Multiple sequence alignment - TraesCS1B01G396100

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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 TraesCS1B01G396100 chr1B 100.000 2393 0 0 1 2393 627942550 627944942 0.000000e+00 4420
1 TraesCS1B01G396100 chr1D 96.193 1655 54 4 1 1654 457874775 457876421 0.000000e+00 2699
2 TraesCS1B01G396100 chr1D 91.724 435 24 2 1959 2393 457877276 457877698 5.700000e-166 593
3 TraesCS1B01G396100 chr1D 91.975 162 11 1 528 689 338937371 338937212 2.390000e-55 226
4 TraesCS1B01G396100 chr1D 81.421 183 14 10 1691 1870 457876661 457876826 5.370000e-27 132
5 TraesCS1B01G396100 chr1A 95.036 967 38 3 688 1654 550338216 550339172 0.000000e+00 1511
6 TraesCS1B01G396100 chr1A 96.388 526 18 1 1 526 550337692 550338216 0.000000e+00 865
7 TraesCS1B01G396100 chr1A 92.228 386 18 3 2008 2390 550340309 550340685 9.740000e-149 536
8 TraesCS1B01G396100 chr1A 89.444 180 15 2 1691 1870 550339414 550339589 8.610000e-55 224
9 TraesCS1B01G396100 chr3D 88.215 297 35 0 2029 2325 40186815 40187111 2.930000e-94 355
10 TraesCS1B01G396100 chr3D 92.593 162 8 2 528 689 174076925 174076768 1.850000e-56 230
11 TraesCS1B01G396100 chr3A 86.735 294 39 0 2032 2325 52209470 52209763 6.380000e-86 327
12 TraesCS1B01G396100 chr3A 88.934 244 27 0 2011 2254 51579607 51579850 3.870000e-78 302
13 TraesCS1B01G396100 chr3A 83.030 330 47 5 2049 2378 51543172 51543492 8.370000e-75 291
14 TraesCS1B01G396100 chr6A 91.124 169 13 2 523 691 101317400 101317234 6.650000e-56 228
15 TraesCS1B01G396100 chr6A 78.086 324 51 16 2055 2377 158247110 158247414 1.130000e-43 187
16 TraesCS1B01G396100 chr7A 90.643 171 13 2 523 692 156113551 156113383 8.610000e-55 224
17 TraesCS1B01G396100 chr2D 91.018 167 13 1 528 694 571079117 571078953 8.610000e-55 224
18 TraesCS1B01G396100 chr2D 91.463 164 11 2 528 691 556926935 556927095 3.100000e-54 222
19 TraesCS1B01G396100 chr7D 91.411 163 12 1 528 690 14440303 14440463 3.100000e-54 222
20 TraesCS1B01G396100 chr7D 91.411 163 12 1 528 690 296507685 296507845 3.100000e-54 222
21 TraesCS1B01G396100 chr6B 81.949 277 36 12 2055 2330 216631231 216630968 3.100000e-54 222
22 TraesCS1B01G396100 chr6D 80.505 277 40 12 2055 2330 122979177 122978914 1.450000e-47 200
23 TraesCS1B01G396100 chr5A 81.818 242 22 12 1418 1654 447369645 447369421 1.460000e-42 183


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 TraesCS1B01G396100 chr1B 627942550 627944942 2392 False 4420.000000 4420 100.000000 1 2393 1 chr1B.!!$F1 2392
1 TraesCS1B01G396100 chr1D 457874775 457877698 2923 False 1141.333333 2699 89.779333 1 2393 3 chr1D.!!$F1 2392
