Multiple sequence alignment - TraesCS2A01G415900

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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 TraesCS2A01G415900 chr2A 100.000 3029 0 0 1 3029 672414211 672417239 0.000000e+00 5594.0
1 TraesCS2A01G415900 chr2D 91.374 3014 108 56 81 3029 527545906 527548832 0.000000e+00 3986.0
2 TraesCS2A01G415900 chr2B 92.625 2644 104 39 436 3029 624890773 624893375 0.000000e+00 3718.0
3 TraesCS2A01G415900 chr2B 87.042 409 25 6 1 393 624889983 624890379 1.290000e-118 436.0
4 TraesCS2A01G415900 chr5D 88.021 192 17 5 1727 1918 344399998 344400183 3.930000e-54 222.0
5 TraesCS2A01G415900 chr5A 88.021 192 17 5 1727 1918 448091108 448091293 3.930000e-54 222.0
6 TraesCS2A01G415900 chr1B 86.567 201 18 4 1727 1918 418106021 418105821 2.370000e-51 213.0
7 TraesCS2A01G415900 chr1B 88.889 72 8 0 1538 1609 418106102 418106031 4.160000e-14 89.8
8 TraesCS2A01G415900 chr1A 86.567 201 18 4 1727 1918 387840975 387840775 2.370000e-51 213.0
9 TraesCS2A01G415900 chr1A 81.538 130 21 1 1274 1400 387841307 387841178 1.490000e-18 104.0
10 TraesCS2A01G415900 chr1A 87.671 73 9 0 1537 1609 387841057 387840985 5.380000e-13 86.1
11 TraesCS2A01G415900 chr5B 86.070 201 22 5 1727 1927 407817229 407817035 8.510000e-51 211.0
12 TraesCS2A01G415900 chr1D 86.070 201 19 4 1727 1918 308459629 308459429 1.100000e-49 207.0
13 TraesCS2A01G415900 chr1D 89.041 73 8 0 1537 1609 308459711 308459639 1.160000e-14 91.6
14 TraesCS2A01G415900 chr4B 89.552 134 13 1 1727 1859 491465486 491465619 5.190000e-38 169.0
15 TraesCS2A01G415900 chr7A 85.366 82 12 0 1536 1617 48756248 48756329 5.380000e-13 86.1
16 TraesCS2A01G415900 chr7A 83.951 81 11 2 1538 1617 48526185 48526264 3.240000e-10 76.8
17 TraesCS2A01G415900 chr4A 84.091 88 14 0 1530 1617 660624967 660625054 5.380000e-13 86.1
18 TraesCS2A01G415900 chr4A 85.366 82 12 0 1536 1617 660654521 660654602 5.380000e-13 86.1


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 TraesCS2A01G415900 chr2A 672414211 672417239 3028 False 5594 5594 100.0000 1 3029 1 chr2A.!!$F1 3028
1 TraesCS2A01G415900 chr2D 527545906 527548832 2926 False 3986 3986 91.3740 81 3029 1 chr2D.!!$F1 2948
2 TraesCS2A01G415900 chr2B 624889983 624893375 3392 False 2077 3718 89.8335 1 3029 2 chr2B.!!$F1 3028

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
