Multiple sequence alignment - TraesCS7B01G087600

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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 TraesCS7B01G087600 chr7B 100.000 2354 0 0 1 2354 102649490 102647137 0.000000e+00 4348.0
1 TraesCS7B01G087600 chr7B 91.466 1289 98 6 72 1357 102267184 102265905 0.000000e+00 1760.0
2 TraesCS7B01G087600 chr7D 93.286 1266 66 9 98 1358 137571151 137569900 0.000000e+00 1849.0
3 TraesCS7B01G087600 chr7D 92.824 1282 35 9 1101 2354 137717169 137715917 0.000000e+00 1805.0
4 TraesCS7B01G087600 chr7D 92.439 1058 29 7 1323 2354 137606488 137605456 0.000000e+00 1463.0
5 TraesCS7B01G087600 chr7D 94.515 948 39 6 158 1104 137764431 137763496 0.000000e+00 1450.0
6 TraesCS7B01G087600 chr7D 93.407 546 27 3 103 647 137608029 137607492 0.000000e+00 800.0
7 TraesCS7B01G087600 chr7A 91.904 1297 80 11 72 1358 137780858 137779577 0.000000e+00 1790.0
8 TraesCS7B01G087600 chr7A 88.073 109 9 2 2248 2354 137798628 137798522 2.460000e-25 126.0
9 TraesCS7B01G087600 chrUn 92.344 1058 30 6 1323 2354 330790286 330791318 0.000000e+00 1458.0
10 TraesCS7B01G087600 chrUn 97.807 684 14 1 639 1321 468058901 468059584 0.000000e+00 1179.0
11 TraesCS7B01G087600 chrUn 93.040 546 29 3 103 647 91673654 91673117 0.000000e+00 789.0
12 TraesCS7B01G087600 chr4D 75.575 348 69 10 328 667 78431870 78431531 8.710000e-35 158.0
13 TraesCS7B01G087600 chr1D 95.775 71 3 0 1 71 157986736 157986806 5.320000e-22 115.0
14 TraesCS7B01G087600 chr6D 95.238 42 2 0 9 50 101713776 101713817 1.510000e-07 67.6


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 TraesCS7B01G087600 chr7B 102647137 102649490 2353 True 4348.0 4348 100.000 1 2354 1 chr7B.!!$R2 2353
1 TraesCS7B01G087600 chr7B 102265905 102267184 1279 True 1760.0 1760 91.466 72 1357 1 chr7B.!!$R1 1285
2 TraesCS7B01G087600 chr7D 137569900 137571151 1251 True 1849.0 1849 93.286 98 1358 1 chr7D.!!$R1 1260
3 TraesCS7B01G087600 chr7D 137715917 137717169 1252 True 1805.0 1805 92.824 1101 2354 1 chr7D.!!$R2 1253
4 TraesCS7B01G087600 chr7D 137763496 137764431 935 True 1450.0 1450 94.515 158 1104 1 chr7D.!!$R3 946
5 TraesCS7B01G087600 chr7D 137605456 137608029 2573 True 1131.5 1463 92.923 103 2354 2 chr7D.!!$R4 2251
6 TraesCS7B01G087600 chr7A 137779577 137780858 1281 True 1790.0 1790 91.904 72 1358 1 chr7A.!!$R1 1286
7 TraesCS7B01G087600 chrUn 330790286 330791318 1032 False 1458.0 1458 92.344 1323 2354 1 chrUn.!!$F1 1031
8 TraesCS7B01G087600 chrUn 468058901 468059584 683 False 1179.0 1179 97.807 639 1321 1 chrUn.!!$F2 682
9 TraesCS7B01G087600 chrUn 91673117 91673654 537 True 789.0 789 93.040 103 647 1 chrUn.!!$R1 544

