 4.96 0.00 0.00 2.73
332 4211 5.099042 ACTGTGAAAGGAAGTTGTAGTGT 57.901 39.130 0.00 0.00 0.00 3.55
348 4227 7.778382 AGTTGTAGTGTAAACTTGAAGGGAAAT 59.222 33.333 0.00 0.00 32.75 2.17
379 4261 3.855689 AATGTATTGTGGAGTGCAAGC 57.144 42.857 0.00 0.00 0.00 4.01
385 4270 4.708726 ATTGTGGAGTGCAAGCTTATTC 57.291 40.909 0.00 0.00 0.00 1.75
397 4282 4.333926 GCAAGCTTATTCTTGGTGGAGTAG 59.666 45.833 0.00 0.00 42.68 2.57
399 4284 5.346181 AGCTTATTCTTGGTGGAGTAGAC 57.654 43.478 0.00 0.00 0.00 2.59
422 4307 4.456911 CACTTCTTAGCTTGCCTTGAATGA 59.543 41.667 0.00 0.00 0.00 2.57
423 4308 5.048504 CACTTCTTAGCTTGCCTTGAATGAA 60.049 40.000 0.00 0.00 0.00 2.57
434 4319 4.110482 GCCTTGAATGAAATGATGCAGAC 58.890 43.478 0.00 0.00 0.00 3.51
437 4322 5.336134 CCTTGAATGAAATGATGCAGACACA 60.336 40.000 0.00 0.00 0.00 3.72
438 4323 5.708877 TGAATGAAATGATGCAGACACAA 57.291 34.783 0.00 0.00 0.00 3.33
439 4324 5.705902 TGAATGAAATGATGCAGACACAAG 58.294 37.500 0.00 0.00 0.00 3.16
440 4325 5.242171 TGAATGAAATGATGCAGACACAAGT 59.758 36.000 0.00 0.00 0.00 3.16
441 4326 6.430616 TGAATGAAATGATGCAGACACAAGTA 59.569 34.615 0.00 0.00 0.00 2.24
443 4328 6.000891 TGAAATGATGCAGACACAAGTAAC 57.999 37.500 0.00 0.00 0.00 2.50
444 4329 4.668576 AATGATGCAGACACAAGTAACG 57.331 40.909 0.00 0.00 0.00 3.18
448 4333 2.198406 TGCAGACACAAGTAACGACAC 58.802 47.619 0.00 0.00 0.00 3.67
449 4334 2.198406 GCAGACACAAGTAACGACACA 58.802 47.619 0.00 0.00 0.00 3.72
450 4335 2.218759 GCAGACACAAGTAACGACACAG 59.781 50.000 0.00 0.00 0.00 3.66
451 4336 3.702330 CAGACACAAGTAACGACACAGA 58.298 45.455 0.00 0.00 0.00 3.41
453 4338 4.565166 CAGACACAAGTAACGACACAGAAA 59.435 41.667 0.00 0.00 0.00 2.52
454 4339 4.804139 AGACACAAGTAACGACACAGAAAG 59.196 41.667 0.00 0.00 0.00 2.62
463 4348 8.295569 AGTAACGACACAGAAAGTTCTTTATC 57.704 34.615 0.00 0.00 34.74 1.75
465 4350 5.607477 ACGACACAGAAAGTTCTTTATCCA 58.393 37.500 0.00 0.00 34.74 3.41
467 4352 6.202954 ACGACACAGAAAGTTCTTTATCCAAG 59.797 38.462 0.00 0.00 34.74 3.61
485 4370 7.929941 ATCCAAGAAAAAGTTCTCTATCCAC 57.070 36.000 0.00 0.00 43.59 4.02
488 4377 7.661847 TCCAAGAAAAAGTTCTCTATCCACTTC 59.338 37.037 0.00 0.00 43.59 3.01
490 4379 9.007901 CAAGAAAAAGTTCTCTATCCACTTCAT 57.992 33.333 0.00 0.00 43.59 2.57
508 4397 5.874810 ACTTCATTTATATGCAGTGTCGTGT 59.125 36.000 0.00 0.00 36.96 4.49
509 4398 6.371548 ACTTCATTTATATGCAGTGTCGTGTT 59.628 34.615 0.00 0.00 36.96 3.32
510 4399 6.105657 TCATTTATATGCAGTGTCGTGTTG 57.894 37.500 0.00 0.00 0.00 3.33
551 4441 3.205338 CGGGCATGTGATGATTCTTGTA 58.795 45.455 0.00 0.00 0.00 2.41
557 4447 7.201812 GGGCATGTGATGATTCTTGTATTGTTA 60.202 37.037 0.00 0.00 0.00 2.41