2 TraesCS1B01G396100 chr1A 550337692 550340685 2993 False 784.000000 1511 93.274000 1 2390 4 chr1A.!!$F1 2389

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
847 848 2.121689 ACCAGTACCCCCAAGCCA 60.122 61.111 0.0 0.0 0.0 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2307 3255 0.322975 ATTGTGCACGAGGAAGAGCT 59.677 50.0 13.31 0.0 0.0 4.09 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
86 87 6.803154 AAACACTAGGTATCTCTTGCAAAC 57.197 37.500 0.00 0.00 0.00 2.93
121 122 5.761165 TGATCACATGCCAAACATATCTG 57.239 39.130 0.00 0.00 36.64 2.90
328 329 2.203209 GGCCGATCTTGCCCGAAT 60.203 61.111 11.11 0.00 43.33 3.34
428 429 6.270927 TGCTGAGGGATAAGCTTGATAGTTAT 59.729 38.462 9.86 0.00 0.00 1.89
453 454 5.424895 TGGCAGGCCTTATAAAAACATTGAT 59.575 36.000 0.00 0.00 36.94 2.57
526 527 4.970472 TTCGTTTACGCGATGTTAACTT 57.030 36.364 15.93 0.00 40.76 2.66
589 590 4.647853 ACTATGGACTACATACGGAGCAAA 59.352 41.667 0.00 0.00 41.03 3.68
590 591 3.965379 TGGACTACATACGGAGCAAAA 57.035 42.857 0.00 0.00 0.00 2.44
591 592 4.274602 TGGACTACATACGGAGCAAAAA 57.725 40.909 0.00 0.00 0.00 1.94
741 742 4.430007 TGCTTGGATAGTTTGTAGTAGCG 58.570 43.478 0.00 0.00 0.00 4.26
749 750 7.010738 TGGATAGTTTGTAGTAGCGTTATTTGC 59.989 37.037 0.00 0.00 0.00 3.68
847 848 2.121689 ACCAGTACCCCCAAGCCA 60.122 61.111 0.00 0.00 0.00 4.75
946 947 6.576662 TTCTGTTGTTTTGTGTGGTTCTAA 57.423 33.333 0.00 0.00 0.00 2.10
1018 1019 1.615384 GCATGGAGCCCAAAGAGAAGT 60.615 52.381 0.00 0.00 36.95 3.01
1105 1106 3.328050 GCTATGGTTCTGCTATACCCCTT 59.672 47.826 0.00 0.00 33.34 3.95
1134 1135 0.686441 TGCAGACCTACTACCGCCAT 60.686 55.000 0.00 0.00 0.00 4.40
1274 1275 1.155390 TCTGGACCTTCCGGACTGT 59.845 57.895 1.83 3.64 46.55 3.55
1346 1347 2.426023 GTCGCCACCCAAGACTGT 59.574 61.111 0.00 0.00 32.58 3.55
1382 1383 0.108207 CCTCCTGGATCATCTGGTGC 59.892 60.000 0.00 0.00 34.57 5.01
1451 1453 2.278466 TTTTGTGCGCCGTGCTTG 60.278 55.556 4.18 0.00 46.63 4.01
1471 1473 3.006672 ACCGCTGGTCTTTGTTCAG 57.993 52.632 0.00 0.00 0.00 3.02
1528 1530 4.860022 ACCTTGGATGGAAAGATACCTTG 58.140 43.478 0.00 0.00 31.91 3.61
1579 1581 2.441375 TGAACCAAGATGTTCTGGTGGA 59.559 45.455 5.61 0.00 43.96 4.02
1580 1582 3.074390 TGAACCAAGATGTTCTGGTGGAT 59.926 43.478 5.61 0.00 43.96 3.41
1581 1583 3.814504 ACCAAGATGTTCTGGTGGATT 57.185 42.857 2.94 0.00 30.73 3.01
1582 1584 3.424703 ACCAAGATGTTCTGGTGGATTG 58.575 45.455 2.94 0.00 30.73 2.67
1583 1585 2.165030 CCAAGATGTTCTGGTGGATTGC 59.835 50.000 0.00 0.00 28.06 3.56
1615 1617 2.427232 TTTTGCACAAGCTCTGATGC 57.573 45.000 0.00 0.00 42.74 3.91
1654 1656 6.799512 AGTTGCTTATCAGGCATAAATGTTC 58.200 36.000 0.00 0.00 39.54 3.18
1656 1658 6.624352 TGCTTATCAGGCATAAATGTTCTC 57.376 37.500 0.00 0.00 34.56 2.87