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
993 1015 0.037447 AAGAAGACCCTTGCTGCTCC 59.963 55.0 0.0 0.0 0.0 4.7 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1910 2421 0.669318 GACCTTTCACGATGACGCCA 60.669 55.0 0.0 0.0 43.96 5.69 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 5.587388 ATCAAATCCAATGTAAGCTGTGG 57.413 39.130 0.00 0.00 0.00 4.17
23 24 3.193267 TCAAATCCAATGTAAGCTGTGGC 59.807 43.478 0.00 0.00 39.06 5.01
24 25 2.512692 ATCCAATGTAAGCTGTGGCA 57.487 45.000 0.00 0.00 41.70 4.92
25 26 2.284754 TCCAATGTAAGCTGTGGCAA 57.715 45.000 0.00 0.00 41.70 4.52
26 27 2.591923 TCCAATGTAAGCTGTGGCAAA 58.408 42.857 0.00 0.00 41.70 3.68
27 28 3.164268 TCCAATGTAAGCTGTGGCAAAT 58.836 40.909 0.00 0.00 41.70 2.32
28 29 3.577848 TCCAATGTAAGCTGTGGCAAATT 59.422 39.130 0.00 0.00 41.70 1.82
29 30 4.769488 TCCAATGTAAGCTGTGGCAAATTA 59.231 37.500 0.00 0.00 41.70 1.40
30 31 5.421693 TCCAATGTAAGCTGTGGCAAATTAT 59.578 36.000 0.00 0.00 41.70 1.28
31 32 5.750067 CCAATGTAAGCTGTGGCAAATTATC 59.250 40.000 0.00 0.00 41.70 1.75
32 33 6.331845 CAATGTAAGCTGTGGCAAATTATCA 58.668 36.000 0.00 0.00 41.70 2.15
33 34 5.973899 TGTAAGCTGTGGCAAATTATCAA 57.026 34.783 0.00 0.00 41.70 2.57
34 35 6.338214 TGTAAGCTGTGGCAAATTATCAAA 57.662 33.333 0.00 0.00 41.70 2.69
35 36 6.389091 TGTAAGCTGTGGCAAATTATCAAAG 58.611 36.000 0.00 0.00 41.70 2.77
36 37 5.473066 AAGCTGTGGCAAATTATCAAAGT 57.527 34.783 0.00 0.00 41.70 2.66
37 38 4.813027 AGCTGTGGCAAATTATCAAAGTG 58.187 39.130 0.00 0.00 41.70 3.16
38 39 3.368843 GCTGTGGCAAATTATCAAAGTGC 59.631 43.478 0.00 0.00 38.54 4.40
39 40 4.558178 CTGTGGCAAATTATCAAAGTGCA 58.442 39.130 0.00 0.00 0.00 4.57
40 41 4.953667 TGTGGCAAATTATCAAAGTGCAA 58.046 34.783 0.00 0.00 0.00 4.08
41 42 5.363101 TGTGGCAAATTATCAAAGTGCAAA 58.637 33.333 0.00 0.00 0.00 3.68
42 43 5.466058 TGTGGCAAATTATCAAAGTGCAAAG 59.534 36.000 0.00 0.00 0.00 2.77
43 44 5.466393 GTGGCAAATTATCAAAGTGCAAAGT 59.534 36.000 0.00 0.00 0.00 2.66
44 45 6.644592 GTGGCAAATTATCAAAGTGCAAAGTA 59.355 34.615 0.00 0.00 0.00 2.24
45 46 7.170658 GTGGCAAATTATCAAAGTGCAAAGTAA 59.829 33.333 0.00 0.00 0.00 2.24
46 47 7.877097 TGGCAAATTATCAAAGTGCAAAGTAAT 59.123 29.630 0.00 0.00 0.00 1.89
47 48 9.364989 GGCAAATTATCAAAGTGCAAAGTAATA 57.635 29.630 0.00 0.00 0.00 0.98
51 52 9.586435 AATTATCAAAGTGCAAAGTAATAAGGC 57.414 29.630 0.00 0.00 0.00 4.35
52 53 5.041951 TCAAAGTGCAAAGTAATAAGGCG 57.958 39.130 0.00 0.00 0.00 5.52
53 54 3.487563 AAGTGCAAAGTAATAAGGCGC 57.512 42.857 0.00 0.00 35.35 6.53
54 55 2.432444 AGTGCAAAGTAATAAGGCGCA 58.568 42.857 10.83 0.00 37.44 6.09
