Multiple sequence alignment - TraesCS3D01G139100

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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 TraesCS3D01G139100 chr3D 100.000 2306 0 0 1 2306 98590798 98588493 0.000000e+00 4259.0
1 TraesCS3D01G139100 chr3B 88.578 1786 74 46 109 1857 149164181 149162489 0.000000e+00 2049.0
2 TraesCS3D01G139100 chr3B 87.734 481 34 11 1844 2306 149161980 149161507 2.610000e-149 538.0
3 TraesCS3D01G139100 chr3A 84.767 1523 76 64 39 1501 116149323 116147897 0.000000e+00 1384.0
4 TraesCS3D01G139100 chr3A 87.264 793 49 13 1548 2306 116147789 116147015 0.000000e+00 857.0
5 TraesCS3D01G139100 chr3A 87.348 577 39 11 1758 2306 116145547 116144977 4.180000e-177 630.0
6 TraesCS3D01G139100 chr3A 96.250 80 3 0 2226 2305 116146695 116146616 5.170000e-27 132.0
7 TraesCS3D01G139100 chr3A 97.059 34 1 0 1505 1538 116147875 116147842 8.900000e-05 58.4


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 TraesCS3D01G139100 chr3D 98588493 98590798 2305 True 4259.00 4259 100.0000 1 2306 1 chr3D.!!$R1 2305
1 TraesCS3D01G139100 chr3B 149161507 149164181 2674 True 1293.50 2049 88.1560 109 2306 2 chr3B.!!$R1 2197
2 TraesCS3D01G139100 chr3A 116144977 116149323 4346 True 612.28 1384 90.5376 39 2306 5 chr3A.!!$R1 2267

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
983 1061 0.245539 GATCGTTCCACTTCCACGGA 59.754 55.0 0.0 0.0 34.61 4.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1827 1981 0.460284 ATTAGTGCTCCGAGGCGTTG 60.46 55.0 0.0 0.0 34.52 4.1 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
22 23 5.818678 TTGGTTAGTACTCCACTGAACAT 57.181 39.130 0.00 0.00 39.94 2.71
23 24 5.147330 TGGTTAGTACTCCACTGAACATG 57.853 43.478 0.00 0.00 35.65 3.21
24 25 4.020573 TGGTTAGTACTCCACTGAACATGG 60.021 45.833 0.00 0.00 35.65 3.66
25 26 4.222145 GGTTAGTACTCCACTGAACATGGA 59.778 45.833 0.00 0.00 44.20 3.41
33 34 5.219343 TCCACTGAACATGGAGCATATAG 57.781 43.478 0.00 0.00 41.47 1.31
34 35 4.655649 TCCACTGAACATGGAGCATATAGT 59.344 41.667 0.00 0.00 41.47 2.12
35 36 5.130975 TCCACTGAACATGGAGCATATAGTT 59.869 40.000 0.00 0.00 41.47 2.24
36 37 5.237996 CCACTGAACATGGAGCATATAGTTG 59.762 44.000 0.00 0.00 39.87 3.16
37 38 4.818546 ACTGAACATGGAGCATATAGTTGC 59.181 41.667 0.00 0.00 43.09 4.17
55 56 1.962807 TGCTTGCCTGCAACTTGTAAT 59.037 42.857 0.00 0.00 40.29 1.89
