Multiple sequence alignment - TraesCS5B01G501600

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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 TraesCS5B01G501600 chr5B 100.000 2537 0 0 1 2537 669216104 669218640 0.000000e+00 4686
1 TraesCS5B01G501600 chr5B 87.866 717 44 13 1 712 662983929 662983251 0.000000e+00 802
2 TraesCS5B01G501600 chr5B 87.556 450 47 6 1112 1552 662982929 662982480 1.740000e-141 512
3 TraesCS5B01G501600 chr5D 95.436 723 17 4 1 717 529852316 529853028 0.000000e+00 1138
4 TraesCS5B01G501600 chr5D 87.097 527 36 10 191 715 526914058 526913562 3.660000e-158 568
5 TraesCS5B01G501600 chr5D 82.487 571 77 17 989 1552 526913325 526912771 1.770000e-131 479
6 TraesCS5B01G501600 chr5D 93.458 321 15 2 3 323 526914511 526914197 2.950000e-129 472
7 TraesCS5B01G501600 chr5D 85.143 175 20 4 1447 1619 529853387 529853557 9.330000e-40 174
8 TraesCS5B01G501600 chr5A 89.451 929 41 16 1 906 657768196 657769090 0.000000e+00 1120
9 TraesCS5B01G501600 chr5A 86.532 891 80 24 983 1854 657769106 657769975 0.000000e+00 944
10 TraesCS5B01G501600 chr5A 85.635 717 48 26 4 717 654094685 654094021 0.000000e+00 702
11 TraesCS5B01G501600 chr5A 91.053 380 25 2 1939 2318 657772367 657772737 2.910000e-139 505
12 TraesCS5B01G501600 chr5A 90.625 224 17 2 2317 2537 657772769 657772991 6.860000e-76 294
13 TraesCS5B01G501600 chr5A 94.898 98 5 0 1847 1944 657772229 657772326 1.220000e-33 154


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 TraesCS5B01G501600 chr5B 669216104 669218640 2536 False 4686.000000 4686 100.000000 1 2537 1 chr5B.!!$F1 2536
1 TraesCS5B01G501600 chr5B 662982480 662983929 1449 True 657.000000 802 87.711000 1 1552 2 chr5B.!!$R1 1551
2 TraesCS5B01G501600 chr5D 529852316 529853557 1241 False 656.000000 1138 90.289500 1 1619 2 chr5D.!!$F1 1618
3 TraesCS5B01G501600 chr5D 526912771 526914511 1740 True 506.333333 568 87.680667 3 1552 3 chr5D.!!$R1 1549
4 TraesCS5B01G501600 chr5A 654094021 654094685 664 True 702.000000 702 85.635000 4 717 1 chr5A.!!$R1 713
5 TraesCS5B01G501600 chr5A 657768196 657772991 4795 False 603.400000 1120 90.511800 1 2537 5 chr5A.!!$F1 2536

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
745 1032 0.036294 GGGGTTTCGGTGGAGAAGAG 60.036 60.0 0.0 0.0 0.0 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2258 4946 0.322546 GGCGGACCACCTTGAGAAAT 60.323 55.0 0.0 0.0 35.26 2.17 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
37 38 2.358737 GCCGGTGAGGAACAGGTG 60.359 66.667 1.90 0.00 45.25 4.00
81 82 2.190578 GGTCATTGGAGGCGGAGG 59.809 66.667 0.00 0.00 0.00 4.30
202 474 1.617018 TTGAGGGCGGATCTGGTGAG 61.617 60.000 3.14 0.00 0.00 3.51
217 489 2.223443 TGAGCTTGTAGGGGCAGCA 61.223 57.895 0.00 0.00 0.00 4.41