1657 1659 5.532406 TGCTTATCAGGCATAAATGTTCTCC 59.468 40.000 0.00 0.00 34.56 3.71
1660 1662 4.156455 TCAGGCATAAATGTTCTCCCTC 57.844 45.455 0.00 0.00 0.00 4.30
1661 1663 3.117888 TCAGGCATAAATGTTCTCCCTCC 60.118 47.826 0.00 0.00 0.00 4.30
1664 1666 3.217626 GCATAAATGTTCTCCCTCCTGG 58.782 50.000 0.00 0.00 0.00 4.45
1666 1668 4.860022 CATAAATGTTCTCCCTCCTGGTT 58.140 43.478 0.00 0.00 34.77 3.67
1667 1669 3.441500 AAATGTTCTCCCTCCTGGTTC 57.558 47.619 0.00 0.00 34.77 3.62
1668 1670 2.350863 ATGTTCTCCCTCCTGGTTCT 57.649 50.000 0.00 0.00 34.77 3.01
1669 1671 2.118403 TGTTCTCCCTCCTGGTTCTT 57.882 50.000 0.00 0.00 34.77 2.52
1670 1672 1.978580 TGTTCTCCCTCCTGGTTCTTC 59.021 52.381 0.00 0.00 34.77 2.87
1671 1673 1.978580 GTTCTCCCTCCTGGTTCTTCA 59.021 52.381 0.00 0.00 34.77 3.02
1672 1674 2.372172 GTTCTCCCTCCTGGTTCTTCAA 59.628 50.000 0.00 0.00 34.77 2.69
1674 1676 0.693049 TCCCTCCTGGTTCTTCAAGC 59.307 55.000 0.00 0.00 34.77 4.01
1675 1677 0.401738 CCCTCCTGGTTCTTCAAGCA 59.598 55.000 0.00 0.00 37.69 3.91
1676 1678 1.202927 CCCTCCTGGTTCTTCAAGCAA 60.203 52.381 0.00 0.00 39.51 3.91
1678 1680 3.160269 CCTCCTGGTTCTTCAAGCAATT 58.840 45.455 0.00 0.00 39.51 2.32
1679 1681 3.057033 CCTCCTGGTTCTTCAAGCAATTG 60.057 47.826 0.00 0.00 39.51 2.32
1683 1685 5.774690 TCCTGGTTCTTCAAGCAATTGTTAT 59.225 36.000 7.40 0.00 39.51 1.89
1684 1686 6.071952 TCCTGGTTCTTCAAGCAATTGTTATC 60.072 38.462 7.40 0.00 39.51 1.75
1686 1688 6.680810 TGGTTCTTCAAGCAATTGTTATCTG 58.319 36.000 7.40 0.00 37.07 2.90
1687 1689 6.489700 TGGTTCTTCAAGCAATTGTTATCTGA 59.510 34.615 7.40 0.00 37.07 3.27
1688 1690 7.014134 TGGTTCTTCAAGCAATTGTTATCTGAA 59.986 33.333 7.40 7.41 37.07 3.02
1689 1691 8.031277 GGTTCTTCAAGCAATTGTTATCTGAAT 58.969 33.333 7.40 0.00 0.00 2.57
1696 1698 9.229784 CAAGCAATTGTTATCTGAATATCACAC 57.770 33.333 7.40 0.00 0.00 3.82
1798 2011 2.945008 TGTCCTTTGCACTGTCAAGAAG 59.055 45.455 0.00 0.00 0.00 2.85
1807 2020 6.590234 TGCACTGTCAAGAAGATTCTACTA 57.410 37.500 0.00 0.00 36.28 1.82
1820 2033 6.892658 AGATTCTACTATCTGCCTGTAGTG 57.107 41.667 0.00 0.00 36.16 2.74
1826 2039 3.878103 ACTATCTGCCTGTAGTGTACTCG 59.122 47.826 0.00 0.00 30.35 4.18
1827 2040 0.809385 TCTGCCTGTAGTGTACTCGC 59.191 55.000 0.00 0.00 0.00 5.03
1828 2041 0.179134 CTGCCTGTAGTGTACTCGCC 60.179 60.000 0.00 0.00 0.00 5.54
1829 2042 1.226603 GCCTGTAGTGTACTCGCCG 60.227 63.158 0.00 0.00 0.00 6.46
1842 2055 0.847035 CTCGCCGCTTATTCGAAGTC 59.153 55.000 3.35 0.00 0.00 3.01
1843 2056 0.864377 TCGCCGCTTATTCGAAGTCG 60.864 55.000 3.35 4.23 41.45 4.18
1889 2836 0.609131 AATTGGGCCTGAACCGTGAG 60.609 55.000 4.53 0.00 0.00 3.51
