Multiple sequence alignment - TraesCS4D01G205800

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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 TraesCS4D01G205800 chr4D 100.000 4726 0 0 1 4726 353424064 353428789 0.000000e+00 8728.0
1 TraesCS4D01G205800 chr4A 93.863 2705 111 25 2037 4708 111905796 111903114 0.000000e+00 4024.0
2 TraesCS4D01G205800 chr4A 90.117 2054 108 49 5 2001 111907813 111905798 0.000000e+00 2580.0
3 TraesCS4D01G205800 chr4A 91.045 67 5 1 4248 4314 111903667 111903602 6.510000e-14 89.8
4 TraesCS4D01G205800 chr4B 97.877 2214 28 5 2473 4670 436893352 436895562 0.000000e+00 3810.0
5 TraesCS4D01G205800 chr4B 93.083 2024 75 22 6 2000 436891082 436893069 0.000000e+00 2902.0
6 TraesCS4D01G205800 chr4B 95.941 271 9 1 2037 2305 436893072 436893342 5.610000e-119 438.0
7 TraesCS4D01G205800 chr4B 96.552 58 2 0 4247 4304 436895059 436895116 3.890000e-16 97.1
8 TraesCS4D01G205800 chr3D 84.211 95 8 5 2328 2422 206979471 206979558 8.430000e-13 86.1
9 TraesCS4D01G205800 chr3A 83.333 96 9 3 2328 2423 265541808 265541720 1.090000e-11 82.4
10 TraesCS4D01G205800 chr2D 96.875 32 1 0 1451 1482 615400808 615400839 2.000000e-03 54.7
11 TraesCS4D01G205800 chr6D 100.000 28 0 0 1455 1482 444634981 444634954 9.000000e-03 52.8
12 TraesCS4D01G205800 chr5A 96.875 32 0 1 1453 1483 19254439 19254408 9.000000e-03 52.8


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 TraesCS4D01G205800 chr4D 353424064 353428789 4725 False 8728.000000 8728 100.00000 1 4726 1 chr4D.!!$F1 4725
1 TraesCS4D01G205800 chr4A 111903114 111907813 4699 True 2231.266667 4024 91.67500 5 4708 3 chr4A.!!$R1 4703
2 TraesCS4D01G205800 chr4B 436891082 436895562 4480 False 1811.775000 3810 95.86325 6 4670 4 chr4B.!!$F1 4664

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
670 721 0.107459 GGACACTCCTGATCCTTGCC 60.107 60.000 0.00 0.00 32.53 4.52 F
1542 1641 1.146263 GAACCAATCGGCCGGATCT 59.854 57.895 27.83 5.08 33.02 2.75 F
2153 2255 0.392193 GAGTGCTGGGACATCCACAG 60.392 60.000 10.45 10.45 41.46 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1665 1764 1.227002 GGACTCGTTCTCCGCCATC 60.227 63.158 0.00 0.0 36.19 3.51 R
2375 2479 2.434185 TAAGGCGCTGCAAGGTCG 60.434 61.111 7.64 0.0 0.00 4.79 R
4109 4221 1.399791 GTTCAGTGCCTTATCAGCTGC 59.600 52.381 9.47 0.0 0.00 5.25 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
