Multiple sequence alignment - TraesCS2A01G337700

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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 TraesCS2A01G337700 chr2A 100.000 2704 0 0 1 2704 571151423 571148720 0.000000e+00 4994
1 TraesCS2A01G337700 chr2D 91.259 1533 96 18 440 1943 419024306 419025829 0.000000e+00 2054
2 TraesCS2A01G337700 chr2D 94.587 739 38 2 1958 2695 419025817 419026554 0.000000e+00 1142
3 TraesCS2A01G337700 chr2D 95.260 443 15 5 1 439 419023684 419024124 0.000000e+00 697
4 TraesCS2A01G337700 chr2B 91.023 1515 101 16 446 1943 491022115 491023611 0.000000e+00 2012
5 TraesCS2A01G337700 chr2B 93.057 749 50 2 1958 2704 491023599 491024347 0.000000e+00 1094
6 TraesCS2A01G337700 chr2B 87.726 277 22 9 1 273 491021747 491022015 2.020000e-81 313
7 TraesCS2A01G337700 chr3D 90.090 111 10 1 276 385 284301560 284301670 2.810000e-30 143
8 TraesCS2A01G337700 chr6B 88.793 116 10 3 274 386 65985416 65985301 3.630000e-29 139
9 TraesCS2A01G337700 chr5B 87.611 113 12 2 275 385 10401774 10401886 2.180000e-26 130
10 TraesCS2A01G337700 chr1D 87.611 113 13 1 274 385 298574809 298574697 2.180000e-26 130
11 TraesCS2A01G337700 chr3B 88.660 97 10 1 291 386 749167025 749166929 1.700000e-22 117
12 TraesCS2A01G337700 chr7A 88.542 96 10 1 291 385 378986998 378987093 6.120000e-22 115
13 TraesCS2A01G337700 chr1B 85.841 113 10 5 276 384 402336742 402336852 6.120000e-22 115
14 TraesCS2A01G337700 chr6D 86.111 108 12 3 274 380 463617660 463617765 2.200000e-21 113


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 TraesCS2A01G337700 chr2A 571148720 571151423 2703 True 4994.000000 4994 100.000 1 2704 1 chr2A.!!$R1 2703
1 TraesCS2A01G337700 chr2D 419023684 419026554 2870 False 1297.666667 2054 93.702 1 2695 3 chr2D.!!$F1 2694
2 TraesCS2A01G337700 chr2B 491021747 491024347 2600 False 1139.666667 2012 90.602 1 2704 3 chr2B.!!$F1 2703

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
598 815 0.534652 CTTCCTGCAGGCCATCTAGC 60.535 60.0 28.91 0.8 34.44 3.42 F
1008 1234 0.178767 AGAGCAATACGATGGCAGCA 59.821 50.0 2.73 0.0 0.00 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1561 1798 0.033366 CAGTGGTGTCATCGGTGTCA 59.967 55.0 0.00 0.0 0.0 3.58 R
2572 2819 0.329596 GGGGCTGTCAGATGTTCCTT 59.670 55.0 3.32 0.0 0.0 3.36 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
177 180 1.690219 ATCGGAGGCCCATGACACTC 61.690 60.000 0.00 0.00 0.00 3.51