572 844 3.771160 GACATCGGGGTGCGGTCT 61.771 66.667 0.00 0.00 0.00 3.85
720 1003 3.016736 TCCGATTTGATTTTGGGAGAGC 58.983 45.455 0.00 0.00 0.00 4.09
733 1020 1.448717 GAGAGCGAGCTGGGGTTTC 60.449 63.158 0.84 0.00 0.00 2.78
736 1023 4.699522 GCGAGCTGGGGTTTCGGT 62.700 66.667 0.00 0.00 35.05 4.69
741 1028 2.890766 GCTGGGGTTTCGGTGGAGA 61.891 63.158 0.00 0.00 0.00 3.71
745 1032 0.036294 GGGGTTTCGGTGGAGAAGAG 60.036 60.000 0.00 0.00 0.00 2.85
749 1044 3.473625 GGTTTCGGTGGAGAAGAGAAAA 58.526 45.455 0.00 0.00 33.39 2.29
750 1045 4.072839 GGTTTCGGTGGAGAAGAGAAAAT 58.927 43.478 0.00 0.00 33.39 1.82
755 1050 3.013219 GGTGGAGAAGAGAAAATGGAGC 58.987 50.000 0.00 0.00 0.00 4.70
757 1052 1.668237 GGAGAAGAGAAAATGGAGCGC 59.332 52.381 0.00 0.00 0.00 5.92
758 1053 1.668237 GAGAAGAGAAAATGGAGCGCC 59.332 52.381 2.29 0.00 0.00 6.53
760 1055 2.087646 GAAGAGAAAATGGAGCGCCTT 58.912 47.619 8.34 0.00 34.31 4.35
821 1141 4.711949 ACGGAAGCCAGGCTGCTG 62.712 66.667 25.66 25.66 45.68 4.41
836 1156 4.232878 CTGGGCGAGCCTGCTAGG 62.233 72.222 14.33 0.00 38.80 3.02
898 1219 2.424234 GCTTTGGGCCCAACAGGATATA 60.424 50.000 37.33 18.60 38.24 0.86
900 1221 4.508405 GCTTTGGGCCCAACAGGATATATA 60.508 45.833 37.33 17.05 38.24 0.86
901 1222 4.650972 TTGGGCCCAACAGGATATATAC 57.349 45.455 34.07 0.00 38.24 1.47
907 1228 6.126478 GGGCCCAACAGGATATATACATACAT 60.126 42.308 19.95 0.00 38.24 2.29
909 1230 7.283127 GGCCCAACAGGATATATACATACATTG 59.717 40.741 0.00 0.00 38.24 2.82
912 1233 9.383519 CCAACAGGATATATACATACATTGGAC 57.616 37.037 4.05 0.00 34.87 4.02
913 1234 9.087424 CAACAGGATATATACATACATTGGACG 57.913 37.037 0.00 0.00 0.00 4.79
915 1236 7.147724 ACAGGATATATACATACATTGGACGGG 60.148 40.741 0.00 0.00 0.00 5.28
916 1237 5.989777 GGATATATACATACATTGGACGGGC 59.010 44.000 0.00 0.00 0.00 6.13
917 1238 6.183360 GGATATATACATACATTGGACGGGCT 60.183 42.308 0.00 0.00 0.00 5.19
918 1239 2.613026 TACATACATTGGACGGGCTG 57.387 50.000 0.00 0.00 0.00 4.85
919 1240 0.748005 ACATACATTGGACGGGCTGC 60.748 55.000 0.00 0.00 0.00 5.25
922 1243 2.252072 TACATTGGACGGGCTGCTCC 62.252 60.000 0.00 0.00 0.00 4.70
946 1267 3.014036 CACGCAATTCGATCCCCG 58.986 61.111 4.65 0.00 41.67 5.73
949 1270 1.520564 CGCAATTCGATCCCCGTCA 60.521 57.895 0.00 0.00 41.67 4.35
950 1271 1.087202 CGCAATTCGATCCCCGTCAA 61.087 55.000 0.00 0.00 41.67 3.18
951 1272 0.377203 GCAATTCGATCCCCGTCAAC 59.623 55.000 0.00 0.00 39.75 3.18
952 1273 0.650512 CAATTCGATCCCCGTCAACG 59.349 55.000 0.00 0.00 39.75 4.10
965 1286 0.784778 GTCAACGGAAAGCAGAGTCG 59.215 55.000 0.00 0.00 0.00 4.18
968 1289 2.069273 CAACGGAAAGCAGAGTCGAAT 58.931 47.619 0.00 0.00 0.00 3.34
969 1290 1.997669 ACGGAAAGCAGAGTCGAATC 58.002 50.000 4.34 4.34 0.00 2.52
