Multiple sequence alignment - TraesCS2B01G522600

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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 TraesCS2B01G522600 chr2B 100.000 2495 0 0 1 2495 717344193 717346687 0.000000e+00 4608.0
1 TraesCS2B01G522600 chr2B 90.795 1673 107 15 1 1650 717326956 717328604 0.000000e+00 2193.0
2 TraesCS2B01G522600 chr2B 83.829 1008 108 27 688 1650 717131203 717132200 0.000000e+00 907.0
3 TraesCS2B01G522600 chr2B 89.299 542 32 10 961 1487 717237218 717237748 0.000000e+00 656.0
4 TraesCS2B01G522600 chr2B 84.834 211 30 2 3 213 614246315 614246107 6.990000e-51 211.0
5 TraesCS2B01G522600 chr2B 95.833 120 5 0 1862 1981 13496436 13496317 7.040000e-46 195.0
6 TraesCS2B01G522600 chr2B 92.562 121 9 0 1862 1982 606045365 606045485 9.170000e-40 174.0
7 TraesCS2B01G522600 chr2D 88.764 1513 92 29 387 1865 591703513 591704981 0.000000e+00 1781.0
8 TraesCS2B01G522600 chr2D 90.317 599 27 14 889 1487 591602936 591603503 0.000000e+00 756.0
9 TraesCS2B01G522600 chr2D 90.441 544 25 9 961 1487 591575157 591575690 0.000000e+00 691.0
10 TraesCS2B01G522600 chr2D 82.857 385 37 13 387 763 591597392 591597755 4.000000e-83 318.0
11 TraesCS2B01G522600 chr2D 88.889 225 19 3 1155 1376 592115619 592115840 3.160000e-69 272.0
12 TraesCS2B01G522600 chr2D 93.162 117 8 0 1862 1978 549737351 549737467 3.300000e-39 172.0
13 TraesCS2B01G522600 chr2D 92.308 117 8 1 1862 1978 550250110 550250225 5.520000e-37 165.0
14 TraesCS2B01G522600 chr2D 85.981 107 2 1 753 846 591597786 591597892 4.390000e-18 102.0
15 TraesCS2B01G522600 chr2A 91.272 1226 69 11 661 1865 726386873 726388081 0.000000e+00 1637.0
16 TraesCS2B01G522600 chr2A 94.882 508 21 1 1988 2495 277152307 277152809 0.000000e+00 789.0
17 TraesCS2B01G522600 chr2A 90.037 542 28 6 961 1487 726322157 726322687 0.000000e+00 678.0
18 TraesCS2B01G522600 chr3B 97.642 509 11 1 1988 2495 98934947 98934439 0.000000e+00 872.0
19 TraesCS2B01G522600 chr3B 87.568 185 21 2 26 209 97756103 97755920 1.940000e-51 213.0
20 TraesCS2B01G522600 chr3B 84.834 211 30 2 1 210 394097778 394097987 6.990000e-51 211.0
21 TraesCS2B01G522600 chr3B 90.385 52 5 0 212 263 30081717 30081768 4.450000e-08 69.4
22 TraesCS2B01G522600 chr7A 94.892 509 24 2 1988 2495 471007302 471007809 0.000000e+00 795.0
23 TraesCS2B01G522600 chr5A 93.701 508 25 3 1988 2495 264609356 264609856 0.000000e+00 754.0
24 TraesCS2B01G522600 chr5A 81.944 72 12 1 204 274 6982994 6983065 2.680000e-05 60.2