180 183 2.204136 AGGCCCATGACACTCCCA 60.204 61.111 0.00 0.00 0.00 4.37
252 257 4.206375 CCCAAAGCCCATTTTCTTTTTGT 58.794 39.130 0.00 0.00 30.79 2.83
281 287 2.109425 ATTAAAGTCCACCGGCTCAC 57.891 50.000 0.00 0.00 0.00 3.51
282 288 0.759959 TTAAAGTCCACCGGCTCACA 59.240 50.000 0.00 0.00 0.00 3.58
288 294 2.126307 CACCGGCTCACACTCTCG 60.126 66.667 0.00 0.00 0.00 4.04
301 307 2.425312 ACACTCTCGAAGGTGCTCATAG 59.575 50.000 14.71 0.00 36.99 2.23
309 315 2.150051 GGTGCTCATAGGGGGAGGG 61.150 68.421 0.00 0.00 32.96 4.30
336 342 1.807742 TGTGTGCGTTTATAGGGTTGC 59.192 47.619 0.00 0.00 0.00 4.17
338 344 1.081094 GTGCGTTTATAGGGTTGCGT 58.919 50.000 0.00 0.00 0.00 5.24
345 351 3.545366 TTATAGGGTTGCGTGTATGCA 57.455 42.857 0.00 0.00 44.61 3.96
366 373 1.709203 CGTATGTATGAGCGCTTCGTC 59.291 52.381 13.26 0.00 0.00 4.20
377 384 1.400629 GCGCTTCGTCTGTACTGTGTA 60.401 52.381 0.00 0.00 0.00 2.90
443 660 5.666462 TGCTGCTAATTATTCCGTACTTCA 58.334 37.500 0.00 0.00 0.00 3.02
470 687 8.593492 AATTTCAACCAAATTTAGCTTCAGTC 57.407 30.769 0.00 0.00 41.19 3.51
541 758 3.369471 GCTCCTTGGTTGCACATAGTAGA 60.369 47.826 0.00 0.00 0.00 2.59
598 815 0.534652 CTTCCTGCAGGCCATCTAGC 60.535 60.000 28.91 0.80 34.44 3.42
624 841 7.117667 CCACCTTATTTTAGCAACACCAAAATC 59.882 37.037 0.00 0.00 34.57 2.17
647 864 5.477984 TCTGGCTTTAATTTCTCATGTGCTT 59.522 36.000 0.00 0.00 0.00 3.91
648 865 6.658816 TCTGGCTTTAATTTCTCATGTGCTTA 59.341 34.615 0.00 0.00 0.00 3.09
649 866 7.340232 TCTGGCTTTAATTTCTCATGTGCTTAT 59.660 33.333 0.00 0.00 0.00 1.73
650 867 7.839907 TGGCTTTAATTTCTCATGTGCTTATT 58.160 30.769 0.00 0.00 0.00 1.40
651 868 7.760794 TGGCTTTAATTTCTCATGTGCTTATTG 59.239 33.333 0.00 0.00 0.00 1.90
681 901 2.906389 ACTTAGGACATTCTGGTCAGCA 59.094 45.455 0.00 0.00 39.59 4.41
728 948 1.203050 CCCACTTCACATGAAACCCCT 60.203 52.381 0.00 0.00 33.07 4.79
758 978 1.538047 AGGCAGTACAAGCACCATTG 58.462 50.000 11.68 0.00 36.22 2.82
843 1063 4.814900 CGGCTCTTCACGCATACT 57.185 55.556 0.00 0.00 0.00 2.12
844 1064 2.291843 CGGCTCTTCACGCATACTG 58.708 57.895 0.00 0.00 0.00 2.74
850 1070 3.181495 GCTCTTCACGCATACTGTCTAGT 60.181 47.826 0.00 0.00 40.99 2.57
851 1071 4.346970 CTCTTCACGCATACTGTCTAGTG 58.653 47.826 0.00 0.00 37.78 2.74
878 1098 2.800544 CAACGTTCAACTTCACGGAGAT 59.199 45.455 0.00 0.00 40.84 2.75
924 1150 1.617947 GCATCCCCGTTCCTCAGACT 61.618 60.000 0.00 0.00 0.00 3.24
1006 1232 2.133553 CAGAGAGCAATACGATGGCAG 58.866 52.381 0.00 0.00 0.00 4.85