971 1292 1.281899 GGAAAGCAGAGTCGAATCGG 58.718 55.000 8.68 8.68 0.00 4.18
973 1294 1.078759 AAAGCAGAGTCGAATCGGCG 61.079 55.000 27.20 12.76 43.97 6.46
974 1295 2.890847 AAGCAGAGTCGAATCGGCGG 62.891 60.000 27.20 11.37 43.97 6.13
975 1296 2.798689 CAGAGTCGAATCGGCGGA 59.201 61.111 7.21 0.00 36.23 5.54
977 1298 1.749638 AGAGTCGAATCGGCGGAGT 60.750 57.895 7.21 0.00 36.23 3.85
1065 1414 0.038166 GACTGCACCTGGATTTCCCA 59.962 55.000 0.00 0.00 44.25 4.37
1075 1424 0.620556 GGATTTCCCAGGAGACAGCA 59.379 55.000 0.00 0.00 34.14 4.41
1080 1429 2.659016 CCAGGAGACAGCAGCGAA 59.341 61.111 0.00 0.00 0.00 4.70
1094 1449 1.053424 AGCGAAGGGGTTACAACTCA 58.947 50.000 0.00 0.00 0.00 3.41
1097 1452 2.268298 CGAAGGGGTTACAACTCATCG 58.732 52.381 5.41 5.41 35.17 3.84
1156 1520 1.993369 GACCGGCCATGTAAAGCAGC 61.993 60.000 0.00 0.00 0.00 5.25
1377 1744 3.367743 CAGCACCGGCAGCACAAT 61.368 61.111 20.11 0.00 44.61 2.71
1381 1748 1.672030 CACCGGCAGCACAATGAGA 60.672 57.895 0.00 0.00 0.00 3.27
1388 1755 1.941209 GCAGCACAATGAGAACGAGGA 60.941 52.381 0.00 0.00 0.00 3.71
1552 1919 3.868757 TCTGATCAAACGAAGACGGAT 57.131 42.857 0.00 0.00 44.46 4.18
1560 1927 2.295253 ACGAAGACGGATGGTGATTC 57.705 50.000 0.00 0.00 44.46 2.52
1582 1950 4.098044 TCTGTGGGAATCTGTCTAATCGAC 59.902 45.833 0.00 0.00 43.14 4.20
1583 1951 4.023980 TGTGGGAATCTGTCTAATCGACT 58.976 43.478 0.00 0.00 43.25 4.18
1584 1952 4.142160 TGTGGGAATCTGTCTAATCGACTG 60.142 45.833 0.00 0.00 43.25 3.51
1629 2000 7.388224 CCATAGCATGATGATAGATTGATAGCC 59.612 40.741 0.00 0.00 0.00 3.93
1653 2024 7.633553 GCCCATCCTCTATTTGTTTATTTTGCT 60.634 37.037 0.00 0.00 0.00 3.91
1659 2030 9.736023 CCTCTATTTGTTTATTTTGCTATGTCC 57.264 33.333 0.00 0.00 0.00 4.02
1673 2045 4.907269 TGCTATGTCCCATCCTCTATTCAA 59.093 41.667 0.00 0.00 0.00 2.69
1676 2048 3.736094 TGTCCCATCCTCTATTCAAGGT 58.264 45.455 0.00 0.00 35.29 3.50
1686 2058 7.937700 TCCTCTATTCAAGGTCTGGATATTT 57.062 36.000 0.00 0.00 35.29 1.40
1727 2114 6.033966 GTGTTGAAGTTTTGAACTAGGGTTG 58.966 40.000 0.00 0.00 41.91 3.77
1730 2117 5.265989 TGAAGTTTTGAACTAGGGTTGGTT 58.734 37.500 0.00 0.00 41.91 3.67
1831 2229 7.907045 CACTGATAATAGCATGTTTTGTCTGTC 59.093 37.037 0.00 0.00 0.00 3.51
1840 2238 8.798859 AGCATGTTTTGTCTGTCTATTCTATT 57.201 30.769 0.00 0.00 0.00 1.73
1919 4561 2.023461 CGACTAGCACTCTCGCGG 59.977 66.667 6.13 0.00 36.85 6.46
1934 4576 0.943673 CGCGGGATGATAATGCACAA 59.056 50.000 0.00 0.00 0.00 3.33
1937 4579 3.311106 GCGGGATGATAATGCACAAATG 58.689 45.455 0.00 0.00 0.00 2.32
1944 4586 6.142798 GGATGATAATGCACAAATGTTTAGCG 59.857 38.462 0.00 0.00 0.00 4.26
1945 4587 5.339177 TGATAATGCACAAATGTTTAGCGG 58.661 37.500 0.00 0.00 0.00 5.52
1973 4661 3.658757 TGTTGGCAGCTTGAATTTACC 57.341 42.857 2.28 0.00 0.00 2.85
