Multiple sequence alignment - TraesCS2B01G321100

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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 TraesCS2B01G321100 chr2B 100.000 2291 0 0 1 2291 457685620 457683330 0.000000e+00 4231
1 TraesCS2B01G321100 chr2B 85.924 341 40 5 133 472 457685310 457684977 7.780000e-95 357
2 TraesCS2B01G321100 chr2B 85.924 341 40 5 311 644 457685488 457685149 7.780000e-95 357
3 TraesCS2B01G321100 chr2B 85.673 342 33 10 318 644 6713814 6714154 1.680000e-91 346
4 TraesCS2B01G321100 chr2B 89.286 140 12 2 496 632 6713820 6713959 3.030000e-39 172
5 TraesCS2B01G321100 chr2D 92.872 1894 71 19 1 1863 386586463 386584603 0.000000e+00 2691
6 TraesCS2B01G321100 chr2D 90.353 425 17 6 1867 2291 386584559 386584159 9.310000e-149 536
7 TraesCS2B01G321100 chr2D 85.882 340 40 5 308 640 386586334 386585996 2.800000e-94 355
8 TraesCS2B01G321100 chr2D 85.034 294 36 5 133 425 386586153 386585867 2.230000e-75 292
9 TraesCS2B01G321100 chr2D 87.162 148 16 2 500 644 4462994 4462847 5.060000e-37 165
10 TraesCS2B01G321100 chr2A 88.096 1907 172 27 1 1869 522845202 522843313 0.000000e+00 2213
11 TraesCS2B01G321100 chr2A 90.930 430 18 7 1867 2291 522843267 522842854 1.990000e-155 558
12 TraesCS2B01G321100 chr2A 87.143 350 41 3 121 468 522844904 522844557 5.930000e-106 394
13 TraesCS2B01G321100 chr2A 83.578 341 44 8 308 638 522845073 522844735 2.210000e-80 309


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 TraesCS2B01G321100 chr2B 457683330 457685620 2290 True 1648.333333 4231 90.61600 1 2291 3 chr2B.!!$R1 2290
1 TraesCS2B01G321100 chr2D 386584159 386586463 2304 True 968.500000 2691 88.53525 1 2291 4 chr2D.!!$R2 2290
2 TraesCS2B01G321100 chr2A 522842854 522845202 2348 True 868.500000 2213 87.43675 1 2291 4 chr2A.!!$R1 2290

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
144 145 0.247736 ACTGTAGCCCTTTCTGCTCG 59.752 55.0 0.00 0.00 40.23 5.03 F
1101 1169 0.180406 GTGGATTCCATGCTACCGGT 59.820 55.0 13.98 13.98 35.28 5.28 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1287 1355 0.179034 GAGGGGGCATGTAAGCTCAG 60.179 60.000 0.0 0.0 36.47 3.35 R
2076 2210 2.197324 GGTGGTTCTGGTGCCCAA 59.803 61.111 0.0 0.0 30.80 4.12 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
65 66 6.998673 TGTACTGCTAGTCTGCTCATCTATAA 59.001 38.462 0.00 0.00 0.00 0.98