1008 1234 0.178767 AGAGCAATACGATGGCAGCA 59.821 50.000 2.73 0.00 0.00 4.41
1098 1324 2.668550 GAACCACAGACCACGGGC 60.669 66.667 0.00 0.00 0.00 6.13
1152 1378 2.445654 CTCCTCCCCTGCCTCTCC 60.446 72.222 0.00 0.00 0.00 3.71
1366 1595 2.017113 GCGCCTGCCAAGGTATAACTT 61.017 52.381 0.00 0.00 46.43 2.66
1369 1598 3.181469 CGCCTGCCAAGGTATAACTTAGA 60.181 47.826 1.85 0.00 46.43 2.10
1374 1603 4.141711 TGCCAAGGTATAACTTAGAGCTGG 60.142 45.833 16.11 9.39 0.00 4.85
1376 1605 5.396436 GCCAAGGTATAACTTAGAGCTGGAA 60.396 44.000 1.85 0.00 0.00 3.53
1377 1606 6.689177 GCCAAGGTATAACTTAGAGCTGGAAT 60.689 42.308 1.85 0.00 0.00 3.01
1396 1628 6.297694 GGAATTCTCCATTCGATCTCTTTG 57.702 41.667 5.23 0.00 42.27 2.77
1406 1638 4.424061 TCGATCTCTTTGTGCAAAATGG 57.576 40.909 2.87 0.00 0.00 3.16
1415 1647 6.169094 TCTTTGTGCAAAATGGTTTTCTTCA 58.831 32.000 2.87 0.00 0.00 3.02
1424 1656 1.248486 GGTTTTCTTCAGCCAGGGAC 58.752 55.000 0.00 0.00 0.00 4.46
1540 1777 0.249489 ACGAGTGTGAACTCCACTGC 60.249 55.000 0.00 0.00 45.86 4.40
1549 1786 1.137872 GAACTCCACTGCTCCATCGAT 59.862 52.381 0.00 0.00 0.00 3.59
1572 1809 2.104132 CGCCGATGACACCGATGA 59.896 61.111 0.00 0.00 0.00 2.92
1583 1820 0.318441 CACCGATGACACCACTGACT 59.682 55.000 0.00 0.00 0.00 3.41
1597 1834 2.202623 GACTACAGCCGCACCGAG 60.203 66.667 0.00 0.00 0.00 4.63
1685 1922 4.481112 GGTTTCATGGCGCTGGCG 62.481 66.667 7.64 10.80 41.24 5.69
1706 1951 3.921021 CGACAGTTCTAGCGTTCTGAAAT 59.079 43.478 0.00 0.00 0.00 2.17
1711 1956 5.578336 CAGTTCTAGCGTTCTGAAATGATCA 59.422 40.000 0.00 0.00 37.80 2.92
1729 1974 8.749026 AATGATCATCTAGACTTTCTGCAAAT 57.251 30.769 9.06 0.00 0.00 2.32
1748 1993 9.171877 CTGCAAATTAGAGTTTTCCTAGAGAAT 57.828 33.333 0.00 0.00 33.44 2.40
1762 2007 8.964476 TTCCTAGAGAATTTAGTTATTGCCTG 57.036 34.615 0.00 0.00 0.00 4.85
1777 2022 3.829886 TGCCTGATGTTTTTCTTAGCG 57.170 42.857 0.00 0.00 0.00 4.26
1778 2023 2.095263 TGCCTGATGTTTTTCTTAGCGC 60.095 45.455 0.00 0.00 0.00 5.92
1802 2047 5.940470 CCTGTAACAGCAAGAGGATTTAGTT 59.060 40.000 0.00 0.00 28.76 2.24
1814 2059 6.234177 AGAGGATTTAGTTGTTGAAGGAGTG 58.766 40.000 0.00 0.00 0.00 3.51
1817 2062 7.234355 AGGATTTAGTTGTTGAAGGAGTGATT 58.766 34.615 0.00 0.00 0.00 2.57
1820 2065 7.639113 TTTAGTTGTTGAAGGAGTGATTTGT 57.361 32.000 0.00 0.00 0.00 2.83
1938 2184 8.239998 GCCAAGCACTATCTTGATAAATAATCC 58.760 37.037 5.19 0.00 44.61 3.01
