Multiple sequence alignment - TraesCS3A01G159200

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 TraesCS3A01G159200 chr3A 100.000 5818 0 0 1 5818 158466697 158472514 0.000000e+00 10744.0
1 TraesCS3A01G159200 chr3A 87.111 450 46 6 236 683 158458824 158459263 3.130000e-137 499.0
2 TraesCS3A01G159200 chr3A 91.324 219 16 3 3 220 158458455 158458671 4.410000e-76 296.0
3 TraesCS3A01G159200 chr3A 90.667 150 11 3 5339 5487 558092759 558092612 4.600000e-46 196.0
4 TraesCS3A01G159200 chr3A 91.429 140 12 0 5340 5479 697062079 697061940 5.950000e-45 193.0
5 TraesCS3A01G159200 chr3D 95.774 5419 136 32 3 5363 140765092 140770475 0.000000e+00 8652.0
6 TraesCS3A01G159200 chr3D 86.801 447 46 7 242 687 140720869 140721303 2.440000e-133 486.0
7 TraesCS3A01G159200 chr3D 91.691 337 21 3 5482 5818 140773905 140774234 1.480000e-125 460.0
8 TraesCS3A01G159200 chr3D 78.517 526 72 23 415 914 140718942 140719452 2.040000e-79 307.0
9 TraesCS3A01G159200 chr3D 79.503 322 54 7 5495 5815 140774232 140774542 9.820000e-53 219.0
10 TraesCS3A01G159200 chr3D 89.474 57 6 0 5289 5345 482487853 482487909 8.090000e-09 73.1
11 TraesCS3A01G159200 chr3B 96.817 3236 49 19 2207 5389 202575696 202578930 0.000000e+00 5356.0
12 TraesCS3A01G159200 chr3B 93.209 2032 75 23 236 2227 202573671 202575679 0.000000e+00 2929.0
13 TraesCS3A01G159200 chr3B 94.118 340 15 2 5479 5818 202579185 202579519 4.020000e-141 512.0
14 TraesCS3A01G159200 chr3B 87.327 434 44 6 242 674 202541700 202542123 2.440000e-133 486.0
15 TraesCS3A01G159200 chr3B 89.593 221 18 5 3 220 202541325 202541543 5.740000e-70 276.0
16 TraesCS3A01G159200 chr3B 77.843 510 67 17 433 912 202571666 202572159 2.070000e-69 274.0
17 TraesCS3A01G159200 chr3B 79.938 324 55 5 5495 5815 202579517 202579833 4.530000e-56 230.0
18 TraesCS3A01G159200 chr3B 97.692 130 3 0 5357 5486 202578929 202579058 2.110000e-54 224.0
19 TraesCS3A01G159200 chr3B 75.379 528 89 20 415 913 202539655 202540170 3.530000e-52 217.0
20 TraesCS3A01G159200 chr3B 85.780 218 15 7 3 220 202573318 202573519 3.530000e-52 217.0
21 TraesCS3A01G159200 chr5B 91.946 149 12 0 5339 5487 283999637 283999785 5.910000e-50 209.0
22 TraesCS3A01G159200 chrUn 90.604 149 14 0 5340 5488 39189562 39189414 1.280000e-46 198.0
23 TraesCS3A01G159200 chrUn 95.745 47 2 0 5482 5528 395359722 395359768 6.250000e-10 76.8
24 TraesCS3A01G159200 chr6B 89.933 149 15 0 5340 5488 121791713 121791565 5.950000e-45 193.0
25 TraesCS3A01G159200 chr6B 87.500 64 6 2 2114 2176 577617812 577617874 8.090000e-09 73.1
