Multiple sequence alignment - TraesCS5D01G282700

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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 TraesCS5D01G282700 chr5D 100.000 2225 0 0 1 2225 384075157 384077381 0.000000e+00 4109
1 TraesCS5D01G282700 chr5D 99.237 786 5 1 1 785 297791347 297790562 0.000000e+00 1417
2 TraesCS5D01G282700 chr5D 83.678 435 48 16 888 1307 339112852 339113278 2.680000e-104 388
3 TraesCS5D01G282700 chr5B 93.265 1069 49 12 777 1824 460680466 460681532 0.000000e+00 1554
4 TraesCS5D01G282700 chr5B 82.979 282 44 3 1437 1715 398159808 398160088 3.670000e-63 252
5 TraesCS5D01G282700 chr7D 99.743 779 2 0 1 779 291493418 291492640 0.000000e+00 1428
6 TraesCS5D01G282700 chr7D 98.346 786 6 2 1 780 37277267 37278051 0.000000e+00 1373
7 TraesCS5D01G282700 chr7D 95.128 780 13 1 1 780 219841084 219840330 0.000000e+00 1206
8 TraesCS5D01G282700 chr3D 98.344 785 6 2 1 779 70731064 70731847 0.000000e+00 1371
9 TraesCS5D01G282700 chr4A 97.823 781 4 1 1 781 85143094 85142327 0.000000e+00 1336
10 TraesCS5D01G282700 chr4A 97.589 788 4 3 1 787 85181422 85180649 0.000000e+00 1336
11 TraesCS5D01G282700 chr4A 97.818 779 4 1 1 779 84925447 84926212 0.000000e+00 1332
12 TraesCS5D01G282700 chr2D 97.823 781 4 1 1 781 106234901 106234134 0.000000e+00 1336
13 TraesCS5D01G282700 chr2D 97.704 784 4 2 1 783 422776241 422775471 0.000000e+00 1336
14 TraesCS5D01G282700 chr2D 82.258 124 17 4 1275 1396 34379170 34379050 3.910000e-18 102
15 TraesCS5D01G282700 chr5A 88.529 1020 66 27 804 1791 484559611 484560611 0.000000e+00 1188
16 TraesCS5D01G282700 chr5A 83.486 436 46 17 888 1307 439877749 439878174 1.250000e-102 383
17 TraesCS5D01G282700 chr5A 87.730 163 10 4 2012 2172 484562022 484562176 4.880000e-42 182
18 TraesCS5D01G282700 chr5A 96.970 99 3 0 1917 2015 484561884 484561982 1.370000e-37 167


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 TraesCS5D01G282700 chr5D 384075157 384077381 2224 False 4109.000000 4109 100.000000 1 2225 1 chr5D.!!$F2 2224
1 TraesCS5D01G282700 chr5D 297790562 297791347 785 True 1417.000000 1417 99.237000 1 785 1 chr5D.!!$R1 784
2 TraesCS5D01G282700 chr5B 460680466 460681532 1066 False 1554.000000 1554 93.265000 777 1824 1 chr5B.!!$F2 1047
3 TraesCS5D01G282700 chr7D 291492640 291493418 778 True 1428.000000 1428 99.743000 1 779 1 chr7D.!!$R2 778
4 TraesCS5D01G282700 chr7D 37277267 37278051 784 False 1373.000000 1373 98.346000 1 780 1 chr7D.!!$F1 779