1939 2185 9.288576 CCAAGCACTATCTTGATAAATAATCCA 57.711 33.333 5.19 0.00 44.61 3.41
1941 2187 9.512588 AAGCACTATCTTGATAAATAATCCAGG 57.487 33.333 0.00 0.00 33.22 4.45
1942 2188 8.105829 AGCACTATCTTGATAAATAATCCAGGG 58.894 37.037 0.00 0.00 33.22 4.45
1943 2189 7.148171 GCACTATCTTGATAAATAATCCAGGGC 60.148 40.741 0.00 0.00 33.22 5.19
1944 2190 8.105829 CACTATCTTGATAAATAATCCAGGGCT 58.894 37.037 0.00 0.00 33.22 5.19
1945 2191 8.673251 ACTATCTTGATAAATAATCCAGGGCTT 58.327 33.333 0.00 0.00 33.22 4.35
1946 2192 7.771927 ATCTTGATAAATAATCCAGGGCTTG 57.228 36.000 0.00 0.00 33.22 4.01
1947 2193 6.672593 TCTTGATAAATAATCCAGGGCTTGT 58.327 36.000 0.00 0.00 33.22 3.16
1948 2194 7.125391 TCTTGATAAATAATCCAGGGCTTGTT 58.875 34.615 0.00 0.00 33.22 2.83
1949 2195 7.619302 TCTTGATAAATAATCCAGGGCTTGTTT 59.381 33.333 0.00 2.90 33.22 2.83
1950 2196 7.346751 TGATAAATAATCCAGGGCTTGTTTC 57.653 36.000 0.80 0.00 33.22 2.78
1951 2197 6.894654 TGATAAATAATCCAGGGCTTGTTTCA 59.105 34.615 0.80 0.00 33.22 2.69
1952 2198 7.398618 TGATAAATAATCCAGGGCTTGTTTCAA 59.601 33.333 0.80 0.00 33.22 2.69
1953 2199 6.432403 AAATAATCCAGGGCTTGTTTCAAA 57.568 33.333 0.00 0.00 0.00 2.69
1954 2200 6.432403 AATAATCCAGGGCTTGTTTCAAAA 57.568 33.333 0.00 0.00 0.00 2.44
1955 2201 4.769345 AATCCAGGGCTTGTTTCAAAAA 57.231 36.364 0.00 0.00 0.00 1.94
1999 2245 5.767665 TGTAGAGTACCACAATGTGCAAAAT 59.232 36.000 8.05 0.00 31.34 1.82
2059 2306 7.173907 CCATATGATAGGGAACAAAAGCTACAG 59.826 40.741 3.65 0.00 0.00 2.74
2087 2334 5.300752 ACAGCGCAATATAACAGCTAATCT 58.699 37.500 11.47 0.00 36.28 2.40
2123 2370 3.009033 AGCACAAGAGGTAGGCAACAATA 59.991 43.478 0.00 0.00 41.41 1.90
2160 2407 3.896648 ACCTTGCTACATTCACAAACG 57.103 42.857 0.00 0.00 0.00 3.60
2170 2417 3.058914 ACATTCACAAACGCTGTAGCTTC 60.059 43.478 0.00 0.00 36.10 3.86
2177 2424 2.256117 ACGCTGTAGCTTCTGGTTTT 57.744 45.000 0.00 0.00 39.32 2.43
2228 2475 3.562182 TGGCTGGAACATCGAGTATAGA 58.438 45.455 0.00 0.00 38.20 1.98
2272 2519 0.796312 GCAAATCGCTCGGTCAAGAA 59.204 50.000 0.00 0.00 37.77 2.52
2333 2580 2.825075 AATCAGCATCTGCACGGCCA 62.825 55.000 2.24 0.00 45.16 5.36
2350 2597 1.869774 CCAAAGAAAGCCCAAGCAAC 58.130 50.000 0.00 0.00 43.56 4.17
2356 2603 1.401905 GAAAGCCCAAGCAACGGATAG 59.598 52.381 0.00 0.00 43.56 2.08
2405 2652 0.612229 CACCTGATGCACCTCTCACT 59.388 55.000 0.00 0.00 0.00 3.41
2410 2657 3.492309 CCTGATGCACCTCTCACTATGAC 60.492 52.174 0.00 0.00 0.00 3.06