57 61 2.927871 GCTTGCCTGCAACTTGTAATGG 60.928 50.000 0.00 0.00 0.00 3.16
60 64 1.067635 GCCTGCAACTTGTAATGGTGG 60.068 52.381 0.00 0.00 0.00 4.61
74 78 2.607892 GGTGGACTGCACTGAACGC 61.608 63.158 0.26 0.00 0.00 4.84
77 85 3.414700 GACTGCACTGAACGCGGG 61.415 66.667 12.47 0.00 40.21 6.13
88 96 3.993382 AACGCGGGTTCAGAGTTTA 57.007 47.368 12.67 0.00 0.00 2.01
101 109 4.617959 TCAGAGTTTACACCTCGAAACAG 58.382 43.478 0.00 0.00 37.89 3.16
103 111 3.128349 GAGTTTACACCTCGAAACAGCA 58.872 45.455 0.00 0.00 37.89 4.41
107 115 1.583054 ACACCTCGAAACAGCAACTC 58.417 50.000 0.00 0.00 0.00 3.01
132 140 2.405892 ACATTGCAAAAGCGACAGAC 57.594 45.000 1.71 0.00 0.00 3.51
199 208 4.966787 TTGACCAACAGGCCGGCC 62.967 66.667 39.29 39.29 0.00 6.13
571 627 1.954258 GCGATCCTAGGTAGGCGGTAT 60.954 57.143 9.08 0.00 43.31 2.73
723 788 1.124780 TCCCAGTCTTCGTTTGGACA 58.875 50.000 0.00 0.00 35.18 4.02
921 999 0.882927 TTCTCCTCGCAAAACCCACG 60.883 55.000 0.00 0.00 0.00 4.94
928 1006 1.588667 GCAAAACCCACGCACACAG 60.589 57.895 0.00 0.00 0.00 3.66
929 1007 1.588667 CAAAACCCACGCACACAGC 60.589 57.895 0.00 0.00 40.87 4.40
930 1008 2.049185 AAAACCCACGCACACAGCA 61.049 52.632 0.00 0.00 46.13 4.41
931 1009 2.003658 AAAACCCACGCACACAGCAG 62.004 55.000 0.00 0.00 46.13 4.24
932 1010 2.884997 AAACCCACGCACACAGCAGA 62.885 55.000 0.00 0.00 46.13 4.26
933 1011 3.046087 CCCACGCACACAGCAGAG 61.046 66.667 0.00 0.00 46.13 3.35
934 1012 2.029518 CCACGCACACAGCAGAGA 59.970 61.111 0.00 0.00 46.13 3.10
941 1019 2.738846 CGCACACAGCAGAGATAAACTT 59.261 45.455 0.00 0.00 46.13 2.66
952 1030 5.679894 GCAGAGATAAACTTGATCGACCAGA 60.680 44.000 0.00 0.00 0.00 3.86
953 1031 5.746245 CAGAGATAAACTTGATCGACCAGAC 59.254 44.000 0.00 0.00 0.00 3.51
954 1032 5.419155 AGAGATAAACTTGATCGACCAGACA 59.581 40.000 0.00 0.00 0.00 3.41
955 1033 6.097554 AGAGATAAACTTGATCGACCAGACAT 59.902 38.462 0.00 0.00 0.00 3.06
956 1034 7.285629 AGAGATAAACTTGATCGACCAGACATA 59.714 37.037 0.00 0.00 0.00 2.29
957 1035 7.957002 AGATAAACTTGATCGACCAGACATAT 58.043 34.615 0.00 0.00 0.00 1.78
958 1036 9.078990 AGATAAACTTGATCGACCAGACATATA 57.921 33.333 0.00 0.00 0.00 0.86
959 1037 9.692749 GATAAACTTGATCGACCAGACATATAA 57.307 33.333 0.00 0.00 0.00 0.98
969 1047 8.959705 TCGACCAGACATATAATATAGATCGT 57.040 34.615 0.00 0.00 0.00 3.73
