Multiple sequence alignment - TraesCS5D01G309700

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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 TraesCS5D01G309700 chr5D 100.000 4537 0 0 1 4537 406596806 406592270 0.000000e+00 8379.0
1 TraesCS5D01G309700 chr5B 94.199 2982 102 29 237 3190 487609467 487606529 0.000000e+00 4482.0
2 TraesCS5D01G309700 chr5B 88.640 669 49 9 3690 4355 487605956 487605312 0.000000e+00 789.0
3 TraesCS5D01G309700 chr5B 93.584 452 17 7 3189 3637 487606484 487606042 0.000000e+00 664.0
4 TraesCS5D01G309700 chr5B 91.031 223 16 2 18 236 487609755 487609533 9.540000e-77 298.0
5 TraesCS5D01G309700 chr5A 90.387 1342 73 27 1 1304 512235935 512234612 0.000000e+00 1712.0
6 TraesCS5D01G309700 chr5A 91.624 979 50 9 3189 4156 512232583 512231626 0.000000e+00 1325.0
7 TraesCS5D01G309700 chr5A 94.403 804 25 4 2406 3189 512233470 512232667 0.000000e+00 1218.0
8 TraesCS5D01G309700 chr5A 94.772 593 23 6 1818 2406 512234161 512233573 0.000000e+00 917.0
9 TraesCS5D01G309700 chr5A 85.608 403 32 10 4150 4537 512231222 512230831 2.540000e-107 399.0
10 TraesCS5D01G309700 chr5A 88.690 336 26 6 1447 1780 512234466 512234141 2.540000e-107 399.0
11 TraesCS5D01G309700 chr2D 94.872 39 0 2 3667 3703 5231546 5231508 4.900000e-05 60.2
12 TraesCS5D01G309700 chr2A 94.872 39 0 2 3667 3703 3795736 3795698 4.900000e-05 60.2


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 TraesCS5D01G309700 chr5D 406592270 406596806 4536 True 8379.00 8379 100.0000 1 4537 1 chr5D.!!$R1 4536
1 TraesCS5D01G309700 chr5B 487605312 487609755 4443 True 1558.25 4482 91.8635 18 4355 4 chr5B.!!$R1 4337
2 TraesCS5D01G309700 chr5A 512230831 512235935 5104 True 995.00 1712 90.9140 1 4537 6 chr5A.!!$R1 4536

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
643 714 1.615392 AGTCAAGCTCAAACATTGCCC 59.385 47.619 0.00 0.00 0.0 5.36 F
896 988 2.744760 TCACATGAGGAGAGGAGAAGG 58.255 52.381 0.00 0.00 0.0 3.46 F
1839 1942 2.804986 TGTTGCCTCATGATGCCTAA 57.195 45.000 18.74 6.14 0.0 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1867 1970 0.541863 CAGTTCCCAGCGGATTAGGT 59.458 55.000 0.00 0.00 38.24 3.08 R
1878 1981 1.220749 GGTCTATGCGCAGTTCCCA 59.779 57.895 18.32 0.00 0.00 4.37 R
3718 4069 1.025812 TTAATTTACATGGCGCCGGG 58.974 50.000 23.90 18.93 0.00 5.73 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
27 28 8.947115 AGGCTTTGTTCTTTGATAGTACATAAC 58.053 33.333 0.00 0.00 34.61 1.89
67 68 4.082463 AGAGTGTGCTAAAGTGCTCTACTC 60.082 45.833 5.02 5.02 39.18 2.59
71 72 4.202212 TGTGCTAAAGTGCTCTACTCACAA 60.202 41.667 9.23 0.00 37.43 3.33
76 77 6.405953 GCTAAAGTGCTCTACTCACAATCCTA 60.406 42.308 0.00 0.00 39.18 2.94
78 79 3.702045 AGTGCTCTACTCACAATCCTACC 59.298 47.826 0.00 0.00 33.17 3.18
84 85 3.983044 ACTCACAATCCTACCAACTCC 57.017 47.619 0.00 0.00 0.00 3.85
148 152 5.049954 CCATTTTCAGGCAGATGTGTTTTTG 60.050 40.000 0.00 0.00 0.00 2.44
199 203 4.690748 CGCTTCCAAATCGATATGGTATGT 59.309 41.667 0.00 0.00 37.94 2.29
437 508 3.264450 CCCAGTGAAGTAATCAGGACCTT 59.736 47.826 0.00 0.00 39.19 3.50