138 139 4.575885 TGTTATGACACTGTAGCCCTTTC 58.424 43.478 0.00 0.00 0.00 2.62
144 145 0.247736 ACTGTAGCCCTTTCTGCTCG 59.752 55.000 0.00 0.00 40.23 5.03
244 246 1.520494 GTGATCATCATGCGAGCCAT 58.480 50.000 0.00 0.00 33.39 4.40
322 324 4.153655 GGTACTCTTAACCCTTTTTGCTCG 59.846 45.833 0.00 0.00 0.00 5.03
468 471 8.727910 CACACATACACTTTGAGACTAGTAGTA 58.272 37.037 1.88 0.00 0.00 1.82
494 497 7.822658 TGACATTATACTGTAACCCTTTTTGC 58.177 34.615 0.00 0.00 0.00 3.68
495 498 7.668052 TGACATTATACTGTAACCCTTTTTGCT 59.332 33.333 0.00 0.00 0.00 3.91
778 810 7.759489 TGTTTTGGACTTCTATTGCTGTTAT 57.241 32.000 0.00 0.00 0.00 1.89
865 897 7.152645 TGCTCGAAAATATCAGTAAGGATACC 58.847 38.462 0.00 0.00 32.88 2.73
948 981 4.269603 GTGACTGCAGCAATGTAGTATGAG 59.730 45.833 15.27 0.00 34.96 2.90
987 1035 4.036380 AGTTTGCTGTGGTAGTTTGTTAGC 59.964 41.667 0.00 0.00 0.00 3.09
988 1036 2.500229 TGCTGTGGTAGTTTGTTAGCC 58.500 47.619 0.00 0.00 0.00 3.93
1041 1109 7.993821 TTCTACATCTCTAAATTCGCTTCTG 57.006 36.000 0.00 0.00 0.00 3.02
1042 1110 5.980116 TCTACATCTCTAAATTCGCTTCTGC 59.020 40.000 0.00 0.00 0.00 4.26
1043 1111 4.764172 ACATCTCTAAATTCGCTTCTGCT 58.236 39.130 0.00 0.00 36.97 4.24
1044 1112 5.181748 ACATCTCTAAATTCGCTTCTGCTT 58.818 37.500 0.00 0.00 36.97 3.91
1045 1113 5.064452 ACATCTCTAAATTCGCTTCTGCTTG 59.936 40.000 0.00 0.00 36.97 4.01
1046 1114 3.372206 TCTCTAAATTCGCTTCTGCTTGC 59.628 43.478 0.00 0.00 36.97 4.01
1047 1115 3.338249 TCTAAATTCGCTTCTGCTTGCT 58.662 40.909 0.00 0.00 36.97 3.91
1048 1116 2.342910 AAATTCGCTTCTGCTTGCTG 57.657 45.000 0.00 0.00 36.97 4.41
1049 1117 1.527034 AATTCGCTTCTGCTTGCTGA 58.473 45.000 0.00 0.00 36.97 4.26
1050 1118 1.747709 ATTCGCTTCTGCTTGCTGAT 58.252 45.000 3.19 0.00 36.97 2.90
1051 1119 1.527034 TTCGCTTCTGCTTGCTGATT 58.473 45.000 3.19 0.00 36.97 2.57
1052 1120 2.385013 TCGCTTCTGCTTGCTGATTA 57.615 45.000 3.19 0.00 36.97 1.75
1053 1121 2.002586 TCGCTTCTGCTTGCTGATTAC 58.997 47.619 3.19 0.00 36.97 1.89
1054 1122 2.005451 CGCTTCTGCTTGCTGATTACT 58.995 47.619 3.19 0.00 36.97 2.24
1055 1123 2.417933 CGCTTCTGCTTGCTGATTACTT 59.582 45.455 3.19 0.00 36.97 2.24
1056 1124 3.727079 CGCTTCTGCTTGCTGATTACTTG 60.727 47.826 3.19 0.00 36.97 3.16
1057 1125 3.756069 CTTCTGCTTGCTGATTACTTGC 58.244 45.455 3.19 0.00 0.00 4.01
