Multiple sequence alignment - TraesCS4B01G367600

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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 TraesCS4B01G367600 chr4B 100.000 2594 0 0 1 2594 654467496 654464903 0.000000e+00 4791.0
1 TraesCS4B01G367600 chr4B 89.781 274 27 1 1326 1598 654453599 654453326 1.480000e-92 350.0
2 TraesCS4B01G367600 chr4D 87.718 2068 134 46 17 2061 507118394 507120364 0.000000e+00 2302.0
3 TraesCS4B01G367600 chr4D 90.476 252 24 0 1337 1588 507124901 507125152 1.490000e-87 333.0
4 TraesCS4B01G367600 chr4D 82.339 419 32 11 2210 2594 507123393 507123803 2.490000e-85 326.0
5 TraesCS4B01G367600 chr4D 90.698 86 8 0 1878 1963 507121869 507121954 5.870000e-22 115.0
6 TraesCS4B01G367600 chr4D 97.436 39 1 0 2226 2264 507120447 507120485 1.670000e-07 67.6
7 TraesCS4B01G367600 chr5A 87.152 2086 119 53 6 2061 692063800 692061834 0.000000e+00 2230.0
8 TraesCS4B01G367600 chr5A 82.731 1494 111 61 1146 2594 692062701 692061310 0.000000e+00 1194.0
9 TraesCS4B01G367600 chr5A 89.313 262 28 0 1337 1598 692058246 692057985 1.920000e-86 329.0
10 TraesCS4B01G367600 chr5A 100.000 28 0 0 393 420 706037546 706037573 5.000000e-03 52.8
11 TraesCS4B01G367600 chr2B 85.375 253 34 1 1336 1588 618666490 618666241 2.560000e-65 259.0
12 TraesCS4B01G367600 chr2A 85.375 253 34 1 1336 1588 669558143 669557894 2.560000e-65 259.0
13 TraesCS4B01G367600 chr2D 84.585 253 36 1 1336 1588 523738300 523738051 5.540000e-62 248.0
14 TraesCS4B01G367600 chr7B 79.032 248 45 6 1343 1588 650455473 650455231 2.070000e-36 163.0
15 TraesCS4B01G367600 chr6D 86.400 125 17 0 1445 1569 322200768 322200644 1.250000e-28 137.0


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 TraesCS4B01G367600 chr4B 654464903 654467496 2593 True 4791.00 4791 100.000000 1 2594 1 chr4B.!!$R2 2593
1 TraesCS4B01G367600 chr4D 507118394 507125152 6758 False 628.72 2302 89.733400 17 2594 5 chr4D.!!$F1 2577
2 TraesCS4B01G367600 chr5A 692057985 692063800 5815 True 1251.00 2230 86.398667 6 2594 3 chr5A.!!$R1 2588

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
662 677 0.250295 TGAGTCGGCAACCTTCCAAG 60.25 55.0 0.0 0.0 0.0 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2423 5426 0.037975 GTCGACCGGAAGCTTGGTAA 60.038 55.0 9.46 0.0 38.99 2.85 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
27 28 0.541863 AGATGCCCTAACTTGTCCCG 59.458 55.000 0.00 0.00 0.00 5.14
61 64 5.696270 GTGGTTCCATGAATTTTTCCTTCAC 59.304 40.000 0.00 0.00 35.57 3.18
69 72 9.709495 CCATGAATTTTTCCTTCACAGAAAATA 57.291 29.630 0.00 0.00 41.49 1.40
110 116 6.920758 CGAATCTATCTAGGCTATGGTTATGC 59.079 42.308 0.00 0.00 0.00 3.14
117 124 4.891992 AGGCTATGGTTATGCGAGTAAT 57.108 40.909 0.00 0.00 0.00 1.89
123 130 7.333423 GGCTATGGTTATGCGAGTAATATTTGA 59.667 37.037 0.00 0.00 0.00 2.69
128 135 8.717821 TGGTTATGCGAGTAATATTTGATAAGC 58.282 33.333 0.00 0.00 0.00 3.09