41 42 5.022282 TGTAGATACATAAGCAGCAGCAA 57.978 39.130 3.17 0.00 45.49 3.91
63 64 5.622770 AACGCTTACATTGTAGAAAAGGG 57.377 39.130 10.76 10.76 36.50 3.95
186 204 4.680237 TTGTCGCGGCAGACCCTG 62.680 66.667 15.27 0.00 40.26 4.45
529 576 0.872451 GGTCGGTTTTTGTTTGCCGG 60.872 55.000 0.00 0.00 43.87 6.13
657 708 0.251354 TCGGCTACGAGTAGGACACT 59.749 55.000 11.69 0.00 45.59 3.55
669 720 3.467776 GGACACTCCTGATCCTTGC 57.532 57.895 0.00 0.00 32.53 4.01
670 721 0.107459 GGACACTCCTGATCCTTGCC 60.107 60.000 0.00 0.00 32.53 4.52
692 756 2.657237 CAGTTTCCTCGCCCGTCT 59.343 61.111 0.00 0.00 0.00 4.18
1258 1357 2.815647 GCCTCAACGCCTTCCTCG 60.816 66.667 0.00 0.00 0.00 4.63
1488 1587 3.809013 GGTGGCGGTGGATGGGAT 61.809 66.667 0.00 0.00 0.00 3.85
1542 1641 1.146263 GAACCAATCGGCCGGATCT 59.854 57.895 27.83 5.08 33.02 2.75
1552 1651 3.200522 CCGGATCTTTTGCTGGCC 58.799 61.111 0.00 0.00 0.00 5.36
1812 1911 1.966451 GCAGGTCGTTTCCCAGGTG 60.966 63.158 0.00 0.00 0.00 4.00
1874 1974 6.106673 ACTCACTGTATACCTGCAAACATAC 58.893 40.000 0.00 0.00 0.00 2.39
1887 1987 7.833183 ACCTGCAAACATACTACTACTACTACT 59.167 37.037 0.00 0.00 0.00 2.57
1888 1988 9.334947 CCTGCAAACATACTACTACTACTACTA 57.665 37.037 0.00 0.00 0.00 1.82
1979 2079 8.924303 AGTATTGGAAGAGCATATACTTGTGTA 58.076 33.333 0.00 0.00 30.06 2.90
2001 2101 9.129209 GTGTATTCAAAAAGGAAAATCTGCTAC 57.871 33.333 0.00 0.00 0.00 3.58
2002 2102 9.077885 TGTATTCAAAAAGGAAAATCTGCTACT 57.922 29.630 0.00 0.00 0.00 2.57
2003 2103 9.561270 GTATTCAAAAAGGAAAATCTGCTACTC 57.439 33.333 0.00 0.00 0.00 2.59
2004 2104 7.581213 TTCAAAAAGGAAAATCTGCTACTCA 57.419 32.000 0.00 0.00 0.00 3.41
2005 2105 7.765695 TCAAAAAGGAAAATCTGCTACTCAT 57.234 32.000 0.00 0.00 0.00 2.90
2006 2106 7.596494 TCAAAAAGGAAAATCTGCTACTCATG 58.404 34.615 0.00 0.00 0.00 3.07
2007 2107 7.448161 TCAAAAAGGAAAATCTGCTACTCATGA 59.552 33.333 0.00 0.00 0.00 3.07
2008 2108 7.765695 AAAAGGAAAATCTGCTACTCATGAA 57.234 32.000 0.00 0.00 0.00 2.57
2009 2109 7.951347 AAAGGAAAATCTGCTACTCATGAAT 57.049 32.000 0.00 0.00 0.00 2.57
2010 2110 6.939132 AGGAAAATCTGCTACTCATGAATG 57.061 37.500 0.00 0.00 0.00 2.67
2011 2111 6.421485 AGGAAAATCTGCTACTCATGAATGT 58.579 36.000 0.00 0.00 0.00 2.71
2012 2112 6.541641 AGGAAAATCTGCTACTCATGAATGTC 59.458 38.462 0.00 0.00 0.00 3.06
2013 2113 6.541641 GGAAAATCTGCTACTCATGAATGTCT 59.458 38.462 0.00 0.00 0.00 3.41