1986 4674 4.320870 TGAATTTACCGTTGAAGACTCCC 58.679 43.478 0.00 0.00 0.00 4.30
2011 4699 3.052455 TGCGCTAGTTCCAATTTCTCA 57.948 42.857 9.73 0.00 0.00 3.27
2038 4726 2.141517 CAAGCATAAGAGAGGGCATCG 58.858 52.381 0.00 0.00 0.00 3.84
2039 4727 1.418334 AGCATAAGAGAGGGCATCGT 58.582 50.000 0.00 0.00 0.00 3.73
2040 4728 1.342819 AGCATAAGAGAGGGCATCGTC 59.657 52.381 0.00 0.00 0.00 4.20
2041 4729 1.342819 GCATAAGAGAGGGCATCGTCT 59.657 52.381 0.00 0.00 40.41 4.18
2042 4730 2.224161 GCATAAGAGAGGGCATCGTCTT 60.224 50.000 14.79 14.79 38.14 3.01
2043 4731 3.388308 CATAAGAGAGGGCATCGTCTTG 58.612 50.000 17.85 5.53 38.14 3.02
2044 4732 0.107945 AAGAGAGGGCATCGTCTTGC 60.108 55.000 11.26 0.19 38.14 4.01
2045 4733 1.219124 GAGAGGGCATCGTCTTGCA 59.781 57.895 9.30 0.00 44.59 4.08
2066 4754 4.675510 CACCTTTCATGGTCATTATGCAC 58.324 43.478 0.00 0.00 38.45 4.57
2100 4788 2.866688 CGGCTTTGACGTTTGTTGG 58.133 52.632 0.00 0.00 0.00 3.77
2123 4811 5.417580 GGAAACTTGCCAATATTACAGGTCA 59.582 40.000 6.05 0.00 0.00 4.02
2189 4877 0.815615 GGGAGTAGCGGCATTGGAAG 60.816 60.000 1.45 0.00 0.00 3.46
2193 4881 1.521457 TAGCGGCATTGGAAGAGCG 60.521 57.895 1.45 0.00 0.00 5.03
2204 4892 1.446966 GAAGAGCGAGTGTGCCCTC 60.447 63.158 0.00 0.00 34.65 4.30
2257 4945 2.573340 CACAATTTGGCCGCCCTC 59.427 61.111 7.03 0.00 0.00 4.30
2258 4946 2.117206 ACAATTTGGCCGCCCTCA 59.883 55.556 7.03 0.00 0.00 3.86
2263 4951 0.324645 ATTTGGCCGCCCTCATTTCT 60.325 50.000 7.03 0.00 0.00 2.52
2274 4962 2.619074 CCCTCATTTCTCAAGGTGGTCC 60.619 54.545 0.00 0.00 0.00 4.46
2286 4974 4.655921 TGGTCCGCCATCCAAATC 57.344 55.556 0.00 0.00 40.46 2.17
2289 4977 1.451387 GTCCGCCATCCAAATCCGT 60.451 57.895 0.00 0.00 0.00 4.69
2296 4984 3.366476 CGCCATCCAAATCCGTTTTGTTA 60.366 43.478 7.15 0.00 42.68 2.41
2305 4993 7.757624 TCCAAATCCGTTTTGTTAATGATTAGC 59.242 33.333 7.15 0.00 42.68 3.09
2314 5002 7.887996 TTTGTTAATGATTAGCCAAGCAAAG 57.112 32.000 0.00 0.00 32.96 2.77
2347 5067 1.134220 TGAGGTTGGTGGTGTTGTCTC 60.134 52.381 0.00 0.00 0.00 3.36
2369 5089 4.580167 TCACCTGAATTGTGGCTTATATGC 59.420 41.667 2.01 2.01 34.46 3.14
2376 5096 2.833794 TGTGGCTTATATGCGGAAGTC 58.166 47.619 4.67 0.00 0.00 3.01
2394 5114 1.265095 GTCGTCGAGTATTGGCCGATA 59.735 52.381 8.78 8.78 34.71 2.92
2396 5116 1.534163 CGTCGAGTATTGGCCGATAGA 59.466 52.381 13.41 4.70 34.71 1.98
2398 5118 3.366070 CGTCGAGTATTGGCCGATAGAAT 60.366 47.826 13.41 1.48 34.71 2.40
2402 5122 5.047306 TCGAGTATTGGCCGATAGAATTCAT 60.047 40.000 13.41 0.00 39.76 2.57
2403 5123 5.289675 CGAGTATTGGCCGATAGAATTCATC 59.710 44.000 13.41 7.83 39.76 2.92
2404 5124 5.491982 AGTATTGGCCGATAGAATTCATCC 58.508 41.667 13.41 0.00 39.76 3.51