950 1331 0.033405 CTCGGGTAGAGGTTGGGAGA 60.033 60.0 0.0 0.0 43.2 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2653 3098 0.664166 CCGTGTGGCAGTTTGATTGC 60.664 55.0 0.0 0.0 40.8 3.56 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
19 20 2.471815 ATGGTCCAGACGGAGGATTA 57.528 50.000 0.00 0.00 43.99 1.75
35 36 3.003480 GGATTAATGTGGCTCTATCGGC 58.997 50.000 0.00 0.00 0.00 5.54
43 44 0.605860 GGCTCTATCGGCGAGAGGTA 60.606 60.000 28.73 11.81 40.76 3.08
58 59 6.239402 GGCGAGAGGTAAATTAGGGTACAATA 60.239 42.308 0.00 0.00 0.00 1.90
128 131 3.498774 CCAAGAATGGGAGGACCTATG 57.501 52.381 0.00 0.00 43.51 2.23
129 132 2.780010 CCAAGAATGGGAGGACCTATGT 59.220 50.000 0.00 0.00 43.51 2.29
130 133 3.973973 CCAAGAATGGGAGGACCTATGTA 59.026 47.826 0.00 0.00 43.51 2.29
131 134 4.202367 CCAAGAATGGGAGGACCTATGTAC 60.202 50.000 0.00 0.00 43.51 2.90
146 149 7.565398 GGACCTATGTACATGTAGGGATATGAT 59.435 40.741 22.95 5.76 41.45 2.45
169 172 6.552445 TCAGGAAACCAATTTCAGGAAAAA 57.448 33.333 0.00 0.00 45.26 1.94
194 197 4.039124 TCCTCCAAATTCAAGAAACAAGCC 59.961 41.667 0.00 0.00 0.00 4.35
242 245 6.086371 GTGCTAAGTGTCTAAAATTCAAACGC 59.914 38.462 0.00 0.00 0.00 4.84
265 268 3.754965 TGCTAGAATTTGAGTTGGCAGT 58.245 40.909 0.00 0.00 0.00 4.40
266 269 4.144297 TGCTAGAATTTGAGTTGGCAGTT 58.856 39.130 0.00 0.00 0.00 3.16
267 270 4.584325 TGCTAGAATTTGAGTTGGCAGTTT 59.416 37.500 0.00 0.00 0.00 2.66
321 324 8.741101 TCCGATGAATTGTGAATAAACTTTTG 57.259 30.769 0.00 0.00 0.00 2.44
364 381 6.292703 GCACATAAACCGGTAAATGCTAGTAG 60.293 42.308 22.62 11.02 0.00 2.57
365 382 6.759827 CACATAAACCGGTAAATGCTAGTAGT 59.240 38.462 22.62 5.12 0.00 2.73
366 383 6.759827 ACATAAACCGGTAAATGCTAGTAGTG 59.240 38.462 22.62 5.06 0.00 2.74
367 384 5.410355 AAACCGGTAAATGCTAGTAGTGA 57.590 39.130 8.00 0.00 0.00 3.41
368 385 5.609533 AACCGGTAAATGCTAGTAGTGAT 57.390 39.130 8.00 0.00 0.00 3.06
369 386 4.945246 ACCGGTAAATGCTAGTAGTGATG 58.055 43.478 4.49 0.00 0.00 3.07
423 629 6.591935 ACAAATTTCTTCCTTTTCCCCTTTC 58.408 36.000 0.00 0.00 0.00 2.62
442 814 9.911788 CCCCTTTCTTGCTATAATATACATGAT 57.088 33.333 0.00 0.00 0.00 2.45
492 868 0.468226 GTGGTGACTGGTCCAACAGA 59.532 55.000 0.00 0.00 40.97 3.41
585 962 4.766404 GACCATAAGTCAAAAGGTGGTG 57.234 45.455 0.00 0.00 45.55 4.17
641 1018 4.856115 ACAAAAACATTTGTCAAAGCGG 57.144 36.364 4.03 0.00 40.84 5.52