26 TraesCS3A01G159200 chr4B 90.345 145 14 0 5341 5485 377940417 377940273 2.140000e-44 191.0
27 TraesCS3A01G159200 chr4B 92.453 53 4 0 5549 5601 364769207 364769259 6.250000e-10 76.8
28 TraesCS3A01G159200 chr4B 80.189 106 14 6 2110 2212 214006296 214006397 8.090000e-09 73.1
29 TraesCS3A01G159200 chr4B 79.000 100 19 2 2114 2212 97763860 97763762 3.760000e-07 67.6
30 TraesCS3A01G159200 chr2A 89.726 146 15 0 5342 5487 62713021 62712876 2.770000e-43 187.0
31 TraesCS3A01G159200 chr2A 88.136 59 7 0 5288 5346 651136555 651136497 2.910000e-08 71.3
32 TraesCS3A01G159200 chr4A 87.742 155 17 2 5341 5493 76010710 76010556 4.630000e-41 180.0
33 TraesCS3A01G159200 chr4A 97.872 47 1 0 5482 5528 146101836 146101882 1.340000e-11 82.4
34 TraesCS3A01G159200 chr1B 82.000 100 16 2 2114 2212 649050820 649050918 3.740000e-12 84.2
35 TraesCS3A01G159200 chr1B 90.741 54 5 0 5289 5342 414159109 414159056 8.090000e-09 73.1
36 TraesCS3A01G159200 chr7D 92.453 53 4 0 5549 5601 185609740 185609792 6.250000e-10 76.8
37 TraesCS3A01G159200 chr6A 95.745 47 2 0 5482 5528 69083043 69082997 6.250000e-10 76.8
38 TraesCS3A01G159200 chr4D 92.453 53 4 0 5549 5601 218150922 218150974 6.250000e-10 76.8
39 TraesCS3A01G159200 chr4D 95.745 47 2 0 5555 5601 218239733 218239687 6.250000e-10 76.8
40 TraesCS3A01G159200 chr1D 95.745 47 2 0 5482 5528 5246619 5246665 6.250000e-10 76.8
41 TraesCS3A01G159200 chr1D 92.453 53 4 0 5549 5601 97651492 97651544 6.250000e-10 76.8
42 TraesCS3A01G159200 chr1D 80.000 100 18 2 2114 2212 469216510 469216608 8.090000e-09 73.1
43 TraesCS3A01G159200 chr1A 95.745 47 2 0 5482 5528 331711008 331711054 6.250000e-10 76.8
44 TraesCS3A01G159200 chr1A 87.302 63 5 3 5483 5544 528069465 528069525 1.050000e-07 69.4
45 TraesCS3A01G159200 chr1A 86.667 60 8 0 5287 5346 544197017 544196958 3.760000e-07 67.6
46 TraesCS3A01G159200 chr7B 92.308 52 4 0 5549 5600 505991905 505991956 2.250000e-09 75.0
47 TraesCS3A01G159200 chr7A 88.333 60 7 0 5287 5346 626898197 626898256 8.090000e-09 73.1
48 TraesCS3A01G159200 chr7A 86.885 61 8 0 5286 5346 9195300 9195240 1.050000e-07 69.4
49 TraesCS3A01G159200 chr5A 87.931 58 7 0 5289 5346 644814360 644814303 1.050000e-07 69.4


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 TraesCS3A01G159200 chr3A 158466697 158472514 5817 False 10744.000000 10744 100.000000 1 5818 1 chr3A.!!$F1 5817
1 TraesCS3A01G159200 chr3A 158458455 158459263 808 False 397.500000 499 89.217500 3 683 2 chr3A.!!$F2 680
