Multiple sequence alignment - TraesCS2B01G256500

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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 TraesCS2B01G256500 chr2B 100.000 2450 0 0 1 2450 298275994 298278443 0.000000e+00 4525
1 TraesCS2B01G256500 chr2B 86.507 2127 244 30 1 2115 465451229 465449134 0.000000e+00 2298
2 TraesCS2B01G256500 chr2B 91.093 1628 122 14 497 2113 550642483 550640868 0.000000e+00 2182
3 TraesCS2B01G256500 chr2B 92.537 469 33 1 1 467 545611997 545611529 0.000000e+00 671
4 TraesCS2B01G256500 chr2B 92.537 469 33 1 1 467 762706249 762706717 0.000000e+00 671
5 TraesCS2B01G256500 chr2B 92.324 469 34 1 1 467 550642951 550642483 0.000000e+00 665
6 TraesCS2B01G256500 chr2B 92.111 469 35 1 1 467 399402283 399401815 0.000000e+00 660
7 TraesCS2B01G256500 chr2B 91.898 469 36 1 1 467 295832513 295832981 0.000000e+00 654
8 TraesCS2B01G256500 chr7B 93.019 2120 133 13 1 2113 476087852 476085741 0.000000e+00 3081
9 TraesCS2B01G256500 chrUn 91.671 2125 152 14 1 2112 79020028 79017916 0.000000e+00 2920
10 TraesCS2B01G256500 chrUn 90.216 2126 174 20 1 2113 59444577 59442473 0.000000e+00 2743
11 TraesCS2B01G256500 chr5B 91.675 2126 143 19 1 2113 316555834 316553730 0.000000e+00 2915
12 TraesCS2B01G256500 chr3B 90.461 2128 164 24 1 2113 398773056 398775159 0.000000e+00 2769
13 TraesCS2B01G256500 chr3B 91.149 1627 122 13 498 2113 409839999 409838384 0.000000e+00 2187
14 TraesCS2B01G256500 chr3B 89.926 1628 141 14 497 2113 565180459 565182074 0.000000e+00 2076
15 TraesCS2B01G256500 chr3B 94.092 457 25 1 1 455 195665392 195665848 0.000000e+00 693
16 TraesCS2B01G256500 chr3B 92.324 469 34 1 1 467 331024975 331025443 0.000000e+00 665
17 TraesCS2B01G256500 chr6B 90.335 2121 178 16 1 2113 144614299 144616400 0.000000e+00 2756
18 TraesCS2B01G256500 chr1B 94.720 322 14 3 2126 2447 133711342 133711660 4.700000e-137 497
19 TraesCS2B01G256500 chr1B 94.720 322 14 3 2126 2447 133714526 133714844 4.700000e-137 497
20 TraesCS2B01G256500 chr1B 94.462 325 15 3 2126 2450 163651958 163651637 4.700000e-137 497
21 TraesCS2B01G256500 chr1B 93.231 325 20 2 2126 2450 102610376 102610054 6.130000e-131 477
22 TraesCS2B01G256500 chr6D 93.252 326 18 4 2126 2450 283633184 283632862 6.130000e-131 477
23 TraesCS2B01G256500 chr4A 92.331 326 21 4 2126 2450 500277898 500277576 6.170000e-126 460
24 TraesCS2B01G256500 chr7A 90.462 325 29 2 2126 2450 396164988 396164666 6.260000e-116 427
25 TraesCS2B01G256500 chr6A 90.373 322 28 3 2126 2447 209106426 209106744 1.050000e-113 420
26 TraesCS2B01G256500 chr1A 89.846 325 31 2 2126 2450 313567101 313566779 1.360000e-112 416


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 TraesCS2B01G256500 chr2B 298275994 298278443 2449 False 4525.0 4525 100.0000 1 2450 1 chr2B.!!$F2 2449