906 1283 0.321653 CTTCCGAGTTCCAACCCCAG 60.322 60.000 0.00 0.00 0.00 4.45
918 1295 2.011617 AACCCCAGCTGCAAACTCCT 62.012 55.000 8.66 0.00 0.00 3.69
946 1327 2.494918 CGCTCGGGTAGAGGTTGG 59.505 66.667 0.00 0.00 46.91 3.77
947 1328 2.901042 GCTCGGGTAGAGGTTGGG 59.099 66.667 0.00 0.00 46.91 4.12
948 1329 1.684734 GCTCGGGTAGAGGTTGGGA 60.685 63.158 0.00 0.00 46.91 4.37
949 1330 1.677637 GCTCGGGTAGAGGTTGGGAG 61.678 65.000 0.00 0.00 46.91 4.30
950 1331 0.033405 CTCGGGTAGAGGTTGGGAGA 60.033 60.000 0.00 0.00 43.20 3.71
951 1332 0.033405 TCGGGTAGAGGTTGGGAGAG 60.033 60.000 0.00 0.00 0.00 3.20
963 1344 3.545703 GTTGGGAGAGAGAGAGAGAGAG 58.454 54.545 0.00 0.00 0.00 3.20
1116 1501 7.363617 GCTCCAGGTAAATGTTACTACTAGTGT 60.364 40.741 5.39 4.48 0.00 3.55
1129 1514 9.252962 GTTACTACTAGTGTTTACTGCTTCAAA 57.747 33.333 5.39 0.00 37.78 2.69
1130 1515 9.820725 TTACTACTAGTGTTTACTGCTTCAAAA 57.179 29.630 5.39 0.00 37.78 2.44
1149 1541 2.563261 ACCGGCGAGACTATAGATCA 57.437 50.000 9.30 0.00 0.00 2.92
1152 1544 4.783055 ACCGGCGAGACTATAGATCATAT 58.217 43.478 9.30 0.00 0.00 1.78
1155 1547 5.049749 CCGGCGAGACTATAGATCATATCTG 60.050 48.000 9.30 0.25 40.51 2.90
1178 1572 8.043113 TCTGATACTATATGATGTGGGCAATTC 58.957 37.037 0.00 0.00 0.00 2.17
1197 1591 7.215789 GCAATTCTTGATCAGAGAGGAGATTA 58.784 38.462 0.00 0.00 31.12 1.75
1408 1805 3.724732 ACCCGGTAATTAGCCTTTTCA 57.275 42.857 9.01 0.00 0.00 2.69
1416 1813 5.299531 GGTAATTAGCCTTTTCATGGGAGTC 59.700 44.000 3.16 0.00 0.00 3.36
1446 1847 9.585099 TTAACTTATTTCCATGAAACATGCATC 57.415 29.630 0.00 0.00 34.23 3.91
1449 1850 1.779221 TCCATGAAACATGCATCCCC 58.221 50.000 0.00 0.00 0.00 4.81
1452 1853 2.104967 CATGAAACATGCATCCCCAGT 58.895 47.619 0.00 0.00 0.00 4.00
1466 1868 2.509131 TCCCCAGTATCATGTTCATGCA 59.491 45.455 7.80 0.00 0.00 3.96
1484 1886 7.089770 TCATGCAGTTCTTAGTACTGTCTAG 57.910 40.000 17.81 8.12 43.81 2.43
1486 1888 7.827729 TCATGCAGTTCTTAGTACTGTCTAGTA 59.172 37.037 17.81 2.31 43.81 1.82
1488 1890 8.211116 TGCAGTTCTTAGTACTGTCTAGTATC 57.789 38.462 17.81 2.56 43.81 2.24
1526 1928 0.251916 TAAACCCTGCGTGCTGCTAT 59.748 50.000 0.00 0.00 46.63 2.97
1646 2048 9.563898 GTACGTATTAGCACATGCAATAGTATA 57.436 33.333 6.64 0.45 45.16 1.47
1647 2049 8.689251 ACGTATTAGCACATGCAATAGTATAG 57.311 34.615 6.64 2.20 45.16 1.31
1649 2051 8.587111 CGTATTAGCACATGCAATAGTATAGTG 58.413 37.037 6.64 0.00 45.16 2.74