138 145 9.944376 AGTAATATTTGATAAGCATACGATGGT 57.056 29.630 0.00 0.00 43.93 3.55
163 172 2.390225 AAACCAACCAGCCAACCATA 57.610 45.000 0.00 0.00 0.00 2.74
167 176 2.024080 ACCAACCAGCCAACCATATGAT 60.024 45.455 3.65 0.00 0.00 2.45
172 181 3.701040 ACCAGCCAACCATATGATTGTTC 59.299 43.478 9.02 0.68 0.00 3.18
178 187 2.575532 ACCATATGATTGTTCGGCTGG 58.424 47.619 3.65 0.00 0.00 4.85
179 188 1.267806 CCATATGATTGTTCGGCTGGC 59.732 52.381 3.65 0.00 0.00 4.85
500 515 1.536072 CCGATCGGAATGACACGACAT 60.536 52.381 30.62 0.00 42.39 3.06
662 677 0.250295 TGAGTCGGCAACCTTCCAAG 60.250 55.000 0.00 0.00 0.00 3.61
664 679 1.896660 GTCGGCAACCTTCCAAGCA 60.897 57.895 0.00 0.00 0.00 3.91
700 715 3.901222 TGTCTGTTACCATCTCCTTGTGA 59.099 43.478 0.00 0.00 0.00 3.58
702 717 5.112686 GTCTGTTACCATCTCCTTGTGATC 58.887 45.833 0.00 0.00 0.00 2.92
735 754 1.376812 CAGAGCCAGCTCACATGCA 60.377 57.895 21.06 0.00 44.99 3.96
739 758 2.407616 CCAGCTCACATGCATGCG 59.592 61.111 26.53 17.70 34.99 4.73
751 770 0.526211 TGCATGCGTCGTCTTCTAGT 59.474 50.000 14.09 0.00 0.00 2.57
752 771 1.067846 TGCATGCGTCGTCTTCTAGTT 60.068 47.619 14.09 0.00 0.00 2.24
755 774 3.487042 GCATGCGTCGTCTTCTAGTTCTA 60.487 47.826 0.00 0.00 0.00 2.10
761 780 4.664188 GTCGTCTTCTAGTTCTAGCTTGG 58.336 47.826 0.00 0.00 0.00 3.61
787 806 1.451028 GTGGGCAGCTAGCTCTTGG 60.451 63.158 16.15 4.66 46.80 3.61
789 808 1.451028 GGGCAGCTAGCTCTTGGTG 60.451 63.158 16.15 4.46 41.91 4.17
793 812 1.850377 CAGCTAGCTCTTGGTGATCG 58.150 55.000 16.15 0.00 36.25 3.69
794 813 1.135915 CAGCTAGCTCTTGGTGATCGT 59.864 52.381 16.15 0.00 36.25 3.73
795 814 1.407258 AGCTAGCTCTTGGTGATCGTC 59.593 52.381 12.68 0.00 0.00 4.20
796 815 1.407258 GCTAGCTCTTGGTGATCGTCT 59.593 52.381 7.70 0.00 0.00 4.18
797 816 2.797792 GCTAGCTCTTGGTGATCGTCTG 60.798 54.545 7.70 0.00 0.00 3.51
798 817 1.550327 AGCTCTTGGTGATCGTCTGA 58.450 50.000 0.00 0.00 0.00 3.27
799 818 2.106566 AGCTCTTGGTGATCGTCTGAT 58.893 47.619 0.00 0.00 37.60 2.90
814 833 1.134699 TCTGATCGGTCTTCACATGGC 60.135 52.381 0.42 0.00 0.00 4.40
896 915 2.763651 GCTATAAATAGCGCCCCGG 58.236 57.895 2.29 0.00 45.30 5.73
923 942 2.100605 TGTACTGCACACACACACAA 57.899 45.000 0.00 0.00 30.04 3.33
924 943 2.427506 TGTACTGCACACACACACAAA 58.572 42.857 0.00 0.00 30.04 2.83
933 952 0.958382 ACACACACAAACACACGGCT 60.958 50.000 0.00 0.00 0.00 5.52
1051 1079 3.635268 CTGGCCCTGAACCTGCTCC 62.635 68.421 0.00 0.00 0.00 4.70
1242 1270 3.934962 GGATCTGGAGGAGGCGGC 61.935 72.222 0.00 0.00 0.00 6.53
1276 1304 3.324930 CAGGAGGAGGTGGCAGCA 61.325 66.667 20.04 0.00 0.00 4.41
1446 1474 4.166888 TGCTCGCTGATCCAGGGC 62.167 66.667 6.20 0.00 42.87 5.19
1624 1652 1.025041 CGAGAGATCCATCGTCCACA 58.975 55.000 8.60 0.00 34.30 4.17
1660 1692 0.044246 CGTACGTACGTGCATGCATG 60.044 55.000 33.95 33.18 44.13 4.06
1661 1693 3.835969 CGTACGTACGTGCATGCATGC 62.836 57.143 38.71 38.71 46.07 4.06
1669 1701 3.186106 GCATGCATGCGTACACCA 58.814 55.556 33.99 0.00 44.67 4.17
