Multiple sequence alignment - TraesCS1B01G284300

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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 TraesCS1B01G284300 chr1B 100.000 3217 0 0 1 3217 493856643 493859859 0.000000e+00 5941
1 TraesCS1B01G284300 chr1B 94.565 92 4 1 784 874 530580676 530580585 1.200000e-29 141
2 TraesCS1B01G284300 chr1D 95.461 2049 65 16 870 2900 370341795 370343833 0.000000e+00 3243
3 TraesCS1B01G284300 chr1D 86.486 518 54 15 261 774 370341283 370341788 3.630000e-154 555
4 TraesCS1B01G284300 chr1D 94.468 235 12 1 5 238 370339925 370340159 8.480000e-96 361
5 TraesCS1B01G284300 chr1A 93.384 1829 74 20 893 2682 469309493 469311313 0.000000e+00 2663
6 TraesCS1B01G284300 chr1A 84.821 784 66 23 5 770 469308720 469309468 0.000000e+00 739
7 TraesCS1B01G284300 chr1A 82.353 170 20 3 2729 2888 469311520 469311689 4.330000e-29 139
8 TraesCS1B01G284300 chr1A 91.837 98 4 4 778 874 41368718 41368624 2.010000e-27 134
9 TraesCS1B01G284300 chr4A 89.519 582 37 14 1286 1864 590441757 590442317 0.000000e+00 715
10 TraesCS1B01G284300 chr4A 92.784 97 6 1 783 879 603462439 603462344 4.330000e-29 139
11 TraesCS1B01G284300 chr6B 89.490 314 26 2 2906 3217 279204703 279204395 1.080000e-104 390
12 TraesCS1B01G284300 chr6B 87.580 314 30 5 2906 3217 68262335 68262029 3.950000e-94 355
13 TraesCS1B01G284300 chr6B 91.304 161 14 0 1201 1361 539727709 539727549 1.500000e-53 220
14 TraesCS1B01G284300 chr3B 88.254 315 27 6 2906 3217 819548313 819548620 5.070000e-98 368
15 TraesCS1B01G284300 chr3B 87.898 314 33 2 2906 3217 609894381 609894691 6.560000e-97 364
16 TraesCS1B01G284300 chr3B 87.937 315 30 6 2906 3217 819547333 819547642 6.560000e-97 364
17 TraesCS1B01G284300 chr3B 86.667 315 30 8 2906 3217 716157774 716158079 3.980000e-89 339
18 TraesCS1B01G284300 chr3B 85.987 314 39 4 2906 3217 154434622 154434932 6.650000e-87 331
19 TraesCS1B01G284300 chr3B 82.948 346 44 12 1172 1511 646003162 646002826 6.750000e-77 298
20 TraesCS1B01G284300 chr3B 92.784 97 5 2 786 881 723456091 723455996 4.330000e-29 139
21 TraesCS1B01G284300 chr5B 88.217 314 28 4 2906 3217 456390628 456390322 1.820000e-97 366
22 TraesCS1B01G284300 chr5B 97.647 85 2 0 790 874 315032607 315032523 2.590000e-31 147
23 TraesCS1B01G284300 chr5B 86.508 126 16 1 426 551 597090214 597090090 1.560000e-28 137
24 TraesCS1B01G284300 chr2B 86.984 315 32 6 2906 3217 728589684 728589992 2.380000e-91 346