1699 2119 2.952978 AGAACGAGTTCTCAGTCTGTGT 59.047 45.455 12.28 0.00 46.13 3.72
1701 2121 2.298610 ACGAGTTCTCAGTCTGTGTGA 58.701 47.619 0.00 0.00 0.00 3.58
1706 2126 5.332883 CGAGTTCTCAGTCTGTGTGATTTTG 60.333 44.000 0.00 0.00 0.00 2.44
1712 2132 5.052481 TCAGTCTGTGTGATTTTGTCTCTG 58.948 41.667 0.00 0.00 0.00 3.35
1713 2133 3.812053 AGTCTGTGTGATTTTGTCTCTGC 59.188 43.478 0.00 0.00 0.00 4.26
1716 2136 4.512944 TCTGTGTGATTTTGTCTCTGCTTC 59.487 41.667 0.00 0.00 0.00 3.86
1720 2140 5.238214 GTGTGATTTTGTCTCTGCTTCTTCT 59.762 40.000 0.00 0.00 0.00 2.85
1723 2143 7.663081 TGTGATTTTGTCTCTGCTTCTTCTAAT 59.337 33.333 0.00 0.00 0.00 1.73
1724 2144 8.174422 GTGATTTTGTCTCTGCTTCTTCTAATC 58.826 37.037 0.00 0.00 0.00 1.75
1725 2145 8.099537 TGATTTTGTCTCTGCTTCTTCTAATCT 58.900 33.333 0.00 0.00 0.00 2.40
1773 2198 1.080501 CTGCGAGTTCCTGAAGCGA 60.081 57.895 6.34 0.00 0.00 4.93
1860 2285 4.436998 CTCGTCTCCCCGCACCAC 62.437 72.222 0.00 0.00 0.00 4.16
1952 2386 3.908213 ACAACAACAACAACAACTCCAC 58.092 40.909 0.00 0.00 0.00 4.02
2043 2480 2.407090 TCATGAATCATGATCGACCGC 58.593 47.619 20.85 0.00 44.60 5.68
2111 2548 3.124636 GCAGTACACCGTATCAAAACCAG 59.875 47.826 0.00 0.00 0.00 4.00
2137 2574 1.135944 TCGCACATTTATTCGCGCAAA 60.136 42.857 8.75 0.00 46.95 3.68
2202 2641 5.006746 CAGGAAGGAACACGAGTATTAATGC 59.993 44.000 0.00 0.00 0.00 3.56
2249 2688 7.148340 GCATGCAGTAGCTTAGGGAATATTTAG 60.148 40.741 14.21 0.00 42.74 1.85
2250 2689 6.231211 TGCAGTAGCTTAGGGAATATTTAGC 58.769 40.000 0.00 0.00 42.74 3.09
2386 2829 2.801111 GAGGTCAGTTCAGTTCGTTTCC 59.199 50.000 0.00 0.00 0.00 3.13
2446 2889 1.492319 TAACGCGTGTGTGTGCTTCC 61.492 55.000 14.98 0.00 39.20 3.46
2498 2941 0.445436 GTGTCTCCAGAAAGCATGCG 59.555 55.000 13.01 0.00 0.00 4.73
2506 2949 4.960938 TCCAGAAAGCATGCGTATATCTT 58.039 39.130 13.01 0.00 0.00 2.40
2528 2971 9.846248 ATCTTTTAATCTATGCAAAGTGTTGTC 57.154 29.630 0.00 0.00 37.06 3.18
2653 3098 1.139734 CTCGATCGTGTGGACTGGG 59.860 63.158 15.94 0.00 0.00 4.45
2780 3225 2.052782 ACTTGTTCCAGGTGGTGTTC 57.947 50.000 0.00 0.00 36.34 3.18
2833 3278 8.241367 CGCCATAAAAACCTACAGAAACTAAAT 58.759 33.333 0.00 0.00 0.00 1.40
2924 3369 9.982651 ACTTCGTATGCATGATAAACTAACTAT 57.017 29.630 10.16 0.00 0.00 2.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 2.918712 AGAGCCACATTAATCCTCCG 57.081 50.000 0.00 0.00 0.00 4.63