25 TraesCS2B01G522600 chr1A 93.701 508 24 3 1988 2495 452747619 452748118 0.000000e+00 754.0
26 TraesCS2B01G522600 chr1A 90.909 55 5 0 212 266 353635382 353635328 9.570000e-10 75.0
27 TraesCS2B01G522600 chr3D 93.694 333 16 3 2023 2354 554843836 554844164 6.200000e-136 494.0
28 TraesCS2B01G522600 chr3D 93.030 330 20 3 2023 2350 205142642 205142970 1.740000e-131 479.0
29 TraesCS2B01G522600 chr3D 84.977 213 27 4 1 210 298594886 298595096 6.990000e-51 211.0
30 TraesCS2B01G522600 chr3D 92.683 41 3 0 1988 2028 554843788 554843828 2.680000e-05 60.2
31 TraesCS2B01G522600 chr4D 93.093 333 17 3 2023 2354 446106962 446106635 1.340000e-132 483.0
32 TraesCS2B01G522600 chr7B 89.737 380 17 4 1988 2354 547475990 547475620 1.350000e-127 466.0
33 TraesCS2B01G522600 chr7B 89.211 380 19 4 1988 2354 547552651 547552281 2.930000e-124 455.0
34 TraesCS2B01G522600 chr7B 92.373 118 9 0 1862 1979 591067883 591068000 4.270000e-38 169.0
35 TraesCS2B01G522600 chr7B 86.486 74 8 1 202 273 15590759 15590832 2.060000e-11 80.5
36 TraesCS2B01G522600 chr4B 88.976 381 28 3 1988 2354 559225408 559225028 2.260000e-125 459.0
37 TraesCS2B01G522600 chr4B 86.603 209 18 9 5 209 33067417 33067619 3.230000e-54 222.0
38 TraesCS2B01G522600 chr1B 85.714 210 26 3 1 208 376615214 376615007 4.180000e-53 219.0
39 TraesCS2B01G522600 chr3A 86.364 198 25 2 13 209 69662766 69662570 5.400000e-52 215.0
40 TraesCS2B01G522600 chr5D 85.859 198 25 3 1 197 61793595 61793790 9.040000e-50 207.0
41 TraesCS2B01G522600 chr7D 91.736 121 10 0 1862 1982 54217707 54217827 4.270000e-38 169.0
42 TraesCS2B01G522600 chr7D 88.806 134 14 1 1862 1994 565055661 565055528 1.990000e-36 163.0
43 TraesCS2B01G522600 chr5B 91.667 120 10 0 1862 1981 124772507 124772388 1.530000e-37 167.0
44 TraesCS2B01G522600 chr5B 82.812 64 9 2 212 273 685082663 685082600 3.470000e-04 56.5
45 TraesCS2B01G522600 chr6B 90.984 122 9 2 1862 1982 708072185 708072305 1.990000e-36 163.0


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 TraesCS2B01G522600 chr2B 717344193 717346687 2494 False 4608 4608 100.000 1 2495 1 chr2B.!!$F5 2494
1 TraesCS2B01G522600 chr2B 717326956 717328604 1648 False 2193 2193 90.795 1 1650 1 chr2B.!!$F4 1649
2 TraesCS2B01G522600 chr2B 717131203 717132200 997 False 907 907 83.829 688 1650 1 chr2B.!!$F2 962
3 TraesCS2B01G522600 chr2B 717237218 717237748 530 False 656 656 89.299 961 1487 1 chr2B.!!$F3 526