25 TraesCS1B01G284300 chr3D 93.814 194 9 1 1194 1384 483177333 483177140 4.060000e-74 289
26 TraesCS1B01G284300 chr3D 79.710 207 37 5 339 544 10648497 10648699 9.300000e-31 145
27 TraesCS1B01G284300 chr3A 95.082 183 9 0 1194 1376 626016528 626016346 4.060000e-74 289
28 TraesCS1B01G284300 chr3A 96.739 92 3 0 790 881 95074207 95074116 1.550000e-33 154
29 TraesCS1B01G284300 chr3A 93.478 92 6 0 786 877 658801101 658801192 1.560000e-28 137
30 TraesCS1B01G284300 chr6D 91.925 161 13 0 1201 1361 358326165 358326005 3.230000e-55 226
31 TraesCS1B01G284300 chr6A 91.925 161 13 0 1201 1361 500083784 500083624 3.230000e-55 226
32 TraesCS1B01G284300 chr6A 91.837 98 6 2 778 874 606117511 606117607 5.600000e-28 135
33 TraesCS1B01G284300 chr2D 91.558 154 11 2 1209 1361 32763270 32763422 9.040000e-51 211
34 TraesCS1B01G284300 chr2D 80.128 156 25 5 334 486 70521771 70521923 9.430000e-21 111
35 TraesCS1B01G284300 chr7A 82.403 233 31 7 338 561 66718392 66718161 9.110000e-46 195
36 TraesCS1B01G284300 chr5D 82.524 206 24 7 349 544 502885627 502885830 1.530000e-38 171
37 TraesCS1B01G284300 chr2A 79.498 239 39 8 334 562 756490915 756490677 9.240000e-36 161
38 TraesCS1B01G284300 chr5A 97.701 87 2 0 788 874 584203553 584203639 2.000000e-32 150
39 TraesCS1B01G284300 chr7D 81.884 138 23 2 426 562 29537993 29537857 7.290000e-22 115
40 TraesCS1B01G284300 chr7D 80.921 152 20 7 338 481 58864490 58864640 9.430000e-21 111


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 TraesCS1B01G284300 chr1B 493856643 493859859 3216 False 5941.000000 5941 100.000000 1 3217 1 chr1B.!!$F1 3216
1 TraesCS1B01G284300 chr1D 370339925 370343833 3908 False 1386.333333 3243 92.138333 5 2900 3 chr1D.!!$F1 2895
2 TraesCS1B01G284300 chr1A 469308720 469311689 2969 False 1180.333333 2663 86.852667 5 2888 3 chr1A.!!$F1 2883
3 TraesCS1B01G284300 chr4A 590441757 590442317 560 False 715.000000 715 89.519000 1286 1864 1 chr4A.!!$F1 578
4 TraesCS1B01G284300 chr3B 819547333 819548620 1287 False 366.000000 368 88.095500 2906 3217 2 chr3B.!!$F4 311

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
294 1416 0.106868 TGCCTGCATGGATCTCCTTG 60.107 55.0 7.56 7.56 42.28 3.61 F
717 1855 0.179048 CACAAGCACCAGGAGACACA 60.179 55.0 0.00 0.00 0.00 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1660 2807 0.179062 GGCTCATCTCCGTGCTTGAT 60.179 55.000 0.0 0.0 0.0 2.57 R