1914 2861 0.101759 CGGAGATGCAAATTGGGCTG 59.898 55.000 0.00 0.00 0.00 4.85
1915 2862 0.179092 GGAGATGCAAATTGGGCTGC 60.179 55.000 0.00 0.00 39.09 5.25
1916 2863 0.179092 GAGATGCAAATTGGGCTGCC 60.179 55.000 11.05 11.05 37.79 4.85
1917 2864 0.616679 AGATGCAAATTGGGCTGCCT 60.617 50.000 19.68 0.00 37.79 4.75
1918 2865 1.113788 GATGCAAATTGGGCTGCCTA 58.886 50.000 19.68 10.28 37.79 3.93
1919 2866 1.481772 GATGCAAATTGGGCTGCCTAA 59.518 47.619 20.09 20.09 37.79 2.69
1920 2867 0.607620 TGCAAATTGGGCTGCCTAAC 59.392 50.000 20.22 7.84 37.79 2.34
1921 2868 0.607620 GCAAATTGGGCTGCCTAACA 59.392 50.000 20.22 5.77 32.18 2.41
1922 2869 1.672737 GCAAATTGGGCTGCCTAACAC 60.673 52.381 20.22 6.06 32.18 3.32
1923 2870 1.895131 CAAATTGGGCTGCCTAACACT 59.105 47.619 20.22 4.89 0.00 3.55
1924 2871 3.088532 CAAATTGGGCTGCCTAACACTA 58.911 45.455 20.22 0.00 0.00 2.74
1925 2872 2.420058 ATTGGGCTGCCTAACACTAC 57.580 50.000 20.22 0.00 0.00 2.73
1926 2873 0.036765 TTGGGCTGCCTAACACTACG 60.037 55.000 19.68 0.00 0.00 3.51
1927 2874 1.189524 TGGGCTGCCTAACACTACGT 61.190 55.000 19.68 0.00 0.00 3.57
1928 2875 0.459759 GGGCTGCCTAACACTACGTC 60.460 60.000 19.68 0.00 0.00 4.34
1929 2876 0.459759 GGCTGCCTAACACTACGTCC 60.460 60.000 12.43 0.00 0.00 4.79
1930 2877 0.531200 GCTGCCTAACACTACGTCCT 59.469 55.000 0.00 0.00 0.00 3.85
1931 2878 1.747355 GCTGCCTAACACTACGTCCTA 59.253 52.381 0.00 0.00 0.00 2.94
1932 2879 2.361438 GCTGCCTAACACTACGTCCTAT 59.639 50.000 0.00 0.00 0.00 2.57
1933 2880 3.567164 GCTGCCTAACACTACGTCCTATA 59.433 47.826 0.00 0.00 0.00 1.31
1934 2881 4.217983 GCTGCCTAACACTACGTCCTATAT 59.782 45.833 0.00 0.00 0.00 0.86
1935 2882 5.278858 GCTGCCTAACACTACGTCCTATATT 60.279 44.000 0.00 0.00 0.00 1.28
1936 2883 6.323203 TGCCTAACACTACGTCCTATATTC 57.677 41.667 0.00 0.00 0.00 1.75
1937 2884 5.049198 TGCCTAACACTACGTCCTATATTCG 60.049 44.000 0.00 0.00 0.00 3.34
1938 2885 5.388944 CCTAACACTACGTCCTATATTCGC 58.611 45.833 0.00 0.00 0.00 4.70
1939 2886 5.180868 CCTAACACTACGTCCTATATTCGCT 59.819 44.000 0.00 0.00 0.00 4.93
1940 2887 6.369890 CCTAACACTACGTCCTATATTCGCTA 59.630 42.308 0.00 0.00 0.00 4.26
1941 2888 6.624352 AACACTACGTCCTATATTCGCTAA 57.376 37.500 0.00 0.00 0.00 3.09
1942 2889 6.624352 ACACTACGTCCTATATTCGCTAAA 57.376 37.500 0.00 0.00 0.00 1.85
1943 2890 7.031226 ACACTACGTCCTATATTCGCTAAAA 57.969 36.000 0.00 0.00 0.00 1.52
1944 2891 7.483307 ACACTACGTCCTATATTCGCTAAAAA 58.517 34.615 0.00 0.00 0.00 1.94
2019 2967 0.750911 GACGGGACTACGATGGAGGT 60.751 60.000 0.00 0.00 37.61 3.85
2020 2968 1.035932 ACGGGACTACGATGGAGGTG 61.036 60.000 0.00 0.00 37.61 4.00
2307 3255 2.032528 CTTCTCCACCGGCAGCAA 59.967 61.111 0.00 0.00 0.00 3.91