4 TraesCS2B01G522600 chr2D 591703513 591704981 1468 False 1781 1781 88.764 387 1865 1 chr2D.!!$F5 1478
5 TraesCS2B01G522600 chr2D 591602936 591603503 567 False 756 756 90.317 889 1487 1 chr2D.!!$F4 598
6 TraesCS2B01G522600 chr2D 591575157 591575690 533 False 691 691 90.441 961 1487 1 chr2D.!!$F3 526
7 TraesCS2B01G522600 chr2D 591597392 591597892 500 False 210 318 84.419 387 846 2 chr2D.!!$F7 459
8 TraesCS2B01G522600 chr2A 726386873 726388081 1208 False 1637 1637 91.272 661 1865 1 chr2A.!!$F3 1204
9 TraesCS2B01G522600 chr2A 277152307 277152809 502 False 789 789 94.882 1988 2495 1 chr2A.!!$F1 507
10 TraesCS2B01G522600 chr2A 726322157 726322687 530 False 678 678 90.037 961 1487 1 chr2A.!!$F2 526
11 TraesCS2B01G522600 chr3B 98934439 98934947 508 True 872 872 97.642 1988 2495 1 chr3B.!!$R2 507
12 TraesCS2B01G522600 chr7A 471007302 471007809 507 False 795 795 94.892 1988 2495 1 chr7A.!!$F1 507
13 TraesCS2B01G522600 chr5A 264609356 264609856 500 False 754 754 93.701 1988 2495 1 chr5A.!!$F2 507

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
315 316 0.034186 CCATTTAGTGGCTCCCTGCA 60.034 55.0 0.0 0.0 42.12 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1961 2109 0.038744 AAGTACTCCTTCCGTCCGGA 59.961 55.0 0.0 0.0 43.52 5.14 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
245 246 3.880490 CGGGCTATGTAAAATAGTGGCAA 59.120 43.478 0.00 0.00 0.00 4.52
246 247 4.336993 CGGGCTATGTAAAATAGTGGCAAA 59.663 41.667 0.00 0.00 0.00 3.68
251 252 6.318900 GCTATGTAAAATAGTGGCAAACCTCT 59.681 38.462 0.00 0.00 42.44 3.69
265 266 5.180304 GGCAAACCTCTAAATCAGCTATAGC 59.820 44.000 17.33 17.33 42.49 2.97
267 268 6.291377 CAAACCTCTAAATCAGCTATAGCCA 58.709 40.000 21.17 8.76 43.38 4.75
291 292 8.803235 CCAGCTATTAGTGGACTATTGTACATA 58.197 37.037 0.00 0.00 39.53 2.29
315 316 0.034186 CCATTTAGTGGCTCCCTGCA 60.034 55.000 0.00 0.00 42.12 4.41
396 400 7.032598 TGGAAGGGAGGGATTATGATTATTC 57.967 40.000 0.00 0.00 0.00 1.75
536 541 4.939439 ACAAGGGTTATAAGCGAACGATTT 59.061 37.500 8.49 0.00 0.00 2.17
573 578 3.385755 GTCCTCCCATCCCAAATCAAATG 59.614 47.826 0.00 0.00 0.00 2.32
575 580 2.767394 CTCCCATCCCAAATCAAATGCA 59.233 45.455 0.00 0.00 0.00 3.96
751 805 8.365210 CACACGCACAAAATAAAAATAGACATC 58.635 33.333 0.00 0.00 0.00 3.06
792 859 6.873076 TGAACCAAAAGGACAATGATAAATGC 59.127 34.615 0.00 0.00 0.00 3.56
895 965 8.255905 GGAAGAAATTTCCATCATCACAAAGAT 58.744 33.333 14.61 0.00 38.45 2.40