1670 1702 1.063006 GCATGCATGCGTACACCAG 59.937 57.895 33.99 2.26 44.67 4.00
1671 1703 1.063006 CATGCATGCGTACACCAGC 59.937 57.895 14.93 0.00 0.00 4.85
1672 1704 1.078214 ATGCATGCGTACACCAGCT 60.078 52.632 11.62 0.00 0.00 4.24
1677 1709 2.509336 GCGTACACCAGCTCGCAT 60.509 61.111 10.01 0.00 46.40 4.73
1689 1721 0.437678 GCTCGCATGCATGATCTACG 59.562 55.000 30.64 21.87 0.00 3.51
1708 1740 6.540083 TCTACGATCCATCCATTGACTAGTA 58.460 40.000 0.00 0.00 0.00 1.82
1785 1817 6.470235 GCTAGTTGCATGCTAAACTTTACATG 59.530 38.462 23.64 11.43 42.20 3.21
1788 1820 5.703978 TGCATGCTAAACTTTACATGTGT 57.296 34.783 20.33 0.00 41.51 3.72
1791 1823 5.702865 CATGCTAAACTTTACATGTGTGCT 58.297 37.500 9.11 0.00 36.11 4.40
1793 1825 4.084066 TGCTAAACTTTACATGTGTGCTCG 60.084 41.667 9.11 0.00 0.00 5.03
1794 1826 4.084013 GCTAAACTTTACATGTGTGCTCGT 60.084 41.667 9.11 0.00 0.00 4.18
1795 1827 3.878086 AACTTTACATGTGTGCTCGTG 57.122 42.857 9.11 0.00 0.00 4.35
1796 1828 2.833794 ACTTTACATGTGTGCTCGTGT 58.166 42.857 9.11 4.80 40.17 4.49
1797 1829 2.800544 ACTTTACATGTGTGCTCGTGTC 59.199 45.455 9.11 0.00 38.35 3.67
1798 1830 2.812358 TTACATGTGTGCTCGTGTCT 57.188 45.000 9.11 0.00 38.35 3.41
1799 1831 2.347697 TACATGTGTGCTCGTGTCTC 57.652 50.000 9.11 0.00 38.35 3.36
1800 1832 0.676184 ACATGTGTGCTCGTGTCTCT 59.324 50.000 0.00 0.00 32.95 3.10
1801 1833 1.066136 CATGTGTGCTCGTGTCTCTG 58.934 55.000 0.00 0.00 0.00 3.35
1804 1836 0.249073 GTGTGCTCGTGTCTCTGTGT 60.249 55.000 0.00 0.00 0.00 3.72
1809 1841 1.481240 CTCGTGTCTCTGTGTGTGTG 58.519 55.000 0.00 0.00 0.00 3.82
1818 1850 0.447406 CTGTGTGTGTGTGTGTGTGG 59.553 55.000 0.00 0.00 0.00 4.17
1828 1860 1.903860 TGTGTGTGTGGGGTAGTATCC 59.096 52.381 0.00 0.00 0.00 2.59
1833 1865 3.262405 GTGTGTGGGGTAGTATCCTTTGA 59.738 47.826 0.00 0.00 0.00 2.69
1857 1893 3.238108 ACTGCTTGTCATCGAACTAGG 57.762 47.619 0.00 0.00 0.00 3.02
1858 1894 1.929836 CTGCTTGTCATCGAACTAGGC 59.070 52.381 0.00 0.00 0.00 3.93
1859 1895 1.291132 GCTTGTCATCGAACTAGGCC 58.709 55.000 0.00 0.00 0.00 5.19
1912 3610 3.326880 TCAGCCACATATGATCTCATGCT 59.673 43.478 10.38 3.50 37.15 3.79
1923 3621 0.740868 TCTCATGCTTGTACCGCTGC 60.741 55.000 5.93 0.00 0.00 5.25
2024 5012 8.651588 CAACTTTCAGTACTATGTGTGATCTTC 58.348 37.037 0.00 0.00 0.00 2.87
2025 5013 7.324178 ACTTTCAGTACTATGTGTGATCTTCC 58.676 38.462 0.00 0.00 0.00 3.46
2028 5016 2.209838 ACTATGTGTGATCTTCCGCG 57.790 50.000 0.00 0.00 0.00 6.46
2029 5017 1.476891 ACTATGTGTGATCTTCCGCGT 59.523 47.619 4.92 0.00 0.00 6.01
2030 5018 2.094182 ACTATGTGTGATCTTCCGCGTT 60.094 45.455 4.92 0.00 0.00 4.84
2039 5029 4.377738 GTGATCTTCCGCGTTTTTGTTAAC 59.622 41.667 4.92 0.00 0.00 2.01
2062 5052 8.728088 AACTGATTCGATTAAAATTGTGTGTC 57.272 30.769 0.00 0.00 0.00 3.67
2063 5053 7.305474 ACTGATTCGATTAAAATTGTGTGTCC 58.695 34.615 0.00 0.00 0.00 4.02
2064 5054 6.616947 TGATTCGATTAAAATTGTGTGTCCC 58.383 36.000 0.00 0.00 0.00 4.46