55 56 2.817258 AGTGCAAAGTAATAAGGCGCAA 59.183 40.909 10.83 0.00 37.44 4.85
56 57 3.254657 AGTGCAAAGTAATAAGGCGCAAA 59.745 39.130 10.83 0.00 37.44 3.68
57 58 4.082245 AGTGCAAAGTAATAAGGCGCAAAT 60.082 37.500 10.83 0.00 37.44 2.32
58 59 5.124776 AGTGCAAAGTAATAAGGCGCAAATA 59.875 36.000 10.83 0.00 37.44 1.40
59 60 5.802956 GTGCAAAGTAATAAGGCGCAAATAA 59.197 36.000 10.83 0.00 35.23 1.40
60 61 6.475402 GTGCAAAGTAATAAGGCGCAAATAAT 59.525 34.615 10.83 0.00 35.23 1.28
61 62 6.695278 TGCAAAGTAATAAGGCGCAAATAATC 59.305 34.615 10.83 0.00 0.00 1.75
62 63 6.695278 GCAAAGTAATAAGGCGCAAATAATCA 59.305 34.615 10.83 0.00 0.00 2.57
63 64 7.221838 GCAAAGTAATAAGGCGCAAATAATCAA 59.778 33.333 10.83 0.00 0.00 2.57
64 65 9.081997 CAAAGTAATAAGGCGCAAATAATCAAA 57.918 29.630 10.83 0.00 0.00 2.69
65 66 9.816354 AAAGTAATAAGGCGCAAATAATCAAAT 57.184 25.926 10.83 0.00 0.00 2.32
66 67 9.816354 AAGTAATAAGGCGCAAATAATCAAATT 57.184 25.926 10.83 0.00 0.00 1.82
67 68 9.463443 AGTAATAAGGCGCAAATAATCAAATTC 57.537 29.630 10.83 0.00 0.00 2.17
68 69 7.713764 AATAAGGCGCAAATAATCAAATTCC 57.286 32.000 10.83 0.00 0.00 3.01
69 70 4.058721 AGGCGCAAATAATCAAATTCCC 57.941 40.909 10.83 0.00 0.00 3.97
70 71 3.130633 GGCGCAAATAATCAAATTCCCC 58.869 45.455 10.83 0.00 0.00 4.81
71 72 3.431486 GGCGCAAATAATCAAATTCCCCA 60.431 43.478 10.83 0.00 0.00 4.96
72 73 4.187694 GCGCAAATAATCAAATTCCCCAA 58.812 39.130 0.30 0.00 0.00 4.12
73 74 4.815846 GCGCAAATAATCAAATTCCCCAAT 59.184 37.500 0.30 0.00 0.00 3.16
74 75 5.296531 GCGCAAATAATCAAATTCCCCAATT 59.703 36.000 0.30 0.00 33.27 2.32
75 76 6.481644 GCGCAAATAATCAAATTCCCCAATTA 59.518 34.615 0.30 0.00 31.51 1.40
76 77 7.011857 GCGCAAATAATCAAATTCCCCAATTAA 59.988 33.333 0.30 0.00 31.51 1.40
135 144 0.541063 CAACCCTACCACAAACCCCC 60.541 60.000 0.00 0.00 0.00 5.40
151 160 2.892425 CCCGACAGCGAGCATTCC 60.892 66.667 0.00 0.00 40.82 3.01
152 161 3.257561 CCGACAGCGAGCATTCCG 61.258 66.667 0.00 0.00 40.82 4.30
237 246 2.365768 GTCCCCTCTCCCCACCTC 60.366 72.222 0.00 0.00 0.00 3.85
275 284 4.082523 GCCACCTCTGCGCTACCA 62.083 66.667 9.73 0.00 0.00 3.25
276 285 2.125512 CCACCTCTGCGCTACCAC 60.126 66.667 9.73 0.00 0.00 4.16
335 356 1.132643 CTTTCTCCGTCCAGGACTACG 59.867 57.143 17.95 5.09 45.98 3.51
370 391 4.776322 CTCACCCGGGCGCAATCA 62.776 66.667 24.08 0.00 0.00 2.57
390 411 2.358737 CAAGGCGTCCAGGTCCAC 60.359 66.667 0.00 0.00 0.00 4.02
511 532 2.507471 CCCTAAGTTCCTCTGCTCCAAT 59.493 50.000 0.00 0.00 0.00 3.16
581 602 1.048724 ATCCCCTTCCAAGATCGCGA 61.049 55.000 13.09 13.09 0.00 5.87
594 615 2.600122 ATCGCGAGCCTCGTCTTGAC 62.600 60.000 16.66 0.00 42.81 3.18
676 697 1.514443 CGGCTCCTTCGACGAGTTC 60.514 63.158 9.76 3.51 0.00 3.01