643 714 1.615392 AGTCAAGCTCAAACATTGCCC 59.385 47.619 0.00 0.00 0.00 5.36
896 988 2.744760 TCACATGAGGAGAGGAGAAGG 58.255 52.381 0.00 0.00 0.00 3.46
938 1030 9.593134 GCTCTCCATACCAATAAATATAGTCAG 57.407 37.037 0.00 0.00 0.00 3.51
1117 1209 5.009610 GTGTTGAGGTTTTGGAGCTTCAATA 59.990 40.000 8.64 0.01 35.91 1.90
1182 1279 5.659849 AATTCAGCTTCTCCATCCCTATT 57.340 39.130 0.00 0.00 0.00 1.73
1368 1468 6.106673 TCTTCAGTTCTTCTCTGTTTTCGTT 58.893 36.000 0.00 0.00 34.86 3.85
1369 1469 6.594159 TCTTCAGTTCTTCTCTGTTTTCGTTT 59.406 34.615 0.00 0.00 34.86 3.60
1371 1471 7.141100 TCAGTTCTTCTCTGTTTTCGTTTTT 57.859 32.000 0.00 0.00 34.86 1.94
1372 1472 7.021196 TCAGTTCTTCTCTGTTTTCGTTTTTG 58.979 34.615 0.00 0.00 34.86 2.44
1373 1473 6.251376 CAGTTCTTCTCTGTTTTCGTTTTTGG 59.749 38.462 0.00 0.00 0.00 3.28
1506 1609 8.915057 ATTAATGCAGAGCAAACTAGATGTAT 57.085 30.769 0.00 0.00 43.62 2.29
1508 1611 9.830975 TTAATGCAGAGCAAACTAGATGTATTA 57.169 29.630 0.00 0.00 43.62 0.98
1604 1707 6.062749 TCTCTATGATGTAGGTGTGGACTAC 58.937 44.000 0.00 0.00 40.87 2.73
1695 1798 7.406104 ACTAATTATAAAGCCATCTCATCCCC 58.594 38.462 0.00 0.00 0.00 4.81
1700 1803 4.608170 AAAGCCATCTCATCCCCTTTTA 57.392 40.909 0.00 0.00 0.00 1.52
1701 1804 4.608170 AAGCCATCTCATCCCCTTTTAA 57.392 40.909 0.00 0.00 0.00 1.52
1788 1891 9.661187 GAGTTGATGTGATGAATGAAATATGAC 57.339 33.333 0.00 0.00 0.00 3.06
1795 1898 7.094420 TGTGATGAATGAAATATGACCGTGTTT 60.094 33.333 0.00 0.00 0.00 2.83
1839 1942 2.804986 TGTTGCCTCATGATGCCTAA 57.195 45.000 18.74 6.14 0.00 2.69
1867 1970 6.607970 TGCCTTATTACTAGACTAGTAGCCA 58.392 40.000 19.24 8.34 41.84 4.75
1875 1978 5.633117 ACTAGACTAGTAGCCACCTAATCC 58.367 45.833 13.63 0.00 37.23 3.01
1878 1981 2.240279 CTAGTAGCCACCTAATCCGCT 58.760 52.381 0.00 0.00 35.34 5.52
1896 1999 0.811616 CTGGGAACTGCGCATAGACC 60.812 60.000 12.24 12.51 38.89 3.85
1897 2000 1.264749 TGGGAACTGCGCATAGACCT 61.265 55.000 12.24 0.00 34.12 3.85
1931 2034 7.220741 TGGACATTAGCTTAGTCTGCTATAG 57.779 40.000 0.00 0.00 41.83 1.31
2007 2110 1.271934 TGCAATGCATGTTGTACCCAC 59.728 47.619 2.72 0.00 31.71 4.61
2071 2174 9.438291 CGCATAATTTGTATTCTGTTTTAGGAG 57.562 33.333 0.00 0.00 0.00 3.69
2198 2301 3.620374 GCTATCATGTTGGTGAGTCACAG 59.380 47.826 24.20 10.75 35.86 3.66
2219 2322 5.827797 ACAGTTCTTGCTTCAGTGGATTAAA 59.172 36.000 0.00 0.00 0.00 1.52
2224 2327 8.730680 GTTCTTGCTTCAGTGGATTAAAGAATA 58.269 33.333 6.60 0.00 35.54 1.75
2246 2349 3.869065 TGTTTCTTCAACGTTCCTGTCT 58.131 40.909 0.00 0.00 38.36 3.41
2322 2425 7.038531 AGATAAGTATCCTCAGCATCCTCTA 57.961 40.000 0.00 0.00 33.17 2.43
2352 2455 8.604890 CCTAAAGATATCAAAACGAAAGGTCTC 58.395 37.037 5.32 0.00 0.00 3.36
2665 2870 9.445786 GACAAGATTTCGTCTTAATTTTCAACA 57.554 29.630 0.00 0.00 45.35 3.33
2704 2909 1.882623 TGACAGTGTTTGTGTGTGCAA 59.117 42.857 0.00 0.00 41.05 4.08
2737 2942 5.699097 TGATTACTTTGCAGGGTTTACAC 57.301 39.130 0.00 0.00 0.00 2.90
2831 3036 5.894952 CGATATTTCGCAACATACTGTCTC 58.105 41.667 0.00 0.00 38.75 3.36
2958 3183 2.261671 CTGTTCTGACCCCCGTCG 59.738 66.667 0.00 0.00 42.37 5.12