5 TraesCS5D01G282700 chr7D 219840330 219841084 754 True 1206.000000 1206 95.128000 1 780 1 chr7D.!!$R1 779
6 TraesCS5D01G282700 chr3D 70731064 70731847 783 False 1371.000000 1371 98.344000 1 779 1 chr3D.!!$F1 778
7 TraesCS5D01G282700 chr4A 85142327 85143094 767 True 1336.000000 1336 97.823000 1 781 1 chr4A.!!$R1 780
8 TraesCS5D01G282700 chr4A 85180649 85181422 773 True 1336.000000 1336 97.589000 1 787 1 chr4A.!!$R2 786
9 TraesCS5D01G282700 chr4A 84925447 84926212 765 False 1332.000000 1332 97.818000 1 779 1 chr4A.!!$F1 778
10 TraesCS5D01G282700 chr2D 106234134 106234901 767 True 1336.000000 1336 97.823000 1 781 1 chr2D.!!$R2 780
11 TraesCS5D01G282700 chr2D 422775471 422776241 770 True 1336.000000 1336 97.704000 1 783 1 chr2D.!!$R3 782
12 TraesCS5D01G282700 chr5A 484559611 484562176 2565 False 512.333333 1188 91.076333 804 2172 3 chr5A.!!$F2 1368

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
688 695 3.356529 AGAAGACGGGCTGATTCAAAT 57.643 42.857 15.08 0.0 0.0 2.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2198 3439 0.250467 AGTGAACATCGCTGGCAAGT 60.25 50.0 0.0 0.0 35.63 3.16 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
23 24 6.780706 AACCTGTTCTAAATTGACAGTACG 57.219 37.500 0.00 0.00 0.00 3.67
688 695 3.356529 AGAAGACGGGCTGATTCAAAT 57.643 42.857 15.08 0.00 0.00 2.32
794 801 7.005296 GGAGGGAGTAGTGACTATCTATTTCA 58.995 42.308 0.00 0.00 35.45 2.69
796 803 9.742144 GAGGGAGTAGTGACTATCTATTTCATA 57.258 37.037 0.00 0.00 35.45 2.15
875 882 6.720112 ATAAAGCAGATGCATGTTGGTTAT 57.280 33.333 19.61 14.10 45.16 1.89
923 930 8.931385 TTCTGAATCTTAAATATGCCAAAAGC 57.069 30.769 0.00 0.00 44.14 3.51
1161 1168 3.410628 TGCCAGGCCCACATCGAT 61.411 61.111 9.64 0.00 0.00 3.59
1227 1234 0.104304 AACGTCCCAGCGTATGATCC 59.896 55.000 0.00 0.00 45.00 3.36
1256 1263 6.378280 ACTTCTTCGCTCCCAATCAAAATAAT 59.622 34.615 0.00 0.00 0.00 1.28
1259 1266 7.035004 TCTTCGCTCCCAATCAAAATAATTTG 58.965 34.615 0.00 0.00 45.92 2.32
1273 1280 8.887717 TCAAAATAATTTGTCCACCAACTTTTG 58.112 29.630 3.27 0.00 45.02 2.44
1334 1341 6.714810 TCTGCAACTCTGGTTAATTTACATGT 59.285 34.615 2.69 2.69 33.88 3.21
1367 1374 9.735362 AGATATAAGATTGATAGGGCCTTATCA 57.265 33.333 28.60 28.60 38.06 2.15
1423 1430 4.311816 AGTTGAAAGCCAAACATGACTG 57.688 40.909 0.00 0.00 36.36 3.51
1462 1487 4.382147 GGTTAGTCATCACTCCAAGGTCTC 60.382 50.000 0.00 0.00 33.62 3.36