677 698 1.585006 GGCTCCTTCGACGAGTTCA 59.415 57.895 9.76 0.00 0.00 3.18
723 744 1.602771 GAGGTGGTGCCCTCCTAAC 59.397 63.158 12.97 1.62 46.15 2.34
993 1015 0.037447 AAGAAGACCCTTGCTGCTCC 59.963 55.000 0.00 0.00 0.00 4.70
1125 1147 3.770040 TACATCGTGCGCAGGCCT 61.770 61.111 24.57 11.77 38.85 5.19
1235 1257 5.069318 TGACTATTGCTCATTGGTTGTTGA 58.931 37.500 0.00 0.00 0.00 3.18
1363 1849 1.101049 CCAACCTTGACACACGCCTT 61.101 55.000 0.00 0.00 0.00 4.35
1397 1891 7.175990 TCTCGCCAGGAAAAATACAACTTTTAT 59.824 33.333 0.00 0.00 0.00 1.40
1490 1984 6.658831 TCTGACAAAAAGATTAAGCGAGTTG 58.341 36.000 0.00 2.96 0.00 3.16
1511 2005 3.963374 TGTGGAGTTCTAGATGAGGGATG 59.037 47.826 0.00 0.00 0.00 3.51
1514 2008 3.254657 GGAGTTCTAGATGAGGGATGTCG 59.745 52.174 0.00 0.00 0.00 4.35
1515 2009 3.226777 AGTTCTAGATGAGGGATGTCGG 58.773 50.000 0.00 0.00 0.00 4.79
1579 2073 2.029838 ATAGCCTTGAGAAGCGGTTG 57.970 50.000 3.70 0.00 0.00 3.77
1580 2074 0.685097 TAGCCTTGAGAAGCGGTTGT 59.315 50.000 3.70 0.00 0.00 3.32
1581 2075 0.179018 AGCCTTGAGAAGCGGTTGTT 60.179 50.000 3.70 0.00 0.00 2.83
1582 2076 0.040067 GCCTTGAGAAGCGGTTGTTG 60.040 55.000 3.70 0.00 0.00 3.33
1583 2077 0.040067 CCTTGAGAAGCGGTTGTTGC 60.040 55.000 3.70 0.00 0.00 4.17
1584 2078 0.040067 CTTGAGAAGCGGTTGTTGCC 60.040 55.000 3.70 0.00 0.00 4.52
1585 2079 1.452145 TTGAGAAGCGGTTGTTGCCC 61.452 55.000 3.70 0.00 0.00 5.36
1586 2080 1.600916 GAGAAGCGGTTGTTGCCCT 60.601 57.895 3.70 0.00 0.00 5.19
1587 2081 1.856265 GAGAAGCGGTTGTTGCCCTG 61.856 60.000 3.70 0.00 0.00 4.45
1588 2082 2.912025 AAGCGGTTGTTGCCCTGG 60.912 61.111 0.00 0.00 0.00 4.45
1589 2083 3.731766 AAGCGGTTGTTGCCCTGGT 62.732 57.895 0.00 0.00 0.00 4.00
1590 2084 2.281900 GCGGTTGTTGCCCTGGTA 60.282 61.111 0.00 0.00 0.00 3.25
1591 2085 2.622962 GCGGTTGTTGCCCTGGTAC 61.623 63.158 0.00 0.00 0.00 3.34
1592 2086 1.072505 CGGTTGTTGCCCTGGTACT 59.927 57.895 0.00 0.00 0.00 2.73
1593 2087 0.953960 CGGTTGTTGCCCTGGTACTC 60.954 60.000 0.00 0.00 0.00 2.59
1594 2088 0.608308 GGTTGTTGCCCTGGTACTCC 60.608 60.000 0.00 0.00 0.00 3.85
1595 2089 0.400594 GTTGTTGCCCTGGTACTCCT 59.599 55.000 0.00 0.00 34.23 3.69
1596 2090 1.145571 TTGTTGCCCTGGTACTCCTT 58.854 50.000 0.00 0.00 34.23 3.36
1597 2091 0.400213 TGTTGCCCTGGTACTCCTTG 59.600 55.000 0.00 0.00 34.23 3.61
1598 2092 0.400594 GTTGCCCTGGTACTCCTTGT 59.599 55.000 0.00 0.00 34.23 3.16
1599 2093 1.145571 TTGCCCTGGTACTCCTTGTT 58.854 50.000 0.00 0.00 34.23 2.83
1684 2178 4.389374 TGGCCAAGAAGAAGTTTCTACAG 58.611 43.478 0.61 0.00 36.28 2.74
1702 2196 6.634805 TCTACAGAAGCTTGTGGATTCTTAG 58.365 40.000 25.62 16.58 46.98 2.18