1058 1126 3.063510 TCTGCTTGCTGATTACTTGCT 57.936 42.857 0.00 0.00 0.00 3.91
1059 1127 3.005554 TCTGCTTGCTGATTACTTGCTC 58.994 45.455 0.00 0.00 0.00 4.26
1060 1128 3.008330 CTGCTTGCTGATTACTTGCTCT 58.992 45.455 0.00 0.00 0.00 4.09
1101 1169 0.180406 GTGGATTCCATGCTACCGGT 59.820 55.000 13.98 13.98 35.28 5.28
1122 1190 1.211457 GTGAAGAGGATGTCAGGGCAT 59.789 52.381 0.00 0.00 0.00 4.40
1221 1289 2.925170 ACTTCGGTGCTGGGAGCT 60.925 61.111 0.00 0.00 42.97 4.09
1284 1352 2.072298 CAGCAAAAGAAGACCTCCTCG 58.928 52.381 0.00 0.00 0.00 4.63
1287 1355 0.325272 AAAAGAAGACCTCCTCGGGC 59.675 55.000 0.00 0.00 43.35 6.13
1294 1362 3.080121 CCTCCTCGGGCTGAGCTT 61.080 66.667 18.14 0.00 43.82 3.74
1299 1367 0.531532 CCTCGGGCTGAGCTTACATG 60.532 60.000 18.14 0.00 43.82 3.21
1303 1371 1.825622 GGCTGAGCTTACATGCCCC 60.826 63.158 3.72 0.00 37.81 5.80
1305 1373 1.918253 CTGAGCTTACATGCCCCCT 59.082 57.895 0.00 0.00 0.00 4.79
1307 1375 1.149401 GAGCTTACATGCCCCCTCC 59.851 63.158 0.00 0.00 0.00 4.30
1308 1376 2.195956 GCTTACATGCCCCCTCCC 59.804 66.667 0.00 0.00 0.00 4.30
1309 1377 2.386935 GCTTACATGCCCCCTCCCT 61.387 63.158 0.00 0.00 0.00 4.20
1320 1388 3.324713 CCTCCCTGGGCCTACTTG 58.675 66.667 8.22 0.00 0.00 3.16
1326 1394 0.625849 CCTGGGCCTACTTGTTGGAT 59.374 55.000 4.53 0.00 0.00 3.41
1372 1441 0.312102 GCCAAAGCTGTCACTTCACC 59.688 55.000 0.00 0.00 35.50 4.02
1374 1443 2.301346 CCAAAGCTGTCACTTCACCTT 58.699 47.619 0.00 0.00 0.00 3.50
1550 1621 0.397941 TCCTCTTGGCACCTGTTGAG 59.602 55.000 0.00 0.00 0.00 3.02
1608 1679 8.846943 TGTCAGATAATGATTGTGTAGTTTGT 57.153 30.769 0.00 0.00 40.92 2.83
1632 1709 4.621068 TTATCTGGCGAAAATTGCTCAG 57.379 40.909 0.00 0.00 34.20 3.35
1656 1733 5.426689 TCATGTCTGATGGATTATAGCCC 57.573 43.478 0.00 0.00 0.00 5.19
1662 1739 5.940470 GTCTGATGGATTATAGCCCGAAATT 59.060 40.000 0.00 0.00 0.00 1.82
1675 1752 3.672241 GCCCGAAATTGCGAAGTGTAAAT 60.672 43.478 7.61 0.00 0.00 1.40
1676 1753 4.095610 CCCGAAATTGCGAAGTGTAAATC 58.904 43.478 7.61 0.00 0.00 2.17
1679 1756 5.382303 CGAAATTGCGAAGTGTAAATCTGT 58.618 37.500 0.00 0.00 0.00 3.41
1708 1785 3.669023 GCGAAAGAGGCAGATTCAAACTG 60.669 47.826 0.00 0.00 38.27 3.16
1710 1787 4.023707 CGAAAGAGGCAGATTCAAACTGTT 60.024 41.667 0.00 0.00 37.64 3.16
1711 1788 5.506317 CGAAAGAGGCAGATTCAAACTGTTT 60.506 40.000 0.00 0.00 37.64 2.83
1713 1790 6.959639 AAGAGGCAGATTCAAACTGTTTAA 57.040 33.333 5.31 2.17 37.64 1.52