2682 3861 1.153978 CGCAATCACGCTGCCAATT 60.154 52.632 0.0 0.0 36.4 2.32 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
40 41 1.472082 TCGCGAGGTATTAAACGTCCA 59.528 47.619 3.71 0.00 39.36 4.02
190 194 1.623359 GAGCTCAAGACGCTACTGTG 58.377 55.000 9.40 0.00 37.96 3.66
247 251 2.356125 CCATGGTACCTCCTGGTTTGAG 60.356 54.545 14.36 0.00 46.05 3.02
294 1416 0.106868 TGCCTGCATGGATCTCCTTG 60.107 55.000 7.56 7.56 42.28 3.61
296 1418 1.964552 CCTGCATGGATCTCCTTGTC 58.035 55.000 12.24 6.73 41.65 3.18
357 1487 7.015098 TGTTTTCCCAAATGATAAGTGACACAT 59.985 33.333 8.59 0.00 0.00 3.21
378 1508 0.874175 CGTGCCACGAAACACTCTGA 60.874 55.000 12.85 0.00 46.05 3.27
380 1510 0.531974 TGCCACGAAACACTCTGACC 60.532 55.000 0.00 0.00 0.00 4.02
385 1515 1.068741 ACGAAACACTCTGACCTGACC 59.931 52.381 0.00 0.00 0.00 4.02
452 1584 7.495135 AAATTGAAACTTGCCATTCGAAAAT 57.505 28.000 0.00 0.00 0.00 1.82
453 1585 8.600449 AAATTGAAACTTGCCATTCGAAAATA 57.400 26.923 0.00 0.00 0.00 1.40
460 1592 6.512297 ACTTGCCATTCGAAAATAAAGTTGT 58.488 32.000 0.00 0.00 0.00 3.32
461 1593 6.640907 ACTTGCCATTCGAAAATAAAGTTGTC 59.359 34.615 0.00 0.00 0.00 3.18
507 1639 1.961793 TTGCGTCACTAAACTTGCCT 58.038 45.000 0.00 0.00 0.00 4.75
511 1643 3.496884 TGCGTCACTAAACTTGCCTTAAG 59.503 43.478 0.00 0.00 42.30 1.85
521 1653 3.000727 ACTTGCCTTAAGAAACGATCGG 58.999 45.455 20.98 1.23 39.76 4.18
523 1655 3.322211 TGCCTTAAGAAACGATCGGAA 57.678 42.857 20.98 2.72 0.00 4.30
562 1694 1.078426 GCGGGTGGCACTTATCAGT 60.078 57.895 18.45 0.00 42.87 3.41
565 1698 1.066143 CGGGTGGCACTTATCAGTTCT 60.066 52.381 18.45 0.00 0.00 3.01
643 1781 8.336806 GCAAAATTCATGAGTTCAAAATCAACA 58.663 29.630 3.69 0.00 36.53 3.33
717 1855 0.179048 CACAAGCACCAGGAGACACA 60.179 55.000 0.00 0.00 0.00 3.72
743 1881 2.074729 ACCTCTACGGATCAAGGAGG 57.925 55.000 16.44 16.44 46.27 4.30
770 1908 2.970324 GCAACAACTCGCCACGGA 60.970 61.111 0.00 0.00 0.00 4.69
771 1909 2.325082 GCAACAACTCGCCACGGAT 61.325 57.895 0.00 0.00 0.00 4.18
772 1910 1.787847 CAACAACTCGCCACGGATC 59.212 57.895 0.00 0.00 0.00 3.36
773 1911 0.948623 CAACAACTCGCCACGGATCA 60.949 55.000 0.00 0.00 0.00 2.92
774 1912 0.250124 AACAACTCGCCACGGATCAA 60.250 50.000 0.00 0.00 0.00 2.57
776 1914 1.079127 AACTCGCCACGGATCAAGG 60.079 57.895 0.00 0.00 0.00 3.61
777 1915 1.541310 AACTCGCCACGGATCAAGGA 61.541 55.000 0.00 0.00 0.00 3.36
778 1916 1.227089 CTCGCCACGGATCAAGGAG 60.227 63.158 0.00 0.00 0.00 3.69