2014 2114 7.712639 GGAAAATCTGCTACTCATGAATGTCTA 59.287 37.037 0.00 0.00 0.00 2.59
2015 2115 9.270640 GAAAATCTGCTACTCATGAATGTCTAT 57.729 33.333 0.00 0.00 0.00 1.98
2019 2119 9.872721 ATCTGCTACTCATGAATGTCTATATTG 57.127 33.333 0.00 0.00 0.00 1.90
2020 2120 8.864087 TCTGCTACTCATGAATGTCTATATTGT 58.136 33.333 0.00 0.00 0.00 2.71
2021 2121 9.138062 CTGCTACTCATGAATGTCTATATTGTC 57.862 37.037 0.00 0.00 0.00 3.18
2022 2122 8.641541 TGCTACTCATGAATGTCTATATTGTCA 58.358 33.333 0.00 0.00 0.00 3.58
2023 2123 8.920665 GCTACTCATGAATGTCTATATTGTCAC 58.079 37.037 0.00 0.00 0.00 3.67
2024 2124 9.416794 CTACTCATGAATGTCTATATTGTCACC 57.583 37.037 0.00 0.00 0.00 4.02
2025 2125 7.220030 ACTCATGAATGTCTATATTGTCACCC 58.780 38.462 0.00 0.00 0.00 4.61
2026 2126 7.071698 ACTCATGAATGTCTATATTGTCACCCT 59.928 37.037 0.00 0.00 0.00 4.34
2027 2127 7.219322 TCATGAATGTCTATATTGTCACCCTG 58.781 38.462 0.00 0.00 0.00 4.45
2028 2128 6.806668 TGAATGTCTATATTGTCACCCTGA 57.193 37.500 0.00 0.00 0.00 3.86
2029 2129 7.194112 TGAATGTCTATATTGTCACCCTGAA 57.806 36.000 0.00 0.00 0.00 3.02
2030 2130 7.275183 TGAATGTCTATATTGTCACCCTGAAG 58.725 38.462 0.00 0.00 0.00 3.02
2031 2131 7.125659 TGAATGTCTATATTGTCACCCTGAAGA 59.874 37.037 0.00 0.00 0.00 2.87
2032 2132 6.471233 TGTCTATATTGTCACCCTGAAGAG 57.529 41.667 0.00 0.00 0.00 2.85
2033 2133 5.958380 TGTCTATATTGTCACCCTGAAGAGT 59.042 40.000 0.00 0.00 0.00 3.24
2034 2134 7.123383 TGTCTATATTGTCACCCTGAAGAGTA 58.877 38.462 0.00 0.00 0.00 2.59
2035 2135 7.068348 TGTCTATATTGTCACCCTGAAGAGTAC 59.932 40.741 0.00 0.00 0.00 2.73
2066 2166 1.032114 GGTTTCTTGCGGGGATCCTG 61.032 60.000 12.58 5.92 0.00 3.86
2153 2255 0.392193 GAGTGCTGGGACATCCACAG 60.392 60.000 10.45 10.45 41.46 3.66
2288 2392 3.564644 GCCTGATCCTGATCATCAACAAG 59.435 47.826 10.10 0.00 45.74 3.16
2339 2443 1.818674 CTGTACCCCAGCCATTGTTTC 59.181 52.381 0.00 0.00 33.59 2.78
2343 2447 2.807676 ACCCCAGCCATTGTTTCTAAG 58.192 47.619 0.00 0.00 0.00 2.18
2384 2488 2.668212 CGGAAAGGCGACCTTGCA 60.668 61.111 15.73 0.00 43.92 4.08
2396 2500 0.821711 ACCTTGCAGCGCCTTACAAA 60.822 50.000 2.29 0.00 0.00 2.83
2399 2503 2.223340 CCTTGCAGCGCCTTACAAATAG 60.223 50.000 2.29 0.00 0.00 1.73
2478 2582 2.093341 GTGCCTTATAAACGTCCCCAGA 60.093 50.000 0.00 0.00 0.00 3.86
2575 2679 3.311871 GTGCCAAGCTTGAGATGTCATAG 59.688 47.826 28.05 7.78 30.85 2.23