564 4454 6.182039 TGATTCTTGTATTGTTAGCAGTGC 57.818 37.500 7.13 7.13 0.00 4.40
580 4474 1.555075 AGTGCACGTGTAATCCAGGAT 59.445 47.619 18.38 0.00 33.18 3.24
583 4477 2.170397 TGCACGTGTAATCCAGGATCAT 59.830 45.455 18.38 0.00 33.18 2.45
630 4524 2.229792 GTGCAAGAGTTCATTCACCCA 58.770 47.619 0.00 0.00 0.00 4.51
661 4556 5.592054 TCGAGGTAGATAAGCATCACTTTG 58.408 41.667 0.00 0.00 39.97 2.77
666 4561 6.375455 AGGTAGATAAGCATCACTTTGTTTGG 59.625 38.462 0.00 0.00 39.97 3.28
703 4598 8.000435 GCACGTAATACTAACTTAATAAAGCCG 59.000 37.037 0.00 0.00 36.05 5.52
718 4613 9.793259 TTAATAAAGCCGAATTGGATATCTTCT 57.207 29.630 2.05 0.00 42.00 2.85
723 4618 5.762218 AGCCGAATTGGATATCTTCTTTCAG 59.238 40.000 2.05 0.00 42.00 3.02
724 4619 5.529060 GCCGAATTGGATATCTTCTTTCAGT 59.471 40.000 2.05 0.00 42.00 3.41
727 4622 7.042187 CCGAATTGGATATCTTCTTTCAGTCTG 60.042 40.741 2.05 0.00 42.00 3.51
751 4646 2.174210 ACCATCCATGTGAAGCTAGCAT 59.826 45.455 18.83 4.30 0.00 3.79
760 4655 3.452264 TGTGAAGCTAGCATGGAGTACAT 59.548 43.478 18.83 0.00 41.57 2.29
827 4746 5.877012 CGAGCCTGATTGCCTATAAATACAT 59.123 40.000 0.00 0.00 0.00 2.29
899 4818 7.009631 CGATTTAATCAGTCTCACAGGTTAGTG 59.990 40.741 5.76 0.00 40.85 2.74
911 4830 4.274705 CACAGGTTAGTGTGTGCATGTTTA 59.725 41.667 0.00 0.00 42.52 2.01
950 4870 4.973168 AGTTCTCTGCAGGTGATTTTGTA 58.027 39.130 15.13 0.00 0.00 2.41
993 4916 3.052455 TCATCAAAGGAAGCAAGCGTA 57.948 42.857 0.00 0.00 0.00 4.42
1042 4965 0.543749 GGAGGGAGGGAACACTGATG 59.456 60.000 0.00 0.00 0.00 3.07
1046 4969 1.028868 GGAGGGAACACTGATGCTGC 61.029 60.000 0.00 0.00 0.00 5.25
1048 4971 0.035630 AGGGAACACTGATGCTGCTC 60.036 55.000 0.00 0.00 0.00 4.26
1058 4981 1.015109 GATGCTGCTCACCATCACAG 58.985 55.000 0.00 0.00 38.15 3.66
1109 5032 3.775654 GTCGGTGGAGGAGGCCAG 61.776 72.222 5.01 0.00 38.95 4.85
1159 5082 0.249489 GCGGATCATAGTTCTGCCGT 60.249 55.000 0.00 0.00 39.16 5.68
1215 5138 0.389948 GTGTCCGCCTCTTTGTCGAT 60.390 55.000 0.00 0.00 0.00 3.59
1239 5162 0.105760 TCAACACCATTGCCCAGGTT 60.106 50.000 0.00 0.00 35.52 3.50
1298 5230 1.599071 CTGGCGTACATGTATTGCAGG 59.401 52.381 25.20 16.67 34.63 4.85
1314 5246 5.682234 TTGCAGGTTGATCATCTCTTCTA 57.318 39.130 0.00 0.00 0.00 2.10
1402 5339 9.872684 AATGGATAATGGAATAAATCACAGAGT 57.127 29.630 0.00 0.00 0.00 3.24
1404 5341 8.274322 TGGATAATGGAATAAATCACAGAGTGT 58.726 33.333 0.00 0.00 34.79 3.55
1524 5691 8.833231 AACACCATATACTACATATGTTCAGC 57.167 34.615 14.77 0.00 31.77 4.26
1713 6035 6.589907 AGCGTTCCCAAAGCAAAAATAATTAG 59.410 34.615 0.00 0.00 0.00 1.73
1775 6097 1.218316 CGTAGGGTGTGGGCTCTTC 59.782 63.158 0.00 0.00 0.00 2.87