1493 1518 3.588336 GCAGCTGCTTTGGAGAGG 58.412 61.111 31.33 0.00 38.21 3.69
1575 1601 7.064371 CAGAGAAAGAAACCATGTCATCTGTAG 59.936 40.741 0.00 0.00 0.00 2.74
1824 2048 5.669164 TTGTCACTGCTGTGTATGGTATA 57.331 39.130 21.35 0.00 44.14 1.47
1825 2049 5.262588 TGTCACTGCTGTGTATGGTATAG 57.737 43.478 21.35 0.00 44.14 1.31
1829 2053 6.594159 GTCACTGCTGTGTATGGTATAGTTTT 59.406 38.462 21.35 0.00 44.14 2.43
1830 2054 6.816640 TCACTGCTGTGTATGGTATAGTTTTC 59.183 38.462 21.35 0.00 44.14 2.29
1836 2060 8.129211 GCTGTGTATGGTATAGTTTTCAATTCC 58.871 37.037 0.00 0.00 0.00 3.01
1837 2061 9.396022 CTGTGTATGGTATAGTTTTCAATTCCT 57.604 33.333 0.00 0.00 0.00 3.36
1838 2062 9.747898 TGTGTATGGTATAGTTTTCAATTCCTT 57.252 29.630 0.00 0.00 0.00 3.36
1845 2069 9.140286 GGTATAGTTTTCAATTCCTTTGCTTTC 57.860 33.333 0.00 0.00 35.16 2.62
1849 2073 7.210174 AGTTTTCAATTCCTTTGCTTTCTACC 58.790 34.615 0.00 0.00 35.16 3.18
1850 2074 5.722021 TTCAATTCCTTTGCTTTCTACCC 57.278 39.130 0.00 0.00 35.16 3.69
1851 2075 4.086457 TCAATTCCTTTGCTTTCTACCCC 58.914 43.478 0.00 0.00 35.16 4.95
1857 2081 1.198759 TTGCTTTCTACCCCTCCGCT 61.199 55.000 0.00 0.00 0.00 5.52
1859 2083 1.823976 CTTTCTACCCCTCCGCTCC 59.176 63.158 0.00 0.00 0.00 4.70
1860 2084 2.017559 CTTTCTACCCCTCCGCTCCG 62.018 65.000 0.00 0.00 0.00 4.63
1861 2085 2.503846 TTTCTACCCCTCCGCTCCGA 62.504 60.000 0.00 0.00 0.00 4.55
1862 2086 2.441532 CTACCCCTCCGCTCCGAA 60.442 66.667 0.00 0.00 0.00 4.30
1863 2087 2.757099 TACCCCTCCGCTCCGAAC 60.757 66.667 0.00 0.00 0.00 3.95
1864 2088 3.588817 TACCCCTCCGCTCCGAACA 62.589 63.158 0.00 0.00 0.00 3.18
1865 2089 4.148825 CCCCTCCGCTCCGAACAG 62.149 72.222 0.00 0.00 0.00 3.16
1866 2090 3.068691 CCCTCCGCTCCGAACAGA 61.069 66.667 0.00 0.00 0.00 3.41
1867 2091 2.492090 CCTCCGCTCCGAACAGAG 59.508 66.667 0.00 0.00 36.92 3.35
1889 3030 3.057526 GCCTAAAATGGTTCAGCGACTTT 60.058 43.478 0.00 0.00 0.00 2.66
1902 3043 4.447724 TCAGCGACTTTTACTTGCAACTAG 59.552 41.667 0.00 0.00 0.00 2.57
1903 3044 4.211374 CAGCGACTTTTACTTGCAACTAGT 59.789 41.667 0.00 0.00 0.00 2.57
1905 3046 5.634020 AGCGACTTTTACTTGCAACTAGTAG 59.366 40.000 0.00 0.00 30.36 2.57
1906 3047 5.404667 GCGACTTTTACTTGCAACTAGTAGT 59.595 40.000 0.00 0.00 30.36 2.73
1907 3048 6.073927 GCGACTTTTACTTGCAACTAGTAGTT 60.074 38.462 9.85 9.85 39.39 2.24
1933 3130 5.697082 ATTATAACACGGGGAGTTGGTTA 57.303 39.130 0.00 0.00 0.00 2.85
1953 3150 0.178992 TTCTTGCCTCACCCTGTTGG 60.179 55.000 0.00 0.00 41.37 3.77