1715 1792 6.917533 AGAGGCAGATTCAAACTGTTTAATG 58.082 36.000 5.31 2.47 37.64 1.90
1717 1794 7.014615 AGAGGCAGATTCAAACTGTTTAATGTT 59.985 33.333 5.31 0.00 37.64 2.71
1718 1795 7.147976 AGGCAGATTCAAACTGTTTAATGTTC 58.852 34.615 5.31 0.15 37.64 3.18
1719 1796 6.088085 GGCAGATTCAAACTGTTTAATGTTCG 59.912 38.462 5.31 0.00 37.64 3.95
1724 1802 5.031578 TCAAACTGTTTAATGTTCGTGTGC 58.968 37.500 5.31 0.00 0.00 4.57
1741 1819 3.058501 GTGTGCTTGTGTGGTGGTATAAC 60.059 47.826 0.00 0.00 0.00 1.89
1742 1820 3.181449 TGTGCTTGTGTGGTGGTATAACT 60.181 43.478 0.00 0.00 0.00 2.24
1743 1821 4.040584 TGTGCTTGTGTGGTGGTATAACTA 59.959 41.667 0.00 0.00 0.00 2.24
1744 1822 4.998672 GTGCTTGTGTGGTGGTATAACTAA 59.001 41.667 0.00 0.00 0.00 2.24
1747 1825 5.488341 CTTGTGTGGTGGTATAACTAAGCT 58.512 41.667 0.00 0.00 0.00 3.74
1748 1826 5.492855 TGTGTGGTGGTATAACTAAGCTT 57.507 39.130 3.48 3.48 0.00 3.74
1749 1827 6.608539 TGTGTGGTGGTATAACTAAGCTTA 57.391 37.500 5.94 5.94 0.00 3.09
1751 1829 8.308851 TGTGTGGTGGTATAACTAAGCTTATA 57.691 34.615 6.64 0.00 0.00 0.98
1752 1830 8.199449 TGTGTGGTGGTATAACTAAGCTTATAC 58.801 37.037 6.64 7.53 38.25 1.47
1753 1831 8.419442 GTGTGGTGGTATAACTAAGCTTATACT 58.581 37.037 6.64 0.00 38.70 2.12
1754 1832 8.984855 TGTGGTGGTATAACTAAGCTTATACTT 58.015 33.333 6.64 1.93 38.70 2.24
1755 1833 9.828039 GTGGTGGTATAACTAAGCTTATACTTT 57.172 33.333 6.64 1.35 38.70 2.66
1768 1846 6.954232 AGCTTATACTTTGGCTTGGTACTTA 58.046 36.000 0.00 0.00 0.00 2.24
1774 1852 2.032680 TGGCTTGGTACTTATTCGCC 57.967 50.000 0.00 0.00 36.64 5.54
1775 1853 0.935196 GGCTTGGTACTTATTCGCCG 59.065 55.000 0.00 0.00 0.00 6.46
1780 1858 3.088194 TGGTACTTATTCGCCGATGTC 57.912 47.619 0.00 0.00 0.00 3.06
1787 1865 0.389391 ATTCGCCGATGTCCTACTGG 59.611 55.000 0.00 0.00 0.00 4.00
1795 1873 3.070159 CCGATGTCCTACTGGTGATGAAT 59.930 47.826 0.00 0.00 34.23 2.57
1803 1881 8.956426 TGTCCTACTGGTGATGAATTTTTAATC 58.044 33.333 0.00 0.00 34.23 1.75
1821 1901 9.598517 TTTTTAATCTTGTTTTTGAGCATGAGT 57.401 25.926 0.00 0.00 0.00 3.41
1840 1922 8.292448 GCATGAGTATTTATAATCCAACTGGTG 58.708 37.037 0.00 0.00 36.34 4.17
1843 1925 7.715249 TGAGTATTTATAATCCAACTGGTGAGC 59.285 37.037 0.00 0.00 36.34 4.26
1852 1934 2.615493 CCAACTGGTGAGCGAGGTAAAT 60.615 50.000 0.00 0.00 0.00 1.40