1794 6117 1.626825 TCGGTCCCTACTCCAAAAAGG 59.373 52.381 0.00 0.00 39.47 3.11
1795 6118 1.350019 CGGTCCCTACTCCAAAAAGGT 59.650 52.381 0.00 0.00 39.02 3.50
1832 6161 2.625790 GTGCCACCATTACTGGAAACAA 59.374 45.455 6.05 0.00 46.37 2.83
1833 6162 2.625790 TGCCACCATTACTGGAAACAAC 59.374 45.455 6.05 0.00 46.37 3.32
1834 6163 2.625790 GCCACCATTACTGGAAACAACA 59.374 45.455 6.05 0.00 46.37 3.33
1837 6166 3.634448 CACCATTACTGGAAACAACACCA 59.366 43.478 6.05 0.00 46.37 4.17
1841 6170 1.604604 ACTGGAAACAACACCATCGG 58.395 50.000 0.00 0.00 42.06 4.18
1865 6194 7.921214 CGGCTCAAGTATTTCACTTAGAGAATA 59.079 37.037 14.92 0.00 46.04 1.75
1907 6236 0.107654 CCATGGGGAAGTTCCGACTC 60.108 60.000 15.80 6.10 37.43 3.36
1930 6259 0.988832 TTACCACTGATGTGTCCCCC 59.011 55.000 0.00 0.00 42.34 5.40
2057 6395 5.008712 GTCGACTCAAAGTTTTCTCCCAAAT 59.991 40.000 8.70 0.00 0.00 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
74 3923 8.459521 TTGGCATGATTCAAATTTAAGTTACG 57.540 30.769 0.00 0.00 0.00 3.18
119 3968 9.866655 TGGCATAGTTAGGAAATTTATCTGAAT 57.133 29.630 0.00 0.00 0.00 2.57
121 3970 9.866655 AATGGCATAGTTAGGAAATTTATCTGA 57.133 29.630 0.00 0.00 0.00 3.27
229 4107 4.531854 TGTTTGAAACATCCAGTGAAGGA 58.468 39.130 6.66 0.00 43.01 3.36
286 4165 5.957798 AGTGTTCACCAAAATATCTGCATG 58.042 37.500 0.00 0.00 0.00 4.06
290 4169 7.387673 TCACAGTAGTGTTCACCAAAATATCTG 59.612 37.037 0.00 0.00 46.01 2.90
304 4183 5.497474 ACAACTTCCTTTCACAGTAGTGTT 58.503 37.500 0.00 0.00 46.01 3.32
311 4190 7.280205 AGTTTACACTACAACTTCCTTTCACAG 59.720 37.037 0.00 0.00 28.27 3.66
356 4235 5.476599 AGCTTGCACTCCACAATACATTTTA 59.523 36.000 0.00 0.00 0.00 1.52
361 4240 2.566833 AGCTTGCACTCCACAATACA 57.433 45.000 0.00 0.00 0.00 2.29
362 4241 5.355350 AGAATAAGCTTGCACTCCACAATAC 59.645 40.000 9.86 0.00 0.00 1.89
375 4257 5.582665 GTCTACTCCACCAAGAATAAGCTTG 59.417 44.000 9.86 0.00 43.74 4.01
379 4261 6.287589 AGTGTCTACTCCACCAAGAATAAG 57.712 41.667 0.00 0.00 33.20 1.73
385 4270 4.608948 AAGAAGTGTCTACTCCACCAAG 57.391 45.455 0.00 0.00 35.69 3.61
397 4282 3.403038 TCAAGGCAAGCTAAGAAGTGTC 58.597 45.455 0.00 0.00 0.00 3.67
399 4284 4.456911 TCATTCAAGGCAAGCTAAGAAGTG 59.543 41.667 0.00 0.00 0.00 3.16
422 4307 4.754618 TCGTTACTTGTGTCTGCATCATTT 59.245 37.500 0.00 0.00 0.00 2.32
423 4308 4.152402 GTCGTTACTTGTGTCTGCATCATT 59.848 41.667 0.00 0.00 0.00 2.57
434 4319 5.291128 AGAACTTTCTGTGTCGTTACTTGTG 59.709 40.000 0.00 0.00 35.89 3.33
437 4322 6.980051 AAAGAACTTTCTGTGTCGTTACTT 57.020 33.333 0.00 0.00 37.65 2.24
438 4323 7.384387 GGATAAAGAACTTTCTGTGTCGTTACT 59.616 37.037 2.99 0.00 34.52 2.24
439 4324 7.170320 TGGATAAAGAACTTTCTGTGTCGTTAC 59.830 37.037 2.99 0.00 34.52 2.50