2 TraesCS3A01G159200 chr3D 140765092 140774542 9450 False 3110.333333 8652 88.989333 3 5818 3 chr3D.!!$F3 5815
3 TraesCS3A01G159200 chr3D 140718942 140721303 2361 False 396.500000 486 82.659000 242 914 2 chr3D.!!$F2 672
4 TraesCS3A01G159200 chr3B 202571666 202579833 8167 False 1391.714286 5356 89.342429 3 5818 7 chr3B.!!$F2 5815
5 TraesCS3A01G159200 chr3B 202539655 202542123 2468 False 326.333333 486 84.099667 3 913 3 chr3B.!!$F1 910

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
651 2486 0.326264 ATGTGACTCCTCACCAAGGC 59.674 55.000 0.00 0.00 45.68 4.35 F
707 2542 0.954452 GAACAAAGTGCACCCAGAGG 59.046 55.000 14.63 0.00 40.04 3.69 F
1691 3561 0.036952 CTTCTCTTTGCTCCTCGCCA 60.037 55.000 0.00 0.00 38.05 5.69 F
1871 3748 0.385390 ACCCAAAGCTTTGTTCGCTG 59.615 50.000 31.67 18.11 37.87 5.18 F
2871 4789 1.153086 GAGCATGCATCTCGGGGTT 60.153 57.895 21.98 0.00 0.00 4.11 F
3478 5436 3.949754 TGGGAAATTGACTCATCTGATGC 59.050 43.478 12.78 0.08 0.00 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1666 3536 1.376553 GAGCAAAGAGAAGGCGGCT 60.377 57.895 5.25 5.25 0.00 5.52 R
2696 4614 1.917782 TTGCGCATAAACCTGTCCGC 61.918 55.000 12.75 0.00 41.55 5.54 R
2709 4627 0.461548 TTCCCACAAAACATTGCGCA 59.538 45.000 5.66 5.66 0.00 6.09 R
3478 5436 1.270414 ACTGATGGCAGGTGAGGAGG 61.270 60.000 0.00 0.00 46.60 4.30 R
4023 5982 0.685785 TCAGGCAGAGGCAGAGTAGG 60.686 60.000 0.00 0.00 43.71 3.18 R
5452 10433 1.544759 CGGTTAGGCAGGGTTTGAAGT 60.545 52.381 0.00 0.00 0.00 3.01 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
233 1913 7.454260 CTTTTACAAGGAGGTTGATAAAGCT 57.546 36.000 0.00 0.00 38.60 3.74
236 1916 8.732746 TTTACAAGGAGGTTGATAAAGCTATC 57.267 34.615 0.00 0.00 38.60 2.08
288 2111 6.413052 AGATCACATCTATGCATTCATACCC 58.587 40.000 3.54 0.00 38.00 3.69
289 2112 4.910195 TCACATCTATGCATTCATACCCC 58.090 43.478 3.54 0.00 34.22 4.95
290 2113 4.012374 CACATCTATGCATTCATACCCCC 58.988 47.826 3.54 0.00 34.22 5.40
313 2138 1.497161 CCCTCCTCGACACCCTTATT 58.503 55.000 0.00 0.00 0.00 1.40
326 2151 6.073548 CGACACCCTTATTTCTAGCAATCATC 60.074 42.308 0.00 0.00 0.00 2.92
332 2157 7.387397 CCCTTATTTCTAGCAATCATCTCAGAC 59.613 40.741 0.00 0.00 0.00 3.51
340 2165 3.490155 GCAATCATCTCAGACTGATCACG 59.510 47.826 5.42 0.00 30.98 4.35
344 2169 3.950395 TCATCTCAGACTGATCACGTCAT 59.050 43.478 20.33 8.21 35.97 3.06
440 2272 6.936335 GGTTTTCCACTTTTGATCATCCATTT 59.064 34.615 0.00 0.00 40.31 2.32
458 2290 6.784176 TCCATTTGATACACACGATCATTTG 58.216 36.000 0.00 0.00 33.41 2.32