1714 2208 9.401058 CTTGTGGATTCTTAGAAGGATATTGTT 57.599 33.333 0.03 0.00 0.00 2.83
1738 2232 1.516161 GCCTCGCTGATGATTATGCA 58.484 50.000 0.00 0.00 0.00 3.96
1739 2233 1.196354 GCCTCGCTGATGATTATGCAC 59.804 52.381 0.00 0.00 0.00 4.57
1781 2275 1.672881 CAAAAGGAGATGATCGCCCAC 59.327 52.381 11.75 0.00 37.00 4.61
1875 2386 0.179161 CGGTTCAGAGCCAGAGTACG 60.179 60.000 3.91 0.00 0.00 3.67
1910 2421 1.456287 GGCTTGTGTCTGGTTCCCT 59.544 57.895 0.00 0.00 0.00 4.20
1920 2431 2.511600 GGTTCCCTGGCGTCATCG 60.512 66.667 0.00 0.00 40.37 3.84
1970 2481 6.865411 TGTTGAACAACTTTAGGTTTTACCC 58.135 36.000 16.70 0.00 39.50 3.69
1985 2496 7.330262 AGGTTTTACCCATTAATTGCTCATTG 58.670 34.615 0.00 0.00 39.75 2.82
2220 2734 9.616156 TCCATTGTACAAACACTTTTAGTTAGA 57.384 29.630 13.23 0.00 34.61 2.10
2278 2792 6.321181 TCAGCAATTGAACAACTAGGTTTCTT 59.679 34.615 10.34 0.00 31.34 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 3.193267 GCCACAGCTTACATTGGATTTGA 59.807 43.478 0.00 0.00 35.50 2.69
2 3 3.056678 TGCCACAGCTTACATTGGATTTG 60.057 43.478 0.00 0.00 40.80 2.32
3 4 3.164268 TGCCACAGCTTACATTGGATTT 58.836 40.909 0.00 0.00 40.80 2.17
5 6 2.512692 TGCCACAGCTTACATTGGAT 57.487 45.000 0.00 0.00 40.80 3.41
6 7 2.284754 TTGCCACAGCTTACATTGGA 57.715 45.000 0.00 0.00 40.80 3.53
7 8 3.598019 ATTTGCCACAGCTTACATTGG 57.402 42.857 0.00 0.00 40.80 3.16
8 9 6.331845 TGATAATTTGCCACAGCTTACATTG 58.668 36.000 0.00 0.00 40.80 2.82
9 10 6.528537 TGATAATTTGCCACAGCTTACATT 57.471 33.333 0.00 0.00 40.80 2.71
10 11 6.528537 TTGATAATTTGCCACAGCTTACAT 57.471 33.333 0.00 0.00 40.80 2.29
11 12 5.973899 TTGATAATTTGCCACAGCTTACA 57.026 34.783 0.00 0.00 40.80 2.41
12 13 6.308766 CACTTTGATAATTTGCCACAGCTTAC 59.691 38.462 0.00 0.00 40.80 2.34
13 14 6.389091 CACTTTGATAATTTGCCACAGCTTA 58.611 36.000 0.00 0.00 40.80 3.09
14 15 5.232463 CACTTTGATAATTTGCCACAGCTT 58.768 37.500 0.00 0.00 40.80 3.74
15 16 4.813027 CACTTTGATAATTTGCCACAGCT 58.187 39.130 0.00 0.00 40.80 4.24
16 17 3.368843 GCACTTTGATAATTTGCCACAGC 59.631 43.478 0.00 0.00 40.48 4.40
17 18 4.558178 TGCACTTTGATAATTTGCCACAG 58.442 39.130 0.00 0.00 0.00 3.66
18 19 4.597404 TGCACTTTGATAATTTGCCACA 57.403 36.364 0.00 0.00 0.00 4.17
19 20 5.466393 ACTTTGCACTTTGATAATTTGCCAC 59.534 36.000 0.00 0.00 0.00 5.01
20 21 5.609423 ACTTTGCACTTTGATAATTTGCCA 58.391 33.333 0.00 0.00 0.00 4.92
21 22 7.650834 TTACTTTGCACTTTGATAATTTGCC 57.349 32.000 0.00 0.00 0.00 4.52
25 26 9.586435 GCCTTATTACTTTGCACTTTGATAATT 57.414 29.630 0.00 0.00 0.00 1.40
26 27 7.915397 CGCCTTATTACTTTGCACTTTGATAAT 59.085 33.333 0.00 0.00 0.00 1.28
27 28 7.247728 CGCCTTATTACTTTGCACTTTGATAA 58.752 34.615 0.00 0.00 0.00 1.75