779 1917 1.949847 CTCGCCACGGATCAAGGAGT 61.950 60.000 0.00 0.00 0.00 3.85
782 1920 0.824759 GCCACGGATCAAGGAGTACT 59.175 55.000 0.00 0.00 0.00 2.73
783 1921 2.029623 GCCACGGATCAAGGAGTACTA 58.970 52.381 0.00 0.00 0.00 1.82
784 1922 2.034812 GCCACGGATCAAGGAGTACTAG 59.965 54.545 0.00 0.00 0.00 2.57
785 1923 3.288964 CCACGGATCAAGGAGTACTAGT 58.711 50.000 0.00 0.00 0.00 2.57
786 1924 4.458397 CCACGGATCAAGGAGTACTAGTA 58.542 47.826 0.00 0.00 0.00 1.82
787 1925 4.885907 CCACGGATCAAGGAGTACTAGTAA 59.114 45.833 3.61 0.00 0.00 2.24
788 1926 5.221009 CCACGGATCAAGGAGTACTAGTAAC 60.221 48.000 3.61 2.15 0.00 2.50
789 1927 5.589452 CACGGATCAAGGAGTACTAGTAACT 59.411 44.000 3.61 4.53 0.00 2.24
790 1928 6.765036 CACGGATCAAGGAGTACTAGTAACTA 59.235 42.308 3.61 0.00 0.00 2.24
791 1929 6.765512 ACGGATCAAGGAGTACTAGTAACTAC 59.234 42.308 3.61 5.50 0.00 2.73
792 1930 6.991531 CGGATCAAGGAGTACTAGTAACTACT 59.008 42.308 3.61 7.67 39.96 2.57
793 1931 7.171337 CGGATCAAGGAGTACTAGTAACTACTC 59.829 44.444 13.09 13.09 37.14 2.59
800 1938 6.888105 GAGTACTAGTAACTACTCCCTCTGT 58.112 44.000 3.61 0.00 37.73 3.41
801 1939 7.986553 AGTACTAGTAACTACTCCCTCTGTA 57.013 40.000 3.61 0.00 37.73 2.74
802 1940 8.386012 AGTACTAGTAACTACTCCCTCTGTAA 57.614 38.462 3.61 0.00 37.73 2.41
803 1941 8.830741 AGTACTAGTAACTACTCCCTCTGTAAA 58.169 37.037 3.61 0.00 37.73 2.01
804 1942 9.625747 GTACTAGTAACTACTCCCTCTGTAAAT 57.374 37.037 3.61 0.00 37.73 1.40
817 1955 9.360093 CTCCCTCTGTAAATTAATATAAGAGCG 57.640 37.037 9.98 4.77 0.00 5.03
818 1956 8.867097 TCCCTCTGTAAATTAATATAAGAGCGT 58.133 33.333 9.98 0.00 0.00 5.07
819 1957 9.490379 CCCTCTGTAAATTAATATAAGAGCGTT 57.510 33.333 9.98 0.00 0.00 4.84
841 1979 9.460906 GCGTTTAGCATACTAAAGTAGTAATCT 57.539 33.333 0.00 3.24 46.45 2.40
983 2121 4.460382 CCGTCCCACGTATATATACACCTT 59.540 45.833 20.24 1.61 40.58 3.50
988 2126 5.126707 CCCACGTATATATACACCTTCCTCC 59.873 48.000 20.24 0.00 32.87 4.30
989 2127 5.950549 CCACGTATATATACACCTTCCTCCT 59.049 44.000 20.24 0.00 32.87 3.69
1045 2183 0.904649 TCTCACATCACCGCATTCCT 59.095 50.000 0.00 0.00 0.00 3.36
2024 3174 4.527583 GGCTGGAGGCTGCTCTCG 62.528 72.222 7.74 0.00 41.46 4.04
2026 3176 3.459965 CTGGAGGCTGCTCTCGCT 61.460 66.667 7.74 0.00 36.97 4.93
2089 3239 2.980233 GTGGCTGCCGCTGTTCTT 60.980 61.111 24.33 0.00 36.09 2.52
2102 3252 4.383649 CCGCTGTTCTTGTGATTGATTTTG 59.616 41.667 0.00 0.00 0.00 2.44
2132 3284 9.521841 CTTTCTTTTCCTCTCCCTATTTTTACT 57.478 33.333 0.00 0.00 0.00 2.24