1049 1129 1.152963 GCGCCTATCAACCCACCAT 60.153 57.895 0.00 0.00 0.00 3.55
1330 1443 4.069232 CTCCCCTGCTGCGACGAA 62.069 66.667 0.00 0.00 0.00 3.85
1504 1635 6.000219 GTGGTGATCAATATATGGAAGCTGT 59.000 40.000 0.00 0.00 0.00 4.40
1521 1652 1.748879 GTGCGCCTAGGCCATTCAA 60.749 57.895 28.09 4.44 37.98 2.69
1694 1841 1.518572 GATGACACGTCGGCCGATT 60.519 57.895 33.58 19.18 40.70 3.34
1749 1896 2.588034 GCCCCAACCGTAGATCGC 60.588 66.667 0.00 0.00 38.35 4.58
1778 1925 2.969016 CTCGTGCTCAGCTGAGGT 59.031 61.111 37.86 0.00 42.29 3.85
1779 1926 1.291588 CTCGTGCTCAGCTGAGGTT 59.708 57.895 37.86 0.00 42.29 3.50
1780 1927 1.005748 TCGTGCTCAGCTGAGGTTG 60.006 57.895 37.86 19.38 42.29 3.77
1856 2004 5.221925 TGGCTGAAGGTAGAAGATTTGTTCT 60.222 40.000 0.00 0.00 40.07 3.01
1880 2028 6.616237 TTTTTACTCCCTCCGTCTAGAAAT 57.384 37.500 0.00 0.00 0.00 2.17
1881 2029 7.722949 TTTTTACTCCCTCCGTCTAGAAATA 57.277 36.000 0.00 0.00 0.00 1.40
1882 2030 6.705863 TTTACTCCCTCCGTCTAGAAATAC 57.294 41.667 0.00 0.00 0.00 1.89
1883 2031 4.523168 ACTCCCTCCGTCTAGAAATACT 57.477 45.455 0.00 0.00 0.00 2.12
1884 2032 4.869451 ACTCCCTCCGTCTAGAAATACTT 58.131 43.478 0.00 0.00 0.00 2.24
1885 2033 4.645588 ACTCCCTCCGTCTAGAAATACTTG 59.354 45.833 0.00 0.00 0.00 3.16
1886 2034 4.607239 TCCCTCCGTCTAGAAATACTTGT 58.393 43.478 0.00 0.00 0.00 3.16
1887 2035 4.643784 TCCCTCCGTCTAGAAATACTTGTC 59.356 45.833 0.00 0.00 0.00 3.18
1888 2036 4.497674 CCCTCCGTCTAGAAATACTTGTCG 60.498 50.000 0.00 0.00 34.45 4.35
1889 2037 4.497674 CCTCCGTCTAGAAATACTTGTCGG 60.498 50.000 0.00 0.00 46.52 4.79
1892 2040 5.481200 CGTCTAGAAATACTTGTCGGAGA 57.519 43.478 0.00 0.00 32.33 3.71
1893 2041 5.877031 CGTCTAGAAATACTTGTCGGAGAA 58.123 41.667 0.00 0.00 39.69 2.87
1894 2042 6.320171 CGTCTAGAAATACTTGTCGGAGAAA 58.680 40.000 0.00 0.00 39.69 2.52
1895 2043 6.973474 CGTCTAGAAATACTTGTCGGAGAAAT 59.027 38.462 0.00 0.00 39.69 2.17
1896 2044 7.043986 CGTCTAGAAATACTTGTCGGAGAAATG 60.044 40.741 0.00 0.00 39.69 2.32
1897 2045 7.222999 GTCTAGAAATACTTGTCGGAGAAATGG 59.777 40.741 0.00 0.00 39.69 3.16
1898 2046 6.049955 AGAAATACTTGTCGGAGAAATGGA 57.950 37.500 0.00 0.00 39.69 3.41
1899 2047 6.653989 AGAAATACTTGTCGGAGAAATGGAT 58.346 36.000 0.00 0.00 39.69 3.41
1900 2048 6.540189 AGAAATACTTGTCGGAGAAATGGATG 59.460 38.462 0.00 0.00 39.69 3.51
1901 2049 3.703001 ACTTGTCGGAGAAATGGATGT 57.297 42.857 0.00 0.00 39.69 3.06
1902 2050 4.819105 ACTTGTCGGAGAAATGGATGTA 57.181 40.909 0.00 0.00 39.69 2.29