1 TraesCS2B01G256500 chr2B 465449134 465451229 2095 True 2298.0 2298 86.5070 1 2115 1 chr2B.!!$R2 2114
2 TraesCS2B01G256500 chr2B 550640868 550642951 2083 True 1423.5 2182 91.7085 1 2113 2 chr2B.!!$R4 2112
3 TraesCS2B01G256500 chr7B 476085741 476087852 2111 True 3081.0 3081 93.0190 1 2113 1 chr7B.!!$R1 2112
4 TraesCS2B01G256500 chrUn 79017916 79020028 2112 True 2920.0 2920 91.6710 1 2112 1 chrUn.!!$R2 2111
5 TraesCS2B01G256500 chrUn 59442473 59444577 2104 True 2743.0 2743 90.2160 1 2113 1 chrUn.!!$R1 2112
6 TraesCS2B01G256500 chr5B 316553730 316555834 2104 True 2915.0 2915 91.6750 1 2113 1 chr5B.!!$R1 2112
7 TraesCS2B01G256500 chr3B 398773056 398775159 2103 False 2769.0 2769 90.4610 1 2113 1 chr3B.!!$F3 2112
8 TraesCS2B01G256500 chr3B 409838384 409839999 1615 True 2187.0 2187 91.1490 498 2113 1 chr3B.!!$R1 1615
9 TraesCS2B01G256500 chr3B 565180459 565182074 1615 False 2076.0 2076 89.9260 497 2113 1 chr3B.!!$F4 1616
10 TraesCS2B01G256500 chr6B 144614299 144616400 2101 False 2756.0 2756 90.3350 1 2113 1 chr6B.!!$F1 2112
11 TraesCS2B01G256500 chr1B 133711342 133714844 3502 False 497.0 497 94.7200 2126 2447 2 chr1B.!!$F1 321

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
165 168 0.676466 ATTCGCCCGCTGAATGTCAA 60.676 50.0 6.14 0.0 34.86 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2111 2125 0.110486 GGTTCCCTTCACTTGGCAGA 59.89 55.0 0.0 0.0 0.0 4.26 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
135 138 4.526970 CTCCTACTTGCCATATTTGTGGT 58.473 43.478 0.00 0.00 41.47 4.16
165 168 0.676466 ATTCGCCCGCTGAATGTCAA 60.676 50.000 6.14 0.00 34.86 3.18
184 187 5.057149 GTCAACATGGTTACTCTCACACTT 58.943 41.667 0.00 0.00 0.00 3.16
258 261 1.210204 ACTCACATGGGTGGCCTGAT 61.210 55.000 3.32 0.00 45.32 2.90
266 269 3.924576 GGTGGCCTGATAACCCAAT 57.075 52.632 3.32 0.00 0.00 3.16
455 458 6.545448 TGGTCCTCCATTTGGTCAACCAAT 62.545 45.833 15.05 3.71 45.84 3.16
524 527 3.192001 CCCACACAAGATGAGTTTGATGG 59.808 47.826 0.00 0.00 36.24 3.51
569 572 2.034812 GTCTCGAGTTCACTTGGAGTGT 59.965 50.000 13.13 0.00 46.03 3.55
703 706 5.420421 AGCACTATTTCTTCACAGCTAGAGA 59.580 40.000 0.00 0.00 0.00 3.10
757 761 1.695242 AGGTTCCAACACCGTCACATA 59.305 47.619 0.00 0.00 42.33 2.29
781 785 3.055240 AGCTGAGCAAGATAGCAAGAGTT 60.055 43.478 7.39 0.00 39.84 3.01
856 863 4.021229 TGATCAAGAGCTGCAATTTCCAT 58.979 39.130 1.02 0.00 0.00 3.41
908 915 8.937207 ACTACTCCTAAAGAAGTACAAGAAGA 57.063 34.615 0.00 0.00 0.00 2.87
942 949 6.169094 TGAAGATGAAGAACCTGAGATTCAC 58.831 40.000 0.00 0.00 34.71 3.18
945 952 4.963318 TGAAGAACCTGAGATTCACTGT 57.037 40.909 0.00 0.00 0.00 3.55
1005 1012 4.445305 CCCAATCCTCTTGATGACATGCTA 60.445 45.833 0.00 0.00 32.68 3.49