28 29 6.676943 GCGCCTTATTACTTTGCACTTTGATA 60.677 38.462 0.00 0.00 0.00 2.15
29 30 5.640732 CGCCTTATTACTTTGCACTTTGAT 58.359 37.500 0.00 0.00 0.00 2.57
30 31 4.614993 GCGCCTTATTACTTTGCACTTTGA 60.615 41.667 0.00 0.00 0.00 2.69
31 32 3.608073 GCGCCTTATTACTTTGCACTTTG 59.392 43.478 0.00 0.00 0.00 2.77
32 33 3.254657 TGCGCCTTATTACTTTGCACTTT 59.745 39.130 4.18 0.00 0.00 2.66
33 34 2.817258 TGCGCCTTATTACTTTGCACTT 59.183 40.909 4.18 0.00 0.00 3.16
34 35 2.432444 TGCGCCTTATTACTTTGCACT 58.568 42.857 4.18 0.00 0.00 4.40
35 36 2.911819 TGCGCCTTATTACTTTGCAC 57.088 45.000 4.18 0.00 0.00 4.57
36 37 3.924918 TTTGCGCCTTATTACTTTGCA 57.075 38.095 4.18 0.00 0.00 4.08
37 38 6.695278 TGATTATTTGCGCCTTATTACTTTGC 59.305 34.615 4.18 0.00 0.00 3.68
38 39 8.627487 TTGATTATTTGCGCCTTATTACTTTG 57.373 30.769 4.18 0.00 0.00 2.77
39 40 9.816354 ATTTGATTATTTGCGCCTTATTACTTT 57.184 25.926 4.18 0.00 0.00 2.66
40 41 9.816354 AATTTGATTATTTGCGCCTTATTACTT 57.184 25.926 4.18 0.00 0.00 2.24
41 42 9.463443 GAATTTGATTATTTGCGCCTTATTACT 57.537 29.630 4.18 0.00 0.00 2.24
42 43 8.699749 GGAATTTGATTATTTGCGCCTTATTAC 58.300 33.333 4.18 0.00 0.00 1.89
43 44 7.870445 GGGAATTTGATTATTTGCGCCTTATTA 59.130 33.333 4.18 0.00 0.00 0.98
44 45 6.705825 GGGAATTTGATTATTTGCGCCTTATT 59.294 34.615 4.18 0.00 0.00 1.40
45 46 6.223120 GGGAATTTGATTATTTGCGCCTTAT 58.777 36.000 4.18 0.00 0.00 1.73
46 47 5.452636 GGGGAATTTGATTATTTGCGCCTTA 60.453 40.000 4.18 0.00 0.00 2.69
47 48 4.441792 GGGAATTTGATTATTTGCGCCTT 58.558 39.130 4.18 0.00 0.00 4.35
48 49 3.181466 GGGGAATTTGATTATTTGCGCCT 60.181 43.478 4.18 0.00 0.00 5.52
49 50 3.130633 GGGGAATTTGATTATTTGCGCC 58.869 45.455 4.18 0.00 0.00 6.53
50 51 3.791245 TGGGGAATTTGATTATTTGCGC 58.209 40.909 0.00 0.00 0.00 6.09
51 52 6.923928 AATTGGGGAATTTGATTATTTGCG 57.076 33.333 0.00 0.00 0.00 4.85
56 57 9.506042 AGGAGTTTAATTGGGGAATTTGATTAT 57.494 29.630 0.00 0.00 0.00 1.28
57 58 8.909423 AGGAGTTTAATTGGGGAATTTGATTA 57.091 30.769 0.00 0.00 0.00 1.75
58 59 7.363793 CGAGGAGTTTAATTGGGGAATTTGATT 60.364 37.037 0.00 0.00 0.00 2.57
59 60 6.096846 CGAGGAGTTTAATTGGGGAATTTGAT 59.903 38.462 0.00 0.00 0.00 2.57
60 61 5.417580 CGAGGAGTTTAATTGGGGAATTTGA 59.582 40.000 0.00 0.00 0.00 2.69
61 62 5.185056 ACGAGGAGTTTAATTGGGGAATTTG 59.815 40.000 0.00 0.00 0.00 2.32
62 63 5.330233 ACGAGGAGTTTAATTGGGGAATTT 58.670 37.500 0.00 0.00 0.00 1.82
63 64 4.930696 ACGAGGAGTTTAATTGGGGAATT 58.069 39.130 0.00 0.00 0.00 2.17
64 65 4.586306 ACGAGGAGTTTAATTGGGGAAT 57.414 40.909 0.00 0.00 0.00 3.01
65 66 4.323715 GGTACGAGGAGTTTAATTGGGGAA 60.324 45.833 0.00 0.00 0.00 3.97