970 1048 9.392259 TCGACCAGACATATAATATAGATCGTT 57.608 33.333 0.00 0.00 0.00 3.85
971 1049 9.653067 CGACCAGACATATAATATAGATCGTTC 57.347 37.037 0.00 0.00 0.00 3.95
983 1061 0.245539 GATCGTTCCACTTCCACGGA 59.754 55.000 0.00 0.00 34.61 4.69
1045 1123 0.109226 CGTCTTCTCGTTCCTGGTCC 60.109 60.000 0.00 0.00 0.00 4.46
1158 1236 0.537188 AGATTACCACCGGCTCAGTG 59.463 55.000 0.00 0.00 34.91 3.66
1310 1394 2.870372 CGTTGGCCACTAGCTTGC 59.130 61.111 3.88 0.00 43.05 4.01
1340 1424 6.471198 TCAAGTTCTTTCGTGCGTATATACTG 59.529 38.462 11.05 5.95 0.00 2.74
1341 1425 5.279384 AGTTCTTTCGTGCGTATATACTGG 58.721 41.667 11.05 0.00 0.00 4.00
1342 1426 5.066893 AGTTCTTTCGTGCGTATATACTGGA 59.933 40.000 11.05 3.51 0.00 3.86
1388 1472 2.414481 CGTGAGAGCTTGATTTCCACAG 59.586 50.000 0.00 0.00 0.00 3.66
1394 1478 4.006319 GAGCTTGATTTCCACAGCTAACT 58.994 43.478 0.00 0.00 38.46 2.24
1395 1479 5.046304 AGAGCTTGATTTCCACAGCTAACTA 60.046 40.000 0.00 0.00 38.46 2.24
1396 1480 4.938226 AGCTTGATTTCCACAGCTAACTAC 59.062 41.667 0.00 0.00 37.43 2.73
1397 1481 4.695455 GCTTGATTTCCACAGCTAACTACA 59.305 41.667 0.00 0.00 0.00 2.74
1398 1482 5.163814 GCTTGATTTCCACAGCTAACTACAG 60.164 44.000 0.00 0.00 0.00 2.74
1404 1488 3.438087 TCCACAGCTAACTACAGTACGTC 59.562 47.826 0.00 0.00 0.00 4.34
1421 1505 1.602165 CGTCTGTGGAGCTTGTAACGT 60.602 52.381 0.00 0.00 0.00 3.99
1430 1514 0.038892 GCTTGTAACGTGAGGGTCGA 60.039 55.000 0.00 0.00 0.00 4.20
1445 1529 2.348666 GGGTCGATCGTTGTTCTGATTG 59.651 50.000 15.94 0.00 0.00 2.67
1534 1636 1.126846 GAGACGTGATTGGAACGCTTG 59.873 52.381 0.00 0.00 44.80 4.01
1654 1799 1.667510 TTGCGTGCATTGCTCTCGA 60.668 52.632 19.19 6.19 0.00 4.04
1669 1814 2.860136 CTCTCGAATGCATGCGTTTCTA 59.140 45.455 25.98 14.95 0.00 2.10
1750 1895 1.196104 CCAAAGGGTCCCTCCACGTA 61.196 60.000 12.07 0.00 38.11 3.57
1751 1896 0.036671 CAAAGGGTCCCTCCACGTAC 60.037 60.000 12.07 0.00 38.11 3.67
1752 1897 1.538687 AAAGGGTCCCTCCACGTACG 61.539 60.000 12.07 15.01 38.11 3.67
1753 1898 2.677875 GGGTCCCTCCACGTACGT 60.678 66.667 16.72 16.72 38.11 3.57
1754 1899 1.378514 GGGTCCCTCCACGTACGTA 60.379 63.158 22.34 5.54 38.11 3.57
1755 1900 1.657751 GGGTCCCTCCACGTACGTAC 61.658 65.000 22.34 15.90 38.11 3.67
1756 1901 0.678048 GGTCCCTCCACGTACGTACT 60.678 60.000 22.34 7.87 35.97 2.73
1757 1902 0.449388 GTCCCTCCACGTACGTACTG 59.551 60.000 22.34 17.94 0.00 2.74