1100 1107 4.774124 CTTGGACATGATCATACACACCT 58.226 43.478 8.15 0.00 0.00 4.00
1354 1361 4.260334 GCATTGTTTCTTTTGTTGAGTGCC 60.260 41.667 0.00 0.00 0.00 5.01
1371 1378 2.364002 GTGCCCTTTCAGGTTTTTGCTA 59.636 45.455 0.00 0.00 31.93 3.49
1413 1420 0.608640 ACCAGGTTCGAGGTGACATC 59.391 55.000 0.00 0.00 36.60 3.06
1432 1439 1.639635 CCCTTGGGATCCTGGTGGAG 61.640 65.000 12.58 1.17 46.91 3.86
1444 1451 1.451028 GGTGGAGTCAGAGCATGGC 60.451 63.158 0.00 0.00 0.00 4.40
1522 1535 1.343069 AGCAAAAGGAGAGGAGTCGT 58.657 50.000 0.00 0.00 0.00 4.34
1570 1583 5.880887 TCGAGCGAGACCTACATCATATAAT 59.119 40.000 0.00 0.00 0.00 1.28
1598 1611 3.010027 TGAGCTGTTTCATGACCCCAATA 59.990 43.478 0.00 0.00 0.00 1.90
1999 2013 4.472470 AGACATGGAGAAGTGATGATTCCA 59.528 41.667 0.00 0.00 41.75 3.53
2001 2015 5.763355 ACATGGAGAAGTGATGATTCCAAT 58.237 37.500 0.00 0.00 40.96 3.16
2002 2016 6.192773 ACATGGAGAAGTGATGATTCCAATT 58.807 36.000 0.00 0.00 40.96 2.32
2003 2017 6.666546 ACATGGAGAAGTGATGATTCCAATTT 59.333 34.615 0.00 0.00 40.96 1.82
2004 2018 7.179694 ACATGGAGAAGTGATGATTCCAATTTT 59.820 33.333 0.00 0.00 40.96 1.82
2005 2019 7.543359 TGGAGAAGTGATGATTCCAATTTTT 57.457 32.000 0.00 0.00 35.13 1.94
2006 2020 7.380536 TGGAGAAGTGATGATTCCAATTTTTG 58.619 34.615 0.00 0.00 35.13 2.44
2007 2021 7.015487 TGGAGAAGTGATGATTCCAATTTTTGT 59.985 33.333 0.00 0.00 35.13 2.83
2008 2022 7.330208 GGAGAAGTGATGATTCCAATTTTTGTG 59.670 37.037 0.00 0.00 0.00 3.33
2009 2023 6.647895 AGAAGTGATGATTCCAATTTTTGTGC 59.352 34.615 0.00 0.00 0.00 4.57
2010 2024 6.105397 AGTGATGATTCCAATTTTTGTGCT 57.895 33.333 0.00 0.00 0.00 4.40
2011 2025 6.527423 AGTGATGATTCCAATTTTTGTGCTT 58.473 32.000 0.00 0.00 0.00 3.91
2012 2026 7.669427 AGTGATGATTCCAATTTTTGTGCTTA 58.331 30.769 0.00 0.00 0.00 3.09
2013 2027 8.316214 AGTGATGATTCCAATTTTTGTGCTTAT 58.684 29.630 0.00 0.00 0.00 1.73
2014 2028 8.385111 GTGATGATTCCAATTTTTGTGCTTATG 58.615 33.333 0.00 0.00 0.00 1.90
2015 2029 8.095792 TGATGATTCCAATTTTTGTGCTTATGT 58.904 29.630 0.00 0.00 0.00 2.29
2016 2030 7.655236 TGATTCCAATTTTTGTGCTTATGTG 57.345 32.000 0.00 0.00 0.00 3.21
2017 2031 7.215789 TGATTCCAATTTTTGTGCTTATGTGT 58.784 30.769 0.00 0.00 0.00 3.72
2018 2032 7.714377 TGATTCCAATTTTTGTGCTTATGTGTT 59.286 29.630 0.00 0.00 0.00 3.32
2019 2033 6.841443 TCCAATTTTTGTGCTTATGTGTTG 57.159 33.333 0.00 0.00 0.00 3.33
2020 2034 6.344500 TCCAATTTTTGTGCTTATGTGTTGT 58.656 32.000 0.00 0.00 0.00 3.32
2021 2035 6.820656 TCCAATTTTTGTGCTTATGTGTTGTT 59.179 30.769 0.00 0.00 0.00 2.83
2022 2036 7.010923 TCCAATTTTTGTGCTTATGTGTTGTTC 59.989 33.333 0.00 0.00 0.00 3.18
2023 2037 7.201591 CCAATTTTTGTGCTTATGTGTTGTTCA 60.202 33.333 0.00 0.00 0.00 3.18
2024 2038 8.336806 CAATTTTTGTGCTTATGTGTTGTTCAT 58.663 29.630 0.00 0.00 0.00 2.57
2025 2039 7.840342 TTTTTGTGCTTATGTGTTGTTCATT 57.160 28.000 0.00 0.00 0.00 2.57