1864 1946 3.873952 GCGAGGTAAATCATGAGAGCTTT 59.126 43.478 0.09 0.00 0.00 3.51
1884 2014 5.567423 GCTTTGGTAGATGTTTCATTTGGCT 60.567 40.000 0.00 0.00 0.00 4.75
1906 2036 1.825191 CAGCGTACTACGGGGCCTA 60.825 63.158 10.54 0.00 42.82 3.93
1907 2037 1.527844 AGCGTACTACGGGGCCTAG 60.528 63.158 10.54 0.01 42.82 3.02
1908 2038 1.825622 GCGTACTACGGGGCCTAGT 60.826 63.158 10.54 7.12 42.82 2.57
1909 2039 0.535102 GCGTACTACGGGGCCTAGTA 60.535 60.000 10.54 6.01 42.82 1.82
1944 2074 3.550437 ACCCATTTCGAGATCAGGAAG 57.450 47.619 8.18 0.00 0.00 3.46
1946 2076 2.486191 CCCATTTCGAGATCAGGAAGGG 60.486 54.545 6.09 6.09 0.00 3.95
1947 2077 2.486191 CCATTTCGAGATCAGGAAGGGG 60.486 54.545 5.35 4.90 0.00 4.79
2076 2210 3.300388 TCAAGACAGACAGACAGTTCCT 58.700 45.455 0.00 0.00 0.00 3.36
2155 2291 4.247380 GCCATGGCTCCTCCTCCG 62.247 72.222 29.98 0.00 38.26 4.63
2185 2321 1.106944 CGCTTCCTCTCCTCCTCCTC 61.107 65.000 0.00 0.00 0.00 3.71
2187 2323 0.933700 CTTCCTCTCCTCCTCCTCCT 59.066 60.000 0.00 0.00 0.00 3.69
2192 2328 0.996762 TCTCCTCCTCCTCCTCCTCC 60.997 65.000 0.00 0.00 0.00 4.30
2193 2329 2.015726 TCCTCCTCCTCCTCCTCCC 61.016 68.421 0.00 0.00 0.00 4.30
2194 2330 2.197324 CTCCTCCTCCTCCTCCCG 59.803 72.222 0.00 0.00 0.00 5.14
2221 2357 4.893601 GCGCCCTTCTCCGCTACC 62.894 72.222 0.00 0.00 46.14 3.18
2222 2358 4.570663 CGCCCTTCTCCGCTACCG 62.571 72.222 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
65 66 2.625790 CGGGCTAGATCTAGTTTCAGCT 59.374 50.000 26.73 0.00 35.65 4.24
131 132 0.246635 TACAGACGAGCAGAAAGGGC 59.753 55.000 0.00 0.00 0.00 5.19
138 139 6.638873 CCAAGTATTAGAATACAGACGAGCAG 59.361 42.308 13.48 0.00 42.87 4.24
144 145 7.868415 CAGCCTACCAAGTATTAGAATACAGAC 59.132 40.741 13.48 0.00 42.87 3.51
322 324 5.368989 CCTACCAAGAATTAGGACATGGAC 58.631 45.833 0.00 0.00 37.64 4.02
468 471 8.466798 GCAAAAAGGGTTACAGTATAATGTCAT 58.533 33.333 9.45 0.00 34.56 3.06
494 497 5.615289 CCTACCAAGAATTAGGACATGGAG 58.385 45.833 0.00 0.00 37.64 3.86
495 498 4.141482 GCCTACCAAGAATTAGGACATGGA 60.141 45.833 0.00 0.00 37.64 3.41
865 897 2.642139 ATGCCAAGAATTCTGCGTTG 57.358 45.000 9.17 3.22 0.00 4.10
948 981 7.166473 CACAGCAAACTTCACTTCTTTACATTC 59.834 37.037 0.00 0.00 0.00 2.67
987 1035 0.107017 AGCTCATTCAATCCCCACGG 60.107 55.000 0.00 0.00 0.00 4.94
988 1036 1.019673 CAGCTCATTCAATCCCCACG 58.980 55.000 0.00 0.00 0.00 4.94