1758 1903 0.036732 TCCCTCCACGTACGTACTGT 59.963 55.000 22.34 18.14 0.00 3.55
1825 1979 1.373590 CCGTCGCTTAATGGGTTGGG 61.374 60.000 0.00 0.00 0.00 4.12
1827 1981 1.379309 TCGCTTAATGGGTTGGGCC 60.379 57.895 0.00 0.00 0.00 5.80
1870 2546 5.808366 TTAGTAGCTGTATCCATCCCTTG 57.192 43.478 0.00 0.00 0.00 3.61
1880 2556 0.958091 CCATCCCTTGTGTTTTGCGA 59.042 50.000 0.00 0.00 0.00 5.10
1898 4620 3.117046 GCGACTCTGTCTATTTGGCTAC 58.883 50.000 0.00 0.00 0.00 3.58
1903 4625 6.299805 ACTCTGTCTATTTGGCTACAATGA 57.700 37.500 0.00 0.00 36.29 2.57
1912 4634 9.337396 TCTATTTGGCTACAATGATATCGTTTT 57.663 29.630 7.47 4.58 36.29 2.43
1918 4640 7.387673 TGGCTACAATGATATCGTTTTCCATAG 59.612 37.037 7.47 6.43 0.00 2.23
1971 4705 1.613437 GGGTCTTCACATTGGTTGGTG 59.387 52.381 0.00 0.00 36.36 4.17
1972 4706 1.000274 GGTCTTCACATTGGTTGGTGC 60.000 52.381 0.00 0.00 35.04 5.01
1980 4714 1.120795 ATTGGTTGGTGCCTTGGTGG 61.121 55.000 0.00 0.00 39.35 4.61
2061 4795 8.637281 TCGTAATCGTTATGAAGCATCTTTAA 57.363 30.769 0.00 0.00 38.33 1.52
2106 4840 0.662085 GTACCACGCGTTTTTGGGAA 59.338 50.000 18.34 3.48 37.18 3.97
2120 4854 1.371467 TGGGAAGATTCCTGGCTTGA 58.629 50.000 11.28 0.00 46.72 3.02
2127 4861 2.366916 AGATTCCTGGCTTGAGGATACG 59.633 50.000 0.00 0.00 41.97 3.06
2194 4928 1.267806 ACAAGGATGCTTTTGTGAGCG 59.732 47.619 0.00 0.00 45.64 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.512404 CCATGTTCAGTGGAGTACTAACCAA 60.512 44.000 4.92 0.00 37.60 3.67
1 2 4.020573 CCATGTTCAGTGGAGTACTAACCA 60.021 45.833 0.00 0.00 37.60 3.67
2 3 4.222145 TCCATGTTCAGTGGAGTACTAACC 59.778 45.833 0.00 0.00 40.72 2.85
3 4 5.401531 TCCATGTTCAGTGGAGTACTAAC 57.598 43.478 0.00 0.00 40.72 2.34
11 12 4.655649 ACTATATGCTCCATGTTCAGTGGA 59.344 41.667 0.00 0.00 43.26 4.02
12 13 4.965814 ACTATATGCTCCATGTTCAGTGG 58.034 43.478 0.00 0.00 38.11 4.00
13 14 5.277683 GCAACTATATGCTCCATGTTCAGTG 60.278 44.000 0.00 0.00 43.06 3.66
14 15 4.818546 GCAACTATATGCTCCATGTTCAGT 59.181 41.667 0.00 0.00 43.06 3.41
15 16 5.354054 GCAACTATATGCTCCATGTTCAG 57.646 43.478 0.00 0.00 43.06 3.02
26 27 1.677576 TGCAGGCAAGCAACTATATGC 59.322 47.619 1.98 0.00 46.78 3.14
35 36 1.397672 TTACAAGTTGCAGGCAAGCA 58.602 45.000 6.99 0.22 43.99 3.91
36 37 2.331194 CATTACAAGTTGCAGGCAAGC 58.669 47.619 6.99 3.03 36.52 4.01