2026 2040 7.840342 TTTTGTGCTTATGTGTTGTTCATTT 57.160 28.000 0.00 0.00 0.00 2.32
2027 2041 8.932945 TTTTGTGCTTATGTGTTGTTCATTTA 57.067 26.923 0.00 0.00 0.00 1.40
2028 2042 8.932945 TTTGTGCTTATGTGTTGTTCATTTAA 57.067 26.923 0.00 0.00 0.00 1.52
2029 2043 8.932945 TTGTGCTTATGTGTTGTTCATTTAAA 57.067 26.923 0.00 0.00 0.00 1.52
2030 2044 8.932945 TGTGCTTATGTGTTGTTCATTTAAAA 57.067 26.923 0.00 0.00 0.00 1.52
2031 2045 9.371136 TGTGCTTATGTGTTGTTCATTTAAAAA 57.629 25.926 0.00 0.00 0.00 1.94
2077 2091 8.398878 AGTATCTGATCTTACCTAACAGTAGC 57.601 38.462 0.00 0.00 0.00 3.58
2078 2092 7.999545 AGTATCTGATCTTACCTAACAGTAGCA 59.000 37.037 0.00 0.00 0.00 3.49
2079 2093 7.847711 ATCTGATCTTACCTAACAGTAGCAT 57.152 36.000 0.00 0.00 0.00 3.79
2080 2094 7.043961 TCTGATCTTACCTAACAGTAGCATG 57.956 40.000 0.00 0.00 0.00 4.06
2081 2095 6.607600 TCTGATCTTACCTAACAGTAGCATGT 59.392 38.462 0.00 0.00 33.96 3.21
2082 2096 6.806751 TGATCTTACCTAACAGTAGCATGTC 58.193 40.000 0.00 0.00 31.50 3.06
2083 2097 6.379988 TGATCTTACCTAACAGTAGCATGTCA 59.620 38.462 0.00 0.00 31.50 3.58
2084 2098 6.791867 TCTTACCTAACAGTAGCATGTCAT 57.208 37.500 0.00 0.00 31.50 3.06
2085 2099 6.573434 TCTTACCTAACAGTAGCATGTCATG 58.427 40.000 8.56 8.56 31.50 3.07
2086 2100 4.826274 ACCTAACAGTAGCATGTCATGT 57.174 40.909 14.26 4.26 31.50 3.21
2087 2101 5.165961 ACCTAACAGTAGCATGTCATGTT 57.834 39.130 14.26 10.85 37.77 2.71
2088 2102 5.178797 ACCTAACAGTAGCATGTCATGTTC 58.821 41.667 14.26 5.52 35.77 3.18
2089 2103 4.572389 CCTAACAGTAGCATGTCATGTTCC 59.428 45.833 14.26 0.00 35.77 3.62
2090 2104 2.991250 ACAGTAGCATGTCATGTTCCC 58.009 47.619 14.26 3.38 0.00 3.97
2091 2105 2.573462 ACAGTAGCATGTCATGTTCCCT 59.427 45.455 14.26 5.45 0.00 4.20
2092 2106 2.941064 CAGTAGCATGTCATGTTCCCTG 59.059 50.000 14.26 12.93 0.00 4.45
2093 2107 2.092753 AGTAGCATGTCATGTTCCCTGG 60.093 50.000 14.26 0.00 0.00 4.45
2094 2108 0.994247 AGCATGTCATGTTCCCTGGA 59.006 50.000 14.26 0.00 0.00 3.86
2095 2109 1.567649 AGCATGTCATGTTCCCTGGAT 59.432 47.619 14.26 0.00 0.00 3.41
2096 2110 2.024655 AGCATGTCATGTTCCCTGGATT 60.025 45.455 14.26 0.00 0.00 3.01
2097 2111 2.100252 GCATGTCATGTTCCCTGGATTG 59.900 50.000 14.26 0.00 0.00 2.67
2098 2112 2.512692 TGTCATGTTCCCTGGATTGG 57.487 50.000 0.00 0.00 0.00 3.16
2099 2113 1.710244 TGTCATGTTCCCTGGATTGGT 59.290 47.619 0.00 0.00 0.00 3.67
2100 2114 2.094675 GTCATGTTCCCTGGATTGGTG 58.905 52.381 0.00 0.00 0.00 4.17
2101 2115 1.005805 TCATGTTCCCTGGATTGGTGG 59.994 52.381 0.00 0.00 0.00 4.61
2102 2116 0.324645 ATGTTCCCTGGATTGGTGGC 60.325 55.000 0.00 0.00 0.00 5.01
2103 2117 1.384191 GTTCCCTGGATTGGTGGCT 59.616 57.895 0.00 0.00 0.00 4.75
2104 2118 0.251787 GTTCCCTGGATTGGTGGCTT 60.252 55.000 0.00 0.00 0.00 4.35
2105 2119 0.251742 TTCCCTGGATTGGTGGCTTG 60.252 55.000 0.00 0.00 0.00 4.01