1994 3191 3.691609 GGACAAGAAGCAAATGAGTAGGG 59.308 47.826 0.00 0.00 0.00 3.53
2047 3287 8.943909 ATCCTACTAATTGCACAGTTTAGTAC 57.056 34.615 11.08 0.00 37.37 2.73
2048 3288 8.130671 TCCTACTAATTGCACAGTTTAGTACT 57.869 34.615 0.00 0.00 37.37 2.73
2049 3289 8.248945 TCCTACTAATTGCACAGTTTAGTACTC 58.751 37.037 0.00 0.00 37.37 2.59
2050 3290 7.491696 CCTACTAATTGCACAGTTTAGTACTCC 59.508 40.741 0.00 0.00 37.37 3.85
2051 3291 6.171213 ACTAATTGCACAGTTTAGTACTCCC 58.829 40.000 0.00 0.00 35.09 4.30
2052 3292 4.910458 ATTGCACAGTTTAGTACTCCCT 57.090 40.909 0.00 0.00 33.85 4.20
2053 3293 3.955650 TGCACAGTTTAGTACTCCCTC 57.044 47.619 0.00 0.00 33.85 4.30
2054 3294 2.565834 TGCACAGTTTAGTACTCCCTCC 59.434 50.000 0.00 0.00 33.85 4.30
2065 3305 2.226962 ACTCCCTCCGTAGTTAGCAA 57.773 50.000 0.00 0.00 0.00 3.91
2068 3308 3.132467 ACTCCCTCCGTAGTTAGCAAATC 59.868 47.826 0.00 0.00 0.00 2.17
2097 3337 4.541973 ACAATCTGAAAGCCCCAAATTC 57.458 40.909 0.00 0.00 0.00 2.17
2098 3338 3.903090 ACAATCTGAAAGCCCCAAATTCA 59.097 39.130 0.00 0.00 0.00 2.57
2107 3347 6.213195 TGAAAGCCCCAAATTCAAATCACTAT 59.787 34.615 0.00 0.00 30.60 2.12
2147 3388 8.324163 ACTGCAGTATTAGTAGTTTTTCCAAG 57.676 34.615 20.16 0.00 0.00 3.61
2151 3392 7.606839 GCAGTATTAGTAGTTTTTCCAAGAGGT 59.393 37.037 0.00 0.00 35.89 3.85
2169 3410 3.256704 AGGTGACCCAAATCAGTTAGGA 58.743 45.455 0.00 0.00 0.00 2.94
2172 3413 4.459337 GGTGACCCAAATCAGTTAGGAAAG 59.541 45.833 0.00 0.00 0.00 2.62
2173 3414 5.313712 GTGACCCAAATCAGTTAGGAAAGA 58.686 41.667 0.00 0.00 0.00 2.52
2174 3415 5.412904 GTGACCCAAATCAGTTAGGAAAGAG 59.587 44.000 0.00 0.00 0.00 2.85
2175 3416 4.923415 ACCCAAATCAGTTAGGAAAGAGG 58.077 43.478 0.00 0.00 0.00 3.69
2176 3417 4.354087 ACCCAAATCAGTTAGGAAAGAGGT 59.646 41.667 0.00 0.00 0.00 3.85
2177 3418 5.550403 ACCCAAATCAGTTAGGAAAGAGGTA 59.450 40.000 0.00 0.00 0.00 3.08
2178 3419 6.045106 ACCCAAATCAGTTAGGAAAGAGGTAA 59.955 38.462 0.00 0.00 0.00 2.85
2179 3420 7.119387 CCCAAATCAGTTAGGAAAGAGGTAAT 58.881 38.462 0.00 0.00 0.00 1.89
2180 3421 7.615757 CCCAAATCAGTTAGGAAAGAGGTAATT 59.384 37.037 0.00 0.00 0.00 1.40
2181 3422 8.462016 CCAAATCAGTTAGGAAAGAGGTAATTG 58.538 37.037 0.00 0.00 0.00 2.32
2182 3423 7.631717 AATCAGTTAGGAAAGAGGTAATTGC 57.368 36.000 0.00 0.00 0.00 3.56
2183 3424 6.121776 TCAGTTAGGAAAGAGGTAATTGCA 57.878 37.500 0.00 0.00 0.00 4.08
2184 3425 5.938125 TCAGTTAGGAAAGAGGTAATTGCAC 59.062 40.000 0.00 0.00 0.00 4.57