3155 3261 9.304731 GCATGCTGAATTTTAGATTATTTGTCA 57.695 29.630 11.37 0.00 0.00 3.58
3514 3621 2.743636 TCAGCTAAGAACCAGAACCG 57.256 50.000 0.00 0.00 0.00 4.44
3686 3793 2.027385 GGGAGCAATCAGAATGGAACC 58.973 52.381 0.00 0.00 36.16 3.62
3767 3874 5.256474 AGCCATATACTTGCAGAGTTGTTT 58.744 37.500 6.82 0.00 39.86 2.83
4194 4307 4.030913 TCGATAGTTGATTCCAGGAAGGT 58.969 43.478 8.20 0.00 36.47 3.50
4239 4353 5.306937 TGGAAGATCCTACACTGAAAGAACA 59.693 40.000 0.00 0.00 37.46 3.18
4277 4391 0.179018 GAAGGGGCTGACTGTGTGTT 60.179 55.000 0.00 0.00 0.00 3.32
4358 4472 8.762481 TGCTCATCTAACTCCTACACTATTTA 57.238 34.615 0.00 0.00 0.00 1.40
4410 4533 4.335315 TCTCCACATAAAATCCAACGATGC 59.665 41.667 0.00 0.00 0.00 3.91
4675 4813 4.635833 CATGTGCATGCCAACTTGTATA 57.364 40.909 16.68 0.00 31.39 1.47
4708 4846 1.303317 GTGGTCCATGTGGGTCACC 60.303 63.158 0.00 7.59 36.57 4.02
4709 4847 1.772156 TGGTCCATGTGGGTCACCA 60.772 57.895 6.92 6.92 46.94 4.17
4717 4855 4.232905 TGGGTCACCAGCTAGCTT 57.767 55.556 16.46 0.00 43.37 3.74
4718 4856 1.983224 TGGGTCACCAGCTAGCTTC 59.017 57.895 16.46 3.44 43.37 3.86
4719 4857 0.545309 TGGGTCACCAGCTAGCTTCT 60.545 55.000 16.46 0.00 43.37 2.85
4720 4858 0.615850 GGGTCACCAGCTAGCTTCTT 59.384 55.000 16.46 0.00 36.50 2.52
4721 4859 1.003696 GGGTCACCAGCTAGCTTCTTT 59.996 52.381 16.46 0.00 36.50 2.52
4722 4860 2.553247 GGGTCACCAGCTAGCTTCTTTT 60.553 50.000 16.46 0.00 36.50 2.27
4723 4861 3.149981 GGTCACCAGCTAGCTTCTTTTT 58.850 45.455 16.46 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 9.226606 TGTATCTACAATTTCGATTTTTCCTGT 57.773 29.630 0.00 0.00 32.40 4.00
21 22 4.507756 CGTTTGCTGCTGCTTATGTATCTA 59.492 41.667 17.00 0.00 40.48 1.98
41 42 5.310451 TCCCTTTTCTACAATGTAAGCGTT 58.690 37.500 0.00 0.00 0.00 4.84
76 77 7.127032 ACTGTCTCCATCCATCTATCTCTTTTT 59.873 37.037 0.00 0.00 0.00 1.94
77 78 6.614906 ACTGTCTCCATCCATCTATCTCTTTT 59.385 38.462 0.00 0.00 0.00 2.27
78 79 6.041865 CACTGTCTCCATCCATCTATCTCTTT 59.958 42.308 0.00 0.00 0.00 2.52
79 80 5.539574 CACTGTCTCCATCCATCTATCTCTT 59.460 44.000 0.00 0.00 0.00 2.85
80 81 5.078949 CACTGTCTCCATCCATCTATCTCT 58.921 45.833 0.00 0.00 0.00 3.10
81 82 4.832266 ACACTGTCTCCATCCATCTATCTC 59.168 45.833 0.00 0.00 0.00 2.75
82 83 4.588106 CACACTGTCTCCATCCATCTATCT 59.412 45.833 0.00 0.00 0.00 1.98
83 84 4.798924 GCACACTGTCTCCATCCATCTATC 60.799 50.000 0.00 0.00 0.00 2.08