2141 3293 7.550906 CCTCTCCCTATTTTTACTCTTGTTCAG 59.449 40.741 0.00 0.00 0.00 3.02
2180 3334 0.810031 GGGGATCGTGTTCATGGTCG 60.810 60.000 0.00 0.00 0.00 4.79
2219 3378 6.887545 TGGGATAAAAAGGGTGTACTGTAATG 59.112 38.462 0.00 0.00 0.00 1.90
2426 3603 3.514645 GTGAATGAATGAATGGTGCACC 58.485 45.455 29.67 29.67 0.00 5.01
2600 3779 2.430610 GGCAGCTCCGAGATCCAGT 61.431 63.158 0.00 0.00 0.00 4.00
2654 3833 1.522355 CATCATTGCCGGCTCGAGT 60.522 57.895 29.70 8.26 0.00 4.18
2658 3837 2.650116 ATTGCCGGCTCGAGTGAGT 61.650 57.895 29.70 0.00 44.48 3.41
2682 3861 5.821995 TGTTCACTGTCATCATCTTCAACAA 59.178 36.000 0.00 0.00 0.00 2.83
2758 4098 1.473258 TGCATCAAAGGGAAATCGGG 58.527 50.000 0.00 0.00 0.00 5.14
2804 4144 3.596214 GCCTTCCGTAGAATTTCACAGA 58.404 45.455 0.00 0.00 0.00 3.41
2900 4252 0.880278 GGAACAGAGTTCACGCTGCA 60.880 55.000 10.28 0.00 45.78 4.41
2901 4253 1.151668 GAACAGAGTTCACGCTGCAT 58.848 50.000 10.28 0.59 45.78 3.96
2902 4254 1.127582 GAACAGAGTTCACGCTGCATC 59.872 52.381 10.28 6.09 45.78 3.91
2903 4255 0.671781 ACAGAGTTCACGCTGCATCC 60.672 55.000 10.28 0.00 45.78 3.51
2904 4256 1.446792 AGAGTTCACGCTGCATCCG 60.447 57.895 0.00 5.48 0.00 4.18
2912 4264 1.886313 CGCTGCATCCGAGAGCATT 60.886 57.895 0.00 0.00 40.42 3.56
2923 4275 0.449388 GAGAGCATTTCCAACAGGCG 59.551 55.000 0.00 0.00 0.00 5.52
2929 4281 0.904394 ATTTCCAACAGGCGCCCAAT 60.904 50.000 26.15 5.69 0.00 3.16
2950 4302 4.755546 CGGCGCGCTAAAATTTGA 57.244 50.000 32.29 0.00 0.00 2.69
2956 4308 2.838051 GCGCGCTAAAATTTGATTTGCG 60.838 45.455 26.67 16.05 41.15 4.85
2960 4312 2.666022 GCTAAAATTTGATTTGCGGCGT 59.334 40.909 9.37 0.00 31.77 5.68
2973 4325 3.422303 GGCGTGCGCAACATCAGA 61.422 61.111 14.00 0.00 44.11 3.27
3026 4378 1.154225 GTGCTAAAATGCAGCGCGT 60.154 52.632 8.43 0.00 44.20 6.01
3056 4408 2.392821 CAACAGTGCGCTAAAATGCAA 58.607 42.857 9.73 0.00 43.75 4.08
3057 4409 2.988493 CAACAGTGCGCTAAAATGCAAT 59.012 40.909 9.73 0.00 43.75 3.56
3110 5441 6.760298 TGTTGCATTTTACACAACACATTCAT 59.240 30.769 3.83 0.00 46.33 2.57
3111 5442 7.042858 TGTTGCATTTTACACAACACATTCATC 60.043 33.333 3.83 0.00 46.33 2.92
3112 5443 6.510536 TGCATTTTACACAACACATTCATCA 58.489 32.000 0.00 0.00 0.00 3.07
3113 5444 6.420306 TGCATTTTACACAACACATTCATCAC 59.580 34.615 0.00 0.00 0.00 3.06
3114 5445 6.420306 GCATTTTACACAACACATTCATCACA 59.580 34.615 0.00 0.00 0.00 3.58