19 20 0.032678 CTCGCCGATAGAGCCACATT 59.967 55.000 0.00 0.00 39.76 2.71
35 36 7.949434 AGTATTGTACCCTAATTTACCTCTCG 58.051 38.462 0.00 0.00 0.00 4.04
123 126 8.539117 TGATCATATCCCTACATGTACATAGG 57.461 38.462 15.30 15.30 38.18 2.57
126 129 7.191918 TCCTGATCATATCCCTACATGTACAT 58.808 38.462 1.41 1.41 0.00 2.29
127 130 6.561294 TCCTGATCATATCCCTACATGTACA 58.439 40.000 0.08 0.00 0.00 2.90
128 131 7.482169 TTCCTGATCATATCCCTACATGTAC 57.518 40.000 0.08 0.00 0.00 2.90
129 132 7.038302 GGTTTCCTGATCATATCCCTACATGTA 60.038 40.741 5.25 5.25 0.00 2.29
130 133 6.240002 GGTTTCCTGATCATATCCCTACATGT 60.240 42.308 2.69 2.69 0.00 3.21
131 134 6.176183 GGTTTCCTGATCATATCCCTACATG 58.824 44.000 0.00 0.00 0.00 3.21
146 149 6.552445 TTTTTCCTGAAATTGGTTTCCTGA 57.448 33.333 0.00 0.00 42.44 3.86
169 172 6.226052 GCTTGTTTCTTGAATTTGGAGGAAT 58.774 36.000 0.00 0.00 0.00 3.01
194 197 5.070047 ACCTCTCCACCGGTTAGTAATATTG 59.930 44.000 2.97 0.00 0.00 1.90
202 205 1.218316 GCACCTCTCCACCGGTTAG 59.782 63.158 2.97 5.75 0.00 2.34
242 245 4.157289 ACTGCCAACTCAAATTCTAGCATG 59.843 41.667 0.00 0.00 0.00 4.06
277 280 8.034804 TCATCGGAATCACGTGAATATTGATAT 58.965 33.333 24.13 6.27 34.94 1.63
278 281 7.375053 TCATCGGAATCACGTGAATATTGATA 58.625 34.615 24.13 3.08 34.94 2.15
279 282 6.223120 TCATCGGAATCACGTGAATATTGAT 58.777 36.000 24.13 17.92 34.94 2.57
321 324 2.032290 GTGCACTCTTAACAACGGTTCC 60.032 50.000 10.32 0.00 38.45 3.62
364 381 1.270550 CCCTTTTGGAGTGCACATCAC 59.729 52.381 21.04 6.38 44.07 3.06
365 382 1.133513 ACCCTTTTGGAGTGCACATCA 60.134 47.619 21.04 13.66 44.07 3.07
366 383 1.270550 CACCCTTTTGGAGTGCACATC 59.729 52.381 21.04 13.17 44.07 3.06
367 384 1.331214 CACCCTTTTGGAGTGCACAT 58.669 50.000 21.04 3.82 44.07 3.21
368 385 2.805897 CACCCTTTTGGAGTGCACA 58.194 52.632 21.04 0.00 44.07 4.57
492 868 4.630069 GCGCGTATAATTATCTCAACCCAT 59.370 41.667 8.43 0.00 0.00 4.00
495 871 3.916172 TCGCGCGTATAATTATCTCAACC 59.084 43.478 30.98 0.00 0.00 3.77
585 962 7.178628 TGGAGTGGAGTATATATCTAGCAAACC 59.821 40.741 0.00 0.00 0.00 3.27
671 1048 9.987272 CAAACCAGGATTTTTCTTTTAGAAGAT 57.013 29.630 0.00 0.00 41.35 2.40
672 1049 9.196139 TCAAACCAGGATTTTTCTTTTAGAAGA 57.804 29.630 0.00 0.00 40.07 2.87
673 1050 9.468532 CTCAAACCAGGATTTTTCTTTTAGAAG 57.531 33.333 0.00 0.00 35.37 2.85
674 1051 8.977412 ACTCAAACCAGGATTTTTCTTTTAGAA 58.023 29.630 0.00 0.00 31.28 2.10