84 85 3.070734 GCACACTGTCTCCATCCATCTAT 59.929 47.826 0.00 0.00 0.00 1.98
85 86 2.432146 GCACACTGTCTCCATCCATCTA 59.568 50.000 0.00 0.00 0.00 1.98
86 87 1.209019 GCACACTGTCTCCATCCATCT 59.791 52.381 0.00 0.00 0.00 2.90
87 88 1.661341 GCACACTGTCTCCATCCATC 58.339 55.000 0.00 0.00 0.00 3.51
88 89 0.107993 CGCACACTGTCTCCATCCAT 60.108 55.000 0.00 0.00 0.00 3.41
210 228 2.625737 CACATCTTCGATGCCTTCAGT 58.374 47.619 3.88 0.00 0.00 3.41
219 237 1.411977 CAGGAGGAGCACATCTTCGAT 59.588 52.381 0.00 0.00 34.88 3.59
417 447 3.868985 AATAACGCCCGGCCCGAT 61.869 61.111 17.89 9.72 0.00 4.18
506 552 1.134640 GCAAACAAAAACCGACCCCTT 60.135 47.619 0.00 0.00 0.00 3.95
619 670 4.387343 TCGGGTCGGGTAGGGCTT 62.387 66.667 0.00 0.00 0.00 4.35
655 706 0.915364 GGAAGGCAAGGATCAGGAGT 59.085 55.000 0.00 0.00 0.00 3.85
657 708 0.549902 TGGGAAGGCAAGGATCAGGA 60.550 55.000 0.00 0.00 0.00 3.86
658 709 0.106819 CTGGGAAGGCAAGGATCAGG 60.107 60.000 0.00 0.00 0.00 3.86
660 711 1.075601 AACTGGGAAGGCAAGGATCA 58.924 50.000 0.00 0.00 0.00 2.92
661 712 2.095461 GAAACTGGGAAGGCAAGGATC 58.905 52.381 0.00 0.00 0.00 3.36
662 713 1.272704 GGAAACTGGGAAGGCAAGGAT 60.273 52.381 0.00 0.00 0.00 3.24
663 714 0.112412 GGAAACTGGGAAGGCAAGGA 59.888 55.000 0.00 0.00 0.00 3.36
664 715 0.113190 AGGAAACTGGGAAGGCAAGG 59.887 55.000 0.00 0.00 41.13 3.61
665 716 1.539157 GAGGAAACTGGGAAGGCAAG 58.461 55.000 0.00 0.00 44.43 4.01
666 717 0.250727 CGAGGAAACTGGGAAGGCAA 60.251 55.000 0.00 0.00 44.43 4.52
667 718 1.374947 CGAGGAAACTGGGAAGGCA 59.625 57.895 0.00 0.00 44.43 4.75
668 719 2.041115 GCGAGGAAACTGGGAAGGC 61.041 63.158 0.00 0.00 44.43 4.35
669 720 1.377333 GGCGAGGAAACTGGGAAGG 60.377 63.158 0.00 0.00 44.43 3.46
670 721 1.377333 GGGCGAGGAAACTGGGAAG 60.377 63.158 0.00 0.00 44.43 3.46
794 877 1.750778 CGATGGCAGGCTGGTAATTTT 59.249 47.619 17.64 0.00 0.00 1.82
1043 1142 4.324991 ACGTCTTGTTCCCCGGCC 62.325 66.667 0.00 0.00 0.00 6.13
1281 1380 3.995506 CTTGGGGATGTGGGGCGTC 62.996 68.421 0.00 0.00 0.00 5.19
1445 1544 4.394712 CACCGCCTCCACCCACTC 62.395 72.222 0.00 0.00 0.00 3.51
1488 1587 1.601419 GGACCTCGTCGTCCCAATCA 61.601 60.000 11.25 0.00 45.72 2.57
1542 1641 2.601367 GCTCCAGGGCCAGCAAAA 60.601 61.111 6.18 0.00 35.56 2.44
1552 1651 4.241555 CCCCGAATCCGCTCCAGG 62.242 72.222 0.00 0.00 0.00 4.45
1656 1755 1.834378 CTCCGCCATCCTCCTAGCA 60.834 63.158 0.00 0.00 0.00 3.49