2185 3426 5.123979 CAGTTAGGAAAGAGGTAATTGCACC 59.876 44.000 0.00 0.00 39.02 5.01
2186 3427 3.806949 AGGAAAGAGGTAATTGCACCA 57.193 42.857 0.31 0.00 41.40 4.17
2187 3428 3.690460 AGGAAAGAGGTAATTGCACCAG 58.310 45.455 0.31 0.00 41.40 4.00
2188 3429 3.074538 AGGAAAGAGGTAATTGCACCAGT 59.925 43.478 0.31 0.00 41.40 4.00
2189 3430 3.191371 GGAAAGAGGTAATTGCACCAGTG 59.809 47.826 0.31 0.00 41.40 3.66
2190 3431 2.496899 AGAGGTAATTGCACCAGTGG 57.503 50.000 7.91 7.91 41.40 4.00
2191 3432 1.705186 AGAGGTAATTGCACCAGTGGT 59.295 47.619 9.70 9.70 41.40 4.16
2200 3441 3.660724 ACCAGTGGTGCCTGAACT 58.339 55.556 15.86 0.00 32.98 3.01
2201 3442 1.922821 ACCAGTGGTGCCTGAACTT 59.077 52.632 15.86 0.00 32.98 2.66
2202 3443 0.466189 ACCAGTGGTGCCTGAACTTG 60.466 55.000 15.86 0.00 32.98 3.16
2203 3444 1.656441 CAGTGGTGCCTGAACTTGC 59.344 57.895 0.00 0.00 34.23 4.01
2204 3445 1.529244 AGTGGTGCCTGAACTTGCC 60.529 57.895 0.00 0.00 0.00 4.52
2205 3446 1.827789 GTGGTGCCTGAACTTGCCA 60.828 57.895 0.00 0.00 0.00 4.92
2206 3447 1.529010 TGGTGCCTGAACTTGCCAG 60.529 57.895 0.00 0.00 0.00 4.85
2207 3448 2.647297 GTGCCTGAACTTGCCAGC 59.353 61.111 0.00 0.00 0.00 4.85
2208 3449 2.979676 TGCCTGAACTTGCCAGCG 60.980 61.111 0.00 0.00 0.00 5.18
2209 3450 2.669569 GCCTGAACTTGCCAGCGA 60.670 61.111 0.00 0.00 0.00 4.93
2210 3451 2.042831 GCCTGAACTTGCCAGCGAT 61.043 57.895 0.00 0.00 0.00 4.58
2211 3452 1.798735 CCTGAACTTGCCAGCGATG 59.201 57.895 0.00 0.00 0.00 3.84
2212 3453 0.957395 CCTGAACTTGCCAGCGATGT 60.957 55.000 0.00 0.00 0.00 3.06
2213 3454 0.877071 CTGAACTTGCCAGCGATGTT 59.123 50.000 0.00 0.00 0.00 2.71
2214 3455 0.874390 TGAACTTGCCAGCGATGTTC 59.126 50.000 0.00 12.25 37.92 3.18
2215 3456 0.874390 GAACTTGCCAGCGATGTTCA 59.126 50.000 0.00 0.00 37.52 3.18
2216 3457 0.593128 AACTTGCCAGCGATGTTCAC 59.407 50.000 0.00 0.00 0.00 3.18
2217 3458 0.250467 ACTTGCCAGCGATGTTCACT 60.250 50.000 0.00 0.00 0.00 3.41
2218 3459 0.877071 CTTGCCAGCGATGTTCACTT 59.123 50.000 0.00 0.00 0.00 3.16
2219 3460 1.267806 CTTGCCAGCGATGTTCACTTT 59.732 47.619 0.00 0.00 0.00 2.66
2220 3461 0.592637 TGCCAGCGATGTTCACTTTG 59.407 50.000 0.00 0.00 0.00 2.77
2221 3462 0.874390 GCCAGCGATGTTCACTTTGA 59.126 50.000 0.00 0.00 0.00 2.69
2222 3463 1.470098 GCCAGCGATGTTCACTTTGAT 59.530 47.619 0.00 0.00 0.00 2.57
2223 3464 2.730090 GCCAGCGATGTTCACTTTGATG 60.730 50.000 0.00 0.00 0.00 3.07