2106 2120 1.077265 CCCTGGATTGGTGGCTTGT 59.923 57.895 0.00 0.00 0.00 3.16
2107 2121 1.252904 CCCTGGATTGGTGGCTTGTG 61.253 60.000 0.00 0.00 0.00 3.33
2108 2122 0.251297 CCTGGATTGGTGGCTTGTGA 60.251 55.000 0.00 0.00 0.00 3.58
2109 2123 1.619654 CTGGATTGGTGGCTTGTGAA 58.380 50.000 0.00 0.00 0.00 3.18
2110 2124 1.962807 CTGGATTGGTGGCTTGTGAAA 59.037 47.619 0.00 0.00 0.00 2.69
2111 2125 2.564062 CTGGATTGGTGGCTTGTGAAAT 59.436 45.455 0.00 0.00 0.00 2.17
2112 2126 2.562298 TGGATTGGTGGCTTGTGAAATC 59.438 45.455 0.00 0.00 0.00 2.17
2113 2127 2.827921 GGATTGGTGGCTTGTGAAATCT 59.172 45.455 0.00 0.00 0.00 2.40
2114 2128 3.367703 GGATTGGTGGCTTGTGAAATCTG 60.368 47.826 0.00 0.00 0.00 2.90
2115 2129 0.961019 TGGTGGCTTGTGAAATCTGC 59.039 50.000 0.00 0.00 0.00 4.26
2116 2130 0.244721 GGTGGCTTGTGAAATCTGCC 59.755 55.000 0.00 0.00 43.49 4.85
2119 2133 2.358939 GGCTTGTGAAATCTGCCAAG 57.641 50.000 0.00 0.00 42.79 3.61
2120 2134 1.615392 GGCTTGTGAAATCTGCCAAGT 59.385 47.619 0.00 0.00 42.79 3.16
2121 2135 2.608752 GGCTTGTGAAATCTGCCAAGTG 60.609 50.000 0.00 0.00 42.79 3.16
2122 2136 2.294233 GCTTGTGAAATCTGCCAAGTGA 59.706 45.455 0.00 0.00 37.28 3.41
2123 2137 3.243501 GCTTGTGAAATCTGCCAAGTGAA 60.244 43.478 0.00 0.00 37.28 3.18
2124 2138 4.543692 CTTGTGAAATCTGCCAAGTGAAG 58.456 43.478 0.00 0.00 31.79 3.02
2271 5468 0.963962 AAGTCCAAAGCATGCACTGG 59.036 50.000 24.95 24.95 0.00 4.00
2275 5472 2.493278 GTCCAAAGCATGCACTGGTTAT 59.507 45.455 27.78 2.31 44.60 1.89
2309 5506 4.629200 CACTTGGCATTCTCTAGTCAGTTC 59.371 45.833 0.00 0.00 0.00 3.01
2312 5509 3.449018 TGGCATTCTCTAGTCAGTTCTCC 59.551 47.826 0.00 0.00 0.00 3.71
2337 5534 5.806366 TCACTATCGAGTTCGTGTCATAA 57.194 39.130 1.07 0.00 40.80 1.90
2347 5544 6.276832 AGTTCGTGTCATAAGCCTTTACTA 57.723 37.500 0.00 0.00 0.00 1.82
2396 5593 4.953579 GGGGGAACTTGATAAGCACATTTA 59.046 41.667 0.00 0.00 0.00 1.40
2398 5595 6.098266 GGGGGAACTTGATAAGCACATTTAAT 59.902 38.462 0.00 0.00 0.00 1.40
2399 5596 7.286775 GGGGGAACTTGATAAGCACATTTAATA 59.713 37.037 0.00 0.00 0.00 0.98
2429 5626 6.558488 ATTTGGGCACACAAATATACCATT 57.442 33.333 9.07 0.00 46.18 3.16
2449 5646 8.821686 ACCATTTATTGTGATCTGACCATTAA 57.178 30.769 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
165 168 4.588951 TCTGAAGTGTGAGAGTAACCATGT 59.411 41.667 0.00 0.00 0.00 3.21
184 187 3.159472 AGCTCATGCCAAAACAATCTGA 58.841 40.909 0.00 0.00 40.80 3.27
258 261 8.213489 TGCTCCTATATGACATAATTGGGTTA 57.787 34.615 0.00 0.00 0.00 2.85
266 269 6.101150 AGGGTTGTTGCTCCTATATGACATAA 59.899 38.462 0.00 0.00 0.00 1.90
455 458 4.381612 CCGACTCATTAGGTGCTGAAGTTA 60.382 45.833 0.00 0.00 0.00 2.24
524 527 4.756084 AAAAGTGTGAGCTTGTCTATGC 57.244 40.909 0.00 0.00 0.00 3.14