651 2486 0.326264 ATGTGACTCCTCACCAAGGC 59.674 55.000 0.00 0.00 45.68 4.35
663 2498 1.880027 CACCAAGGCAAGGAGTACAAC 59.120 52.381 2.02 0.00 0.00 3.32
675 2510 7.078228 GCAAGGAGTACAACAATAAGAAACTG 58.922 38.462 0.00 0.00 0.00 3.16
676 2511 7.584987 CAAGGAGTACAACAATAAGAAACTGG 58.415 38.462 0.00 0.00 0.00 4.00
707 2542 0.954452 GAACAAAGTGCACCCAGAGG 59.046 55.000 14.63 0.00 40.04 3.69
709 2544 2.116125 AAAGTGCACCCAGAGGCC 59.884 61.111 14.63 0.00 36.11 5.19
710 2545 2.766925 AAAGTGCACCCAGAGGCCA 61.767 57.895 14.63 0.00 36.11 5.36
711 2546 2.296945 AAAGTGCACCCAGAGGCCAA 62.297 55.000 14.63 0.00 36.11 4.52
713 2548 1.832167 GTGCACCCAGAGGCCAAAA 60.832 57.895 5.22 0.00 36.11 2.44
714 2549 1.531365 TGCACCCAGAGGCCAAAAG 60.531 57.895 5.01 0.00 36.11 2.27
746 2605 2.542824 GGCTTCTGCGCAAAAAGTGTTA 60.543 45.455 24.82 2.97 40.82 2.41
1080 2940 1.690985 CCAACTCCTCCTCCCTCCC 60.691 68.421 0.00 0.00 0.00 4.30
1081 2941 1.394151 CAACTCCTCCTCCCTCCCT 59.606 63.158 0.00 0.00 0.00 4.20
1120 2980 1.394151 CACTCCTCCTTCCCTCCCT 59.606 63.158 0.00 0.00 0.00 4.20
1447 3317 3.678072 CGCTCGTGAATTCTCCTTGTTTA 59.322 43.478 7.05 0.00 0.00 2.01
1456 3326 3.261981 TCTCCTTGTTTATTCTCCGCC 57.738 47.619 0.00 0.00 0.00 6.13
1648 3518 3.060895 GTCGAGCTCAAGGTAAACAATCG 59.939 47.826 15.40 0.00 0.00 3.34
1688 3558 1.080995 CGCCTTCTCTTTGCTCCTCG 61.081 60.000 0.00 0.00 0.00 4.63
1691 3561 0.036952 CTTCTCTTTGCTCCTCGCCA 60.037 55.000 0.00 0.00 38.05 5.69
1764 3638 3.309954 ACTCTCTCTCGTGTTGTTTTTGC 59.690 43.478 0.00 0.00 0.00 3.68
1860 3737 1.212751 GTTCATCGCCACCCAAAGC 59.787 57.895 0.00 0.00 0.00 3.51
1871 3748 0.385390 ACCCAAAGCTTTGTTCGCTG 59.615 50.000 31.67 18.11 37.87 5.18
1875 3752 3.057596 CCCAAAGCTTTGTTCGCTGATAA 60.058 43.478 31.67 0.00 37.87 1.75
1974 3851 9.797473 CAATTCCGCTTTTTCTTTTCTTTTATC 57.203 29.630 0.00 0.00 0.00 1.75
2010 3889 5.553290 TCTACTCGAATTCAGAGAGTGTG 57.447 43.478 24.43 16.18 44.05 3.82
2028 3907 2.435938 TCCCTCGCGTGGATTTGC 60.436 61.111 27.84 0.00 0.00 3.68
2405 4322 2.161012 TCTACAGAGGTACGCAAACTCG 59.839 50.000 0.00 0.00 36.40 4.18
2498 4416 6.591062 ACCAAATAAATTGCAGTTGCTGTATG 59.409 34.615 5.62 0.00 42.66 2.39
2709 4627 1.743995 GCGTGGCGGACAGGTTTAT 60.744 57.895 5.33 0.00 37.30 1.40
2721 4639 3.987220 GACAGGTTTATGCGCAATGTTTT 59.013 39.130 17.11 0.00 0.00 2.43
2871 4789 1.153086 GAGCATGCATCTCGGGGTT 60.153 57.895 21.98 0.00 0.00 4.11
3003 4921 8.774586 AGTTGTTAGATAAAACTGTGCTTACTG 58.225 33.333 0.00 0.00 33.01 2.74