1665 1764 1.227002 GGACTCGTTCTCCGCCATC 60.227 63.158 0.00 0.00 36.19 3.51
1854 1954 7.419711 AGTAGTATGTTTGCAGGTATACAGT 57.580 36.000 5.01 0.00 0.00 3.55
1895 1995 8.879759 CGTTGATTCTAACCACAACACTAATAT 58.120 33.333 0.00 0.00 41.44 1.28
1896 1996 8.089597 TCGTTGATTCTAACCACAACACTAATA 58.910 33.333 0.00 0.00 41.44 0.98
1897 1997 6.932400 TCGTTGATTCTAACCACAACACTAAT 59.068 34.615 0.00 0.00 41.44 1.73
1900 2000 4.699637 TCGTTGATTCTAACCACAACACT 58.300 39.130 0.00 0.00 41.44 3.55
1901 2001 5.412526 TTCGTTGATTCTAACCACAACAC 57.587 39.130 0.00 0.00 41.44 3.32
1902 2002 5.995282 AGATTCGTTGATTCTAACCACAACA 59.005 36.000 0.00 0.00 41.44 3.33
1903 2003 6.402226 GGAGATTCGTTGATTCTAACCACAAC 60.402 42.308 0.00 0.00 39.08 3.32
1979 2079 8.181904 TGAGTAGCAGATTTTCCTTTTTGAAT 57.818 30.769 0.00 0.00 0.00 2.57
2001 2101 7.387122 CAGGGTGACAATATAGACATTCATGAG 59.613 40.741 0.00 0.00 0.00 2.90
2002 2102 7.071071 TCAGGGTGACAATATAGACATTCATGA 59.929 37.037 0.00 0.00 0.00 3.07
2003 2103 7.219322 TCAGGGTGACAATATAGACATTCATG 58.781 38.462 0.00 0.00 0.00 3.07
2004 2104 7.379059 TCAGGGTGACAATATAGACATTCAT 57.621 36.000 0.00 0.00 0.00 2.57
2005 2105 6.806668 TCAGGGTGACAATATAGACATTCA 57.193 37.500 0.00 0.00 0.00 2.57
2006 2106 7.500992 TCTTCAGGGTGACAATATAGACATTC 58.499 38.462 0.00 0.00 0.00 2.67
2007 2107 7.126421 ACTCTTCAGGGTGACAATATAGACATT 59.874 37.037 0.00 0.00 0.00 2.71
2008 2108 6.613271 ACTCTTCAGGGTGACAATATAGACAT 59.387 38.462 0.00 0.00 0.00 3.06
2009 2109 5.958380 ACTCTTCAGGGTGACAATATAGACA 59.042 40.000 0.00 0.00 0.00 3.41
2010 2110 6.472686 ACTCTTCAGGGTGACAATATAGAC 57.527 41.667 0.00 0.00 0.00 2.59
2011 2111 7.355101 AGTACTCTTCAGGGTGACAATATAGA 58.645 38.462 0.00 0.00 0.00 1.98
2012 2112 7.589958 AGTACTCTTCAGGGTGACAATATAG 57.410 40.000 0.00 0.00 0.00 1.31
2013 2113 7.973048 AAGTACTCTTCAGGGTGACAATATA 57.027 36.000 0.00 0.00 0.00 0.86
2014 2114 6.875972 AAGTACTCTTCAGGGTGACAATAT 57.124 37.500 0.00 0.00 0.00 1.28
2015 2115 6.282199 GAAGTACTCTTCAGGGTGACAATA 57.718 41.667 0.00 0.00 46.50 1.90
2016 2116 5.153950 GAAGTACTCTTCAGGGTGACAAT 57.846 43.478 0.00 0.00 46.50 2.71
2017 2117 4.602340 GAAGTACTCTTCAGGGTGACAA 57.398 45.455 0.00 0.00 46.50 3.18
2030 2130 9.129209 GCAAGAAACCAATTTTATGAAGTACTC 57.871 33.333 0.00 0.00 0.00 2.59
2031 2131 7.807907 CGCAAGAAACCAATTTTATGAAGTACT 59.192 33.333 0.00 0.00 43.02 2.73