2065 5055 5.379732 TTCGATTAAAATTGTGTGTCCCC 57.620 39.130 0.00 0.00 0.00 4.81
2066 5056 3.437395 TCGATTAAAATTGTGTGTCCCCG 59.563 43.478 0.00 0.00 0.00 5.73
2067 5057 3.507786 GATTAAAATTGTGTGTCCCCGC 58.492 45.455 0.00 0.00 0.00 6.13
2068 5058 1.982660 TAAAATTGTGTGTCCCCGCA 58.017 45.000 0.00 0.00 0.00 5.69
2069 5059 1.115467 AAAATTGTGTGTCCCCGCAA 58.885 45.000 0.00 0.00 39.00 4.85
2070 5060 1.115467 AAATTGTGTGTCCCCGCAAA 58.885 45.000 0.00 0.00 38.25 3.68
2071 5061 1.115467 AATTGTGTGTCCCCGCAAAA 58.885 45.000 0.00 0.00 38.25 2.44
2072 5062 1.115467 ATTGTGTGTCCCCGCAAAAA 58.885 45.000 0.00 0.00 38.25 1.94
2096 5086 2.132740 TGTGTGCGCTTTTGATTTCC 57.867 45.000 9.73 0.00 0.00 3.13
2107 5097 4.398358 GCTTTTGATTTCCTAGGGTGGTAC 59.602 45.833 9.46 0.00 0.00 3.34
2108 5098 5.806734 GCTTTTGATTTCCTAGGGTGGTACT 60.807 44.000 9.46 0.00 0.00 2.73
2109 5099 4.837093 TTGATTTCCTAGGGTGGTACTG 57.163 45.455 9.46 0.00 0.00 2.74
2110 5100 3.112263 TGATTTCCTAGGGTGGTACTGG 58.888 50.000 9.46 0.00 0.00 4.00
2111 5101 2.727429 TTTCCTAGGGTGGTACTGGT 57.273 50.000 9.46 0.00 0.00 4.00
2112 5102 2.242882 TTCCTAGGGTGGTACTGGTC 57.757 55.000 9.46 0.00 0.00 4.02
2155 5145 3.972133 TGAATTCATTCATGTGCTCCCT 58.028 40.909 3.38 0.00 41.51 4.20
2156 5146 3.697542 TGAATTCATTCATGTGCTCCCTG 59.302 43.478 3.38 0.00 41.51 4.45
2157 5147 3.657398 ATTCATTCATGTGCTCCCTGA 57.343 42.857 0.00 0.00 0.00 3.86
2161 5151 2.479566 TTCATGTGCTCCCTGAGTTC 57.520 50.000 0.00 0.00 31.39 3.01
2163 5153 1.699083 TCATGTGCTCCCTGAGTTCAA 59.301 47.619 0.00 0.00 31.39 2.69
2164 5154 2.106338 TCATGTGCTCCCTGAGTTCAAA 59.894 45.455 0.00 0.00 31.39 2.69
2165 5155 2.727123 TGTGCTCCCTGAGTTCAAAA 57.273 45.000 0.00 0.00 31.39 2.44
2166 5156 3.011566 TGTGCTCCCTGAGTTCAAAAA 57.988 42.857 0.00 0.00 31.39 1.94
2194 5184 2.180276 AGTGCTCCCTGAGTTATCGTT 58.820 47.619 0.00 0.00 31.39 3.85
2219 5209 5.587388 TTTTAGGATCGGAGTTATCGTGT 57.413 39.130 0.00 0.00 0.00 4.49
2220 5210 5.587388 TTTAGGATCGGAGTTATCGTGTT 57.413 39.130 0.00 0.00 0.00 3.32
2221 5211 3.438297 AGGATCGGAGTTATCGTGTTG 57.562 47.619 0.00 0.00 0.00 3.33
2222 5212 2.100916 AGGATCGGAGTTATCGTGTTGG 59.899 50.000 0.00 0.00 0.00 3.77
2223 5213 1.859080 GATCGGAGTTATCGTGTTGGC 59.141 52.381 0.00 0.00 0.00 4.52
2253 5243 7.041107 GCTGGTTAATTATTCTTTCCATGCAA 58.959 34.615 0.00 0.00 0.00 4.08
2297 5289 1.299165 CGCGTCTCATTAGGACCGG 60.299 63.158 0.00 0.00 0.00 5.28
2304 5296 0.468226 TCATTAGGACCGGGATGCAC 59.532 55.000 6.32 0.00 0.00 4.57
2312 5304 2.106131 CGGGATGCACGGATCGAA 59.894 61.111 0.00 0.00 0.00 3.71
2314 5306 0.880278 CGGGATGCACGGATCGAAAT 60.880 55.000 0.00 0.00 0.00 2.17
2341 5333 1.007038 CACCCACTTGCATGCACAC 60.007 57.895 22.58 0.00 0.00 3.82
2372 5375 2.807967 GCTTCATTCTGTACACTGCACA 59.192 45.455 0.00 0.00 0.00 4.57
2376 5379 3.894257 TCTGTACACTGCACAGAGC 57.106 52.632 7.88 0.00 45.68 4.09