66 67 3.198417 GGTACGAGGAGTTTAATTGGGGA 59.802 47.826 0.00 0.00 0.00 4.81
67 68 3.538591 GGTACGAGGAGTTTAATTGGGG 58.461 50.000 0.00 0.00 0.00 4.96
68 69 3.054948 TGGGTACGAGGAGTTTAATTGGG 60.055 47.826 0.00 0.00 0.00 4.12
69 70 3.937079 GTGGGTACGAGGAGTTTAATTGG 59.063 47.826 0.00 0.00 0.00 3.16
70 71 4.390909 GTGTGGGTACGAGGAGTTTAATTG 59.609 45.833 0.00 0.00 0.00 2.32
71 72 4.564199 GGTGTGGGTACGAGGAGTTTAATT 60.564 45.833 0.00 0.00 0.00 1.40
72 73 3.055602 GGTGTGGGTACGAGGAGTTTAAT 60.056 47.826 0.00 0.00 0.00 1.40
73 74 2.299867 GGTGTGGGTACGAGGAGTTTAA 59.700 50.000 0.00 0.00 0.00 1.52
74 75 1.895131 GGTGTGGGTACGAGGAGTTTA 59.105 52.381 0.00 0.00 0.00 2.01
75 76 0.683412 GGTGTGGGTACGAGGAGTTT 59.317 55.000 0.00 0.00 0.00 2.66
76 77 1.530013 CGGTGTGGGTACGAGGAGTT 61.530 60.000 0.00 0.00 0.00 3.01
135 144 3.257561 CGGAATGCTCGCTGTCGG 61.258 66.667 0.00 0.00 36.13 4.79
220 229 2.365768 GAGGTGGGGAGAGGGGAC 60.366 72.222 0.00 0.00 0.00 4.46
271 280 3.762247 GCGGTGGCGGTAGTGGTA 61.762 66.667 0.00 0.00 0.00 3.25
305 326 1.523938 CGGAGAAAGGGGAATCGGC 60.524 63.158 0.00 0.00 0.00 5.54
310 331 1.198759 CCTGGACGGAGAAAGGGGAA 61.199 60.000 0.00 0.00 33.16 3.97
370 391 2.584391 GGACCTGGACGCCTTGAGT 61.584 63.158 0.00 0.00 0.00 3.41
390 411 3.978164 GGGACCTGAGATGGGAGG 58.022 66.667 0.00 0.00 35.26 4.30
493 514 3.307691 CCACATTGGAGCAGAGGAACTTA 60.308 47.826 0.00 0.00 38.56 2.24
581 602 4.070552 GCCGGTCAAGACGAGGCT 62.071 66.667 22.54 0.00 45.73 4.58
676 697 1.811266 CCTCGACACGGCCTTGATG 60.811 63.158 17.43 7.65 0.00 3.07
677 698 2.579201 CCTCGACACGGCCTTGAT 59.421 61.111 17.43 0.00 0.00 2.57
723 744 1.261354 CCACTGTGTCAATGTCACACG 59.739 52.381 9.11 8.36 46.12 4.49
993 1015 1.906966 GCAATTTTCAGCATGTCGTCG 59.093 47.619 0.00 0.00 37.40 5.12
1064 1086 2.803956 TGATCAGGAACTCTACCGTGT 58.196 47.619 0.00 0.00 34.60 4.49
1125 1147 2.754648 GCTGTAAGTGATCAGCGCA 58.245 52.632 11.47 0.00 45.42 6.09
1235 1257 3.074687 TGACCTGAAGTACCTCTCACTCT 59.925 47.826 0.00 0.00 0.00 3.24
1397 1891 7.685481 TCATCCTGTCAAAACCTCAGTTTATA 58.315 34.615 0.00 0.00 45.54 0.98
1490 1984 3.964031 ACATCCCTCATCTAGAACTCCAC 59.036 47.826 0.00 0.00 0.00 4.02
1511 2005 0.878416 TACAATGCCTGCAAACCGAC 59.122 50.000 0.00 0.00 0.00 4.79
1514 2008 2.995258 CAATGTACAATGCCTGCAAACC 59.005 45.455 0.00 0.00 0.00 3.27
1515 2009 2.412770 GCAATGTACAATGCCTGCAAAC 59.587 45.455 22.80 0.00 36.56 2.93
1579 2073 0.400594 ACAAGGAGTACCAGGGCAAC 59.599 55.000 0.00 0.00 38.94 4.17
1580 2074 1.073284 GAACAAGGAGTACCAGGGCAA 59.927 52.381 0.00 0.00 38.94 4.52
1581 2075 0.690762 GAACAAGGAGTACCAGGGCA 59.309 55.000 0.00 0.00 38.94 5.36
