Multiple sequence alignment - TraesCS4B01G279200

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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 TraesCS4B01G279200 chr4B 100.000 2222 0 0 1 2222 562426383 562424162 0.000000e+00 4104.0
1 TraesCS4B01G279200 chr4B 83.513 279 40 3 947 1219 562419393 562419115 2.830000e-64 255.0
2 TraesCS4B01G279200 chr4D 91.593 1582 87 22 1 1565 449860922 449859370 0.000000e+00 2143.0
3 TraesCS4B01G279200 chr4D 90.485 557 46 6 1669 2222 449859288 449858736 0.000000e+00 728.0
4 TraesCS4B01G279200 chr4D 78.227 767 85 49 688 1418 449887810 449887090 1.230000e-112 416.0
5 TraesCS4B01G279200 chr4D 83.492 315 47 3 945 1257 449739453 449739142 2.790000e-74 289.0
6 TraesCS4B01G279200 chr4D 78.163 490 76 22 798 1266 449854569 449854090 1.300000e-72 283.0
7 TraesCS4B01G279200 chr4A 88.547 1266 68 31 80 1312 17027625 17028846 0.000000e+00 1463.0
8 TraesCS4B01G279200 chr4A 77.917 720 92 46 680 1376 17018018 17018693 9.620000e-104 387.0
9 TraesCS4B01G279200 chr4A 79.789 475 71 18 798 1259 17256411 17256873 2.750000e-84 322.0
10 TraesCS4B01G279200 chr4A 82.111 341 53 6 947 1282 17032577 17032914 3.610000e-73 285.0
11 TraesCS4B01G279200 chr4A 95.385 65 2 1 1 64 17027508 17027572 3.900000e-18 102.0
12 TraesCS4B01G279200 chr1D 78.453 181 28 8 262 442 244361391 244361560 8.390000e-20 108.0
13 TraesCS4B01G279200 chr7B 80.952 126 18 2 242 362 696953602 696953726 6.530000e-16 95.3
14 TraesCS4B01G279200 chr7B 91.176 68 6 0 1615 1682 745790903 745790970 2.350000e-15 93.5
15 TraesCS4B01G279200 chr2B 96.429 56 2 0 1615 1670 654957608 654957663 2.350000e-15 93.5
16 TraesCS4B01G279200 chr1B 92.308 65 5 0 1615 1679 563743774 563743710 2.350000e-15 93.5
17 TraesCS4B01G279200 chr5B 91.045 67 5 1 1615 1681 680452066 680452001 3.040000e-14 89.8
18 TraesCS4B01G279200 chr5B 90.769 65 6 0 1615 1679 345054248 345054312 1.090000e-13 87.9
19 TraesCS4B01G279200 chr2A 89.855 69 7 0 1615 1683 74146293 74146225 3.040000e-14 89.8
20 TraesCS4B01G279200 chr2A 89.855 69 6 1 1615 1682 84978147 84978215 1.090000e-13 87.9
21 TraesCS4B01G279200 chr6D 89.855 69 6 1 1615 1682 409287184 409287116 1.090000e-13 87.9
22 TraesCS4B01G279200 chr1A 89.706 68 7 0 1615 1682 566105425 566105358 1.090000e-13 87.9


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 TraesCS4B01G279200 chr4B 562424162 562426383 2221 True 4104.000000 4104 100.000 1 2222 1 chr4B.!!$R2 2221
1 TraesCS4B01G279200 chr4D 449858736 449860922 2186 True 1435.500000 2143 91.039 1 2222 2 chr4D.!!$R4 2221