2400 5403 6.255950 CACAATGATCTGAAATGTGCTACAG 58.744 40.000 0.00 0.00 35.50 2.74
2423 5426 2.114616 AGAAGCAGGCTAGCTACACAT 58.885 47.619 15.72 0.00 45.89 3.21
2471 5476 2.609002 ACGAAAAAGGACACGTAACCAC 59.391 45.455 11.76 0.00 37.22 4.16
2559 5585 1.770658 TGAGGGTGATTATCCAGCAGG 59.229 52.381 0.00 0.00 36.35 4.85
2564 5590 2.579873 GTGATTATCCAGCAGGTGCAT 58.420 47.619 4.48 0.00 45.16 3.96
2576 5602 2.260434 GTGCATGTGCCAAGCCAG 59.740 61.111 2.07 0.00 41.18 4.85
2583 5610 4.020617 TGCCAAGCCAGAGACGGG 62.021 66.667 0.00 0.00 0.00 5.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 3.181464 GGACAAGTTAGGGCATCTCTACC 60.181 52.174 0.00 0.00 0.00 3.18
4 5 3.181464 GGGACAAGTTAGGGCATCTCTAC 60.181 52.174 0.00 0.00 0.00 2.59
10 11 0.988832 TTCGGGACAAGTTAGGGCAT 59.011 50.000 0.00 0.00 0.00 4.40
81 84 6.482524 ACCATAGCCTAGATAGATTCGTGTA 58.517 40.000 0.00 0.00 0.00 2.90
85 88 6.920758 GCATAACCATAGCCTAGATAGATTCG 59.079 42.308 0.00 0.00 0.00 3.34
97 102 7.333423 TCAAATATTACTCGCATAACCATAGCC 59.667 37.037 0.00 0.00 0.00 3.93
117 124 6.649141 GGACACCATCGTATGCTTATCAAATA 59.351 38.462 0.00 0.00 0.00 1.40
123 130 5.801531 TTAGGACACCATCGTATGCTTAT 57.198 39.130 0.00 0.00 0.00 1.73
128 135 4.131649 TGGTTTAGGACACCATCGTATG 57.868 45.455 0.00 0.00 39.53 2.39
130 137 3.306919 GGTTGGTTTAGGACACCATCGTA 60.307 47.826 0.00 0.00 44.05 3.43
132 139 2.081462 GGTTGGTTTAGGACACCATCG 58.919 52.381 0.00 0.00 44.05 3.84
138 145 0.847373 TGGCTGGTTGGTTTAGGACA 59.153 50.000 0.00 0.00 0.00 4.02
163 172 3.924507 GGCCAGCCGAACAATCAT 58.075 55.556 0.00 0.00 0.00 2.45
178 187 1.429423 GCATTTGCTAGTCACCGGC 59.571 57.895 0.00 0.00 38.21 6.13
179 188 1.019278 ACGCATTTGCTAGTCACCGG 61.019 55.000 0.00 0.00 39.32 5.28
523 538 4.097437 TGAATGAATTTCCAGCTGCTGATC 59.903 41.667 30.10 18.27 33.04 2.92
601 616 1.429148 GCAGGAAAGATGGCGTACGG 61.429 60.000 18.39 0.00 0.00 4.02
646 661 1.896660 TGCTTGGAAGGTTGCCGAC 60.897 57.895 0.00 0.00 0.00 4.79
662 677 0.312102 GACAAGGGAGCTGTTTGTGC 59.688 55.000 10.74 0.00 35.35 4.57
664 679 1.212935 ACAGACAAGGGAGCTGTTTGT 59.787 47.619 0.00 0.00 39.69 2.83
700 715 1.008680 TGGGGAATGGGGATGGGAT 59.991 57.895 0.00 0.00 0.00 3.85
702 717 1.701024 TCTGGGGAATGGGGATGGG 60.701 63.158 0.00 0.00 0.00 4.00
735 754 3.242804 GCTAGAACTAGAAGACGACGCAT 60.243 47.826 12.33 0.00 35.21 4.73
739 758 4.395542 TCCAAGCTAGAACTAGAAGACGAC 59.604 45.833 12.33 0.00 35.21 4.34
751 770 0.834687 ACCACGGGTCCAAGCTAGAA 60.835 55.000 0.00 0.00 0.00 2.10
752 771 1.229082 ACCACGGGTCCAAGCTAGA 60.229 57.895 0.00 0.00 0.00 2.43
755 774 3.953775 CCACCACGGGTCCAAGCT 61.954 66.667 0.00 0.00 31.02 3.74
789 808 2.097629 TGTGAAGACCGATCAGACGATC 59.902 50.000 0.00 0.00 44.04 3.69
793 812 2.544685 CCATGTGAAGACCGATCAGAC 58.455 52.381 0.00 0.00 0.00 3.51
794 813 1.134699 GCCATGTGAAGACCGATCAGA 60.135 52.381 0.00 0.00 0.00 3.27
795 814 1.293924 GCCATGTGAAGACCGATCAG 58.706 55.000 0.00 0.00 0.00 2.90