1582 2076 0.690762 TGAACAAGGAGTACCAGGGC 59.309 55.000 0.00 0.00 38.94 5.19
1583 2077 2.876079 GCTTGAACAAGGAGTACCAGGG 60.876 54.545 14.95 0.00 38.80 4.45
1584 2078 2.039084 AGCTTGAACAAGGAGTACCAGG 59.961 50.000 14.95 0.00 38.80 4.45
1585 2079 3.409026 AGCTTGAACAAGGAGTACCAG 57.591 47.619 14.95 0.00 38.80 4.00
1586 2080 3.391296 AGAAGCTTGAACAAGGAGTACCA 59.609 43.478 2.10 0.00 38.80 3.25
1587 2081 3.997681 GAGAAGCTTGAACAAGGAGTACC 59.002 47.826 2.10 0.00 38.80 3.34
1588 2082 4.632153 TGAGAAGCTTGAACAAGGAGTAC 58.368 43.478 2.10 0.00 38.80 2.73
1589 2083 4.345257 ACTGAGAAGCTTGAACAAGGAGTA 59.655 41.667 2.10 0.00 38.80 2.59
1590 2084 3.135530 ACTGAGAAGCTTGAACAAGGAGT 59.864 43.478 2.10 0.00 38.80 3.85
1591 2085 3.737850 ACTGAGAAGCTTGAACAAGGAG 58.262 45.455 2.10 0.00 38.80 3.69
1592 2086 3.134623 TGACTGAGAAGCTTGAACAAGGA 59.865 43.478 2.10 0.00 38.80 3.36
1593 2087 3.470709 TGACTGAGAAGCTTGAACAAGG 58.529 45.455 2.10 1.17 38.80 3.61
1594 2088 4.375272 TCTGACTGAGAAGCTTGAACAAG 58.625 43.478 2.10 9.82 41.24 3.16
1595 2089 4.406648 TCTGACTGAGAAGCTTGAACAA 57.593 40.909 2.10 0.00 0.00 2.83
1596 2090 4.122776 GTTCTGACTGAGAAGCTTGAACA 58.877 43.478 2.10 0.00 41.58 3.18
1597 2091 3.183373 CGTTCTGACTGAGAAGCTTGAAC 59.817 47.826 2.10 7.80 41.58 3.18
1598 2092 3.384668 CGTTCTGACTGAGAAGCTTGAA 58.615 45.455 2.10 0.00 41.58 2.69
1599 2093 2.288457 CCGTTCTGACTGAGAAGCTTGA 60.288 50.000 2.10 0.00 41.58 3.02
1684 2178 5.491982 TCCTTCTAAGAATCCACAAGCTTC 58.508 41.667 0.00 0.00 0.00 3.86
1702 2196 3.481453 GAGGCCTGGAACAATATCCTTC 58.519 50.000 12.00 0.00 40.35 3.46
1714 2208 1.340399 AATCATCAGCGAGGCCTGGA 61.340 55.000 20.35 7.22 33.64 3.86
1738 2232 1.620822 GTTTCCCAAGACATGCTGGT 58.379 50.000 7.96 0.00 0.00 4.00
1739 2233 0.890683 GGTTTCCCAAGACATGCTGG 59.109 55.000 0.00 0.00 0.00 4.85
1781 2275 5.657470 TCAAAAGAACAGATTCAGTGTCG 57.343 39.130 0.00 0.00 37.29 4.35
1875 2386 1.753073 AGCCCTTTATCAATGCACAGC 59.247 47.619 0.00 0.00 0.00 4.40
1910 2421 0.669318 GACCTTTCACGATGACGCCA 60.669 55.000 0.00 0.00 43.96 5.69
1970 2481 6.318144 AGTCTCCTCACAATGAGCAATTAATG 59.682 38.462 0.02 0.00 42.98 1.90
1985 2496 7.604164 TGAACTTTGATTTCATAGTCTCCTCAC 59.396 37.037 4.48 0.00 37.20 3.51
2043 2554 2.775890 AGCTGTGCCATACATATCAGC 58.224 47.619 6.83 6.83 43.04 4.26
2177 2691 5.877012 ACAATGGACAGTAACTAATGAGCAG 59.123 40.000 0.00 0.00 0.00 4.24
2309 2823 5.047306 ACATGGACTGTACTCGATTTCTCAA 60.047 40.000 0.00 0.00 35.91 3.02
2310 2824 4.462834 ACATGGACTGTACTCGATTTCTCA 59.537 41.667 0.00 0.00 35.91 3.27


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

AutoCloner maintained by Alex Coulton.