37 38 2.297033 ACCATTACAAGTTGCAGGCAAG 59.703 45.455 6.99 0.00 36.52 4.01
42 43 3.058016 CAGTCCACCATTACAAGTTGCAG 60.058 47.826 1.81 0.00 0.00 4.41
55 56 1.227527 CGTTCAGTGCAGTCCACCA 60.228 57.895 0.00 0.00 45.83 4.17
57 61 2.939022 GCGTTCAGTGCAGTCCAC 59.061 61.111 0.00 0.00 45.01 4.02
60 64 3.414700 CCCGCGTTCAGTGCAGTC 61.415 66.667 4.92 0.00 0.00 3.51
74 78 2.685100 GAGGTGTAAACTCTGAACCCG 58.315 52.381 0.00 0.00 32.28 5.28
77 85 4.807304 TGTTTCGAGGTGTAAACTCTGAAC 59.193 41.667 0.00 0.00 36.70 3.18
88 96 1.139058 AGAGTTGCTGTTTCGAGGTGT 59.861 47.619 0.00 0.00 0.00 4.16
101 109 3.631145 TTGCAATGTTCAGAGAGTTGC 57.369 42.857 0.00 8.15 43.93 4.17
103 111 4.614946 GCTTTTGCAATGTTCAGAGAGTT 58.385 39.130 0.00 0.00 46.58 3.01
132 140 1.781429 CTCATCATTCTACGGTTCGCG 59.219 52.381 0.00 0.00 0.00 5.87
148 156 3.328931 TCAGCTCTCTGTTTTTCCCTCAT 59.671 43.478 0.00 0.00 41.10 2.90
149 157 2.705658 TCAGCTCTCTGTTTTTCCCTCA 59.294 45.455 0.00 0.00 41.10 3.86
150 158 3.409026 TCAGCTCTCTGTTTTTCCCTC 57.591 47.619 0.00 0.00 41.10 4.30
207 216 3.284449 GACAGGGTTTTGCGCGGT 61.284 61.111 8.83 0.00 40.67 5.68
211 220 1.644786 GATCGGGACAGGGTTTTGCG 61.645 60.000 0.00 0.00 0.00 4.85
294 303 2.410322 ATCGGCTGGCTGGTTCAACA 62.410 55.000 0.00 0.00 0.00 3.33
434 475 4.162690 ATTCAGCGACCCGGGAGC 62.163 66.667 32.02 30.34 0.00 4.70
435 476 2.107141 GATTCAGCGACCCGGGAG 59.893 66.667 32.02 21.87 0.00 4.30
436 477 3.467226 GGATTCAGCGACCCGGGA 61.467 66.667 32.02 1.69 0.00 5.14
437 478 3.470888 AGGATTCAGCGACCCGGG 61.471 66.667 22.25 22.25 0.00 5.73
571 627 5.188948 AGTCAAGCAATATACTGTACCCACA 59.811 40.000 0.00 0.00 0.00 4.17
723 788 6.569035 GCGTACTGTTAACCCTTTATTGCTTT 60.569 38.462 2.48 0.00 0.00 3.51
804 872 5.585445 TGTCAAATTGCTGTTCAAAATTGCT 59.415 32.000 0.00 0.00 38.34 3.91
812 880 2.309613 AGCCTGTCAAATTGCTGTTCA 58.690 42.857 0.00 0.00 31.70 3.18
921 999 3.748048 TCAAGTTTATCTCTGCTGTGTGC 59.252 43.478 0.00 0.00 43.25 4.57
928 1006 4.433615 TGGTCGATCAAGTTTATCTCTGC 58.566 43.478 0.00 0.00 0.00 4.26
929 1007 5.746245 GTCTGGTCGATCAAGTTTATCTCTG 59.254 44.000 0.00 0.00 0.00 3.35
930 1008 5.419155 TGTCTGGTCGATCAAGTTTATCTCT 59.581 40.000 0.00 0.00 0.00 3.10
931 1009 5.651530 TGTCTGGTCGATCAAGTTTATCTC 58.348 41.667 0.00 0.00 0.00 2.75
932 1010 5.661056 TGTCTGGTCGATCAAGTTTATCT 57.339 39.130 0.00 0.00 0.00 1.98