2456 2703 0.670854 GAGGCTGGTTCTTGTCGACC 60.671 60.000 14.12 0.00 36.45 4.79
2510 2757 9.696917 ATCAAGAAAGCTACAAACAAAAATAGG 57.303 29.630 0.00 0.00 0.00 2.57
2512 2759 9.959749 CAAGAAAGCTACAAACAAAAATAGGTA 57.040 29.630 0.00 0.00 0.00 3.08
2572 2819 7.567250 TGGGTCAAGGAGATCATACTATTTGTA 59.433 37.037 0.00 0.00 35.37 2.41
2613 2860 1.115467 AAGATGTCGAGCGATCCCTT 58.885 50.000 0.00 0.00 0.00 3.95
2656 2903 2.045926 AAGAGGAGCGGCGCAAAT 60.046 55.556 35.02 18.72 0.00 2.32
2674 2921 0.107017 ATAGCAGCGTCCAGGCAATT 60.107 50.000 0.00 0.00 34.64 2.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
180 183 6.779539 AGTGACATTTTCTCATTTTCCCTTCT 59.220 34.615 0.00 0.00 0.00 2.85
252 257 5.450412 CCGGTGGACTTTAATACGTTAGCTA 60.450 44.000 0.00 0.00 0.00 3.32
281 287 2.223688 CCTATGAGCACCTTCGAGAGTG 60.224 54.545 11.43 11.43 37.05 3.51
282 288 2.028130 CCTATGAGCACCTTCGAGAGT 58.972 52.381 0.00 0.00 0.00 3.24
288 294 0.761802 CTCCCCCTATGAGCACCTTC 59.238 60.000 0.00 0.00 0.00 3.46
309 315 0.041663 ATAAACGCACACACGCACAC 60.042 50.000 0.00 0.00 36.19 3.82
338 344 3.305110 CGCTCATACATACGTGCATACA 58.695 45.455 0.00 0.00 0.00 2.29
345 351 1.065102 ACGAAGCGCTCATACATACGT 59.935 47.619 12.06 9.87 0.00 3.57
385 392 4.877251 TCCGAATTTGGACTTTAATACGGG 59.123 41.667 10.65 0.00 37.69 5.28
465 682 6.294564 GGCATCAGTAAATACCGATAGACTGA 60.295 42.308 5.11 5.11 45.23 3.41
470 687 7.490962 TTTTGGCATCAGTAAATACCGATAG 57.509 36.000 0.00 0.00 0.00 2.08
541 758 7.671495 GGAACACTGCAATTCCATTTATTTT 57.329 32.000 15.79 0.00 43.40 1.82
598 815 5.461032 TTGGTGTTGCTAAAATAAGGTGG 57.539 39.130 0.00 0.00 0.00 4.61
624 841 5.320549 AGCACATGAGAAATTAAAGCCAG 57.679 39.130 0.00 0.00 0.00 4.85
647 864 7.402071 AGAATGTCCTAAGTCCTAACCACAATA 59.598 37.037 0.00 0.00 0.00 1.90
648 865 6.215636 AGAATGTCCTAAGTCCTAACCACAAT 59.784 38.462 0.00 0.00 0.00 2.71
649 866 5.546499 AGAATGTCCTAAGTCCTAACCACAA 59.454 40.000 0.00 0.00 0.00 3.33
650 867 5.046591 CAGAATGTCCTAAGTCCTAACCACA 60.047 44.000 0.00 0.00 0.00 4.17
651 868 5.420409 CAGAATGTCCTAAGTCCTAACCAC 58.580 45.833 0.00 0.00 0.00 4.16
681 901 0.608640 CTTACCGGCCACTTGAGACT 59.391 55.000 0.00 0.00 0.00 3.24
728 948 4.801581 GCTTGTACTGCCTTGTTGTAGGTA 60.802 45.833 0.00 0.00 37.63 3.08
758 978 2.592861 GGTCTGGGATCGCATGGC 60.593 66.667 13.45 8.82 0.00 4.40
842 1062 3.833545 ACGTTGCTAGACACTAGACAG 57.166 47.619 9.58 0.00 0.00 3.51
843 1063 3.566742 TGAACGTTGCTAGACACTAGACA 59.433 43.478 5.00 4.90 0.00 3.41