1041 1109 4.164294 CAAAGAGCAAGTAATCAGCAAGC 58.836 43.478 0.00 0.00 0.00 4.01
1042 1110 5.152097 CACAAAGAGCAAGTAATCAGCAAG 58.848 41.667 0.00 0.00 0.00 4.01
1043 1111 4.580167 ACACAAAGAGCAAGTAATCAGCAA 59.420 37.500 0.00 0.00 0.00 3.91
1044 1112 4.023792 CACACAAAGAGCAAGTAATCAGCA 60.024 41.667 0.00 0.00 0.00 4.41
1045 1113 4.023707 ACACACAAAGAGCAAGTAATCAGC 60.024 41.667 0.00 0.00 0.00 4.26
1046 1114 5.446709 CACACACAAAGAGCAAGTAATCAG 58.553 41.667 0.00 0.00 0.00 2.90
1047 1115 4.261155 GCACACACAAAGAGCAAGTAATCA 60.261 41.667 0.00 0.00 0.00 2.57
1048 1116 4.222114 GCACACACAAAGAGCAAGTAATC 58.778 43.478 0.00 0.00 0.00 1.75
1049 1117 3.631686 TGCACACACAAAGAGCAAGTAAT 59.368 39.130 0.00 0.00 31.42 1.89
1050 1118 3.013219 TGCACACACAAAGAGCAAGTAA 58.987 40.909 0.00 0.00 31.42 2.24
1051 1119 2.637947 TGCACACACAAAGAGCAAGTA 58.362 42.857 0.00 0.00 31.42 2.24
1052 1120 1.462616 TGCACACACAAAGAGCAAGT 58.537 45.000 0.00 0.00 31.42 3.16
1053 1121 2.033675 TGATGCACACACAAAGAGCAAG 59.966 45.455 0.00 0.00 38.85 4.01
1054 1122 2.022934 TGATGCACACACAAAGAGCAA 58.977 42.857 0.00 0.00 38.85 3.91
1055 1123 1.605232 CTGATGCACACACAAAGAGCA 59.395 47.619 0.00 0.00 39.79 4.26
1056 1124 1.665161 GCTGATGCACACACAAAGAGC 60.665 52.381 0.00 0.00 39.41 4.09
1057 1125 1.878088 AGCTGATGCACACACAAAGAG 59.122 47.619 0.00 0.00 42.74 2.85
1058 1126 1.971481 AGCTGATGCACACACAAAGA 58.029 45.000 0.00 0.00 42.74 2.52
1059 1127 2.033675 TGAAGCTGATGCACACACAAAG 59.966 45.455 0.00 0.00 42.74 2.77
1060 1128 2.022934 TGAAGCTGATGCACACACAAA 58.977 42.857 0.00 0.00 42.74 2.83
1101 1169 0.615331 GCCCTGACATCCTCTTCACA 59.385 55.000 0.00 0.00 0.00 3.58
1221 1289 1.202710 ACACCGACACCAATGCTTACA 60.203 47.619 0.00 0.00 0.00 2.41
1284 1352 3.833304 GGCATGTAAGCTCAGCCC 58.167 61.111 0.00 0.00 39.42 5.19
1287 1355 0.179034 GAGGGGGCATGTAAGCTCAG 60.179 60.000 0.00 0.00 36.47 3.35
1294 1362 2.368192 CCAGGGAGGGGGCATGTA 60.368 66.667 0.00 0.00 0.00 2.29
1303 1371 1.208165 AACAAGTAGGCCCAGGGAGG 61.208 60.000 10.89 0.00 37.03 4.30
1305 1373 1.497309 CCAACAAGTAGGCCCAGGGA 61.497 60.000 10.89 0.00 0.00 4.20
1307 1375 0.625849 ATCCAACAAGTAGGCCCAGG 59.374 55.000 0.00 0.00 0.00 4.45
1308 1376 1.561542 AGATCCAACAAGTAGGCCCAG 59.438 52.381 0.00 0.00 0.00 4.45
1309 1377 1.668826 AGATCCAACAAGTAGGCCCA 58.331 50.000 0.00 0.00 0.00 5.36