2 TraesCS4B01G279200 chr4D 449887090 449887810 720 True 416.000000 416 78.227 688 1418 1 chr4D.!!$R3 730
3 TraesCS4B01G279200 chr4A 17027508 17032914 5406 False 616.666667 1463 88.681 1 1312 3 chr4A.!!$F3 1311
4 TraesCS4B01G279200 chr4A 17018018 17018693 675 False 387.000000 387 77.917 680 1376 1 chr4A.!!$F1 696

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
447 496 0.322008 CAGGCTCCCCAAGAGAACAC 60.322 60.0 0.0 0.0 46.5 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1727 2007 1.153549 GAGTTAGGGGCGCTCACAG 60.154 63.158 10.74 0.0 0.0 3.66 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
64 66 6.447162 GGGTAAAACTGGAATTTCACTCTTG 58.553 40.000 0.00 0.00 0.00 3.02
65 67 6.447162 GGTAAAACTGGAATTTCACTCTTGG 58.553 40.000 0.00 0.00 0.00 3.61
66 68 6.264518 GGTAAAACTGGAATTTCACTCTTGGA 59.735 38.462 0.00 0.00 0.00 3.53
67 69 6.790232 AAAACTGGAATTTCACTCTTGGAA 57.210 33.333 0.00 0.00 0.00 3.53
68 70 6.790232 AAACTGGAATTTCACTCTTGGAAA 57.210 33.333 0.00 0.00 38.49 3.13
137 177 6.029607 GCATGTGATTGGTAATGTACACTTG 58.970 40.000 0.00 0.00 36.88 3.16
138 178 5.621197 TGTGATTGGTAATGTACACTTGC 57.379 39.130 0.00 0.00 0.00 4.01
185 225 7.966246 TTAGACTGCGGTTTTTGATAAGTAA 57.034 32.000 0.00 0.00 0.00 2.24
206 247 3.884704 TTGCCAGCTCCCCGCAAAT 62.885 57.895 4.93 0.00 39.43 2.32
391 439 2.699954 ACCAATAAGGAGCAGTTCACG 58.300 47.619 0.00 0.00 41.22 4.35
393 441 2.932614 CCAATAAGGAGCAGTTCACGAG 59.067 50.000 0.00 0.00 41.22 4.18
447 496 0.322008 CAGGCTCCCCAAGAGAACAC 60.322 60.000 0.00 0.00 46.50 3.32
602 657 6.808212 TGTACGTAGCCTAATTTGAACACTAC 59.192 38.462 0.00 0.00 0.00 2.73
603 658 5.371344 CGTAGCCTAATTTGAACACTACG 57.629 43.478 0.00 0.00 43.45 3.51
604 659 4.860907 CGTAGCCTAATTTGAACACTACGT 59.139 41.667 10.56 0.00 43.77 3.57
605 660 6.029607 CGTAGCCTAATTTGAACACTACGTA 58.970 40.000 10.56 0.00 43.77 3.57
707 778 3.430453 CTGGACCAGGGAAAATTAAGCA 58.570 45.455 14.26 0.00 0.00 3.91
793 866 0.693049 TTCTCCTTCAACCCTGAGGC 59.307 55.000 0.00 0.00 36.11 4.70
794 867 1.078848 CTCCTTCAACCCTGAGGCG 60.079 63.158 0.00 0.00 36.11 5.52
795 868 2.747855 CCTTCAACCCTGAGGCGC 60.748 66.667 0.00 0.00 36.11 6.53
796 869 2.032528 CTTCAACCCTGAGGCGCA 59.967 61.111 10.83 0.00 36.11 6.09
890 975 1.592669 CCATCACTCCATCCGACGC 60.593 63.158 0.00 0.00 0.00 5.19
896 981 1.138036 CTCCATCCGACGCACGTAA 59.862 57.895 0.00 0.00 40.78 3.18
903 988 1.266089 CGACGCACGTAAATCTCGC 59.734 57.895 0.00 0.00 37.22 5.03
918 1014 2.582052 TCTCGCCCTGTTGAAACATTT 58.418 42.857 0.00 0.00 38.41 2.32