440 4325 7.211573 TGGATAAAGAACTTTCTGTGTCGTTA 58.788 34.615 2.99 0.00 34.52 3.18
441 4326 6.053005 TGGATAAAGAACTTTCTGTGTCGTT 58.947 36.000 2.99 0.00 34.52 3.85
443 4328 6.423905 TCTTGGATAAAGAACTTTCTGTGTCG 59.576 38.462 2.99 0.00 42.09 4.35
444 4329 7.730364 TCTTGGATAAAGAACTTTCTGTGTC 57.270 36.000 2.99 0.00 42.09 3.67
463 4348 7.445402 TGAAGTGGATAGAGAACTTTTTCTTGG 59.555 37.037 0.00 0.00 42.53 3.61
465 4350 9.579932 AATGAAGTGGATAGAGAACTTTTTCTT 57.420 29.630 0.00 0.00 42.53 2.52
485 4370 6.349973 ACACGACACTGCATATAAATGAAG 57.650 37.500 0.00 0.00 43.66 3.02
488 4377 5.868257 ACAACACGACACTGCATATAAATG 58.132 37.500 0.00 0.00 36.09 2.32
490 4379 5.699001 AGAACAACACGACACTGCATATAAA 59.301 36.000 0.00 0.00 0.00 1.40
493 4382 3.664107 AGAACAACACGACACTGCATAT 58.336 40.909 0.00 0.00 0.00 1.78
528 4418 0.548031 AGAATCATCACATGCCCGGT 59.452 50.000 0.00 0.00 0.00 5.28
551 4441 1.593196 ACACGTGCACTGCTAACAAT 58.407 45.000 17.22 0.00 0.00 2.71
557 4447 0.034756 TGGATTACACGTGCACTGCT 59.965 50.000 17.22 0.00 0.00 4.24
564 4454 4.058721 TCATGATCCTGGATTACACGTG 57.941 45.455 15.48 15.48 0.00 4.49
580 4474 6.251255 TCATGGAAGGTTGTCATATCATGA 57.749 37.500 0.00 0.00 37.84 3.07
583 4477 4.823442 GCATCATGGAAGGTTGTCATATCA 59.177 41.667 0.00 0.00 0.00 2.15
618 4512 3.426695 CGAGCAGAAATGGGTGAATGAAC 60.427 47.826 0.00 0.00 0.00 3.18
630 4524 4.342378 TGCTTATCTACCTCGAGCAGAAAT 59.658 41.667 16.14 6.41 38.33 2.17
661 4556 0.584876 GTGCCTACACGTCACCAAAC 59.415 55.000 0.00 0.00 36.98 2.93
689 4584 9.574516 AGATATCCAATTCGGCTTTATTAAGTT 57.425 29.630 0.00 0.00 33.74 2.66
690 4585 9.574516 AAGATATCCAATTCGGCTTTATTAAGT 57.425 29.630 0.00 0.00 33.74 2.24
693 4588 9.793259 AAGAAGATATCCAATTCGGCTTTATTA 57.207 29.630 0.00 0.00 33.14 0.98
703 4598 7.255070 GGCAGACTGAAAGAAGATATCCAATTC 60.255 40.741 6.65 0.00 37.43 2.17
707 4602 4.471025 TGGCAGACTGAAAGAAGATATCCA 59.529 41.667 6.65 0.00 37.43 3.41
718 4613 0.770499 TGGATGGTGGCAGACTGAAA 59.230 50.000 6.65 0.00 0.00 2.69
723 4618 0.035152 TCACATGGATGGTGGCAGAC 60.035 55.000 0.00 0.00 36.90 3.51
724 4619 0.697658 TTCACATGGATGGTGGCAGA 59.302 50.000 0.00 0.00 36.90 4.26
727 4622 0.682209 AGCTTCACATGGATGGTGGC 60.682 55.000 0.00 0.00 36.90 5.01
751 4646 5.909621 AAGTAAGCTAACGATGTACTCCA 57.090 39.130 0.00 0.00 0.00 3.86
760 4655 3.246699 GTGCACACAAAGTAAGCTAACGA 59.753 43.478 13.17 0.00 0.00 3.85
787 4705 3.060602 GGCTCGACTCCTTATAATGTGC 58.939 50.000 0.00 0.00 0.00 4.57
827 4746 7.619965 TGAACTGTCATGTCATCAACCTAATA 58.380 34.615 0.00 0.00 0.00 0.98
832 4751 4.275689 TGTTGAACTGTCATGTCATCAACC 59.724 41.667 24.06 13.89 43.57 3.77