2326 3274 0.322975 AGCTCTTCCTCGTGCACAAT 59.677 50.000 18.64 0.00 0.00 2.71
2351 3299 2.771763 AAGGTTCTCGTGCTCGCTGG 62.772 60.000 2.69 0.00 36.96 4.85
2365 3313 2.948720 GCTGGTGAACCCTCTCGCT 61.949 63.158 0.00 0.00 34.29 4.93
2370 3318 2.754658 GAACCCTCTCGCTCGGGA 60.755 66.667 9.33 0.00 43.44 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
86 87 5.965334 GGCATGTGATCAAATGTACGTTTAG 59.035 40.000 23.83 7.91 0.00 1.85
121 122 0.823356 TCTTCTTGTGCCCTGTTGCC 60.823 55.000 0.00 0.00 0.00 4.52
178 179 3.110447 TGGAAAGGAAGTGCAAATTGC 57.890 42.857 11.58 11.58 45.29 3.56
328 329 7.867909 CGGATCAGAGCAAGATACTAAACATAA 59.132 37.037 0.00 0.00 0.00 1.90
428 429 5.247110 TCAATGTTTTTATAAGGCCTGCCAA 59.753 36.000 5.69 0.00 38.92 4.52
526 527 7.728981 AGACATATATTTAGGAACGAAGGGAGA 59.271 37.037 0.00 0.00 0.00 3.71
631 632 6.971184 AGAGTTTTCAATATGGACTACGTACG 59.029 38.462 15.01 15.01 0.00 3.67
678 679 5.546621 TTTTCTGGATAATACTCCCTCCG 57.453 43.478 0.00 0.00 34.12 4.63
749 750 2.353889 GGCACAAGTGAGAGCATACATG 59.646 50.000 4.04 0.00 0.00 3.21
798 799 7.604545 GGACAAGCCCTATTTTGATAGAGATAC 59.395 40.741 0.00 0.00 0.00 2.24
946 947 8.625786 TTACATGTGAGATATGCTTGCATTAT 57.374 30.769 13.52 5.54 0.00 1.28
1018 1019 3.986006 AGCGCTGGTCGTTTCGGA 61.986 61.111 10.39 0.00 41.07 4.55
1105 1106 0.835971 TAGGTCTGCAGCTGGTGGAA 60.836 55.000 17.12 0.00 0.00 3.53
1134 1135 0.482446 AGCAGGTGTCAAAATCCCCA 59.518 50.000 0.00 0.00 0.00 4.96
1170 1171 0.455295 GCGAGAGACAGTCAACGAGG 60.455 60.000 14.93 0.00 31.70 4.63
1382 1383 4.629200 CGACCTTCAATTCTCAGGAAAGAG 59.371 45.833 1.77 0.00 34.90 2.85
1444 1446 4.988598 ACCAGCGGTCCAAGCACG 62.989 66.667 0.00 0.00 37.01 5.34
1471 1473 2.359900 CTGCCAGGGTACATTCAAGTC 58.640 52.381 0.00 0.00 0.00 3.01
1528 1530 4.202295 TGCCATGATCTACAGAACAGGATC 60.202 45.833 0.00 0.00 31.63 3.36
1631 1633 6.799512 AGAACATTTATGCCTGATAAGCAAC 58.200 36.000 0.00 0.00 44.83 4.17
1634 1636 5.048434 GGGAGAACATTTATGCCTGATAAGC 60.048 44.000 0.00 0.00 0.00 3.09
1638 1640 4.446889 GGAGGGAGAACATTTATGCCTGAT 60.447 45.833 0.00 0.00 0.00 2.90
1639 1641 3.117888 GGAGGGAGAACATTTATGCCTGA 60.118 47.826 0.00 0.00 0.00 3.86
1654 1656 1.339535 GCTTGAAGAACCAGGAGGGAG 60.340 57.143 0.00 0.00 41.15 4.30
1656 1658 0.401738 TGCTTGAAGAACCAGGAGGG 59.598 55.000 0.00 0.00 44.81 4.30
1657 1659 2.276732 TTGCTTGAAGAACCAGGAGG 57.723 50.000 0.00 0.00 42.21 4.30
1660 1662 4.326504 AACAATTGCTTGAAGAACCAGG 57.673 40.909 5.05 0.00 36.20 4.45
1661 1663 6.805271 CAGATAACAATTGCTTGAAGAACCAG 59.195 38.462 5.05 0.00 36.20 4.00
1664 1666 8.976986 ATTCAGATAACAATTGCTTGAAGAAC 57.023 30.769 5.05 0.00 36.20 3.01
1669 1671 9.176460 TGTGATATTCAGATAACAATTGCTTGA 57.824 29.630 5.05 0.00 36.20 3.02