3124 5455 7.172190 ACAACACATTCATCACACAAAACAAAA 59.828 29.630 0.00 0.00 0.00 2.44
3130 5461 7.895975 TTCATCACACAAAACAAAAACATGA 57.104 28.000 0.00 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.301293 CTTTGGGGAGGAGGCAGAC 59.699 63.158 0.00 0.00 0.00 3.51
2 3 1.151810 ACTTTGGGGAGGAGGCAGA 60.152 57.895 0.00 0.00 0.00 4.26
3 4 1.301293 GACTTTGGGGAGGAGGCAG 59.699 63.158 0.00 0.00 0.00 4.85
179 183 3.057736 TCTTTAGTGGACACAGTAGCGTC 60.058 47.826 5.14 0.00 34.19 5.19
190 194 3.386768 TGTGCAGTCTCTTTAGTGGAC 57.613 47.619 0.00 0.00 40.45 4.02
247 251 4.286291 TGGTTAAGGAGAGGGAAGAAGAAC 59.714 45.833 0.00 0.00 0.00 3.01
357 1487 1.593209 GAGTGTTTCGTGGCACGGA 60.593 57.895 36.30 28.79 42.81 4.69
363 1493 1.068588 TCAGGTCAGAGTGTTTCGTGG 59.931 52.381 0.00 0.00 0.00 4.94
431 1561 7.708752 ACTTTATTTTCGAATGGCAAGTTTCAA 59.291 29.630 0.00 0.00 0.00 2.69
445 1577 6.964908 TCAAGCATGACAACTTTATTTTCGA 58.035 32.000 0.00 0.00 0.00 3.71
473 1605 5.238432 AGTGACGCAATGATGACAACTTTAA 59.762 36.000 0.00 0.00 0.00 1.52
475 1607 3.565482 AGTGACGCAATGATGACAACTTT 59.435 39.130 0.00 0.00 0.00 2.66
487 1619 2.504367 AGGCAAGTTTAGTGACGCAAT 58.496 42.857 0.00 0.00 0.00 3.56
507 1639 4.004314 TGGCAATTCCGATCGTTTCTTAA 58.996 39.130 15.09 0.00 37.80 1.85
511 1643 2.097466 ACATGGCAATTCCGATCGTTTC 59.903 45.455 15.09 0.00 37.80 2.78
521 1653 1.339711 GCACGAACACATGGCAATTC 58.660 50.000 0.00 0.00 0.00 2.17
523 1655 1.586028 GGCACGAACACATGGCAAT 59.414 52.632 0.00 0.00 40.91 3.56
547 1679 4.278419 ACAAAAGAACTGATAAGTGCCACC 59.722 41.667 0.00 0.00 0.00 4.61
575 1713 8.200120 ACGAGTTCAATCTTCATGATGAGAATA 58.800 33.333 15.64 0.87 34.66 1.75
580 1718 8.722480 ATAAACGAGTTCAATCTTCATGATGA 57.278 30.769 13.17 13.17 35.21 2.92
607 1745 6.761312 ACTCATGAATTTTGCAGGATTTTCA 58.239 32.000 0.00 0.00 0.00 2.69
626 1764 9.991906 ATCTTCAATTGTTGATTTTGAACTCAT 57.008 25.926 5.13 0.00 39.84 2.90
657 1795 9.695526 TGTTCTAAAATCCATTCAATTCAACTG 57.304 29.630 0.00 0.00 0.00 3.16
660 1798 9.474920 GTGTGTTCTAAAATCCATTCAATTCAA 57.525 29.630 0.00 0.00 0.00 2.69
662 1800 9.474920 TTGTGTGTTCTAAAATCCATTCAATTC 57.525 29.630 0.00 0.00 0.00 2.17
777 1915 6.889595 ACAGAGGGAGTAGTTACTAGTACT 57.110 41.667 9.11 0.00 42.03 2.73
778 1916 9.625747 ATTTACAGAGGGAGTAGTTACTAGTAC 57.374 37.037 0.91 0.84 36.50 2.73
791 1929 9.360093 CGCTCTTATATTAATTTACAGAGGGAG 57.640 37.037 20.74 5.24 40.49 4.30
792 1930 8.867097 ACGCTCTTATATTAATTTACAGAGGGA 58.133 33.333 25.54 1.67 40.49 4.20