2405 5125 4.647564 ATTGGCCGATAGAATTCATCCT 57.352 40.909 2.64 0.00 39.76 3.24
2406 5126 5.762179 ATTGGCCGATAGAATTCATCCTA 57.238 39.130 2.64 0.00 39.76 2.94
2416 5136 9.045223 CGATAGAATTCATCCTACAAACAATGA 57.955 33.333 8.44 0.00 39.76 2.57
2428 5148 7.029563 CCTACAAACAATGAAGTCTTAATGCC 58.970 38.462 0.00 0.00 0.00 4.40
2437 5157 3.287867 AGTCTTAATGCCCCTCACATG 57.712 47.619 0.00 0.00 0.00 3.21
2460 5180 6.591935 TGGTAGAGTTTGTGAAAGTGATCTT 58.408 36.000 0.00 0.00 35.14 2.40
2464 5184 5.357878 AGAGTTTGTGAAAGTGATCTTGCAA 59.642 36.000 0.00 0.00 40.49 4.08
2468 5188 7.649306 AGTTTGTGAAAGTGATCTTGCAAATAC 59.351 33.333 0.00 0.00 40.49 1.89
2505 5225 0.111061 TGCTGAGTTGTGAGCCCATT 59.889 50.000 0.00 0.00 34.04 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 1.609555 CCTACATCACCGAGAGCTACC 59.390 57.143 0.00 0.00 0.00 3.18
112 113 2.604686 TCACCCTTCTCTGCCGCT 60.605 61.111 0.00 0.00 0.00 5.52
202 474 1.451028 CTCTGCTGCCCCTACAAGC 60.451 63.158 0.00 0.00 0.00 4.01
720 1003 2.742372 CACCGAAACCCCAGCTCG 60.742 66.667 0.00 0.00 0.00 5.03
733 1020 3.265791 CTCCATTTTCTCTTCTCCACCG 58.734 50.000 0.00 0.00 0.00 4.94
736 1023 2.936993 GCGCTCCATTTTCTCTTCTCCA 60.937 50.000 0.00 0.00 0.00 3.86
741 1028 1.815003 CAAGGCGCTCCATTTTCTCTT 59.185 47.619 7.64 0.00 33.74 2.85
745 1032 1.153765 GGCAAGGCGCTCCATTTTC 60.154 57.895 7.64 0.00 41.91 2.29
749 1044 4.809496 CCAGGCAAGGCGCTCCAT 62.809 66.667 7.64 0.00 41.91 3.41
767 1081 4.383861 GCAAAAGCCCAGCCCAGC 62.384 66.667 0.00 0.00 0.00 4.85
819 1139 4.232878 CCTAGCAGGCTCGCCCAG 62.233 72.222 3.92 0.00 36.58 4.45
892 1213 5.989777 GCCCGTCCAATGTATGTATATATCC 59.010 44.000 0.00 0.00 0.00 2.59
898 1219 2.810400 GCAGCCCGTCCAATGTATGTAT 60.810 50.000 0.00 0.00 0.00 2.29
900 1221 0.748005 GCAGCCCGTCCAATGTATGT 60.748 55.000 0.00 0.00 0.00 2.29
901 1222 0.464373 AGCAGCCCGTCCAATGTATG 60.464 55.000 0.00 0.00 0.00 2.39
926 1247 2.351210 GGATCGAATTGCGTGCGC 60.351 61.111 9.85 9.85 41.80 6.09
928 1249 2.715624 GGGGATCGAATTGCGTGC 59.284 61.111 0.00 0.00 41.80 5.34
929 1250 1.762222 GACGGGGATCGAATTGCGTG 61.762 60.000 0.00 0.00 42.43 5.34
930 1251 1.520787 GACGGGGATCGAATTGCGT 60.521 57.895 0.00 0.00 42.43 5.24
931 1252 1.087202 TTGACGGGGATCGAATTGCG 61.087 55.000 0.00 0.00 42.43 4.85
932 1253 0.377203 GTTGACGGGGATCGAATTGC 59.623 55.000 0.00 0.00 42.43 3.56
933 1254 0.650512 CGTTGACGGGGATCGAATTG 59.349 55.000 0.00 0.00 42.43 2.32
934 1255 3.059603 CGTTGACGGGGATCGAATT 57.940 52.632 0.00 0.00 42.43 2.17
946 1267 0.784778 CGACTCTGCTTTCCGTTGAC 59.215 55.000 0.00 0.00 0.00 3.18
949 1270 2.338500 GATTCGACTCTGCTTTCCGTT 58.662 47.619 0.00 0.00 0.00 4.44
950 1271 1.732732 CGATTCGACTCTGCTTTCCGT 60.733 52.381 0.00 0.00 0.00 4.69