733 1110 0.935366 CCGCTAAAGGCTCGATCGAC 60.935 60.000 15.15 11.16 39.13 4.20
734 1111 1.359117 CCGCTAAAGGCTCGATCGA 59.641 57.895 18.32 18.32 39.13 3.59
735 1112 1.065928 ACCGCTAAAGGCTCGATCG 59.934 57.895 9.36 9.36 39.13 3.69
736 1113 0.876342 CCACCGCTAAAGGCTCGATC 60.876 60.000 0.00 0.00 39.13 3.69
737 1114 1.144057 CCACCGCTAAAGGCTCGAT 59.856 57.895 0.00 0.00 39.13 3.59
906 1283 0.308993 GTGTGTGAGGAGTTTGCAGC 59.691 55.000 0.00 0.00 0.00 5.25
936 1313 3.201266 TCTCTCTCTCTCCCAACCTCTAC 59.799 52.174 0.00 0.00 0.00 2.59
946 1327 3.243569 CGTCTCTCTCTCTCTCTCTCTCC 60.244 56.522 0.00 0.00 0.00 3.71
947 1328 3.632604 TCGTCTCTCTCTCTCTCTCTCTC 59.367 52.174 0.00 0.00 0.00 3.20
948 1329 3.632333 TCGTCTCTCTCTCTCTCTCTCT 58.368 50.000 0.00 0.00 0.00 3.10
949 1330 4.363999 CTTCGTCTCTCTCTCTCTCTCTC 58.636 52.174 0.00 0.00 0.00 3.20
950 1331 3.133003 CCTTCGTCTCTCTCTCTCTCTCT 59.867 52.174 0.00 0.00 0.00 3.10
951 1332 3.458189 CCTTCGTCTCTCTCTCTCTCTC 58.542 54.545 0.00 0.00 0.00 3.20
963 1344 2.227194 GATCTCTCTCCCCTTCGTCTC 58.773 57.143 0.00 0.00 0.00 3.36
1116 1501 1.002251 CGCCGGTTTTGAAGCAGTAAA 60.002 47.619 1.90 0.00 0.00 2.01
1129 1514 2.860009 TGATCTATAGTCTCGCCGGTT 58.140 47.619 1.90 0.00 0.00 4.44
1130 1515 2.563261 TGATCTATAGTCTCGCCGGT 57.437 50.000 1.90 0.00 0.00 5.28
1149 1541 8.788238 TGCCCACATCATATAGTATCAGATAT 57.212 34.615 0.00 0.00 0.00 1.63
1152 1544 6.933514 TTGCCCACATCATATAGTATCAGA 57.066 37.500 0.00 0.00 0.00 3.27
1155 1547 8.671921 CAAGAATTGCCCACATCATATAGTATC 58.328 37.037 0.00 0.00 40.39 2.24
1178 1572 5.832595 TCCAGTAATCTCCTCTCTGATCAAG 59.167 44.000 0.00 0.00 0.00 3.02
1408 1805 7.928873 TGGAAATAAGTTAAAGAGACTCCCAT 58.071 34.615 0.00 0.00 0.00 4.00
1446 1847 2.882761 CTGCATGAACATGATACTGGGG 59.117 50.000 17.40 0.00 41.20 4.96
1449 1850 6.432607 AAGAACTGCATGAACATGATACTG 57.567 37.500 17.40 7.36 41.20 2.74
1452 1853 8.478066 AGTACTAAGAACTGCATGAACATGATA 58.522 33.333 17.40 5.71 41.20 2.15
1484 1886 9.947669 TTTAGAAAGCGATTGTAGAGTAGATAC 57.052 33.333 0.00 0.00 0.00 2.24
1486 1888 7.921745 GGTTTAGAAAGCGATTGTAGAGTAGAT 59.078 37.037 0.00 0.00 0.00 1.98
1488 1890 6.476053 GGGTTTAGAAAGCGATTGTAGAGTAG 59.524 42.308 0.00 0.00 37.28 2.57
1491 1893 5.292101 CAGGGTTTAGAAAGCGATTGTAGAG 59.708 44.000 0.00 0.00 37.28 2.43
1496 1898 3.136808 GCAGGGTTTAGAAAGCGATTG 57.863 47.619 0.00 0.00 37.28 2.67