569 572 6.393897 ACCTTCCTAATAGGATCATCCTCAA 58.606 40.000 10.40 0.00 45.66 3.02
703 706 8.280258 TCAAAGGATATCCCAGAAATACTCAT 57.720 34.615 18.56 0.00 37.41 2.90
757 761 2.235650 TCTTGCTATCTTGCTCAGCTGT 59.764 45.455 14.67 0.00 36.26 4.40
805 812 8.190326 TGTTCCTTGTCTTCTAGTTCATCTTA 57.810 34.615 0.00 0.00 0.00 2.10
856 863 5.857268 TGATGAGTCTTCAACTTGATCACA 58.143 37.500 6.26 0.00 38.74 3.58
908 915 7.551974 CAGGTTCTTCATCTTCATCTACAACAT 59.448 37.037 0.00 0.00 0.00 2.71
942 949 6.478016 CACACTCATGTATGACAATAGGACAG 59.522 42.308 6.05 0.00 36.72 3.51
945 952 6.790232 TCACACTCATGTATGACAATAGGA 57.210 37.500 6.05 0.00 36.72 2.94
1005 1012 6.547510 AGTTAGAAGCAAAGAAATCACAAGGT 59.452 34.615 0.00 0.00 0.00 3.50
1100 1107 6.714810 ACAAATGAGAGTAATGCCACTAACAA 59.285 34.615 0.00 0.00 0.00 2.83
1327 1334 5.063817 ACTCAACAAAAGAAACAATGCAAGC 59.936 36.000 0.00 0.00 0.00 4.01
1371 1378 1.795768 CATGTAGTGAACGGTGCAGT 58.204 50.000 1.33 1.33 0.00 4.40
1413 1420 1.619363 TCCACCAGGATCCCAAGGG 60.619 63.158 8.55 7.97 39.61 3.95
1432 1439 0.879400 CCTCATCGCCATGCTCTGAC 60.879 60.000 0.00 0.00 0.00 3.51
1444 1451 0.179062 CCCCTTGCTTCTCCTCATCG 60.179 60.000 0.00 0.00 0.00 3.84
1522 1535 4.401202 TCACTCTTACATCCTCGTGCATTA 59.599 41.667 0.00 0.00 0.00 1.90
1538 1551 0.736053 GGTCTCGCTCGATCACTCTT 59.264 55.000 0.00 0.00 0.00 2.85
1570 1583 0.321564 CATGAAACAGCTCACCGGGA 60.322 55.000 6.32 0.00 0.00 5.14
1638 1652 0.597568 TTGCTCAAGCGACCCAAATG 59.402 50.000 0.00 0.00 45.83 2.32
1999 2013 7.840342 TGAACAACACATAAGCACAAAAATT 57.160 28.000 0.00 0.00 0.00 1.82
2001 2015 7.840342 AATGAACAACACATAAGCACAAAAA 57.160 28.000 0.00 0.00 0.00 1.94
2002 2016 7.840342 AAATGAACAACACATAAGCACAAAA 57.160 28.000 0.00 0.00 0.00 2.44
2003 2017 8.932945 TTAAATGAACAACACATAAGCACAAA 57.067 26.923 0.00 0.00 0.00 2.83
2004 2018 8.932945 TTTAAATGAACAACACATAAGCACAA 57.067 26.923 0.00 0.00 0.00 3.33
2005 2019 8.932945 TTTTAAATGAACAACACATAAGCACA 57.067 26.923 0.00 0.00 0.00 4.57
2051 2065 8.852135 GCTACTGTTAGGTAAGATCAGATACTT 58.148 37.037 0.00 0.00 0.00 2.24
2052 2066 7.999545 TGCTACTGTTAGGTAAGATCAGATACT 59.000 37.037 0.00 0.00 0.00 2.12
2053 2067 8.167605 TGCTACTGTTAGGTAAGATCAGATAC 57.832 38.462 0.00 0.00 0.00 2.24
2054 2068 8.797438 CATGCTACTGTTAGGTAAGATCAGATA 58.203 37.037 0.00 0.00 0.00 1.98
2055 2069 7.288852 ACATGCTACTGTTAGGTAAGATCAGAT 59.711 37.037 0.00 0.00 0.00 2.90
2056 2070 6.607600 ACATGCTACTGTTAGGTAAGATCAGA 59.392 38.462 0.00 0.00 0.00 3.27
2057 2071 6.810911 ACATGCTACTGTTAGGTAAGATCAG 58.189 40.000 0.00 0.00 0.00 2.90
2058 2072 6.379988 TGACATGCTACTGTTAGGTAAGATCA 59.620 38.462 0.00 0.00 0.00 2.92
2059 2073 6.806751 TGACATGCTACTGTTAGGTAAGATC 58.193 40.000 0.00 0.00 0.00 2.75
2060 2074 6.791867 TGACATGCTACTGTTAGGTAAGAT 57.208 37.500 0.00 0.00 0.00 2.40