951 1272 0.917259 CGATTCGACTCTGCTTTCCG 59.083 55.000 0.00 0.00 0.00 4.30
952 1273 1.281899 CCGATTCGACTCTGCTTTCC 58.718 55.000 7.83 0.00 0.00 3.13
953 1274 0.647925 GCCGATTCGACTCTGCTTTC 59.352 55.000 7.83 0.00 0.00 2.62
954 1275 1.078759 CGCCGATTCGACTCTGCTTT 61.079 55.000 15.24 0.00 0.00 3.51
955 1276 1.517257 CGCCGATTCGACTCTGCTT 60.517 57.895 15.24 0.00 0.00 3.91
956 1277 2.103143 CGCCGATTCGACTCTGCT 59.897 61.111 15.24 0.00 0.00 4.24
957 1278 2.956964 CCGCCGATTCGACTCTGC 60.957 66.667 7.83 8.79 0.00 4.26
958 1279 1.298713 CTCCGCCGATTCGACTCTG 60.299 63.158 7.83 0.00 0.00 3.35
959 1280 1.716826 GACTCCGCCGATTCGACTCT 61.717 60.000 7.83 0.00 0.00 3.24
961 1282 2.799371 GACTCCGCCGATTCGACT 59.201 61.111 7.83 0.00 0.00 4.18
973 1294 2.502080 CTGACGACGTGCGACTCC 60.502 66.667 4.58 0.00 44.57 3.85
974 1295 3.166630 GCTGACGACGTGCGACTC 61.167 66.667 4.58 0.00 44.57 3.36
975 1296 4.702081 GGCTGACGACGTGCGACT 62.702 66.667 4.58 0.00 44.57 4.18
1065 1414 2.654079 CCCTTCGCTGCTGTCTCCT 61.654 63.158 0.00 0.00 0.00 3.69
1066 1415 2.125350 CCCTTCGCTGCTGTCTCC 60.125 66.667 0.00 0.00 0.00 3.71
1075 1424 1.053424 TGAGTTGTAACCCCTTCGCT 58.947 50.000 0.00 0.00 0.00 4.93
1080 1429 0.909623 CCCGATGAGTTGTAACCCCT 59.090 55.000 0.00 0.00 0.00 4.79
1134 1492 1.095807 GCTTTACATGGCCGGTCTCC 61.096 60.000 7.97 0.00 0.00 3.71
1137 1495 1.993369 GCTGCTTTACATGGCCGGTC 61.993 60.000 0.00 0.00 0.00 4.79
1138 1496 2.046285 GCTGCTTTACATGGCCGGT 61.046 57.895 1.90 0.76 0.00 5.28
1139 1497 2.774799 GGCTGCTTTACATGGCCGG 61.775 63.158 0.00 0.00 30.68 6.13
1171 1535 4.459089 GCTCACCAGGACCTCCGC 62.459 72.222 0.00 0.00 42.08 5.54
1376 1743 0.827368 GCCCTTCTCCTCGTTCTCAT 59.173 55.000 0.00 0.00 0.00 2.90
1377 1744 0.541998 TGCCCTTCTCCTCGTTCTCA 60.542 55.000 0.00 0.00 0.00 3.27
1381 1748 2.294078 CCCTGCCCTTCTCCTCGTT 61.294 63.158 0.00 0.00 0.00 3.85
1388 1755 2.690510 GGAGCTCCCTGCCCTTCT 60.691 66.667 23.19 0.00 44.23 2.85
1543 1910 2.932614 CACAGAATCACCATCCGTCTTC 59.067 50.000 0.00 0.00 0.00 2.87
1560 1927 4.655762 TCGATTAGACAGATTCCCACAG 57.344 45.455 0.00 0.00 0.00 3.66
1582 1950 4.638421 TGGAAATCAACCCGCTAATAACAG 59.362 41.667 0.00 0.00 0.00 3.16
1583 1951 4.590918 TGGAAATCAACCCGCTAATAACA 58.409 39.130 0.00 0.00 0.00 2.41
1584 1952 5.767816 ATGGAAATCAACCCGCTAATAAC 57.232 39.130 0.00 0.00 0.00 1.89
1627 1998 6.479990 GCAAAATAAACAAATAGAGGATGGGC 59.520 38.462 0.00 0.00 0.00 5.36
1653 2024 5.476983 ACCTTGAATAGAGGATGGGACATA 58.523 41.667 0.00 0.00 39.64 2.29
1659 2030 3.969976 TCCAGACCTTGAATAGAGGATGG 59.030 47.826 10.75 10.75 41.69 3.51
1673 2045 6.139679 TGGAAGACAAAAATATCCAGACCT 57.860 37.500 0.00 0.00 35.33 3.85
1686 2058 8.527810 ACTTCAACACTTATTTTGGAAGACAAA 58.472 29.630 0.00 0.00 46.82 2.83