834 4753 5.999600 AGATGTTGAACTGTCATGTCATCAA 59.000 36.000 5.29 5.29 38.17 2.57
838 4757 4.751600 GTGAGATGTTGAACTGTCATGTCA 59.248 41.667 0.00 3.81 38.75 3.58
932 4852 4.696877 TGTCATACAAAATCACCTGCAGAG 59.303 41.667 17.39 8.04 0.00 3.35
974 4897 3.058293 TGTTACGCTTGCTTCCTTTGATG 60.058 43.478 0.00 0.00 0.00 3.07
993 4916 3.071023 TCTTCACGGAACTCATCCTTGTT 59.929 43.478 1.56 0.00 45.43 2.83
1012 4935 1.268283 CCTCCCTCCGGCTTCTTCTT 61.268 60.000 0.00 0.00 0.00 2.52
1042 4965 3.185155 GCTGTGATGGTGAGCAGC 58.815 61.111 0.00 0.00 45.70 5.25
1046 4969 1.277273 TCTTCTGGCTGTGATGGTGAG 59.723 52.381 0.00 0.00 0.00 3.51
1048 4971 1.446907 GTCTTCTGGCTGTGATGGTG 58.553 55.000 0.00 0.00 0.00 4.17
1058 4981 2.435059 GCCACTCCGTCTTCTGGC 60.435 66.667 0.00 0.00 42.41 4.85
1109 5032 2.238521 TGTCCTGCAAAATCACCTTCC 58.761 47.619 0.00 0.00 0.00 3.46
1147 5070 0.252197 GTCCCCAACGGCAGAACTAT 59.748 55.000 0.00 0.00 0.00 2.12
1159 5082 2.246469 CATGGTCACAATTGTCCCCAA 58.754 47.619 22.93 11.45 31.20 4.12
1215 5138 1.702401 TGGGCAATGGTGTTGAGTCTA 59.298 47.619 0.00 0.00 0.00 2.59
1239 5162 3.916438 TTGCTAGCCGACCCTGGGA 62.916 63.158 22.23 0.00 0.00 4.37
1274 5197 3.118920 TGCAATACATGTACGCCAGTAGT 60.119 43.478 20.71 0.00 32.77 2.73
1277 5200 2.279741 CTGCAATACATGTACGCCAGT 58.720 47.619 20.71 0.00 0.00 4.00
1298 5230 8.965819 TGCTATATCCTAGAAGAGATGATCAAC 58.034 37.037 0.00 0.00 0.00 3.18
1356 5292 5.394443 CCATTAACATACCATGCAGCAACTT 60.394 40.000 0.00 0.00 0.00 2.66
1430 5474 2.031157 ACTAATTGAACGCAAGCACACC 60.031 45.455 0.00 0.00 45.62 4.16
1524 5691 7.519002 CACTTCGTGGAGTTTCCTAAATAAAG 58.481 38.462 0.00 0.00 37.46 1.85
1713 6035 0.678048 ATGGAGGCCAACTTCTTCGC 60.678 55.000 5.01 0.00 36.95 4.70
1775 6097 1.350019 ACCTTTTTGGAGTAGGGACCG 59.650 52.381 0.00 0.00 39.71 4.79
1794 6117 2.084546 GCACCCACAGGTCTCATTTAC 58.915 52.381 0.00 0.00 46.45 2.01
1795 6118 1.004277 GGCACCCACAGGTCTCATTTA 59.996 52.381 0.00 0.00 46.45 1.40
1832 6161 3.270877 GAAATACTTGAGCCGATGGTGT 58.729 45.455 0.00 0.00 0.00 4.16
1833 6162 3.063997 GTGAAATACTTGAGCCGATGGTG 59.936 47.826 0.00 0.00 0.00 4.17
1834 6163 3.055094 AGTGAAATACTTGAGCCGATGGT 60.055 43.478 0.00 0.00 35.67 3.55
1865 6194 1.028330 CATTGAGGCGGTGATGTGCT 61.028 55.000 0.00 0.00 0.00 4.40
1930 6259 8.694540 TCTTGGATAATGGTCATTTGTATTTGG 58.305 33.333 1.28 0.00 32.50 3.28
2057 6395 3.698539 TCATTGGACAGAAGTTGCAACAA 59.301 39.130 30.11 14.01 0.00 2.83
2107 6445 5.931441 ATCAAATATAGCTTTGTCTCGGC 57.069 39.130 0.00 0.00 37.39 5.54


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

AutoCloner maintained by Alex Coulton.