3220 5175 4.897509 TCATCTCAGTTTCACATGGTCT 57.102 40.909 0.00 0.00 0.00 3.85
3333 5288 7.819900 ACTCAAGGTAAGATCAACACATTCTAC 59.180 37.037 0.00 0.00 0.00 2.59
3346 5301 9.607988 TCAACACATTCTACTTTCTCTTGTTTA 57.392 29.630 0.00 0.00 0.00 2.01
3478 5436 3.949754 TGGGAAATTGACTCATCTGATGC 59.050 43.478 12.78 0.08 0.00 3.91
3628 5586 8.835467 ATTATCGACAAATAAATGGAACGTTG 57.165 30.769 5.00 0.00 0.00 4.10
4023 5982 0.823356 TTCCAAGCTGTCCTGCAACC 60.823 55.000 0.00 0.00 34.99 3.77
4262 6221 7.820044 TTCAAAAGTAACAAAAGTTGCGAAT 57.180 28.000 0.00 0.00 0.00 3.34
4373 6332 4.532834 TCTCCTTGGCTTGTTTAACTGTT 58.467 39.130 0.00 0.00 0.00 3.16
4614 6573 1.814394 TGCACATGTTCTCCATCAAGC 59.186 47.619 0.00 0.00 0.00 4.01
5066 7032 7.585579 AAAAACCGTAAAGGAATAAAGTCCA 57.414 32.000 0.00 0.00 45.00 4.02
5404 10385 1.916181 GGATTGGAGAGGTTTGAGGGA 59.084 52.381 0.00 0.00 0.00 4.20
5452 10433 1.144913 CCTCCAGTCCCTTTCAAACCA 59.855 52.381 0.00 0.00 0.00 3.67
5489 10904 1.153353 CCGAACAAGCGCTTAGGAAA 58.847 50.000 24.55 0.00 0.00 3.13
5586 11001 6.389906 GGAATGTTTCCTATCTTGGTTGTTG 58.610 40.000 0.00 0.00 46.57 3.33
5594 11009 4.332819 CCTATCTTGGTTGTTGGATTCGTC 59.667 45.833 0.00 0.00 0.00 4.20
5612 11027 7.697291 GGATTCGTCGGATTGACTTATATAGAC 59.303 40.741 0.00 0.00 45.87 2.59
5653 11069 9.920946 ATTCCTTTGTACTACATTCCATATGTT 57.079 29.630 1.24 0.00 33.76 2.71
5654 11070 8.731275 TCCTTTGTACTACATTCCATATGTTG 57.269 34.615 1.24 0.00 33.76 3.33
5655 11071 8.325787 TCCTTTGTACTACATTCCATATGTTGT 58.674 33.333 1.24 9.28 40.14 3.32
5656 11072 8.956426 CCTTTGTACTACATTCCATATGTTGTT 58.044 33.333 9.53 0.00 38.51 2.83
5657 11073 9.773328 CTTTGTACTACATTCCATATGTTGTTG 57.227 33.333 9.53 6.33 38.51 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 1713 4.051237 TCTTTCATCTCACGTGTCAACTG 58.949 43.478 16.51 7.60 0.00 3.16
180 1860 7.363205 ACAACCTTGTTTGACAAAAGAATTG 57.637 32.000 1.27 8.14 37.69 2.32
181 1861 6.310224 CGACAACCTTGTTTGACAAAAGAATT 59.690 34.615 1.27 0.00 42.43 2.17
220 1900 8.814038 ACTTTGATTGATAGCTTTATCAACCT 57.186 30.769 12.96 0.45 45.72 3.50
224 1904 9.265901 GCTAGACTTTGATTGATAGCTTTATCA 57.734 33.333 0.00 0.00 34.27 2.15
225 1905 9.265901 TGCTAGACTTTGATTGATAGCTTTATC 57.734 33.333 0.00 0.00 37.21 1.75
231 1911 6.293298 CCATGTGCTAGACTTTGATTGATAGC 60.293 42.308 0.00 0.00 36.91 2.97
232 1912 6.204301 CCCATGTGCTAGACTTTGATTGATAG 59.796 42.308 0.00 0.00 0.00 2.08
233 1913 6.057533 CCCATGTGCTAGACTTTGATTGATA 58.942 40.000 0.00 0.00 0.00 2.15