2061 2075 6.154534 ACATGACATGCTACTGTTAGGTAAGA 59.845 38.462 15.49 0.00 29.41 2.10
2062 2076 6.341316 ACATGACATGCTACTGTTAGGTAAG 58.659 40.000 15.49 0.00 29.41 2.34
2063 2077 6.294361 ACATGACATGCTACTGTTAGGTAA 57.706 37.500 15.49 0.00 29.41 2.85
2064 2078 5.932619 ACATGACATGCTACTGTTAGGTA 57.067 39.130 15.49 0.00 29.41 3.08
2065 2079 4.826274 ACATGACATGCTACTGTTAGGT 57.174 40.909 15.49 0.00 0.00 3.08
2066 2080 4.572389 GGAACATGACATGCTACTGTTAGG 59.428 45.833 15.49 0.00 30.63 2.69
2067 2081 4.572389 GGGAACATGACATGCTACTGTTAG 59.428 45.833 15.49 0.00 30.63 2.34
2068 2082 4.225042 AGGGAACATGACATGCTACTGTTA 59.775 41.667 15.49 0.00 30.63 2.41
2069 2083 3.009473 AGGGAACATGACATGCTACTGTT 59.991 43.478 15.49 2.39 33.02 3.16
2070 2084 2.573462 AGGGAACATGACATGCTACTGT 59.427 45.455 15.49 0.00 0.00 3.55
2071 2085 2.941064 CAGGGAACATGACATGCTACTG 59.059 50.000 15.49 13.71 0.00 2.74
2072 2086 2.092753 CCAGGGAACATGACATGCTACT 60.093 50.000 15.49 6.09 0.00 2.57
2073 2087 2.092968 TCCAGGGAACATGACATGCTAC 60.093 50.000 15.49 3.76 0.00 3.58
2074 2088 2.195727 TCCAGGGAACATGACATGCTA 58.804 47.619 15.49 0.00 0.00 3.49
2075 2089 0.994247 TCCAGGGAACATGACATGCT 59.006 50.000 15.49 2.76 0.00 3.79
2076 2090 2.062971 ATCCAGGGAACATGACATGC 57.937 50.000 15.49 0.00 0.00 4.06
2077 2091 2.691526 CCAATCCAGGGAACATGACATG 59.308 50.000 14.02 14.02 0.00 3.21
2078 2092 2.312741 ACCAATCCAGGGAACATGACAT 59.687 45.455 0.00 0.00 0.00 3.06
2079 2093 1.710244 ACCAATCCAGGGAACATGACA 59.290 47.619 0.00 0.00 0.00 3.58
2080 2094 2.094675 CACCAATCCAGGGAACATGAC 58.905 52.381 0.00 0.00 0.00 3.06
2081 2095 1.005805 CCACCAATCCAGGGAACATGA 59.994 52.381 0.00 0.00 0.00 3.07
2082 2096 1.477553 CCACCAATCCAGGGAACATG 58.522 55.000 0.00 0.00 0.00 3.21
2083 2097 0.324645 GCCACCAATCCAGGGAACAT 60.325 55.000 0.00 0.00 0.00 2.71
2084 2098 1.076549 GCCACCAATCCAGGGAACA 59.923 57.895 0.00 0.00 0.00 3.18
2085 2099 0.251787 AAGCCACCAATCCAGGGAAC 60.252 55.000 0.00 0.00 0.00 3.62
2086 2100 0.251742 CAAGCCACCAATCCAGGGAA 60.252 55.000 0.00 0.00 0.00 3.97
2087 2101 1.383799 CAAGCCACCAATCCAGGGA 59.616 57.895 0.00 0.00 0.00 4.20
2088 2102 1.077265 ACAAGCCACCAATCCAGGG 59.923 57.895 0.00 0.00 0.00 4.45
2089 2103 0.251297 TCACAAGCCACCAATCCAGG 60.251 55.000 0.00 0.00 0.00 4.45
2090 2104 1.619654 TTCACAAGCCACCAATCCAG 58.380 50.000 0.00 0.00 0.00 3.86
2091 2105 2.079170 TTTCACAAGCCACCAATCCA 57.921 45.000 0.00 0.00 0.00 3.41
2092 2106 2.827921 AGATTTCACAAGCCACCAATCC 59.172 45.455 0.00 0.00 0.00 3.01
2093 2107 3.841643 CAGATTTCACAAGCCACCAATC 58.158 45.455 0.00 0.00 0.00 2.67
2094 2108 2.028748 GCAGATTTCACAAGCCACCAAT 60.029 45.455 0.00 0.00 0.00 3.16
2095 2109 1.340889 GCAGATTTCACAAGCCACCAA 59.659 47.619 0.00 0.00 0.00 3.67
2096 2110 0.961019 GCAGATTTCACAAGCCACCA 59.039 50.000 0.00 0.00 0.00 4.17