932 1030 4.100653 TGAAACATTTGCTCAACCAATCCA 59.899 37.500 0.00 0.00 0.00 3.41
969 1067 4.828387 ACTCCGAGACTCAGAAGTTAAACT 59.172 41.667 1.33 0.00 35.28 2.66
1062 1160 4.634703 AACGTGGTCATGGCGGCA 62.635 61.111 16.34 16.34 0.00 5.69
1312 1463 8.017373 TCGTGTTCATTGATTCATTCTTTCTTC 58.983 33.333 0.00 0.00 0.00 2.87
1382 1538 8.817100 AGCAGTTCAAATTTTAGTTAGTTTTGC 58.183 29.630 0.00 0.00 0.00 3.68
1383 1539 7.787480 GCAGTTCAAATTTTAGTTAGTTTTGCG 59.213 33.333 0.00 0.00 0.00 4.85
1433 1591 5.105473 ACGTAGGTCATGTAACTATGCTGTT 60.105 40.000 8.49 0.00 0.00 3.16
1538 1780 8.505625 TGTTACACAAAACGATTATAGGTTTCC 58.494 33.333 0.00 0.00 35.44 3.13
1590 1870 1.299541 CCACCGTTGACTGATATGCC 58.700 55.000 0.00 0.00 0.00 4.40
1606 1886 6.170506 TGATATGCCGGATGAAGTTTATACC 58.829 40.000 5.05 0.00 0.00 2.73
1611 1891 4.500375 GCCGGATGAAGTTTATACCGTACT 60.500 45.833 5.05 0.00 38.92 2.73
1612 1892 5.278463 GCCGGATGAAGTTTATACCGTACTA 60.278 44.000 5.05 0.00 38.92 1.82
1613 1893 6.376978 CCGGATGAAGTTTATACCGTACTAG 58.623 44.000 0.00 0.00 38.92 2.57
1614 1894 6.016777 CCGGATGAAGTTTATACCGTACTAGT 60.017 42.308 0.00 0.00 38.92 2.57
1615 1895 7.173218 CCGGATGAAGTTTATACCGTACTAGTA 59.827 40.741 0.00 0.00 38.92 1.82
1616 1896 8.226448 CGGATGAAGTTTATACCGTACTAGTAG 58.774 40.741 1.87 0.00 36.38 2.57
1617 1897 9.277783 GGATGAAGTTTATACCGTACTAGTAGA 57.722 37.037 1.87 0.00 0.00 2.59
1658 1938 9.443323 TCTATTTTGATGACAAGTATTTTCGGA 57.557 29.630 0.00 0.00 37.32 4.55
1659 1939 9.490663 CTATTTTGATGACAAGTATTTTCGGAC 57.509 33.333 0.00 0.00 37.32 4.79
1660 1940 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
1661 1941 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
1662 1942 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
1663 1943 3.992643 TGACAAGTATTTTCGGACGGAA 58.007 40.909 0.00 0.00 0.00 4.30
1664 1944 4.571919 TGACAAGTATTTTCGGACGGAAT 58.428 39.130 0.00 0.00 33.85 3.01
1665 1945 4.390603 TGACAAGTATTTTCGGACGGAATG 59.609 41.667 0.00 0.00 33.85 2.67
1666 1946 4.571919 ACAAGTATTTTCGGACGGAATGA 58.428 39.130 0.00 0.00 33.85 2.57
1667 1947 4.630069 ACAAGTATTTTCGGACGGAATGAG 59.370 41.667 0.00 0.00 33.85 2.90
1673 1953 2.933495 TCGGACGGAATGAGTACAAG 57.067 50.000 0.00 0.00 0.00 3.16
1694 1974 8.691661 ACAAGTTAAGAATCAAATACACACCT 57.308 30.769 0.00 0.00 0.00 4.00
1727 2007 5.041951 TGGATGAACAAAATGACGTAAGC 57.958 39.130 0.00 0.00 45.62 3.09
1753 2033 2.706190 AGCGCCCCTAACTCATAGAAAT 59.294 45.455 2.29 0.00 33.04 2.17
1761 2041 5.525378 CCCTAACTCATAGAAATGTCACTGC 59.475 44.000 0.00 0.00 34.50 4.40