1372 1441 7.230466 AGTAACACGAAACAACAAGAGTAAG 57.770 36.000 0.00 0.00 0.00 2.34
1374 1443 5.750067 GGAGTAACACGAAACAACAAGAGTA 59.250 40.000 0.00 0.00 0.00 2.59
1550 1621 2.904664 GCAAAGTGCAAAAGAGGCC 58.095 52.632 0.00 0.00 44.26 5.19
1572 1643 8.805688 CAATCATTATCTGACAGCATATAGACG 58.194 37.037 0.00 0.00 36.48 4.18
1573 1644 9.650539 ACAATCATTATCTGACAGCATATAGAC 57.349 33.333 0.00 0.00 36.48 2.59
1575 1646 9.433153 ACACAATCATTATCTGACAGCATATAG 57.567 33.333 0.00 0.00 36.48 1.31
1608 1679 6.542005 TCTGAGCAATTTTCGCCAGATAATAA 59.458 34.615 0.00 0.00 34.14 1.40
1632 1709 6.054295 GGGCTATAATCCATCAGACATGATC 58.946 44.000 0.00 0.00 44.58 2.92
1650 1727 1.670811 CACTTCGCAATTTCGGGCTAT 59.329 47.619 0.00 0.00 0.00 2.97
1652 1729 0.889186 ACACTTCGCAATTTCGGGCT 60.889 50.000 0.00 0.00 0.00 5.19
1656 1733 5.382303 ACAGATTTACACTTCGCAATTTCG 58.618 37.500 0.00 0.00 0.00 3.46
1662 1739 5.580691 CCATCTTACAGATTTACACTTCGCA 59.419 40.000 0.00 0.00 31.32 5.10
1675 1752 2.418746 GCCTCTTTCGCCATCTTACAGA 60.419 50.000 0.00 0.00 0.00 3.41
1676 1753 1.936547 GCCTCTTTCGCCATCTTACAG 59.063 52.381 0.00 0.00 0.00 2.74
1679 1756 1.831106 TCTGCCTCTTTCGCCATCTTA 59.169 47.619 0.00 0.00 0.00 2.10
1708 1785 4.204168 CACACAAGCACACGAACATTAAAC 59.796 41.667 0.00 0.00 0.00 2.01
1710 1787 3.242903 CCACACAAGCACACGAACATTAA 60.243 43.478 0.00 0.00 0.00 1.40
1711 1788 2.289274 CCACACAAGCACACGAACATTA 59.711 45.455 0.00 0.00 0.00 1.90
1713 1790 0.662619 CCACACAAGCACACGAACAT 59.337 50.000 0.00 0.00 0.00 2.71
1715 1792 0.248054 CACCACACAAGCACACGAAC 60.248 55.000 0.00 0.00 0.00 3.95
1717 1794 1.817520 CCACCACACAAGCACACGA 60.818 57.895 0.00 0.00 0.00 4.35
1718 1795 0.812014 TACCACCACACAAGCACACG 60.812 55.000 0.00 0.00 0.00 4.49
1719 1796 1.604604 ATACCACCACACAAGCACAC 58.395 50.000 0.00 0.00 0.00 3.82
1724 1802 5.488341 AGCTTAGTTATACCACCACACAAG 58.512 41.667 0.00 0.00 0.00 3.16
1741 1819 7.048512 AGTACCAAGCCAAAGTATAAGCTTAG 58.951 38.462 12.54 0.00 43.45 2.18
1742 1820 6.954232 AGTACCAAGCCAAAGTATAAGCTTA 58.046 36.000 8.99 8.99 43.45 3.09
1743 1821 5.816682 AGTACCAAGCCAAAGTATAAGCTT 58.183 37.500 3.48 3.48 46.10 3.74
1744 1822 5.437191 AGTACCAAGCCAAAGTATAAGCT 57.563 39.130 0.00 0.00 37.10 3.74
1747 1825 7.011669 GCGAATAAGTACCAAGCCAAAGTATAA 59.988 37.037 0.00 0.00 0.00 0.98
1748 1826 6.480981 GCGAATAAGTACCAAGCCAAAGTATA 59.519 38.462 0.00 0.00 0.00 1.47