1903 2051 5.359194 ACTTGTCGGAGAAATGGATGTAT 57.641 39.130 0.00 0.00 39.69 2.29
1904 2052 5.360591 ACTTGTCGGAGAAATGGATGTATC 58.639 41.667 0.00 0.00 39.69 2.24
1905 2053 5.129485 ACTTGTCGGAGAAATGGATGTATCT 59.871 40.000 0.00 0.00 39.69 1.98
1906 2054 6.323996 ACTTGTCGGAGAAATGGATGTATCTA 59.676 38.462 0.00 0.00 39.69 1.98
1907 2055 6.332735 TGTCGGAGAAATGGATGTATCTAG 57.667 41.667 0.00 0.00 39.69 2.43
1908 2056 6.068670 TGTCGGAGAAATGGATGTATCTAGA 58.931 40.000 0.00 0.00 39.69 2.43
1909 2057 6.016192 TGTCGGAGAAATGGATGTATCTAGAC 60.016 42.308 0.00 0.00 39.69 2.59
1910 2058 6.016192 GTCGGAGAAATGGATGTATCTAGACA 60.016 42.308 0.00 0.00 39.69 3.41
1911 2059 6.721668 TCGGAGAAATGGATGTATCTAGACAT 59.278 38.462 0.00 0.00 42.82 3.06
1912 2060 7.888546 TCGGAGAAATGGATGTATCTAGACATA 59.111 37.037 0.00 0.00 40.18 2.29
1913 2061 8.690884 CGGAGAAATGGATGTATCTAGACATAT 58.309 37.037 0.00 0.00 40.18 1.78
1953 2101 9.289303 ACATTCAATTTTATCTATTTGTGCGAC 57.711 29.630 0.00 0.00 0.00 5.19
1954 2102 9.507280 CATTCAATTTTATCTATTTGTGCGACT 57.493 29.630 0.00 0.00 0.00 4.18
1957 2105 9.378551 TCAATTTTATCTATTTGTGCGACTAGT 57.621 29.630 0.00 0.00 0.00 2.57
1963 2111 7.948278 ATCTATTTGTGCGACTAGTATTTCC 57.052 36.000 0.00 0.00 0.00 3.13
1964 2112 5.975344 TCTATTTGTGCGACTAGTATTTCCG 59.025 40.000 0.00 0.00 0.00 4.30
1965 2113 2.572191 TGTGCGACTAGTATTTCCGG 57.428 50.000 0.00 0.00 0.00 5.14
1966 2114 2.093890 TGTGCGACTAGTATTTCCGGA 58.906 47.619 0.00 0.00 0.00 5.14
1967 2115 2.159338 TGTGCGACTAGTATTTCCGGAC 60.159 50.000 1.83 15.54 40.94 4.79
1968 2116 1.064505 TGCGACTAGTATTTCCGGACG 59.935 52.381 1.83 1.53 0.00 4.79
1969 2117 1.598924 GCGACTAGTATTTCCGGACGG 60.599 57.143 1.83 3.96 0.00 4.79
1970 2118 1.942657 CGACTAGTATTTCCGGACGGA 59.057 52.381 1.83 9.76 43.52 4.69
1978 2126 4.326255 TCCGGACGGAAGGAGTAC 57.674 61.111 11.57 0.00 42.05 2.73
1979 2127 1.687612 TCCGGACGGAAGGAGTACT 59.312 57.895 11.57 0.00 42.05 2.73
1980 2128 0.038744 TCCGGACGGAAGGAGTACTT 59.961 55.000 11.57 0.00 42.05 2.24
1981 2129 1.281867 TCCGGACGGAAGGAGTACTTA 59.718 52.381 11.57 0.00 42.05 2.24
1982 2130 1.403323 CCGGACGGAAGGAGTACTTAC 59.597 57.143 4.40 0.00 40.21 2.34
1983 2131 2.363683 CGGACGGAAGGAGTACTTACT 58.636 52.381 0.00 0.00 40.21 2.24
1984 2132 3.535561 CGGACGGAAGGAGTACTTACTA 58.464 50.000 0.00 0.00 40.21 1.82
1985 2133 3.559242 CGGACGGAAGGAGTACTTACTAG 59.441 52.174 0.00 0.00 40.21 2.57
1986 2134 4.522114 GGACGGAAGGAGTACTTACTAGT 58.478 47.826 0.00 0.00 40.21 2.57