2224 3465 2.512885 CAGCGATGTTCACTTTGATGC 58.487 47.619 0.00 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 8.443937 GGTACTGTCAATAGAAAAGATGAACAC 58.556 37.037 0.00 0.00 0.00 3.32
688 695 2.903135 CCTTTATGCCCCCAGTTCAAAA 59.097 45.455 0.00 0.00 0.00 2.44
796 803 9.488762 TCGGGGATACATATGACTAATAAAGAT 57.511 33.333 10.38 0.00 39.74 2.40
852 859 6.720112 ATAACCAACATGCATCTGCTTTAT 57.280 33.333 0.00 1.26 42.66 1.40
875 882 1.270907 GCTCCTCTGGGTCTCTTCAA 58.729 55.000 0.00 0.00 0.00 2.69
1161 1168 0.911769 AACATGAGGATCGGAAGGCA 59.088 50.000 0.00 0.00 38.61 4.75
1227 1234 0.321671 TTGGGAGCGAAGAAGTGGAG 59.678 55.000 0.00 0.00 0.00 3.86
1256 1263 1.208293 GGGCAAAAGTTGGTGGACAAA 59.792 47.619 0.00 0.00 41.58 2.83
1259 1266 1.047801 ATGGGCAAAAGTTGGTGGAC 58.952 50.000 0.00 0.00 0.00 4.02
1423 1430 6.395629 TGACTAACCTAACACTATCAGCAAC 58.604 40.000 0.00 0.00 0.00 4.17
1462 1487 2.836262 CAGCTGCTCCATTTCTCTAGG 58.164 52.381 0.00 0.00 0.00 3.02
1575 1601 6.074249 CGGTTCAGAGAAAGTGTTTAGAAGTC 60.074 42.308 0.00 0.00 0.00 3.01
1689 1717 4.463070 TCTTGTAAAACCACCCCAGTAAC 58.537 43.478 0.00 0.00 0.00 2.50
1692 1720 3.673543 TTCTTGTAAAACCACCCCAGT 57.326 42.857 0.00 0.00 0.00 4.00
1791 1841 5.644644 ACAGCAGTGACAAAGAAAGAAAAG 58.355 37.500 0.00 0.00 0.00 2.27
1824 2048 7.210174 GGTAGAAAGCAAAGGAATTGAAAACT 58.790 34.615 0.00 0.00 41.85 2.66
1825 2049 6.423905 GGGTAGAAAGCAAAGGAATTGAAAAC 59.576 38.462 0.00 0.00 41.85 2.43
1829 2053 4.086457 GGGGTAGAAAGCAAAGGAATTGA 58.914 43.478 0.00 0.00 41.85 2.57
1830 2054 4.089361 AGGGGTAGAAAGCAAAGGAATTG 58.911 43.478 0.00 0.00 42.21 2.32
1836 2060 1.739067 CGGAGGGGTAGAAAGCAAAG 58.261 55.000 0.00 0.00 0.00 2.77
1837 2061 0.322187 GCGGAGGGGTAGAAAGCAAA 60.322 55.000 0.00 0.00 0.00 3.68
1838 2062 1.198759 AGCGGAGGGGTAGAAAGCAA 61.199 55.000 0.00 0.00 0.00 3.91
1840 2064 1.144276 GAGCGGAGGGGTAGAAAGC 59.856 63.158 0.00 0.00 0.00 3.51
1845 2069 2.441532 TTCGGAGCGGAGGGGTAG 60.442 66.667 0.00 0.00 0.00 3.18
1849 2073 3.068691 TCTGTTCGGAGCGGAGGG 61.069 66.667 0.00 0.00 0.00 4.30
1850 2074 2.492090 CTCTGTTCGGAGCGGAGG 59.508 66.667 19.55 4.75 36.11 4.30
1857 2081 2.304761 ACCATTTTAGGCTCTGTTCGGA 59.695 45.455 0.00 0.00 0.00 4.55
1859 2083 3.751175 TGAACCATTTTAGGCTCTGTTCG 59.249 43.478 0.00 0.00 34.78 3.95
1860 2084 4.379918 GCTGAACCATTTTAGGCTCTGTTC 60.380 45.833 0.00 0.00 33.15 3.18
1861 2085 3.507622 GCTGAACCATTTTAGGCTCTGTT 59.492 43.478 0.00 0.00 0.00 3.16