2032 2132 7.061789 CCGCAAGAAACCAATTTTATGAAGTAC 59.938 37.037 0.00 0.00 43.02 2.73
2033 2133 7.087639 CCGCAAGAAACCAATTTTATGAAGTA 58.912 34.615 0.00 0.00 43.02 2.24
2034 2134 5.925969 CCGCAAGAAACCAATTTTATGAAGT 59.074 36.000 0.00 0.00 43.02 3.01
2035 2135 5.348451 CCCGCAAGAAACCAATTTTATGAAG 59.652 40.000 0.00 0.00 43.02 3.02
2066 2166 3.441572 AGCCATTCATGACTTGCTGTAAC 59.558 43.478 10.39 0.00 0.00 2.50
2153 2255 7.702348 GGTTCACAAATCCAATGAAGTATAAGC 59.298 37.037 0.00 0.00 33.16 3.09
2288 2392 9.668497 AAACCATATTAAGACTACAAGGAGAAC 57.332 33.333 0.00 0.00 0.00 3.01
2370 2474 3.357079 CGCTGCAAGGTCGCCTTT 61.357 61.111 8.21 0.00 41.69 3.11
2375 2479 2.434185 TAAGGCGCTGCAAGGTCG 60.434 61.111 7.64 0.00 0.00 4.79
2423 2527 3.315142 CTGCCCTGACGCCTAAGCA 62.315 63.158 0.00 0.00 39.83 3.91
2478 2582 7.739825 TGCTAATATAATCTGAAGGAGTGCTT 58.260 34.615 0.00 0.00 0.00 3.91
2509 2613 4.789012 AACCAAATGACGATTGCAGATT 57.211 36.364 0.00 0.00 0.00 2.40
2575 2679 6.579666 AATCATATATGCACATGACCCAAC 57.420 37.500 7.92 0.00 34.15 3.77
2818 2924 6.525578 TTTCATGATCAACTAGACTACGGT 57.474 37.500 0.00 0.00 0.00 4.83
3155 3261 7.464178 GCGATGTAACACGAGAATAAAGAACAT 60.464 37.037 0.00 0.00 0.00 2.71
3612 3719 5.475719 ACTATCAAAACCGTCATCTTTCGA 58.524 37.500 0.00 0.00 0.00 3.71
3686 3793 2.253758 CCAATATGACCCGCCAGCG 61.254 63.158 4.75 4.75 39.44 5.18
3767 3874 3.505680 ACGCTCACATTTTTCTGGCATAA 59.494 39.130 0.00 0.00 0.00 1.90
3975 4086 5.659849 AGGAATAAAGAATCTGCAGGGAT 57.340 39.130 15.13 0.00 0.00 3.85
4109 4221 1.399791 GTTCAGTGCCTTATCAGCTGC 59.600 52.381 9.47 0.00 0.00 5.25
4239 4353 4.467769 CTTCCTGGAATCAACTGGCATAT 58.532 43.478 10.03 0.00 0.00 1.78
4277 4391 4.019321 CAGTGTAGGATCTTCCAAAAGGGA 60.019 45.833 0.00 0.00 46.61 4.20
4308 4422 7.909485 AATCCGATATTATAAGGGGATACGT 57.091 36.000 0.00 0.00 33.34 3.57
4358 4472 9.751542 TGTGACGATGTTTTTATTTGGTTAATT 57.248 25.926 0.00 0.00 0.00 1.40
4369 4491 6.261158 TGTGGAGATTTGTGACGATGTTTTTA 59.739 34.615 0.00 0.00 0.00 1.52
4370 4492 5.067153 TGTGGAGATTTGTGACGATGTTTTT 59.933 36.000 0.00 0.00 0.00 1.94
4410 4533 2.237143 TCAGGGCAATAACTCACTCCTG 59.763 50.000 0.00 0.00 40.99 3.86
4586 4712 5.070180 ACTCCACATGAGGACTCTGATAATG 59.930 44.000 7.91 0.00 46.01 1.90


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

AutoCloner maintained by Alex Coulton.