1670 1672 9.229784 GTGTGATATTCAGATAACAATTGCTTG 57.770 33.333 5.05 0.00 38.39 4.01
1671 1673 8.408601 GGTGTGATATTCAGATAACAATTGCTT 58.591 33.333 5.05 2.09 0.00 3.91
1672 1674 7.776969 AGGTGTGATATTCAGATAACAATTGCT 59.223 33.333 5.05 0.00 0.00 3.91
1674 1676 7.859377 GCAGGTGTGATATTCAGATAACAATTG 59.141 37.037 3.24 3.24 0.00 2.32
1675 1677 7.557358 TGCAGGTGTGATATTCAGATAACAATT 59.443 33.333 0.00 0.00 0.00 2.32
1676 1678 7.056006 TGCAGGTGTGATATTCAGATAACAAT 58.944 34.615 0.00 0.00 0.00 2.71
1678 1680 5.988287 TGCAGGTGTGATATTCAGATAACA 58.012 37.500 0.00 0.00 0.00 2.41
1679 1681 5.049818 GCTGCAGGTGTGATATTCAGATAAC 60.050 44.000 17.12 0.00 0.00 1.89
1683 1685 2.236893 TGCTGCAGGTGTGATATTCAGA 59.763 45.455 17.12 0.00 0.00 3.27
1684 1686 2.635714 TGCTGCAGGTGTGATATTCAG 58.364 47.619 17.12 0.00 0.00 3.02
1686 1688 3.961182 CATTGCTGCAGGTGTGATATTC 58.039 45.455 17.12 0.00 0.00 1.75
1798 2011 6.642707 ACACTACAGGCAGATAGTAGAATC 57.357 41.667 5.90 0.00 38.79 2.52
1807 2020 1.405821 GCGAGTACACTACAGGCAGAT 59.594 52.381 0.00 0.00 31.93 2.90
1820 2033 1.779724 CTTCGAATAAGCGGCGAGTAC 59.220 52.381 12.98 0.00 35.31 2.73
1826 2039 0.526954 TCCGACTTCGAATAAGCGGC 60.527 55.000 17.73 0.00 43.02 6.53
1827 2040 1.852895 CTTCCGACTTCGAATAAGCGG 59.147 52.381 16.90 16.90 43.02 5.52
1828 2041 2.784380 CTCTTCCGACTTCGAATAAGCG 59.216 50.000 0.00 0.19 43.02 4.68
1829 2042 3.771798 ACTCTTCCGACTTCGAATAAGC 58.228 45.455 0.00 0.00 43.02 3.09
1842 2055 4.569761 TCGAGATAATCCAACTCTTCCG 57.430 45.455 0.00 0.00 0.00 4.30
1843 2056 6.150396 TCTTCGAGATAATCCAACTCTTCC 57.850 41.667 0.00 0.00 0.00 3.46
1889 2836 1.376609 AATTTGCATCTCCGGCCGTC 61.377 55.000 26.12 6.12 0.00 4.79
1950 2897 6.525578 TGGCTTGGATTATATAGGACGTAG 57.474 41.667 0.00 0.00 0.00 3.51
1951 2898 6.921486 TTGGCTTGGATTATATAGGACGTA 57.079 37.500 0.00 0.00 0.00 3.57
1952 2899 5.818678 TTGGCTTGGATTATATAGGACGT 57.181 39.130 0.00 0.00 0.00 4.34
1953 2900 6.480320 GCTATTGGCTTGGATTATATAGGACG 59.520 42.308 0.00 0.00 38.06 4.79
1954 2901 7.793927 GCTATTGGCTTGGATTATATAGGAC 57.206 40.000 0.00 0.00 38.06 3.85
1980 2927 4.320129 CGTCGTAGATCTGATCATCAAGCT 60.320 45.833 19.12 0.00 40.67 3.74
2019 2967 3.115892 GATTCGTCGCCGCAACCA 61.116 61.111 0.00 0.00 0.00 3.67
2020 2968 2.799540 GAGATTCGTCGCCGCAACC 61.800 63.158 0.00 0.00 0.00 3.77
2291 3239 2.032528 CTTGCTGCCGGTGGAGAA 59.967 61.111 1.90 0.00 0.00 2.87
2307 3255 0.322975 ATTGTGCACGAGGAAGAGCT 59.677 50.000 13.31 0.00 0.00 4.09
2326 3274 2.210116 GAGCACGAGAACCTTTTGTCA 58.790 47.619 0.00 0.00 0.00 3.58
2351 3299 2.182030 CCGAGCGAGAGGGTTCAC 59.818 66.667 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.