1862 2086 3.084786 GCTGAACCATTTTAGGCTCTGT 58.915 45.455 0.00 0.00 0.00 3.41
1863 2087 2.096496 CGCTGAACCATTTTAGGCTCTG 59.904 50.000 0.00 0.00 0.00 3.35
1864 2088 2.027192 TCGCTGAACCATTTTAGGCTCT 60.027 45.455 0.00 0.00 0.00 4.09
1865 2089 2.096013 GTCGCTGAACCATTTTAGGCTC 59.904 50.000 0.00 0.00 0.00 4.70
1866 2090 2.084546 GTCGCTGAACCATTTTAGGCT 58.915 47.619 0.00 0.00 0.00 4.58
1867 2091 2.084546 AGTCGCTGAACCATTTTAGGC 58.915 47.619 0.00 0.00 0.00 3.93
1868 2092 4.766404 AAAGTCGCTGAACCATTTTAGG 57.234 40.909 0.00 0.00 0.00 2.69
1869 2093 6.899114 AGTAAAAGTCGCTGAACCATTTTAG 58.101 36.000 0.00 0.00 0.00 1.85
1902 3043 8.722480 ACTCCCCGTGTTATAATTTAAACTAC 57.278 34.615 0.00 0.00 0.00 2.73
1903 3044 9.165035 CAACTCCCCGTGTTATAATTTAAACTA 57.835 33.333 0.00 0.00 0.00 2.24
1905 3046 7.094248 ACCAACTCCCCGTGTTATAATTTAAAC 60.094 37.037 0.00 0.00 0.00 2.01
1906 3047 6.947158 ACCAACTCCCCGTGTTATAATTTAAA 59.053 34.615 0.00 0.00 0.00 1.52
1907 3048 6.483405 ACCAACTCCCCGTGTTATAATTTAA 58.517 36.000 0.00 0.00 0.00 1.52
1910 3051 4.579647 ACCAACTCCCCGTGTTATAATT 57.420 40.909 0.00 0.00 0.00 1.40
1911 3052 4.579647 AACCAACTCCCCGTGTTATAAT 57.420 40.909 0.00 0.00 0.00 1.28
1912 3053 5.697082 ATAACCAACTCCCCGTGTTATAA 57.303 39.130 0.00 0.00 32.07 0.98
1913 3054 5.426185 AGAATAACCAACTCCCCGTGTTATA 59.574 40.000 0.00 0.00 33.16 0.98
1914 3055 4.226620 AGAATAACCAACTCCCCGTGTTAT 59.773 41.667 0.00 0.00 34.51 1.89
1915 3056 3.583966 AGAATAACCAACTCCCCGTGTTA 59.416 43.478 0.00 0.00 0.00 2.41
1933 3130 1.548582 CCAACAGGGTGAGGCAAGAAT 60.549 52.381 0.00 0.00 0.00 2.40
1953 3150 0.961753 CTCCTGCAAACCTGGAAACC 59.038 55.000 0.00 0.00 40.56 3.27
2019 3259 8.947115 ACTAAACTGTGCAATTAGTAGGATTTC 58.053 33.333 11.55 0.00 37.92 2.17
2031 3271 4.323562 GGAGGGAGTACTAAACTGTGCAAT 60.324 45.833 0.00 0.00 39.07 3.56
2038 3278 4.582973 ACTACGGAGGGAGTACTAAACT 57.417 45.455 0.00 0.00 42.80 2.66
2047 3287 3.132289 TGATTTGCTAACTACGGAGGGAG 59.868 47.826 0.00 0.00 0.00 4.30
2048 3288 3.101437 TGATTTGCTAACTACGGAGGGA 58.899 45.455 0.00 0.00 0.00 4.20
2049 3289 3.536956 TGATTTGCTAACTACGGAGGG 57.463 47.619 0.00 0.00 0.00 4.30
2050 3290 4.504858 AGTTGATTTGCTAACTACGGAGG 58.495 43.478 0.00 0.00 35.50 4.30
2051 3291 6.561614 TCTAGTTGATTTGCTAACTACGGAG 58.438 40.000 0.00 0.00 38.11 4.63
2052 3292 6.519679 TCTAGTTGATTTGCTAACTACGGA 57.480 37.500 0.00 0.00 38.11 4.69
2053 3293 6.588756 TGTTCTAGTTGATTTGCTAACTACGG 59.411 38.462 0.00 0.00 38.11 4.02