1707 2094 4.862371 ACCAACCCTAGTTCAAAACTTCA 58.138 39.130 0.00 0.00 42.81 3.02
1708 2095 5.358725 TGAACCAACCCTAGTTCAAAACTTC 59.641 40.000 3.24 0.00 46.93 3.01
1723 2110 4.632251 ACCGTTTTGATTTTTGAACCAACC 59.368 37.500 0.00 0.00 0.00 3.77
1727 2114 4.865365 TGTCACCGTTTTGATTTTTGAACC 59.135 37.500 0.00 0.00 0.00 3.62
1730 2117 5.317733 AGTGTCACCGTTTTGATTTTTGA 57.682 34.783 0.00 0.00 0.00 2.69
1735 2122 7.392113 TCCATAATAAGTGTCACCGTTTTGATT 59.608 33.333 0.00 0.00 0.00 2.57
1803 2190 8.618677 CAGACAAAACATGCTATTATCAGTGAT 58.381 33.333 11.12 11.12 0.00 3.06
1804 2191 7.607607 ACAGACAAAACATGCTATTATCAGTGA 59.392 33.333 0.00 0.00 0.00 3.41
1806 2193 7.826252 AGACAGACAAAACATGCTATTATCAGT 59.174 33.333 0.00 0.00 0.00 3.41
1807 2194 8.206325 AGACAGACAAAACATGCTATTATCAG 57.794 34.615 0.00 0.00 0.00 2.90
1808 2195 9.836864 ATAGACAGACAAAACATGCTATTATCA 57.163 29.630 0.00 0.00 0.00 2.15
1811 2198 9.890629 AGAATAGACAGACAAAACATGCTATTA 57.109 29.630 0.00 0.00 30.54 0.98
1812 2199 8.798859 AGAATAGACAGACAAAACATGCTATT 57.201 30.769 0.00 0.00 31.78 1.73
1814 2201 9.890629 AATAGAATAGACAGACAAAACATGCTA 57.109 29.630 0.00 0.00 0.00 3.49
1815 2202 8.798859 AATAGAATAGACAGACAAAACATGCT 57.201 30.769 0.00 0.00 0.00 3.79
1844 2242 9.950496 AGATACTTTGGCGAGATGAATAAATAT 57.050 29.630 0.00 0.00 0.00 1.28
1845 2243 9.778741 AAGATACTTTGGCGAGATGAATAAATA 57.221 29.630 0.00 0.00 0.00 1.40
1919 4561 6.142798 CGCTAAACATTTGTGCATTATCATCC 59.857 38.462 0.00 0.00 0.00 3.51
1934 4576 5.460646 CAACAATCACTTCCGCTAAACATT 58.539 37.500 0.00 0.00 0.00 2.71
1937 4579 3.821841 CCAACAATCACTTCCGCTAAAC 58.178 45.455 0.00 0.00 0.00 2.01
1944 4586 1.251251 AGCTGCCAACAATCACTTCC 58.749 50.000 0.00 0.00 0.00 3.46
1945 4587 2.294233 TCAAGCTGCCAACAATCACTTC 59.706 45.455 0.00 0.00 0.00 3.01
1973 4661 1.663702 AACGCGGGAGTCTTCAACG 60.664 57.895 12.47 0.00 0.00 4.10
2024 4712 1.137086 GCAAGACGATGCCCTCTCTTA 59.863 52.381 0.00 0.00 40.49 2.10
2038 4726 2.229792 TGACCATGAAAGGTGCAAGAC 58.770 47.619 0.00 0.00 43.38 3.01
2039 4727 2.655090 TGACCATGAAAGGTGCAAGA 57.345 45.000 0.00 0.00 43.38 3.02
2040 4728 3.947910 AATGACCATGAAAGGTGCAAG 57.052 42.857 0.00 0.00 43.38 4.01
2041 4729 4.381825 GCATAATGACCATGAAAGGTGCAA 60.382 41.667 0.00 0.00 43.38 4.08
2042 4730 3.130869 GCATAATGACCATGAAAGGTGCA 59.869 43.478 0.00 0.00 43.38 4.57
2043 4731 3.130869 TGCATAATGACCATGAAAGGTGC 59.869 43.478 0.00 0.00 43.38 5.01
2044 4732 4.440525 GGTGCATAATGACCATGAAAGGTG 60.441 45.833 0.00 0.00 43.38 4.00
2045 4733 3.701040 GGTGCATAATGACCATGAAAGGT 59.299 43.478 0.00 0.00 46.82 3.50
2066 4754 2.325082 CCGTGGCCGACTCTTTTGG 61.325 63.158 0.00 0.00 35.63 3.28
2100 4788 6.509418 TGACCTGTAATATTGGCAAGTTTC 57.491 37.500 5.96 2.29 0.00 2.78