2254 2402 7.814693 ATACCACATGCCTATACTTAATCCT 57.185 36.000 0.00 0.00 0.00 3.24
2376 2524 2.236395 AGTAGGACATTTTGGAGACCGG 59.764 50.000 0.00 0.00 0.00 5.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
210 211 5.494632 ACATAGCCCGCTATTTAAAACAC 57.505 39.130 6.48 0.00 37.16 3.32
245 246 5.512232 GCTGGCTATAGCTGATTTAGAGGTT 60.512 44.000 23.53 0.00 40.52 3.50
246 247 4.020662 GCTGGCTATAGCTGATTTAGAGGT 60.021 45.833 23.53 0.00 40.52 3.85
265 266 7.050970 TGTACAATAGTCCACTAATAGCTGG 57.949 40.000 0.00 3.51 31.39 4.85
354 355 9.831682 TCCCTTCCATAATGTAGTGTATATACA 57.168 33.333 11.62 11.62 37.53 2.29
361 365 3.716872 CCCTCCCTTCCATAATGTAGTGT 59.283 47.826 0.00 0.00 0.00 3.55
377 381 4.843728 TGCGAATAATCATAATCCCTCCC 58.156 43.478 0.00 0.00 0.00 4.30
396 400 1.135972 CAGTTCTTTTCACGGGATGCG 60.136 52.381 0.00 0.00 0.00 4.73
507 512 6.685403 CGTTCGCTTATAACCCTTGTAAAATG 59.315 38.462 0.00 0.00 0.00 2.32
508 513 6.594937 TCGTTCGCTTATAACCCTTGTAAAAT 59.405 34.615 0.00 0.00 0.00 1.82
509 514 5.931146 TCGTTCGCTTATAACCCTTGTAAAA 59.069 36.000 0.00 0.00 0.00 1.52
510 515 5.477510 TCGTTCGCTTATAACCCTTGTAAA 58.522 37.500 0.00 0.00 0.00 2.01
511 516 5.070770 TCGTTCGCTTATAACCCTTGTAA 57.929 39.130 0.00 0.00 0.00 2.41
512 517 4.717233 TCGTTCGCTTATAACCCTTGTA 57.283 40.909 0.00 0.00 0.00 2.41
513 518 3.598019 TCGTTCGCTTATAACCCTTGT 57.402 42.857 0.00 0.00 0.00 3.16
514 519 5.479716 AAATCGTTCGCTTATAACCCTTG 57.520 39.130 0.00 0.00 0.00 3.61
515 520 6.505044 AAAAATCGTTCGCTTATAACCCTT 57.495 33.333 0.00 0.00 0.00 3.95
548 553 2.291540 TGATTTGGGATGGGAGGACAAC 60.292 50.000 0.00 0.00 0.00 3.32
573 578 1.616374 TCCTTTTTGGGACGGAAATGC 59.384 47.619 0.00 0.00 36.20 3.56
575 580 3.238788 ACTCCTTTTTGGGACGGAAAT 57.761 42.857 0.00 0.00 36.20 2.17
751 805 4.571919 TGGTTCATTTGTTAGGTACTCCG 58.428 43.478 0.00 0.00 41.75 4.63
792 859 2.698855 AGTAATGCTGTGCCAGGTAG 57.301 50.000 4.65 0.00 31.21 3.18
895 965 3.872511 TCCTCGGCTTCACGTTTATTA 57.127 42.857 0.00 0.00 34.94 0.98
1049 1129 1.443407 GCCGAGGATGCTCTGCTTA 59.557 57.895 20.73 0.00 32.12 3.09
1097 1183 2.583593 GCGGACGATGCTCTGGAC 60.584 66.667 0.00 0.00 0.00 4.02
1330 1443 2.600769 ACGTCCAGGAAGCGGTCT 60.601 61.111 1.64 0.00 0.00 3.85
1504 1635 0.472044 TATTGAATGGCCTAGGCGCA 59.528 50.000 27.24 24.42 43.06 6.09
1623 1770 0.523966 CAGTTCGTCTTCTCGGCTCT 59.476 55.000 0.00 0.00 0.00 4.09
1760 1907 2.508887 CCTCAGCTGAGCACGAGC 60.509 66.667 34.09 0.00 40.75 5.03