933 1011 9.692749 TTATATGTCTGGTCGATCAAGTTTATC 57.307 33.333 0.00 0.00 0.00 1.75
955 1033 8.456471 CGTGGAAGTGGAACGATCTATATTATA 58.544 37.037 0.00 0.00 45.86 0.98
956 1034 7.313646 CGTGGAAGTGGAACGATCTATATTAT 58.686 38.462 0.00 0.00 45.86 1.28
957 1035 6.294342 CCGTGGAAGTGGAACGATCTATATTA 60.294 42.308 0.00 0.00 45.86 0.98
958 1036 5.509163 CCGTGGAAGTGGAACGATCTATATT 60.509 44.000 0.00 0.00 45.86 1.28
959 1037 4.022242 CCGTGGAAGTGGAACGATCTATAT 60.022 45.833 0.00 0.00 45.86 0.86
960 1038 3.317149 CCGTGGAAGTGGAACGATCTATA 59.683 47.826 0.00 0.00 45.86 1.31
961 1039 2.100916 CCGTGGAAGTGGAACGATCTAT 59.899 50.000 0.00 0.00 45.86 1.98
962 1040 1.475280 CCGTGGAAGTGGAACGATCTA 59.525 52.381 0.00 0.00 45.86 1.98
963 1041 0.246635 CCGTGGAAGTGGAACGATCT 59.753 55.000 0.00 0.00 45.86 2.75
964 1042 0.245539 TCCGTGGAAGTGGAACGATC 59.754 55.000 0.00 0.00 45.86 3.69
965 1043 0.037605 GTCCGTGGAAGTGGAACGAT 60.038 55.000 0.00 0.00 45.86 3.73
966 1044 1.111116 AGTCCGTGGAAGTGGAACGA 61.111 55.000 0.00 0.00 45.86 3.85
967 1045 0.249741 AAGTCCGTGGAAGTGGAACG 60.250 55.000 0.00 0.00 45.86 3.95
968 1046 1.963172 AAAGTCCGTGGAAGTGGAAC 58.037 50.000 0.00 0.00 35.67 3.62
969 1047 2.294074 CAAAAGTCCGTGGAAGTGGAA 58.706 47.619 0.00 0.00 35.67 3.53
970 1048 1.210967 ACAAAAGTCCGTGGAAGTGGA 59.789 47.619 0.00 0.00 0.00 4.02
971 1049 1.602377 GACAAAAGTCCGTGGAAGTGG 59.398 52.381 0.00 0.00 0.00 4.00
983 1061 2.440409 CCATGGCTAGCTGACAAAAGT 58.560 47.619 15.72 0.00 37.17 2.66
1076 1154 2.361610 CCGGCACCATTCTGGCTT 60.362 61.111 0.00 0.00 42.67 4.35
1146 1224 2.358737 GTTCCCACTGAGCCGGTG 60.359 66.667 1.90 7.06 40.14 4.94
1158 1236 1.444553 CAGAGACGACGCTGTTCCC 60.445 63.158 10.16 0.00 38.71 3.97
1307 1391 2.933906 ACGAAAGAACTTGAGAACGCAA 59.066 40.909 0.00 0.00 0.00 4.85
1310 1394 2.656632 CGCACGAAAGAACTTGAGAACG 60.657 50.000 0.00 0.00 0.00 3.95
1357 1441 4.366586 TCAAGCTCTCACGAATCATCATC 58.633 43.478 0.00 0.00 0.00 2.92
1358 1442 4.397481 TCAAGCTCTCACGAATCATCAT 57.603 40.909 0.00 0.00 0.00 2.45
1359 1443 3.874392 TCAAGCTCTCACGAATCATCA 57.126 42.857 0.00 0.00 0.00 3.07
1360 1444 5.277250 GGAAATCAAGCTCTCACGAATCATC 60.277 44.000 0.00 0.00 0.00 2.92
1361 1445 4.574013 GGAAATCAAGCTCTCACGAATCAT 59.426 41.667 0.00 0.00 0.00 2.45
1362 1446 3.935203 GGAAATCAAGCTCTCACGAATCA 59.065 43.478 0.00 0.00 0.00 2.57