796 815 0.460109 CGCCATGTGAAGACCGATCA 60.460 55.000 0.00 0.00 0.00 2.92
797 816 0.460284 ACGCCATGTGAAGACCGATC 60.460 55.000 0.00 0.00 0.00 3.69
798 817 1.596934 ACGCCATGTGAAGACCGAT 59.403 52.632 0.00 0.00 0.00 4.18
799 818 3.056458 ACGCCATGTGAAGACCGA 58.944 55.556 0.00 0.00 0.00 4.69
814 833 6.706270 AGCCCACAGATATTATTTTACTCACG 59.294 38.462 0.00 0.00 0.00 4.35
896 915 0.955919 GTGTGCAGTACAAGGGAGCC 60.956 60.000 0.00 0.00 41.89 4.70
906 925 2.160615 GTGTTTGTGTGTGTGTGCAGTA 59.839 45.455 0.00 0.00 0.00 2.74
923 942 2.281070 CTGCCTCAGCCGTGTGTT 60.281 61.111 0.00 0.00 38.69 3.32
924 943 3.521529 GACTGCCTCAGCCGTGTGT 62.522 63.158 0.00 0.00 36.47 3.72
933 952 1.729586 ACAGGGTTTAGACTGCCTCA 58.270 50.000 0.00 0.00 38.25 3.86
1051 1079 1.801913 CGTCGGCGAAGGTGAAGAG 60.802 63.158 12.92 0.00 41.33 2.85
1216 1244 4.841617 TCCAGATCCGCCTCCGCT 62.842 66.667 0.00 0.00 0.00 5.52
1224 1252 3.610669 CCGCCTCCTCCAGATCCG 61.611 72.222 0.00 0.00 0.00 4.18
1624 1652 1.414158 ACGTATAGTGGATGCCTGCT 58.586 50.000 0.00 0.00 0.00 4.24
1661 1693 2.802667 GCATGCGAGCTGGTGTACG 61.803 63.158 0.00 0.00 0.00 3.67
1662 1694 1.091771 ATGCATGCGAGCTGGTGTAC 61.092 55.000 14.09 0.00 34.99 2.90
1663 1695 1.091197 CATGCATGCGAGCTGGTGTA 61.091 55.000 14.93 0.00 34.99 2.90
1664 1696 2.045634 ATGCATGCGAGCTGGTGT 60.046 55.556 14.09 0.00 34.99 4.16
1665 1697 1.444917 ATCATGCATGCGAGCTGGTG 61.445 55.000 22.25 3.34 34.99 4.17
1666 1698 1.153025 ATCATGCATGCGAGCTGGT 60.153 52.632 22.25 1.14 34.99 4.00
1667 1699 0.885150 AGATCATGCATGCGAGCTGG 60.885 55.000 22.25 0.00 34.99 4.85
1668 1700 1.459975 GTAGATCATGCATGCGAGCTG 59.540 52.381 22.25 11.88 34.99 4.24
1669 1701 1.793258 GTAGATCATGCATGCGAGCT 58.207 50.000 22.25 15.76 34.99 4.09
1670 1702 0.437678 CGTAGATCATGCATGCGAGC 59.562 55.000 22.25 8.70 0.00 5.03
1671 1703 2.056094 TCGTAGATCATGCATGCGAG 57.944 50.000 22.25 8.09 0.00 5.03
1672 1704 2.599659 GATCGTAGATCATGCATGCGA 58.400 47.619 22.25 22.45 45.12 5.10
1677 1709 2.899256 TGGATGGATCGTAGATCATGCA 59.101 45.455 11.53 10.73 45.12 3.96
1689 1721 6.909550 AGAGTACTAGTCAATGGATGGATC 57.090 41.667 0.00 0.00 0.00 3.36
1708 1740 9.868277 AATAACGTATACGACTAGCTATAGAGT 57.132 33.333 30.77 0.00 43.02 3.24
1769 1801 5.390885 CGAGCACACATGTAAAGTTTAGCAT 60.391 40.000 0.00 0.94 0.00 3.79
1770 1802 4.084066 CGAGCACACATGTAAAGTTTAGCA 60.084 41.667 0.00 0.00 0.00 3.49
1771 1803 4.084013 ACGAGCACACATGTAAAGTTTAGC 60.084 41.667 0.00 0.00 0.00 3.09
1772 1804 5.050363 ACACGAGCACACATGTAAAGTTTAG 60.050 40.000 0.00 0.00 0.00 1.85
1785 1817 0.249073 ACACAGAGACACGAGCACAC 60.249 55.000 0.00 0.00 0.00 3.82
1788 1820 0.249031 CACACACAGAGACACGAGCA 60.249 55.000 0.00 0.00 0.00 4.26
1791 1823 0.815095 ACACACACACAGAGACACGA 59.185 50.000 0.00 0.00 0.00 4.35
1793 1825 1.660607 CACACACACACACAGAGACAC 59.339 52.381 0.00 0.00 0.00 3.67
1794 1826 1.275010 ACACACACACACACAGAGACA 59.725 47.619 0.00 0.00 0.00 3.41