1773 2053 1.486310 TGTCACTGCAGGTCAGAAAGT 59.514 47.619 19.93 0.00 45.72 2.66
1787 2067 8.873830 CAGGTCAGAAAGTATACATACACTTTG 58.126 37.037 5.50 0.00 43.27 2.77
1788 2068 7.549488 AGGTCAGAAAGTATACATACACTTTGC 59.451 37.037 5.50 0.00 43.27 3.68
1813 2093 6.904463 TCTTCTAAATTAAAAGGCCGGTTT 57.096 33.333 1.90 11.57 0.00 3.27
1820 2100 2.671130 AAAAGGCCGGTTTGCATATG 57.329 45.000 1.90 0.00 0.00 1.78
1821 2101 0.175531 AAAGGCCGGTTTGCATATGC 59.824 50.000 21.09 21.09 42.50 3.14
1833 2113 6.344936 CGGTTTGCATATGCGAATTATTGAAC 60.345 38.462 28.70 16.15 45.25 3.18
1866 2149 6.648192 ACAACTCAGATGATCCTAGGAAAAG 58.352 40.000 17.30 7.99 0.00 2.27
1875 2158 4.020573 TGATCCTAGGAAAAGCTTGAACGA 60.021 41.667 17.30 0.00 0.00 3.85
1879 2162 1.133915 AGGAAAAGCTTGAACGACCCA 60.134 47.619 0.00 0.00 0.00 4.51
1880 2163 1.886542 GGAAAAGCTTGAACGACCCAT 59.113 47.619 0.00 0.00 0.00 4.00
1910 2193 6.200878 AGGATACATTTACCCAAATCCGAT 57.799 37.500 0.00 0.00 41.41 4.18
1914 2197 7.119262 GGATACATTTACCCAAATCCGATACAG 59.881 40.741 0.00 0.00 31.82 2.74
1924 2207 2.447408 TCCGATACAGGCAGGTAGAA 57.553 50.000 0.00 0.00 0.00 2.10
1925 2208 2.307768 TCCGATACAGGCAGGTAGAAG 58.692 52.381 0.00 0.00 0.00 2.85
1926 2209 1.269831 CCGATACAGGCAGGTAGAAGC 60.270 57.143 0.00 0.00 0.00 3.86
1946 2229 3.078305 AGCTAGAGAATACCTAGGGCCAT 59.922 47.826 14.81 0.00 35.37 4.40
1949 2232 3.941629 AGAGAATACCTAGGGCCATGAA 58.058 45.455 14.81 0.00 0.00 2.57
1951 2234 4.349342 AGAGAATACCTAGGGCCATGAAAG 59.651 45.833 14.81 0.00 0.00 2.62
1971 2254 7.007723 TGAAAGAACTCTCTCTAAGGAACTCT 58.992 38.462 0.00 0.00 38.49 3.24
1972 2255 6.834168 AAGAACTCTCTCTAAGGAACTCTG 57.166 41.667 0.00 0.00 38.49 3.35
1985 2268 3.006323 AGGAACTCTGCAATATAGCCTCG 59.994 47.826 0.00 0.00 0.00 4.63
1989 2272 4.872664 ACTCTGCAATATAGCCTCGTAAC 58.127 43.478 0.00 0.00 0.00 2.50
1993 2276 5.302059 TCTGCAATATAGCCTCGTAACTTCT 59.698 40.000 0.00 0.00 0.00 2.85
2020 2303 1.901464 GGCGCCCCTTCACAAAAGA 60.901 57.895 18.11 0.00 0.00 2.52
2039 2322 8.107095 ACAAAAGAGGCAATAACTAGACCAATA 58.893 33.333 0.00 0.00 0.00 1.90
2050 2333 8.728337 ATAACTAGACCAATAGCATGCATATG 57.272 34.615 21.98 14.41 37.36 1.78
2075 2358 9.202273 TGTGCAAACCAAGATTATTTTTATGAC 57.798 29.630 0.00 0.00 0.00 3.06
2156 2440 8.388656 ACAAGGGTTAGAGAAGGAATATACAA 57.611 34.615 0.00 0.00 0.00 2.41
2162 2446 4.223953 AGAGAAGGAATATACAAGCGGGA 58.776 43.478 0.00 0.00 0.00 5.14
2176 2460 5.930135 ACAAGCGGGAGAAGATATTTACAT 58.070 37.500 0.00 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
78 80 9.793252 ACCAATCGATCTAAAATCATTTTTCTG 57.207 29.630 0.00 0.00 36.47 3.02