844 1064 4.156664 TGAACGTTGCTAGACACTAGAC 57.843 45.455 5.00 2.72 0.00 2.59
850 1070 3.554324 GTGAAGTTGAACGTTGCTAGACA 59.446 43.478 5.00 0.00 0.00 3.41
851 1071 3.361724 CGTGAAGTTGAACGTTGCTAGAC 60.362 47.826 5.00 0.00 35.13 2.59
924 1150 3.386726 CGGTGGAGGTGTGGATTTATAGA 59.613 47.826 0.00 0.00 0.00 1.98
995 1221 1.509644 CGCCATTGCTGCCATCGTAT 61.510 55.000 0.00 0.00 34.43 3.06
1008 1234 2.513897 GTAGCCGAAGCCGCCATT 60.514 61.111 0.00 0.00 41.25 3.16
1098 1324 4.778415 CAGCTGGACGACGACGGG 62.778 72.222 12.58 0.35 44.46 5.28
1354 1580 8.207545 AGAATTCCAGCTCTAAGTTATACCTTG 58.792 37.037 0.65 0.00 0.00 3.61
1355 1581 8.325477 AGAATTCCAGCTCTAAGTTATACCTT 57.675 34.615 0.65 0.00 0.00 3.50
1374 1603 6.713520 CACAAAGAGATCGAATGGAGAATTC 58.286 40.000 0.00 0.00 41.23 2.17
1376 1605 4.574013 GCACAAAGAGATCGAATGGAGAAT 59.426 41.667 0.00 0.00 0.00 2.40
1377 1606 3.935203 GCACAAAGAGATCGAATGGAGAA 59.065 43.478 0.00 0.00 0.00 2.87
1396 1628 3.248363 GGCTGAAGAAAACCATTTTGCAC 59.752 43.478 0.00 0.00 31.94 4.57
1406 1638 2.155279 GAGTCCCTGGCTGAAGAAAAC 58.845 52.381 0.00 0.00 0.00 2.43
1415 1647 0.106167 TATGTAGCGAGTCCCTGGCT 60.106 55.000 6.05 6.05 46.54 4.75
1424 1656 5.826586 AGAGACATTTCAGTATGTAGCGAG 58.173 41.667 0.00 0.00 38.80 5.03
1513 1750 1.153269 TTCACACTCGTGCTTGGCA 60.153 52.632 0.00 0.00 43.28 4.92
1561 1798 0.033366 CAGTGGTGTCATCGGTGTCA 59.967 55.000 0.00 0.00 0.00 3.58
1572 1809 1.666011 CGGCTGTAGTCAGTGGTGT 59.334 57.895 0.00 0.00 43.05 4.16
1583 1820 3.755628 GTCCTCGGTGCGGCTGTA 61.756 66.667 0.00 0.00 0.00 2.74
1597 1834 1.153349 GGATTCTGGCTGGTCGTCC 60.153 63.158 0.00 0.00 0.00 4.79
1601 1838 1.700042 ATCCCGGATTCTGGCTGGTC 61.700 60.000 0.73 0.00 0.00 4.02
1685 1922 4.923871 TCATTTCAGAACGCTAGAACTGTC 59.076 41.667 0.00 0.00 0.00 3.51
1706 1951 9.322773 CTAATTTGCAGAAAGTCTAGATGATCA 57.677 33.333 0.00 0.00 0.00 2.92
1711 1956 9.732130 AAACTCTAATTTGCAGAAAGTCTAGAT 57.268 29.630 0.00 0.00 0.00 1.98
1758 2003 2.519963 GCGCTAAGAAAAACATCAGGC 58.480 47.619 0.00 0.00 0.00 4.85
1762 2007 3.831715 ACAGGCGCTAAGAAAAACATC 57.168 42.857 7.64 0.00 0.00 3.06
1777 2022 2.409948 ATCCTCTTGCTGTTACAGGC 57.590 50.000 14.63 7.12 31.21 4.85
1778 2023 5.491982 ACTAAATCCTCTTGCTGTTACAGG 58.508 41.667 14.63 0.00 31.21 4.00
1802 2047 5.241506 GGATGAACAAATCACTCCTTCAACA 59.758 40.000 0.00 0.00 41.93 3.33
1814 2059 4.035675 GGAGAACATCCGGATGAACAAATC 59.964 45.833 43.42 29.17 41.20 2.17