793 1931 9.490379 AACGCTCTTATATTAATTTACAGAGGG 57.510 33.333 21.96 21.96 42.53 4.30
809 1947 9.680315 CTACTTTAGTATGCTAAACGCTCTTAT 57.320 33.333 11.47 0.00 40.94 1.73
810 1948 8.680903 ACTACTTTAGTATGCTAAACGCTCTTA 58.319 33.333 11.47 0.00 40.94 2.10
811 1949 7.545489 ACTACTTTAGTATGCTAAACGCTCTT 58.455 34.615 11.47 0.00 40.94 2.85
812 1950 7.098074 ACTACTTTAGTATGCTAAACGCTCT 57.902 36.000 11.47 0.00 40.94 4.09
813 1951 8.847444 TTACTACTTTAGTATGCTAAACGCTC 57.153 34.615 11.47 0.00 40.94 5.03
814 1952 9.460906 GATTACTACTTTAGTATGCTAAACGCT 57.539 33.333 11.47 1.49 40.94 5.07
815 1953 9.460906 AGATTACTACTTTAGTATGCTAAACGC 57.539 33.333 11.47 0.00 40.94 4.84
856 1994 8.255905 GCTGGTAATTACTTCCTCTGTAAACTA 58.744 37.037 15.05 0.00 34.20 2.24
857 1995 7.104290 GCTGGTAATTACTTCCTCTGTAAACT 58.896 38.462 15.05 0.00 34.20 2.66
858 1996 6.877322 TGCTGGTAATTACTTCCTCTGTAAAC 59.123 38.462 15.05 0.00 34.20 2.01
859 1997 6.877322 GTGCTGGTAATTACTTCCTCTGTAAA 59.123 38.462 15.05 0.00 34.20 2.01
860 1998 6.014070 TGTGCTGGTAATTACTTCCTCTGTAA 60.014 38.462 15.05 0.00 34.87 2.41
861 1999 5.482526 TGTGCTGGTAATTACTTCCTCTGTA 59.517 40.000 15.05 0.08 0.00 2.74
862 2000 4.286032 TGTGCTGGTAATTACTTCCTCTGT 59.714 41.667 15.05 0.00 0.00 3.41
863 2001 4.832248 TGTGCTGGTAATTACTTCCTCTG 58.168 43.478 15.05 3.97 0.00 3.35
864 2002 5.491982 CTTGTGCTGGTAATTACTTCCTCT 58.508 41.667 15.05 0.00 0.00 3.69
865 2003 4.095036 GCTTGTGCTGGTAATTACTTCCTC 59.905 45.833 15.05 5.03 36.03 3.71
866 2004 4.010349 GCTTGTGCTGGTAATTACTTCCT 58.990 43.478 15.05 0.00 36.03 3.36
867 2005 4.357018 GCTTGTGCTGGTAATTACTTCC 57.643 45.455 15.05 0.00 36.03 3.46
983 2121 2.408565 GAGAGGAGAGAGAGAGGAGGA 58.591 57.143 0.00 0.00 0.00 3.71
988 2126 2.146342 GATGCGAGAGGAGAGAGAGAG 58.854 57.143 0.00 0.00 32.19 3.20
989 2127 1.768275 AGATGCGAGAGGAGAGAGAGA 59.232 52.381 0.00 0.00 32.19 3.10
1045 2183 0.722676 AGGAGACCTGGGGGAATGTA 59.277 55.000 0.00 0.00 36.25 2.29
1420 2567 1.402984 CGGTGAGAGAACACTACTGCC 60.403 57.143 0.00 0.00 40.22 4.85
1425 2572 1.544691 GGAAGCGGTGAGAGAACACTA 59.455 52.381 0.00 0.00 40.22 2.74
1558 2705 0.460284 GTGCCAGATCAATCGTCGGT 60.460 55.000 0.00 0.00 0.00 4.69
1660 2807 0.179062 GGCTCATCTCCGTGCTTGAT 60.179 55.000 0.00 0.00 0.00 2.57
2024 3174 3.512223 ATCGATCGAGGCCTGCAGC 62.512 63.158 23.84 3.68 42.60 5.25
2026 3176 2.418777 CATCGATCGAGGCCTGCA 59.581 61.111 23.84 0.00 0.00 4.41