87 127 6.145535 GGCATCAACCAATCGATCTAAAATC 58.854 40.000 0.00 0.00 0.00 2.17
92 132 2.547855 CGGGCATCAACCAATCGATCTA 60.548 50.000 0.00 0.00 0.00 1.98
373 421 2.349886 GCTCGTGAACTGCTCCTTATTG 59.650 50.000 0.00 0.00 0.00 1.90
391 439 5.768662 TGGGTCATGTACATAGTAGTAGCTC 59.231 44.000 8.32 0.00 0.00 4.09
393 441 6.183360 TGTTGGGTCATGTACATAGTAGTAGC 60.183 42.308 8.32 0.41 0.00 3.58
483 532 5.769662 TGGTTCTGCTAATTCACTCATTTGT 59.230 36.000 0.00 0.00 0.00 2.83
528 579 2.017559 GCAGGTCGCCAGGTACCTAG 62.018 65.000 15.80 8.88 44.43 3.02
551 602 2.960384 TGCTCATTAATGAAGCCATGGG 59.040 45.455 24.54 12.39 36.18 4.00
561 612 7.411912 GGCTACGTACATACATGCTCATTAATG 60.412 40.741 9.29 9.29 0.00 1.90
602 657 3.811722 TGAACACAGTAGGTACGTACG 57.188 47.619 18.98 15.01 0.00 3.67
603 658 4.913924 CACTTGAACACAGTAGGTACGTAC 59.086 45.833 17.56 17.56 0.00 3.67
604 659 4.580167 ACACTTGAACACAGTAGGTACGTA 59.420 41.667 0.00 0.00 0.00 3.57
605 660 3.382546 ACACTTGAACACAGTAGGTACGT 59.617 43.478 0.00 0.00 0.00 3.57
729 801 9.303116 GAGACCTGGTCTATATTCTTCAGATTA 57.697 37.037 28.41 0.00 43.53 1.75
795 868 1.298602 TATAGGTTGCTGCATGCGTG 58.701 50.000 14.09 9.68 46.63 5.34
796 869 2.036958 TTATAGGTTGCTGCATGCGT 57.963 45.000 14.09 4.24 46.63 5.24
890 975 1.393539 CAACAGGGCGAGATTTACGTG 59.606 52.381 0.00 0.00 0.00 4.49
896 981 2.270352 TGTTTCAACAGGGCGAGATT 57.730 45.000 0.00 0.00 34.30 2.40
903 988 3.731652 TGAGCAAATGTTTCAACAGGG 57.268 42.857 0.00 0.00 43.04 4.45
918 1014 2.658285 GATGGATGGATTGGTTGAGCA 58.342 47.619 0.00 0.00 0.00 4.26
932 1030 1.202687 TCGGAGTACGTACGGATGGAT 60.203 52.381 21.06 0.33 44.69 3.41
969 1067 2.288666 GACGCCATGCAAATCTTCCTA 58.711 47.619 0.00 0.00 0.00 2.94
1010 1108 2.153401 AGCAAGGCCACCACCACTA 61.153 57.895 5.01 0.00 0.00 2.74
1062 1160 4.682714 TCCCCCTCCAGCAGCCTT 62.683 66.667 0.00 0.00 0.00 4.35
1243 1348 6.584954 CAGCATGTACTAATTGACTAATCGC 58.415 40.000 0.00 0.00 0.00 4.58
1312 1463 5.289675 CGGAAGCTCTCTAACTGTACAATTG 59.710 44.000 3.24 3.24 0.00 2.32
1383 1539 4.464112 AGACTGCTTTAACGCGAATTTTC 58.536 39.130 15.93 0.00 0.00 2.29
1390 1548 1.387084 GTCAGAGACTGCTTTAACGCG 59.613 52.381 3.53 3.53 0.00 6.01
1425 1583 9.109393 GAATATCAAAGTCACCTAAACAGCATA 57.891 33.333 0.00 0.00 0.00 3.14
1538 1780 4.420168 CACACAACCAAGGTAAAACAGTG 58.580 43.478 0.00 0.00 0.00 3.66
1575 1855 1.794701 CATCCGGCATATCAGTCAACG 59.205 52.381 0.00 0.00 0.00 4.10
1590 1870 6.963796 ACTAGTACGGTATAAACTTCATCCG 58.036 40.000 0.00 0.00 42.94 4.18