1526 1928 0.526211 CTGCCTCTGCACGTAGTACA 59.474 55.000 0.38 0.00 44.23 2.90
1647 2049 9.819267 ACCATAGAGCTTAAGTAAAATCTACAC 57.181 33.333 4.02 0.00 0.00 2.90
1657 2076 7.468768 CGTTCTGATCACCATAGAGCTTAAGTA 60.469 40.741 4.02 0.00 0.00 2.24
1658 2077 6.578023 GTTCTGATCACCATAGAGCTTAAGT 58.422 40.000 4.02 0.00 0.00 2.24
1659 2078 5.689514 CGTTCTGATCACCATAGAGCTTAAG 59.310 44.000 0.00 0.00 0.00 1.85
1699 2119 8.099537 AGATTAGAAGAAGCAGAGACAAAATCA 58.900 33.333 0.00 0.00 0.00 2.57
1701 2121 9.598517 CTAGATTAGAAGAAGCAGAGACAAAAT 57.401 33.333 0.00 0.00 0.00 1.82
1706 2126 6.512741 CGTCCTAGATTAGAAGAAGCAGAGAC 60.513 46.154 0.00 0.00 0.00 3.36
1712 2132 4.979815 GCTTCGTCCTAGATTAGAAGAAGC 59.020 45.833 21.67 21.67 42.57 3.86
1713 2133 6.038825 TCAGCTTCGTCCTAGATTAGAAGAAG 59.961 42.308 13.90 13.90 40.31 2.85
1716 2136 5.759506 TCAGCTTCGTCCTAGATTAGAAG 57.240 43.478 10.68 10.68 40.69 2.85
1720 2140 3.699538 TGCTTCAGCTTCGTCCTAGATTA 59.300 43.478 0.00 0.00 42.66 1.75
1723 2143 1.474478 CTGCTTCAGCTTCGTCCTAGA 59.526 52.381 0.00 0.00 42.66 2.43
1724 2144 1.474478 TCTGCTTCAGCTTCGTCCTAG 59.526 52.381 0.00 0.00 42.66 3.02
1725 2145 1.202582 GTCTGCTTCAGCTTCGTCCTA 59.797 52.381 0.00 0.00 42.66 2.94
2043 2480 2.093106 AGTGGCTACTAGGTTGTCGAG 58.907 52.381 0.00 0.00 34.74 4.04
2111 2548 2.276282 GCGAATAAATGTGCGAAACTGC 59.724 45.455 0.00 0.00 0.00 4.40
2137 2574 2.172483 ATCGAGCGAGGGCAACAGTT 62.172 55.000 0.00 0.00 43.41 3.16
2202 2641 2.983136 CTCTTCTACTGCACTTGTGACG 59.017 50.000 4.79 0.00 0.00 4.35
2249 2688 0.808060 GCTTTCTCTAGGACCAGCGC 60.808 60.000 0.00 0.00 0.00 5.92
2250 2689 0.820871 AGCTTTCTCTAGGACCAGCG 59.179 55.000 0.00 0.00 36.26 5.18
2446 2889 1.027357 TAAGCTAAGTAGACCGGCCG 58.973 55.000 21.04 21.04 0.00 6.13
2506 2949 6.491745 TGGGACAACACTTTGCATAGATTAAA 59.508 34.615 11.39 0.00 36.00 1.52
2528 2971 3.502211 ACGTGAGCAAAAAGAACTATGGG 59.498 43.478 0.00 0.00 0.00 4.00
2653 3098 0.664166 CCGTGTGGCAGTTTGATTGC 60.664 55.000 0.00 0.00 40.80 3.56
2848 3293 6.926272 GCAGAAACTTCGGAAGATATACTCAT 59.074 38.462 23.74 0.00 41.60 2.90
2852 3297 4.444720 CGGCAGAAACTTCGGAAGATATAC 59.555 45.833 23.74 9.97 41.60 1.47
2924 3369 5.378230 AGATGGAGATGGCATGAAAAGTA 57.622 39.130 3.81 0.00 0.00 2.24
2925 3370 4.246712 AGATGGAGATGGCATGAAAAGT 57.753 40.909 3.81 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.