2054 3294 7.576750 TGTTCTAGTTGATTTGCTAACTACG 57.423 36.000 0.00 0.00 38.11 3.51
2065 3305 6.151817 GGGCTTTCAGATTGTTCTAGTTGATT 59.848 38.462 0.00 0.00 0.00 2.57
2068 3308 4.156739 GGGGCTTTCAGATTGTTCTAGTTG 59.843 45.833 0.00 0.00 0.00 3.16
2147 3388 3.263425 TCCTAACTGATTTGGGTCACCTC 59.737 47.826 0.00 0.00 37.14 3.85
2151 3392 5.514834 CCTCTTTCCTAACTGATTTGGGTCA 60.515 44.000 0.00 0.00 37.14 4.02
2169 3410 3.157087 CCACTGGTGCAATTACCTCTTT 58.843 45.455 0.00 0.00 41.43 2.52
2172 3413 2.200373 ACCACTGGTGCAATTACCTC 57.800 50.000 0.00 0.00 41.43 3.85
2183 3424 0.466189 CAAGTTCAGGCACCACTGGT 60.466 55.000 0.00 0.00 38.98 4.00
2184 3425 1.799258 GCAAGTTCAGGCACCACTGG 61.799 60.000 0.00 0.00 38.98 4.00
2185 3426 1.656441 GCAAGTTCAGGCACCACTG 59.344 57.895 0.00 0.00 39.84 3.66
2186 3427 1.529244 GGCAAGTTCAGGCACCACT 60.529 57.895 0.00 0.00 0.00 4.00
2187 3428 1.799258 CTGGCAAGTTCAGGCACCAC 61.799 60.000 0.00 0.00 36.56 4.16
2188 3429 1.529010 CTGGCAAGTTCAGGCACCA 60.529 57.895 0.00 0.00 36.56 4.17
2189 3430 2.924105 GCTGGCAAGTTCAGGCACC 61.924 63.158 0.00 0.00 36.56 5.01
2190 3431 2.647297 GCTGGCAAGTTCAGGCAC 59.353 61.111 0.00 0.00 36.56 5.01
2191 3432 2.753009 ATCGCTGGCAAGTTCAGGCA 62.753 55.000 0.00 0.00 39.41 4.75
2192 3433 2.042831 ATCGCTGGCAAGTTCAGGC 61.043 57.895 0.00 0.00 33.16 4.85
2193 3434 0.957395 ACATCGCTGGCAAGTTCAGG 60.957 55.000 0.00 0.00 33.16 3.86
2194 3435 0.877071 AACATCGCTGGCAAGTTCAG 59.123 50.000 0.00 0.00 35.49 3.02
2195 3436 0.874390 GAACATCGCTGGCAAGTTCA 59.126 50.000 13.10 0.00 38.66 3.18
2196 3437 0.874390 TGAACATCGCTGGCAAGTTC 59.126 50.000 11.87 11.87 39.11 3.01
2197 3438 0.593128 GTGAACATCGCTGGCAAGTT 59.407 50.000 0.00 0.00 0.00 2.66
2198 3439 0.250467 AGTGAACATCGCTGGCAAGT 60.250 50.000 0.00 0.00 35.63 3.16
2199 3440 0.877071 AAGTGAACATCGCTGGCAAG 59.123 50.000 0.00 0.00 37.29 4.01
2200 3441 1.001487 CAAAGTGAACATCGCTGGCAA 60.001 47.619 0.00 0.00 37.29 4.52
2201 3442 0.592637 CAAAGTGAACATCGCTGGCA 59.407 50.000 0.00 0.00 37.29 4.92
2202 3443 0.874390 TCAAAGTGAACATCGCTGGC 59.126 50.000 0.00 0.00 37.29 4.85
2203 3444 2.730090 GCATCAAAGTGAACATCGCTGG 60.730 50.000 0.00 0.00 37.29 4.85
2204 3445 2.512885 GCATCAAAGTGAACATCGCTG 58.487 47.619 0.00 0.00 37.29 5.18
2205 3446 2.907910 GCATCAAAGTGAACATCGCT 57.092 45.000 0.00 0.00 39.20 4.93


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

AutoCloner maintained by Alex Coulton.