1795 1827 1.660607 CACACACACACACACAGAGAC 59.339 52.381 0.00 0.00 0.00 3.36
1796 1828 1.275010 ACACACACACACACACAGAGA 59.725 47.619 0.00 0.00 0.00 3.10
1797 1829 1.394572 CACACACACACACACACAGAG 59.605 52.381 0.00 0.00 0.00 3.35
1798 1830 1.437625 CACACACACACACACACAGA 58.562 50.000 0.00 0.00 0.00 3.41
1799 1831 0.447406 CCACACACACACACACACAG 59.553 55.000 0.00 0.00 0.00 3.66
1800 1832 0.957888 CCCACACACACACACACACA 60.958 55.000 0.00 0.00 0.00 3.72
1801 1833 1.653094 CCCCACACACACACACACAC 61.653 60.000 0.00 0.00 0.00 3.82
1804 1836 0.179234 CTACCCCACACACACACACA 59.821 55.000 0.00 0.00 0.00 3.72
1809 1841 2.685850 GGATACTACCCCACACACAC 57.314 55.000 0.00 0.00 0.00 3.82
1828 1860 4.686091 TCGATGACAAGCAGTAGTTCAAAG 59.314 41.667 0.00 0.00 0.00 2.77
1833 1865 4.258702 AGTTCGATGACAAGCAGTAGTT 57.741 40.909 0.00 0.00 0.00 2.24
1857 1893 0.179092 GGTCCATACAGTACCGTGGC 60.179 60.000 0.00 0.00 0.00 5.01
1858 1894 1.187974 TGGTCCATACAGTACCGTGG 58.812 55.000 0.00 0.00 35.98 4.94
1859 1895 2.483013 CCATGGTCCATACAGTACCGTG 60.483 54.545 3.38 5.68 45.79 4.94
2010 4762 2.209838 ACGCGGAAGATCACACATAG 57.790 50.000 12.47 0.00 0.00 2.23
2024 5012 3.356658 CGAATCAGTTAACAAAAACGCGG 59.643 43.478 12.47 0.00 34.46 6.46
2025 5013 4.205334 TCGAATCAGTTAACAAAAACGCG 58.795 39.130 3.53 3.53 34.46 6.01
2039 5029 6.747280 GGGACACACAATTTTAATCGAATCAG 59.253 38.462 0.00 0.00 0.00 2.90
2071 5061 5.482686 AATCAAAAGCGCACACAATTTTT 57.517 30.435 11.47 2.42 0.00 1.94
2072 5062 5.482686 AAATCAAAAGCGCACACAATTTT 57.517 30.435 11.47 3.24 0.00 1.82
2073 5063 4.024977 GGAAATCAAAAGCGCACACAATTT 60.025 37.500 11.47 9.89 0.00 1.82
2074 5064 3.494251 GGAAATCAAAAGCGCACACAATT 59.506 39.130 11.47 0.36 0.00 2.32
2075 5065 3.059166 GGAAATCAAAAGCGCACACAAT 58.941 40.909 11.47 0.00 0.00 2.71
2076 5066 2.100584 AGGAAATCAAAAGCGCACACAA 59.899 40.909 11.47 0.00 0.00 3.33
2077 5067 1.680735 AGGAAATCAAAAGCGCACACA 59.319 42.857 11.47 0.00 0.00 3.72
2078 5068 2.422276 AGGAAATCAAAAGCGCACAC 57.578 45.000 11.47 0.00 0.00 3.82
2086 5076 5.515886 CCAGTACCACCCTAGGAAATCAAAA 60.516 44.000 11.48 0.00 0.00 2.44
2096 5086 1.762957 CATGGACCAGTACCACCCTAG 59.237 57.143 0.00 0.00 40.36 3.02
2107 5097 2.095059 GCTAACAAACTGCATGGACCAG 60.095 50.000 0.00 0.00 36.41 4.00
2108 5098 1.885887 GCTAACAAACTGCATGGACCA 59.114 47.619 0.00 0.00 0.00 4.02
2109 5099 1.135689 CGCTAACAAACTGCATGGACC 60.136 52.381 0.00 0.00 0.00 4.46
2110 5100 1.535462 ACGCTAACAAACTGCATGGAC 59.465 47.619 0.00 0.00 0.00 4.02
2111 5101 1.804151 GACGCTAACAAACTGCATGGA 59.196 47.619 0.00 0.00 0.00 3.41
2112 5102 1.806542 AGACGCTAACAAACTGCATGG 59.193 47.619 0.00 0.00 0.00 3.66
2170 5160 4.003648 CGATAACTCAGGGAGCACTTTTT 58.996 43.478 0.00 0.00 32.04 1.94
2171 5161 3.008049 ACGATAACTCAGGGAGCACTTTT 59.992 43.478 0.00 0.00 32.04 2.27
2201 5191 2.100916 CCAACACGATAACTCCGATCCT 59.899 50.000 0.00 0.00 0.00 3.24