1762 1909 1.005748 CAACCTCAGCTGAGCACGA 60.006 57.895 34.09 4.17 40.75 4.35
1768 1915 4.020617 CCGGCCAACCTCAGCTGA 62.021 66.667 17.19 17.19 37.58 4.26
1805 1953 8.053963 AGGTCAAGAATTACAGAGCTAGTACTA 58.946 37.037 1.89 1.89 37.10 1.82
1806 1954 6.893005 AGGTCAAGAATTACAGAGCTAGTACT 59.107 38.462 0.00 0.00 37.10 2.73
1807 1955 7.102847 AGGTCAAGAATTACAGAGCTAGTAC 57.897 40.000 0.00 0.00 37.10 2.73
1865 2013 4.497674 CGACAAGTATTTCTAGACGGAGGG 60.498 50.000 0.00 0.00 0.00 4.30
1866 2014 4.497674 CCGACAAGTATTTCTAGACGGAGG 60.498 50.000 6.77 0.00 37.25 4.30
1867 2015 4.334759 TCCGACAAGTATTTCTAGACGGAG 59.665 45.833 10.31 0.00 38.21 4.63
1868 2016 4.264253 TCCGACAAGTATTTCTAGACGGA 58.736 43.478 10.31 10.31 39.50 4.69
1869 2017 4.334759 TCTCCGACAAGTATTTCTAGACGG 59.665 45.833 6.36 6.36 36.83 4.79
1870 2018 5.481200 TCTCCGACAAGTATTTCTAGACG 57.519 43.478 0.00 0.00 0.00 4.18
1871 2019 7.222999 CCATTTCTCCGACAAGTATTTCTAGAC 59.777 40.741 0.00 0.00 0.00 2.59
1872 2020 7.123697 TCCATTTCTCCGACAAGTATTTCTAGA 59.876 37.037 0.00 0.00 0.00 2.43
1873 2021 7.265673 TCCATTTCTCCGACAAGTATTTCTAG 58.734 38.462 0.00 0.00 0.00 2.43
1874 2022 7.177832 TCCATTTCTCCGACAAGTATTTCTA 57.822 36.000 0.00 0.00 0.00 2.10
1875 2023 6.049955 TCCATTTCTCCGACAAGTATTTCT 57.950 37.500 0.00 0.00 0.00 2.52
1876 2024 6.316390 ACATCCATTTCTCCGACAAGTATTTC 59.684 38.462 0.00 0.00 0.00 2.17
1877 2025 6.180472 ACATCCATTTCTCCGACAAGTATTT 58.820 36.000 0.00 0.00 0.00 1.40
1878 2026 5.745227 ACATCCATTTCTCCGACAAGTATT 58.255 37.500 0.00 0.00 0.00 1.89
1879 2027 5.359194 ACATCCATTTCTCCGACAAGTAT 57.641 39.130 0.00 0.00 0.00 2.12
1880 2028 4.819105 ACATCCATTTCTCCGACAAGTA 57.181 40.909 0.00 0.00 0.00 2.24
1881 2029 3.703001 ACATCCATTTCTCCGACAAGT 57.297 42.857 0.00 0.00 0.00 3.16
1882 2030 5.605534 AGATACATCCATTTCTCCGACAAG 58.394 41.667 0.00 0.00 0.00 3.16
1883 2031 5.614324 AGATACATCCATTTCTCCGACAA 57.386 39.130 0.00 0.00 0.00 3.18
1884 2032 6.016192 GTCTAGATACATCCATTTCTCCGACA 60.016 42.308 0.00 0.00 0.00 4.35
1885 2033 6.016192 TGTCTAGATACATCCATTTCTCCGAC 60.016 42.308 0.00 0.00 0.00 4.79
1886 2034 6.068670 TGTCTAGATACATCCATTTCTCCGA 58.931 40.000 0.00 0.00 0.00 4.55
1887 2035 6.332735 TGTCTAGATACATCCATTTCTCCG 57.667 41.667 0.00 0.00 0.00 4.63
1927 2075 9.289303 GTCGCACAAATAGATAAAATTGAATGT 57.711 29.630 0.00 0.00 0.00 2.71
1928 2076 9.507280 AGTCGCACAAATAGATAAAATTGAATG 57.493 29.630 0.00 0.00 0.00 2.67
1931 2079 9.378551 ACTAGTCGCACAAATAGATAAAATTGA 57.621 29.630 0.00 0.00 0.00 2.57