2089 3239 9.086336 GAAAAGAAAGACACAAAATCAATCACA 57.914 29.630 0.00 0.00 0.00 3.58
2102 3252 4.359434 AGGGAGAGGAAAAGAAAGACAC 57.641 45.455 0.00 0.00 0.00 3.67
2180 3334 7.661847 CCTTTTTATCCCACATGTATACTCCTC 59.338 40.741 0.00 0.00 0.00 3.71
2426 3603 1.714899 GGCATGTCGTTGGAATCCCG 61.715 60.000 0.00 0.00 34.29 5.14
2524 3701 4.935808 GGCATGGTAAATCCTCTATAACGG 59.064 45.833 0.00 0.00 37.07 4.44
2627 3806 2.086869 CCGGCAATGATGGATCCATAC 58.913 52.381 27.38 19.50 36.70 2.39
2654 3833 4.879197 AGATGATGACAGTGAACACTCA 57.121 40.909 4.38 2.32 40.20 3.41
2658 3837 5.367302 TGTTGAAGATGATGACAGTGAACA 58.633 37.500 0.00 0.00 0.00 3.18
2672 3851 2.297033 ACGCTGCCAATTTGTTGAAGAT 59.703 40.909 0.00 0.00 0.00 2.40
2682 3861 1.153978 CGCAATCACGCTGCCAATT 60.154 52.632 0.00 0.00 36.40 2.32
2758 4098 2.924105 GCAGGGTGCAGCTGGTTTC 61.924 63.158 17.12 0.00 44.26 2.78
2804 4144 7.529519 CGTTTCTTTATCACTCGAACGATTTTT 59.470 33.333 1.89 0.00 0.00 1.94
2900 4252 2.636830 CTGTTGGAAATGCTCTCGGAT 58.363 47.619 0.00 0.00 0.00 4.18
2901 4253 1.339055 CCTGTTGGAAATGCTCTCGGA 60.339 52.381 0.00 0.00 34.57 4.55
2902 4254 1.089920 CCTGTTGGAAATGCTCTCGG 58.910 55.000 0.00 0.00 34.57 4.63
2903 4255 0.449388 GCCTGTTGGAAATGCTCTCG 59.551 55.000 0.00 0.00 34.57 4.04
2904 4256 0.449388 CGCCTGTTGGAAATGCTCTC 59.551 55.000 0.00 0.00 34.57 3.20
2912 4264 2.117206 ATTGGGCGCCTGTTGGAA 59.883 55.556 28.56 9.97 34.57 3.53
2933 4285 1.544686 AATCAAATTTTAGCGCGCCG 58.455 45.000 30.33 6.25 0.00 6.46
2935 4287 2.681970 GCAAATCAAATTTTAGCGCGC 58.318 42.857 26.66 26.66 0.00 6.86
2956 4308 2.257286 AATCTGATGTTGCGCACGCC 62.257 55.000 11.12 0.87 41.09 5.68
2960 4312 0.109179 GCCAAATCTGATGTTGCGCA 60.109 50.000 5.66 5.66 0.00 6.09
2968 4320 3.576356 CGCCGCGCCAAATCTGAT 61.576 61.111 0.00 0.00 0.00 2.90
3009 4361 1.154244 CACGCGCTGCATTTTAGCA 60.154 52.632 5.73 0.00 41.18 3.49
3026 4378 2.591429 CACTGTTGGAGGTGCGCA 60.591 61.111 5.66 5.66 0.00 6.09
3032 4384 1.234821 TTTTAGCGCACTGTTGGAGG 58.765 50.000 11.47 0.00 0.00 4.30
3038 4390 2.598589 CATTGCATTTTAGCGCACTGT 58.401 42.857 11.47 0.00 38.00 3.55
3071 5401 0.666880 GCAACAAATGTGGATGCGCA 60.667 50.000 14.96 14.96 33.71 6.09
3073 5403 1.999048 ATGCAACAAATGTGGATGCG 58.001 45.000 10.30 0.00 41.85 4.73
3110 5441 8.939201 ATATGTCATGTTTTTGTTTTGTGTGA 57.061 26.923 0.00 0.00 0.00 3.58


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

AutoCloner maintained by Alex Coulton.