1632 1912 9.443323 TCCGAAAATACTTGTCATCAAAATAGA 57.557 29.630 0.00 0.00 32.87 1.98
1633 1913 9.490663 GTCCGAAAATACTTGTCATCAAAATAG 57.509 33.333 0.00 0.00 32.87 1.73
1634 1914 8.172484 CGTCCGAAAATACTTGTCATCAAAATA 58.828 33.333 0.00 0.00 32.87 1.40
1635 1915 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
1636 1916 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
1637 1917 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
1638 1918 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
1639 1919 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
1640 1920 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
1641 1921 4.196626 TCCGTCCGAAAATACTTGTCAT 57.803 40.909 0.00 0.00 0.00 3.06
1642 1922 3.663995 TCCGTCCGAAAATACTTGTCA 57.336 42.857 0.00 0.00 0.00 3.58
1643 1923 4.628333 TCATTCCGTCCGAAAATACTTGTC 59.372 41.667 0.00 0.00 33.08 3.18
1644 1924 4.571919 TCATTCCGTCCGAAAATACTTGT 58.428 39.130 0.00 0.00 33.08 3.16
1645 1925 4.630069 ACTCATTCCGTCCGAAAATACTTG 59.370 41.667 0.00 0.00 33.08 3.16
1646 1926 4.828829 ACTCATTCCGTCCGAAAATACTT 58.171 39.130 0.00 0.00 33.08 2.24
1647 1927 4.467198 ACTCATTCCGTCCGAAAATACT 57.533 40.909 0.00 0.00 33.08 2.12
1648 1928 5.104374 TGTACTCATTCCGTCCGAAAATAC 58.896 41.667 0.00 0.00 33.08 1.89
1649 1929 5.327616 TGTACTCATTCCGTCCGAAAATA 57.672 39.130 0.00 0.00 33.08 1.40
1650 1930 4.196626 TGTACTCATTCCGTCCGAAAAT 57.803 40.909 0.00 0.00 33.08 1.82
1651 1931 3.663995 TGTACTCATTCCGTCCGAAAA 57.336 42.857 0.00 0.00 33.08 2.29
1652 1932 3.006110 ACTTGTACTCATTCCGTCCGAAA 59.994 43.478 0.00 0.00 33.08 3.46
1653 1933 2.559668 ACTTGTACTCATTCCGTCCGAA 59.440 45.455 0.00 0.00 34.14 4.30
1654 1934 2.165167 ACTTGTACTCATTCCGTCCGA 58.835 47.619 0.00 0.00 0.00 4.55
1655 1935 2.649331 ACTTGTACTCATTCCGTCCG 57.351 50.000 0.00 0.00 0.00 4.79
1656 1936 5.717119 TCTTAACTTGTACTCATTCCGTCC 58.283 41.667 0.00 0.00 0.00 4.79
1657 1937 7.544566 TGATTCTTAACTTGTACTCATTCCGTC 59.455 37.037 0.00 0.00 0.00 4.79
1658 1938 7.383687 TGATTCTTAACTTGTACTCATTCCGT 58.616 34.615 0.00 0.00 0.00 4.69
1659 1939 7.827819 TGATTCTTAACTTGTACTCATTCCG 57.172 36.000 0.00 0.00 0.00 4.30
1667 1947 9.821662 GGTGTGTATTTGATTCTTAACTTGTAC 57.178 33.333 0.00 0.00 0.00 2.90
1673 1953 9.959749 TTTCAAGGTGTGTATTTGATTCTTAAC 57.040 29.630 0.00 0.00 31.54 2.01
1694 1974 9.557061 TCATTTTGTTCATCCATGATTTTTCAA 57.443 25.926 0.00 0.00 36.56 2.69
1727 2007 1.153549 GAGTTAGGGGCGCTCACAG 60.154 63.158 10.74 0.00 0.00 3.66
1735 2015 4.816925 GTGACATTTCTATGAGTTAGGGGC 59.183 45.833 0.00 0.00 35.65 5.80