2112 4800 0.834612 CCGGGGCTTGACCTGTAATA 59.165 55.000 0.00 0.00 39.10 0.98
2116 4804 4.974438 TCCCGGGGCTTGACCTGT 62.974 66.667 23.50 0.00 39.10 4.00
2156 4844 5.221661 CCGCTACTCCCTTAGGATTTGTAAT 60.222 44.000 0.00 0.00 42.93 1.89
2159 4847 2.434702 CCGCTACTCCCTTAGGATTTGT 59.565 50.000 0.00 0.00 42.93 2.83
2193 4881 0.798776 CATGAAACGAGGGCACACTC 59.201 55.000 0.00 0.00 0.00 3.51
2204 4892 1.339631 TGTAAGGGGGCTCATGAAACG 60.340 52.381 0.00 0.00 0.00 3.60
2257 4945 0.804989 GCGGACCACCTTGAGAAATG 59.195 55.000 0.00 0.00 0.00 2.32
2258 4946 0.322546 GGCGGACCACCTTGAGAAAT 60.323 55.000 0.00 0.00 35.26 2.17
2274 4962 1.627879 CAAAACGGATTTGGATGGCG 58.372 50.000 3.07 0.00 43.85 5.69
2286 4974 5.288472 GCTTGGCTAATCATTAACAAAACGG 59.712 40.000 0.00 0.00 0.00 4.44
2289 4977 8.147058 TCTTTGCTTGGCTAATCATTAACAAAA 58.853 29.630 0.00 0.00 0.00 2.44
2296 4984 5.163513 CGTTTCTTTGCTTGGCTAATCATT 58.836 37.500 0.00 0.00 0.00 2.57
2305 4993 0.385390 AGCACCGTTTCTTTGCTTGG 59.615 50.000 0.00 0.00 44.26 3.61
2314 5002 1.264288 CAACCTCAAGAGCACCGTTTC 59.736 52.381 0.00 0.00 0.00 2.78
2347 5067 4.555313 CGCATATAAGCCACAATTCAGGTG 60.555 45.833 0.00 0.00 36.03 4.00
2369 5089 1.823828 CCAATACTCGACGACTTCCG 58.176 55.000 0.00 0.00 45.44 4.30
2376 5096 1.534163 TCTATCGGCCAATACTCGACG 59.466 52.381 2.24 0.00 35.70 5.12
2394 5114 8.641498 ACTTCATTGTTTGTAGGATGAATTCT 57.359 30.769 7.05 0.00 37.73 2.40
2396 5116 8.641498 AGACTTCATTGTTTGTAGGATGAATT 57.359 30.769 0.00 0.00 37.73 2.17
2398 5118 9.567776 TTAAGACTTCATTGTTTGTAGGATGAA 57.432 29.630 0.00 0.00 36.47 2.57
2402 5122 7.094377 GGCATTAAGACTTCATTGTTTGTAGGA 60.094 37.037 0.00 0.00 0.00 2.94
2403 5123 7.029563 GGCATTAAGACTTCATTGTTTGTAGG 58.970 38.462 0.00 0.00 0.00 3.18
2404 5124 7.029563 GGGCATTAAGACTTCATTGTTTGTAG 58.970 38.462 0.00 0.00 0.00 2.74
2405 5125 6.071616 GGGGCATTAAGACTTCATTGTTTGTA 60.072 38.462 0.00 0.00 0.00 2.41
2406 5126 5.279456 GGGGCATTAAGACTTCATTGTTTGT 60.279 40.000 0.00 0.00 0.00 2.83
2416 5136 3.624777 CATGTGAGGGGCATTAAGACTT 58.375 45.455 0.00 0.00 0.00 3.01
2428 5148 3.007940 TCACAAACTCTACCATGTGAGGG 59.992 47.826 3.52 1.93 45.14 4.30
2437 5157 6.566753 GCAAGATCACTTTCACAAACTCTACC 60.567 42.308 0.00 0.00 33.70 3.18
2460 5180 3.307691 CCAGGAGTTCCTCAGTATTTGCA 60.308 47.826 0.00 0.00 46.65 4.08
2464 5184 4.163078 CACATCCAGGAGTTCCTCAGTATT 59.837 45.833 0.00 0.00 46.65 1.89
2468 5188 1.406614 GCACATCCAGGAGTTCCTCAG 60.407 57.143 0.00 0.00 46.65 3.35
2480 5200 1.879372 GCTCACAACTCAGCACATCCA 60.879 52.381 0.00 0.00 35.56 3.41
2488 5208 1.171308 CCAATGGGCTCACAACTCAG 58.829 55.000 0.00 0.00 0.00 3.35


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

AutoCloner maintained by Alex Coulton.