236 1916 3.379372 CCCCATGTGCTAGACTTTGATTG 59.621 47.826 0.00 0.00 0.00 2.67
240 1920 2.787473 TCCCCATGTGCTAGACTTTG 57.213 50.000 0.00 0.00 0.00 2.77
241 1921 3.266772 TCAATCCCCATGTGCTAGACTTT 59.733 43.478 0.00 0.00 0.00 2.66
243 1923 2.481441 TCAATCCCCATGTGCTAGACT 58.519 47.619 0.00 0.00 0.00 3.24
244 1924 3.118261 TCTTCAATCCCCATGTGCTAGAC 60.118 47.826 0.00 0.00 0.00 2.59
245 1925 3.114606 TCTTCAATCCCCATGTGCTAGA 58.885 45.455 0.00 0.00 0.00 2.43
292 2115 2.525284 TAAGGGTGTCGAGGAGGGGG 62.525 65.000 0.00 0.00 0.00 5.40
293 2116 0.398664 ATAAGGGTGTCGAGGAGGGG 60.399 60.000 0.00 0.00 0.00 4.79
313 2138 6.323225 TGATCAGTCTGAGATGATTGCTAGAA 59.677 38.462 8.82 0.00 36.30 2.10
326 2151 5.378180 CGTATATGACGTGATCAGTCTGAG 58.622 45.833 19.39 0.00 46.86 3.35
357 2186 8.662141 ACACCTCGATTTGTATAAACATGTTAC 58.338 33.333 12.39 7.28 34.97 2.50
440 2272 6.976636 TTAAGCAAATGATCGTGTGTATCA 57.023 33.333 6.95 0.00 37.73 2.15
651 2486 7.444183 TCCAGTTTCTTATTGTTGTACTCCTTG 59.556 37.037 0.00 0.00 0.00 3.61
707 2542 0.897621 CCCCTCACAATCCTTTTGGC 59.102 55.000 0.00 0.00 40.12 4.52
709 2544 1.928868 AGCCCCTCACAATCCTTTTG 58.071 50.000 0.00 0.00 0.00 2.44
710 2545 2.110721 AGAAGCCCCTCACAATCCTTTT 59.889 45.455 0.00 0.00 0.00 2.27
711 2546 1.713078 AGAAGCCCCTCACAATCCTTT 59.287 47.619 0.00 0.00 0.00 3.11
713 2548 0.622665 CAGAAGCCCCTCACAATCCT 59.377 55.000 0.00 0.00 0.00 3.24
714 2549 1.034292 GCAGAAGCCCCTCACAATCC 61.034 60.000 0.00 0.00 33.58 3.01
746 2605 1.613437 CAGGCGAAAATGTTTGGGACT 59.387 47.619 0.00 0.00 0.00 3.85
774 2633 2.143876 TTAAATGCTTCCTCTGGCCC 57.856 50.000 0.00 0.00 0.00 5.80
821 2680 5.910315 TCTCAAACAAAACAAACTTTTGCG 58.090 33.333 1.49 0.00 41.66 4.85
1080 2940 2.197324 CGGGGAGAGAGGGAGGAG 59.803 72.222 0.00 0.00 0.00 3.69
1081 2941 4.144727 GCGGGGAGAGAGGGAGGA 62.145 72.222 0.00 0.00 0.00 3.71
1120 2980 1.915266 CTGCTGTCCTGTCCTCCCA 60.915 63.158 0.00 0.00 0.00 4.37
1255 3115 1.000283 ACAAGAGACAACAGGAGAGCG 60.000 52.381 0.00 0.00 0.00 5.03
1447 3317 2.443016 AGGAGAGCGGCGGAGAAT 60.443 61.111 9.78 0.00 0.00 2.40
1666 3536 1.376553 GAGCAAAGAGAAGGCGGCT 60.377 57.895 5.25 5.25 0.00 5.52
1688 3558 2.801631 CGAGGGAGGATCAGGTGGC 61.802 68.421 0.00 0.00 36.25 5.01
1691 3561 2.835431 CGCGAGGGAGGATCAGGT 60.835 66.667 0.00 0.00 36.25 4.00
1881 3758 5.892119 ACGAGATAGTGATAACAGGAAAGGA 59.108 40.000 0.00 0.00 0.00 3.36
1974 3851 9.445786 GAATTCGAGTAGAAAGAACAGATAGAG 57.554 37.037 0.00 0.00 42.91 2.43
2010 3889 2.750888 GCAAATCCACGCGAGGGAC 61.751 63.158 22.65 8.21 37.23 4.46