1749 1827 5.296035 GCGAATAAGTACCAAGCCAAAGTAT 59.704 40.000 0.00 0.00 0.00 2.12
1751 1829 3.439129 GCGAATAAGTACCAAGCCAAAGT 59.561 43.478 0.00 0.00 0.00 2.66
1752 1830 3.181500 GGCGAATAAGTACCAAGCCAAAG 60.181 47.826 0.00 0.00 42.37 2.77
1753 1831 2.750712 GGCGAATAAGTACCAAGCCAAA 59.249 45.455 0.00 0.00 42.37 3.28
1754 1832 2.361789 GGCGAATAAGTACCAAGCCAA 58.638 47.619 0.00 0.00 42.37 4.52
1755 1833 1.741055 CGGCGAATAAGTACCAAGCCA 60.741 52.381 0.00 0.00 42.90 4.75
1768 1846 0.389391 CCAGTAGGACATCGGCGAAT 59.611 55.000 15.93 4.92 36.89 3.34
1774 1852 3.801114 TTCATCACCAGTAGGACATCG 57.199 47.619 0.00 0.00 38.69 3.84
1775 1853 7.396540 AAAAATTCATCACCAGTAGGACATC 57.603 36.000 0.00 0.00 38.69 3.06
1780 1858 9.793252 CAAGATTAAAAATTCATCACCAGTAGG 57.207 33.333 0.00 0.00 42.21 3.18
1795 1873 9.598517 ACTCATGCTCAAAAACAAGATTAAAAA 57.401 25.926 0.00 0.00 0.00 1.94
1820 1900 6.704493 TCGCTCACCAGTTGGATTATAAATAC 59.296 38.462 4.92 0.00 38.94 1.89
1821 1901 6.822442 TCGCTCACCAGTTGGATTATAAATA 58.178 36.000 4.92 0.00 38.94 1.40
1822 1902 5.680619 TCGCTCACCAGTTGGATTATAAAT 58.319 37.500 4.92 0.00 38.94 1.40
1831 1913 0.320374 TTACCTCGCTCACCAGTTGG 59.680 55.000 0.00 0.00 42.17 3.77
1835 1917 2.672961 TGATTTACCTCGCTCACCAG 57.327 50.000 0.00 0.00 0.00 4.00
1840 1922 3.056304 GCTCTCATGATTTACCTCGCTC 58.944 50.000 0.00 0.00 0.00 5.03
1843 1925 4.272018 CCAAAGCTCTCATGATTTACCTCG 59.728 45.833 0.00 0.00 0.00 4.63
1852 1934 5.426689 AACATCTACCAAAGCTCTCATGA 57.573 39.130 0.00 0.00 0.00 3.07
1864 1946 5.782047 CAAAGCCAAATGAAACATCTACCA 58.218 37.500 0.00 0.00 0.00 3.25
1884 2014 1.079681 CCCCGTAGTACGCTGCAAA 60.080 57.895 17.33 0.00 40.91 3.68
1893 2023 3.380471 TGTTTACTAGGCCCCGTAGTA 57.620 47.619 0.00 2.23 32.81 1.82
1906 2036 4.993028 TGGGTAGGAGCAATTTGTTTACT 58.007 39.130 0.00 0.00 0.00 2.24
1907 2037 5.914898 ATGGGTAGGAGCAATTTGTTTAC 57.085 39.130 0.00 0.00 0.00 2.01
1908 2038 6.349777 CGAAATGGGTAGGAGCAATTTGTTTA 60.350 38.462 0.00 0.00 0.00 2.01
1909 2039 5.566627 CGAAATGGGTAGGAGCAATTTGTTT 60.567 40.000 0.00 0.00 0.00 2.83
2076 2210 2.197324 GGTGGTTCTGGTGCCCAA 59.803 61.111 0.00 0.00 30.80 4.12
2207 2343 4.222847 GGCGGTAGCGGAGAAGGG 62.223 72.222 17.08 0.00 46.35 3.95


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

AutoCloner maintained by Alex Coulton.