1397 1481 1.329256 ACAAGCTCCACAGACGTACT 58.671 50.000 0.00 0.00 0.00 2.73
1398 1482 2.985139 GTTACAAGCTCCACAGACGTAC 59.015 50.000 0.00 0.00 0.00 3.67
1404 1488 2.061773 CTCACGTTACAAGCTCCACAG 58.938 52.381 0.00 0.00 0.00 3.66
1421 1505 1.067846 CAGAACAACGATCGACCCTCA 60.068 52.381 24.34 0.00 0.00 3.86
1430 1514 3.149196 ACCTTGCAATCAGAACAACGAT 58.851 40.909 0.00 0.00 0.00 3.73
1487 1571 7.563888 TTTGAGCTCAAATTCCATGATCTAG 57.436 36.000 32.86 0.00 40.55 2.43
1503 1605 4.436584 CCAATCACGTCTCAATTTGAGCTC 60.437 45.833 19.53 6.82 43.95 4.09
1534 1636 0.782384 CGTACGTCTTGCTCACAACC 59.218 55.000 7.22 0.00 0.00 3.77
1654 1799 4.395854 TCAATCACTAGAAACGCATGCATT 59.604 37.500 19.57 12.07 0.00 3.56
1669 1814 3.159213 TGCCATTTCAGGTCAATCACT 57.841 42.857 0.00 0.00 0.00 3.41
1750 1895 0.034186 TCCGGGGATGTACAGTACGT 60.034 55.000 5.02 5.02 0.00 3.57
1751 1896 1.000607 CATCCGGGGATGTACAGTACG 60.001 57.143 17.70 3.49 44.93 3.67
1752 1897 2.814280 CATCCGGGGATGTACAGTAC 57.186 55.000 17.70 3.49 44.93 2.73
1827 1981 0.460284 ATTAGTGCTCCGAGGCGTTG 60.460 55.000 0.00 0.00 34.52 4.10
1870 2546 4.992381 AATAGACAGAGTCGCAAAACAC 57.008 40.909 0.00 0.00 37.67 3.32
1880 2556 6.299805 TCATTGTAGCCAAATAGACAGAGT 57.700 37.500 0.00 0.00 33.44 3.24
1898 4620 6.558771 TGCCTATGGAAAACGATATCATTG 57.441 37.500 3.12 0.00 0.00 2.82
1903 4625 7.224753 CGCTTATATGCCTATGGAAAACGATAT 59.775 37.037 5.11 0.00 0.00 1.63
1980 4714 2.930562 ACCAGGCAGGGGTGAGAC 60.931 66.667 0.00 0.00 43.89 3.36
1990 4724 3.660571 CCCACCATCCACCAGGCA 61.661 66.667 0.00 0.00 33.74 4.75
2037 4771 8.004344 CCTTAAAGATGCTTCATAACGATTACG 58.996 37.037 2.07 0.00 45.75 3.18
2061 4795 4.885907 CCATCTTTTACATGTCATGCTCCT 59.114 41.667 12.91 0.00 0.00 3.69
2106 4840 2.366916 CGTATCCTCAAGCCAGGAATCT 59.633 50.000 0.93 0.00 46.10 2.40
2127 4861 5.758784 AGACGGATATTGTAAAGCTAAAGGC 59.241 40.000 0.00 0.00 42.19 4.35
2162 4896 9.531942 CAAAAGCATCCTTGTATTGCATAATAA 57.468 29.630 0.00 0.00 38.84 1.40
2163 4897 8.694540 ACAAAAGCATCCTTGTATTGCATAATA 58.305 29.630 0.00 0.00 38.84 0.98
2174 4908 1.267806 CGCTCACAAAAGCATCCTTGT 59.732 47.619 0.00 0.00 42.62 3.16
2179 4913 5.682862 CCATTATTACGCTCACAAAAGCATC 59.317 40.000 0.00 0.00 42.62 3.91


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

AutoCloner maintained by Alex Coulton.