2028 3907 5.205565 GCAAACAGGAGAAAGTTTAAGACG 58.794 41.667 0.00 0.00 36.28 4.18
2658 4576 9.515226 AGTTTAACAGAATTATAAGCACTGGAA 57.485 29.630 15.61 9.53 33.57 3.53
2696 4614 1.917782 TTGCGCATAAACCTGTCCGC 61.918 55.000 12.75 0.00 41.55 5.54
2709 4627 0.461548 TTCCCACAAAACATTGCGCA 59.538 45.000 5.66 5.66 0.00 6.09
2721 4639 3.054508 TGTGATGATGCATACTTCCCACA 60.055 43.478 0.00 6.00 33.87 4.17
2960 4878 9.081204 TCTAACAACTGGCGGTATAGAATAATA 57.919 33.333 0.00 0.00 0.00 0.98
2984 4902 6.263168 AGCAAACAGTAAGCACAGTTTTATCT 59.737 34.615 0.50 0.00 40.32 1.98
3003 4921 9.476202 ACAAGAAATTAACTTCCATTAGCAAAC 57.524 29.630 0.00 0.00 0.00 2.93
3478 5436 1.270414 ACTGATGGCAGGTGAGGAGG 61.270 60.000 0.00 0.00 46.60 4.30
3644 5602 5.012239 TCTGCAGATTAAGCCAACAAGATT 58.988 37.500 13.74 0.00 0.00 2.40
3646 5604 4.005650 CTCTGCAGATTAAGCCAACAAGA 58.994 43.478 18.63 0.00 0.00 3.02
3647 5605 3.427233 GCTCTGCAGATTAAGCCAACAAG 60.427 47.826 18.63 1.38 0.00 3.16
3648 5606 2.489329 GCTCTGCAGATTAAGCCAACAA 59.511 45.455 18.63 0.00 0.00 2.83
3649 5607 2.086869 GCTCTGCAGATTAAGCCAACA 58.913 47.619 18.63 0.00 0.00 3.33
3650 5608 2.840296 GCTCTGCAGATTAAGCCAAC 57.160 50.000 18.63 0.00 0.00 3.77
4023 5982 0.685785 TCAGGCAGAGGCAGAGTAGG 60.686 60.000 0.00 0.00 43.71 3.18
4262 6221 1.338136 GGATTTCTCGGGGGCTCTCA 61.338 60.000 0.00 0.00 0.00 3.27
4373 6332 4.530710 AATAGCAACACGAGGTTAGACA 57.469 40.909 0.00 0.00 37.72 3.41
4614 6573 7.819415 TGTCAGAGGAACAGTTAACTATCAATG 59.181 37.037 8.04 9.33 0.00 2.82
4661 6627 5.297776 GCCAAAGAATGTATGTATGTCAGCT 59.702 40.000 0.00 0.00 0.00 4.24
5046 7012 4.533311 TCCTGGACTTTATTCCTTTACGGT 59.467 41.667 0.00 0.00 36.51 4.83
5066 7032 5.342866 ACACCAGAAGTCTTTATACCTCCT 58.657 41.667 0.00 0.00 0.00 3.69
5144 7110 4.448210 ACGCAAGAGGAAGTTAAAACAGA 58.552 39.130 0.00 0.00 43.62 3.41
5404 10385 9.428097 GATTAAATCCTTTGCAAGTCAAAATCT 57.572 29.630 0.00 0.00 43.44 2.40
5438 10419 4.430007 GTTTGAAGTGGTTTGAAAGGGAC 58.570 43.478 0.00 0.00 0.00 4.46
5452 10433 1.544759 CGGTTAGGCAGGGTTTGAAGT 60.545 52.381 0.00 0.00 0.00 3.01
5489 10904 6.834168 ATCAAACGACCAACATAGGAAAAT 57.166 33.333 0.00 0.00 0.00 1.82
5564 10979 6.074648 TCCAACAACCAAGATAGGAAACATT 58.925 36.000 0.00 0.00 0.00 2.71
5619 11034 7.759489 ATGTAGTACAAAGGAATGCTTTGAA 57.241 32.000 29.22 11.73 42.53 2.69
5676 11093 5.592688 CACAAAGGAGGTTTTCAAAGGAGTA 59.407 40.000 0.00 0.00 0.00 2.59


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

AutoCloner maintained by Alex Coulton.