1737 2017 5.525378 GCAGTGACATTTCTATGAGTTAGGG 59.475 44.000 0.00 0.00 35.65 3.53
1753 2033 1.486310 ACTTTCTGACCTGCAGTGACA 59.514 47.619 13.81 9.69 45.14 3.58
1761 2041 8.873830 CAAAGTGTATGTATACTTTCTGACCTG 58.126 37.037 10.69 0.00 42.98 4.00
1787 2067 5.105877 ACCGGCCTTTTAATTTAGAAGAAGC 60.106 40.000 0.00 4.53 0.00 3.86
1788 2068 6.510879 ACCGGCCTTTTAATTTAGAAGAAG 57.489 37.500 0.00 0.85 0.00 2.85
1800 2080 2.159170 GCATATGCAAACCGGCCTTTTA 60.159 45.455 22.84 0.00 41.59 1.52
1813 2093 6.375945 AGTGTTCAATAATTCGCATATGCA 57.624 33.333 26.52 9.36 42.21 3.96
1820 2100 9.047871 GTTGTTTAGTAGTGTTCAATAATTCGC 57.952 33.333 0.00 0.00 0.00 4.70
1833 2113 7.551585 AGGATCATCTGAGTTGTTTAGTAGTG 58.448 38.462 0.00 0.00 0.00 2.74
1866 2149 3.907894 TTTGTTATGGGTCGTTCAAGC 57.092 42.857 0.00 0.00 0.00 4.01
1875 2158 7.343574 GGGTAAATGTATCCTTTTGTTATGGGT 59.656 37.037 0.00 0.00 0.00 4.51
1905 2188 2.307768 CTTCTACCTGCCTGTATCGGA 58.692 52.381 0.00 0.00 0.00 4.55
1910 2193 3.202373 TCTCTAGCTTCTACCTGCCTGTA 59.798 47.826 0.00 0.00 0.00 2.74
1914 2197 4.021807 GGTATTCTCTAGCTTCTACCTGCC 60.022 50.000 0.00 0.00 0.00 4.85
1924 2207 2.451273 TGGCCCTAGGTATTCTCTAGCT 59.549 50.000 8.29 0.00 34.43 3.32
1925 2208 2.890814 TGGCCCTAGGTATTCTCTAGC 58.109 52.381 8.29 0.00 34.43 3.42
1926 2209 4.678256 TCATGGCCCTAGGTATTCTCTAG 58.322 47.826 8.29 0.00 35.27 2.43
1946 2229 7.007723 AGAGTTCCTTAGAGAGAGTTCTTTCA 58.992 38.462 2.96 0.00 32.53 2.69
1949 2232 5.185056 GCAGAGTTCCTTAGAGAGAGTTCTT 59.815 44.000 0.00 0.00 32.53 2.52
1951 2234 4.461081 TGCAGAGTTCCTTAGAGAGAGTTC 59.539 45.833 0.00 0.00 0.00 3.01
1971 2254 5.531122 AGAAGTTACGAGGCTATATTGCA 57.469 39.130 11.27 0.00 34.04 4.08
1972 2255 6.444633 TGTAGAAGTTACGAGGCTATATTGC 58.555 40.000 0.00 0.00 0.00 3.56
2004 2287 2.257353 CCTCTTTTGTGAAGGGGCG 58.743 57.895 0.00 0.00 29.94 6.13
2020 2303 5.630415 TGCTATTGGTCTAGTTATTGCCT 57.370 39.130 0.00 0.00 0.00 4.75
2050 2333 8.655970 GGTCATAAAAATAATCTTGGTTTGCAC 58.344 33.333 0.00 0.00 0.00 4.57
2075 2358 3.418047 ACCCTTTCCTATTGTTTGTCGG 58.582 45.455 0.00 0.00 0.00 4.79
2122 2406 7.042335 CCTTCTCTAACCCTTGTACATACTTG 58.958 42.308 0.00 0.00 0.00 3.16
2125 2409 6.786967 TCCTTCTCTAACCCTTGTACATAC 57.213 41.667 0.00 0.00 0.00 2.39
2156 2440 6.109359 GCATATGTAAATATCTTCTCCCGCT 58.891 40.000 4.29 0.00 0.00 5.52
2185 2469 5.852282 TGCCAGTTAGCTTTTCTTTCTTT 57.148 34.783 0.00 0.00 0.00 2.52
2193 2477 4.122046 CAGCTTTTTGCCAGTTAGCTTTT 58.878 39.130 0.00 0.00 44.23 2.27


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

AutoCloner maintained by Alex Coulton.