2097 2111 0.244721 GGCAGATTTCACAAGCCACC 59.755 55.000 0.00 0.00 44.59 4.61
2098 2112 3.800628 GGCAGATTTCACAAGCCAC 57.199 52.632 0.00 0.00 44.59 5.01
2100 2114 1.615392 ACTTGGCAGATTTCACAAGCC 59.385 47.619 0.00 0.00 42.97 4.35
2101 2115 2.294233 TCACTTGGCAGATTTCACAAGC 59.706 45.455 0.00 0.00 42.97 4.01
2102 2116 4.543692 CTTCACTTGGCAGATTTCACAAG 58.456 43.478 0.00 0.00 44.32 3.16
2103 2117 3.318839 CCTTCACTTGGCAGATTTCACAA 59.681 43.478 0.00 0.00 0.00 3.33
2104 2118 2.886523 CCTTCACTTGGCAGATTTCACA 59.113 45.455 0.00 0.00 0.00 3.58
2105 2119 2.229784 CCCTTCACTTGGCAGATTTCAC 59.770 50.000 0.00 0.00 0.00 3.18
2106 2120 2.108075 TCCCTTCACTTGGCAGATTTCA 59.892 45.455 0.00 0.00 0.00 2.69
2107 2121 2.795329 TCCCTTCACTTGGCAGATTTC 58.205 47.619 0.00 0.00 0.00 2.17
2108 2122 2.893489 GTTCCCTTCACTTGGCAGATTT 59.107 45.455 0.00 0.00 0.00 2.17
2109 2123 2.519013 GTTCCCTTCACTTGGCAGATT 58.481 47.619 0.00 0.00 0.00 2.40
2110 2124 1.272147 GGTTCCCTTCACTTGGCAGAT 60.272 52.381 0.00 0.00 0.00 2.90
2111 2125 0.110486 GGTTCCCTTCACTTGGCAGA 59.890 55.000 0.00 0.00 0.00 4.26
2112 2126 0.111253 AGGTTCCCTTCACTTGGCAG 59.889 55.000 0.00 0.00 0.00 4.85
2113 2127 0.555769 AAGGTTCCCTTCACTTGGCA 59.444 50.000 0.00 0.00 40.17 4.92
2114 2128 1.341209 CAAAGGTTCCCTTCACTTGGC 59.659 52.381 0.00 0.00 43.92 4.52
2115 2129 1.963515 CCAAAGGTTCCCTTCACTTGG 59.036 52.381 0.00 0.00 43.92 3.61
2116 2130 1.341209 GCCAAAGGTTCCCTTCACTTG 59.659 52.381 0.00 0.00 43.92 3.16
2117 2131 1.063266 TGCCAAAGGTTCCCTTCACTT 60.063 47.619 0.00 0.00 43.92 3.16
2118 2132 0.555769 TGCCAAAGGTTCCCTTCACT 59.444 50.000 0.00 0.00 43.92 3.41
2119 2133 0.673985 GTGCCAAAGGTTCCCTTCAC 59.326 55.000 0.00 0.00 43.92 3.18
2120 2134 0.260230 TGTGCCAAAGGTTCCCTTCA 59.740 50.000 0.00 0.00 43.92 3.02
2121 2135 1.408969 TTGTGCCAAAGGTTCCCTTC 58.591 50.000 0.00 0.00 43.92 3.46
2123 2137 1.133199 TGATTGTGCCAAAGGTTCCCT 60.133 47.619 0.00 0.00 33.87 4.20
2124 2138 1.337118 TGATTGTGCCAAAGGTTCCC 58.663 50.000 0.00 0.00 0.00 3.97
2271 5468 8.894768 AATGCCAAGTGAAGTAGATCTATAAC 57.105 34.615 5.57 0.00 0.00 1.89
2275 5472 6.609212 AGAGAATGCCAAGTGAAGTAGATCTA 59.391 38.462 0.00 0.00 0.00 1.98
2309 5506 4.038361 CACGAACTCGATAGTGAATGGAG 58.962 47.826 6.05 0.00 43.91 3.86
2312 5509 4.412207 TGACACGAACTCGATAGTGAATG 58.588 43.478 6.05 0.00 43.02 2.67
2337 5534 6.930068 TTTACTTGTCCTCTAGTAAAGGCT 57.070 37.500 9.53 0.00 42.29 4.58
2347 5544 7.661847 CCACACTTAAATCTTTACTTGTCCTCT 59.338 37.037 0.00 0.00 0.00 3.69
2404 5601 5.728471 TGGTATATTTGTGTGCCCAAATTG 58.272 37.500 10.23 0.00 41.11 2.32
2410 5607 7.437862 CACAATAAATGGTATATTTGTGTGCCC 59.562 37.037 13.27 0.00 34.61 5.36


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

AutoCloner maintained by Alex Coulton.