1817 2062 2.985896 GGAGAACATCCGGATGAACAA 58.014 47.619 43.42 5.14 41.20 2.83
1858 2103 6.204882 ACGGAGAAGACATCGAAAAAGAATTT 59.795 34.615 0.00 0.00 42.41 1.82
1959 2205 9.978336 GGTACTCTACAATTACTCCCTAGATAT 57.022 37.037 0.00 0.00 0.00 1.63
1960 2206 8.952602 TGGTACTCTACAATTACTCCCTAGATA 58.047 37.037 0.00 0.00 0.00 1.98
1961 2207 7.724951 GTGGTACTCTACAATTACTCCCTAGAT 59.275 40.741 0.00 0.00 0.00 1.98
1962 2208 7.059156 GTGGTACTCTACAATTACTCCCTAGA 58.941 42.308 0.00 0.00 0.00 2.43
1963 2209 6.832384 TGTGGTACTCTACAATTACTCCCTAG 59.168 42.308 0.00 0.00 32.32 3.02
1976 2222 5.682943 TTTTGCACATTGTGGTACTCTAC 57.317 39.130 18.05 0.00 33.64 2.59
2048 2294 3.300009 CGCTGTTTTCCTGTAGCTTTTG 58.700 45.455 0.00 0.00 34.13 2.44
2053 2300 0.591170 TTGCGCTGTTTTCCTGTAGC 59.409 50.000 9.73 0.00 0.00 3.58
2059 2306 3.791353 GCTGTTATATTGCGCTGTTTTCC 59.209 43.478 9.73 0.00 0.00 3.13
2123 2370 4.407365 CAAGGTTTATCCCAGTTCTTGGT 58.593 43.478 0.00 0.00 46.25 3.67
2160 2407 3.064931 ACGTAAAACCAGAAGCTACAGC 58.935 45.455 0.00 0.00 42.49 4.40
2170 2417 6.202954 AGACAATCTTCAGAACGTAAAACCAG 59.797 38.462 0.00 0.00 0.00 4.00
2216 2463 7.602753 TGTGGGACATATTTCTATACTCGATG 58.397 38.462 0.00 0.00 44.52 3.84
2228 2475 7.658525 TTATGCATTTCTGTGGGACATATTT 57.341 32.000 3.54 0.00 44.52 1.40
2257 2504 4.058817 GGATTATTTCTTGACCGAGCGAT 58.941 43.478 0.00 0.00 0.00 4.58
2258 2505 3.132289 AGGATTATTTCTTGACCGAGCGA 59.868 43.478 0.00 0.00 0.00 4.93
2272 2519 3.057315 GTGGCAATATGCGCAGGATTATT 60.057 43.478 18.32 12.19 46.21 1.40
2333 2580 0.389025 CCGTTGCTTGGGCTTTCTTT 59.611 50.000 0.00 0.00 39.59 2.52
2346 2593 1.599542 GGTCTGCATTCTATCCGTTGC 59.400 52.381 0.00 0.00 35.67 4.17
2350 2597 1.875576 GCCTGGTCTGCATTCTATCCG 60.876 57.143 0.00 0.00 0.00 4.18
2356 2603 2.048603 GGTGGCCTGGTCTGCATTC 61.049 63.158 3.32 0.00 0.00 2.67
2425 2672 3.241530 AGCCTCCACCGCAGACAA 61.242 61.111 0.00 0.00 0.00 3.18
2456 2703 2.464459 GGCAATCCGGCTCAACGAG 61.464 63.158 0.00 0.00 37.17 4.18
2572 2819 0.329596 GGGGCTGTCAGATGTTCCTT 59.670 55.000 3.32 0.00 0.00 3.36
2613 2860 1.076485 GCTAGGAGGGACCGGTACA 60.076 63.158 21.02 0.00 44.74 2.90
2656 2903 0.539518 TAATTGCCTGGACGCTGCTA 59.460 50.000 0.00 0.00 0.00 3.49
2662 2909 4.804108 TCAATTTTGTAATTGCCTGGACG 58.196 39.130 0.00 0.00 46.61 4.79
2674 2921 6.263392 TGGACGAAGGATTGTTCAATTTTGTA 59.737 34.615 0.00 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.