2202 5192 2.470821 CCAACACGATAACTCCGATCC 58.529 52.381 0.00 0.00 0.00 3.36
2203 5193 1.859080 GCCAACACGATAACTCCGATC 59.141 52.381 0.00 0.00 0.00 3.69
2204 5194 1.206132 TGCCAACACGATAACTCCGAT 59.794 47.619 0.00 0.00 0.00 4.18
2205 5195 0.604073 TGCCAACACGATAACTCCGA 59.396 50.000 0.00 0.00 0.00 4.55
2206 5196 0.999406 CTGCCAACACGATAACTCCG 59.001 55.000 0.00 0.00 0.00 4.63
2208 5198 1.394917 CTGCTGCCAACACGATAACTC 59.605 52.381 0.00 0.00 0.00 3.01
2209 5199 1.442769 CTGCTGCCAACACGATAACT 58.557 50.000 0.00 0.00 0.00 2.24
2210 5200 0.179189 GCTGCTGCCAACACGATAAC 60.179 55.000 3.85 0.00 0.00 1.89
2212 5202 1.020861 CAGCTGCTGCCAACACGATA 61.021 55.000 17.73 0.00 40.80 2.92
2213 5203 2.033141 AGCTGCTGCCAACACGAT 59.967 55.556 12.44 0.00 40.80 3.73
2215 5205 4.034258 CCAGCTGCTGCCAACACG 62.034 66.667 23.86 4.80 40.80 4.49
2216 5206 1.172180 TAACCAGCTGCTGCCAACAC 61.172 55.000 23.86 0.00 40.80 3.32
2218 5208 0.890683 ATTAACCAGCTGCTGCCAAC 59.109 50.000 23.86 0.00 40.80 3.77
2219 5209 1.631405 AATTAACCAGCTGCTGCCAA 58.369 45.000 23.86 15.90 40.80 4.52
2220 5210 2.505650 TAATTAACCAGCTGCTGCCA 57.494 45.000 23.86 7.96 40.80 4.92
2221 5211 3.633986 AGAATAATTAACCAGCTGCTGCC 59.366 43.478 23.86 2.76 40.80 4.85
2222 5212 4.907879 AGAATAATTAACCAGCTGCTGC 57.092 40.909 23.86 7.62 40.05 5.25
2223 5213 6.127647 TGGAAAGAATAATTAACCAGCTGCTG 60.128 38.462 22.44 22.44 0.00 4.41
2265 5257 2.288186 GAGACGCGACACAGATCTCATA 59.712 50.000 15.93 0.00 36.60 2.15
2297 5289 1.299541 ACATTTCGATCCGTGCATCC 58.700 50.000 0.00 0.00 0.00 3.51
2341 5333 2.481568 ACAGAATGAAGCACGACACATG 59.518 45.455 0.00 0.00 39.69 3.21
2372 5375 5.562506 CACATTTCAGATCATTGTGCTCT 57.437 39.130 0.00 0.00 32.24 4.09
2376 5379 6.185852 TGTAGCACATTTCAGATCATTGTG 57.814 37.500 0.00 2.63 40.42 3.33
2378 5381 5.732528 GCCTGTAGCACATTTCAGATCATTG 60.733 44.000 0.00 0.00 42.97 2.82
2379 5382 4.337555 GCCTGTAGCACATTTCAGATCATT 59.662 41.667 0.00 0.00 42.97 2.57
2380 5383 3.881688 GCCTGTAGCACATTTCAGATCAT 59.118 43.478 0.00 0.00 42.97 2.45
2400 5403 0.531753 GTAGCTAGCCTGCTTCTGCC 60.532 60.000 12.13 0.00 43.74 4.85
2423 5426 0.037975 GTCGACCGGAAGCTTGGTAA 60.038 55.000 9.46 0.00 38.99 2.85
2448 5451 2.865551 GGTTACGTGTCCTTTTTCGTGA 59.134 45.455 0.00 0.00 37.66 4.35
2452 5455 3.002965 CCTGTGGTTACGTGTCCTTTTTC 59.997 47.826 0.00 0.00 0.00 2.29
2510 5536 5.420409 GTGCTTATGTTTACCTAGCTGTCT 58.580 41.667 0.00 0.00 0.00 3.41
2511 5537 4.571176 GGTGCTTATGTTTACCTAGCTGTC 59.429 45.833 0.00 0.00 0.00 3.51
2512 5538 4.225267 AGGTGCTTATGTTTACCTAGCTGT 59.775 41.667 0.00 0.00 41.54 4.40
2513 5539 4.572389 CAGGTGCTTATGTTTACCTAGCTG 59.428 45.833 0.00 0.00 41.42 4.24
2551 5577 2.674033 GCACATGCACCTGCTGGA 60.674 61.111 17.64 0.00 42.66 3.86
2564 5590 2.031012 CGTCTCTGGCTTGGCACA 59.969 61.111 0.00 0.00 0.00 4.57


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

AutoCloner maintained by Alex Coulton.