1937 2085 9.472361 GGAAATACTAGTCGCACAAATAGATAA 57.528 33.333 0.00 0.00 0.00 1.75
1938 2086 7.806487 CGGAAATACTAGTCGCACAAATAGATA 59.194 37.037 0.00 0.00 0.00 1.98
1939 2087 6.641314 CGGAAATACTAGTCGCACAAATAGAT 59.359 38.462 0.00 0.00 0.00 1.98
1940 2088 5.975344 CGGAAATACTAGTCGCACAAATAGA 59.025 40.000 0.00 0.00 0.00 1.98
1941 2089 5.175126 CCGGAAATACTAGTCGCACAAATAG 59.825 44.000 0.00 0.00 0.00 1.73
1942 2090 5.045215 CCGGAAATACTAGTCGCACAAATA 58.955 41.667 0.00 0.00 0.00 1.40
1943 2091 3.869246 CCGGAAATACTAGTCGCACAAAT 59.131 43.478 0.00 0.00 0.00 2.32
1944 2092 3.056678 TCCGGAAATACTAGTCGCACAAA 60.057 43.478 0.00 0.00 0.00 2.83
1945 2093 2.492881 TCCGGAAATACTAGTCGCACAA 59.507 45.455 0.00 0.00 0.00 3.33
1946 2094 2.093890 TCCGGAAATACTAGTCGCACA 58.906 47.619 0.00 0.00 0.00 4.57
1947 2095 2.457970 GTCCGGAAATACTAGTCGCAC 58.542 52.381 5.23 0.00 0.00 5.34
1948 2096 1.064505 CGTCCGGAAATACTAGTCGCA 59.935 52.381 5.23 0.00 0.00 5.10
1949 2097 1.598924 CCGTCCGGAAATACTAGTCGC 60.599 57.143 5.23 0.00 37.50 5.19
1950 2098 1.942657 TCCGTCCGGAAATACTAGTCG 59.057 52.381 5.23 1.25 42.05 4.18
1958 2106 9.913041 TAGTAAGTACTCCTTCCGTCCGGAAAT 62.913 44.444 20.48 10.05 43.79 2.17
1959 2107 8.709889 TAGTAAGTACTCCTTCCGTCCGGAAA 62.710 46.154 20.48 7.53 43.79 3.13
1960 2108 7.323888 TAGTAAGTACTCCTTCCGTCCGGAA 62.324 48.000 19.17 19.17 43.09 4.30
1961 2109 0.038744 AAGTACTCCTTCCGTCCGGA 59.961 55.000 0.00 0.00 43.52 5.14
1962 2110 1.403323 GTAAGTACTCCTTCCGTCCGG 59.597 57.143 0.00 0.00 34.46 5.14
1963 2111 2.363683 AGTAAGTACTCCTTCCGTCCG 58.636 52.381 0.00 0.00 34.46 4.79
1964 2112 4.522114 ACTAGTAAGTACTCCTTCCGTCC 58.478 47.826 0.00 0.00 37.73 4.79
1981 2129 8.637799 TGCACGTGCGAATATACTAGTACTAGT 61.638 40.741 32.39 32.39 45.31 2.57
1982 2130 6.014293 GCACGTGCGAATATACTAGTACTAG 58.986 44.000 26.77 25.30 39.04 2.57
1983 2131 5.466393 TGCACGTGCGAATATACTAGTACTA 59.534 40.000 33.22 8.57 45.83 1.82
1984 2132 4.274214 TGCACGTGCGAATATACTAGTACT 59.726 41.667 33.22 0.00 45.83 2.73
1985 2133 4.530388 TGCACGTGCGAATATACTAGTAC 58.470 43.478 33.22 3.95 45.83 2.73
1986 2134 4.816786 TGCACGTGCGAATATACTAGTA 57.183 40.909 33.22 10.12 45.83 1.82
1994 2142 2.310966 TGCGTTGCACGTGCGAATA 61.311 52.632 31.31 17.44 44.73 1.75
2254 2402 9.452287 TTTCATATGATGAGTTTGTCAAGATCA 57.548 29.630 6.17 4.75 40.94 2.92


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

AutoCloner maintained by Alex Coulton.