3275 3593 0.038744 CCTTGGCAGGGAGATGTGTT 59.961 55.000 10.68 0.00 36.36 3.32
3354 3672 7.551585 TCACTTCCTCTCTGATATTCTTTGTC 58.448 38.462 0.00 0.00 0.00 3.18
3479 3797 1.006391 CACGACGCGTACATGGAAATC 60.006 52.381 13.97 0.00 38.32 2.17
3675 3994 2.380084 TACACTTTGGCGTCCATCTC 57.620 50.000 0.00 0.00 31.53 2.75
3682 4001 4.933064 GCGTCCATCTCGCCGAGG 62.933 72.222 15.08 0.00 46.61 4.63
3770 4122 0.478072 ACCACCAGTGAGATTTGGCA 59.522 50.000 0.00 0.00 38.03 4.92
3811 4163 8.447833 TGATTTGACGAATTGACCTGTATTTAC 58.552 33.333 0.00 0.00 0.00 2.01
3847 4199 7.766278 TCTCTCTTGGATTTGTATTTACTGCTC 59.234 37.037 0.00 0.00 0.00 4.26
3902 4254 3.689161 TGATTGGGTAAATTCGCTCTGTG 59.311 43.478 0.00 0.00 0.00 3.66
3945 4298 0.034863 GGACGGCCCCTGTGATTTTA 60.035 55.000 0.00 0.00 0.00 1.52
3946 4299 1.092348 GACGGCCCCTGTGATTTTAC 58.908 55.000 0.00 0.00 0.00 2.01
4042 4395 5.808366 AACAAGTGATCTGTTGGAGAGTA 57.192 39.130 11.00 0.00 32.80 2.59
4043 4396 5.398603 ACAAGTGATCTGTTGGAGAGTAG 57.601 43.478 11.00 0.00 32.80 2.57
4044 4397 5.080337 ACAAGTGATCTGTTGGAGAGTAGA 58.920 41.667 11.00 0.00 32.80 2.59
4076 4429 1.885887 CAGAAACGAAATGGCCCTGAA 59.114 47.619 0.00 0.00 0.00 3.02
4077 4430 2.295909 CAGAAACGAAATGGCCCTGAAA 59.704 45.455 0.00 0.00 0.00 2.69
4105 4458 5.070714 TCAGATTAATCGGGGAATCGGTTTA 59.929 40.000 14.49 0.00 37.19 2.01
4118 4471 5.352643 AATCGGTTTACCTGTTTTTCTCG 57.647 39.130 0.00 0.00 0.00 4.04
4136 4489 2.738846 CTCGTGAGGAGTCAAAATGTGG 59.261 50.000 0.00 0.00 38.02 4.17
4141 4494 3.077359 GAGGAGTCAAAATGTGGGACTG 58.923 50.000 0.00 0.00 41.68 3.51
4142 4495 1.541588 GGAGTCAAAATGTGGGACTGC 59.458 52.381 0.00 0.00 41.68 4.40
4156 4509 2.285773 ACTGCTCAGTCCCGATGCA 61.286 57.895 0.00 0.00 36.92 3.96
4157 4510 1.145598 CTGCTCAGTCCCGATGCAT 59.854 57.895 0.00 0.00 33.02 3.96
4158 4511 1.153309 TGCTCAGTCCCGATGCATG 60.153 57.895 2.46 0.00 0.00 4.06
4159 4512 2.541120 GCTCAGTCCCGATGCATGC 61.541 63.158 11.82 11.82 0.00 4.06
4160 4513 1.145598 CTCAGTCCCGATGCATGCT 59.854 57.895 20.33 4.11 0.00 3.79
4161 4514 0.463295 CTCAGTCCCGATGCATGCTT 60.463 55.000 20.33 13.23 0.00 3.91
4162 4515 0.745486 TCAGTCCCGATGCATGCTTG 60.745 55.000 20.33 8.29 0.00 4.01
4208 4971 1.014044 CGTCATTGGTGGGAGTCGTG 61.014 60.000 0.00 0.00 0.00 4.35
4212 4975 0.889186 ATTGGTGGGAGTCGTGCAAC 60.889 55.000 0.00 0.00 0.00 4.17
4289 5053 4.510038 AGATTGTTTGGAACATGACAGC 57.490 40.909 0.00 0.00 41.79 4.40
4311 5079 3.061831 CGTGAGCTCATTTCTTGTAGCAG 59.938 47.826 21.47 0.00 37.44 4.24
4340 5108 4.473196 TGGTTATATCTGAACCCTCTGCAA 59.527 41.667 3.88 0.00 44.95 4.08
4349 5117 4.157958 CCTCTGCAAGCTTCGCGC 62.158 66.667 0.00 0.00 39.57 6.86
4352 5128 2.815211 CTGCAAGCTTCGCGCCTA 60.815 61.111 0.00 0.00 40.39 3.93
4355 5131 2.173669 GCAAGCTTCGCGCCTATGA 61.174 57.895 0.00 0.00 40.39 2.15
4372 5148 1.592669 GAGCGACACATCCATCGGG 60.593 63.158 0.00 0.00 38.78 5.14
4385 5161 1.009829 CATCGGGAAAGAAAGAGCGG 58.990 55.000 0.00 0.00 0.00 5.52
4393 5169 1.160137 AAGAAAGAGCGGCACATGTC 58.840 50.000 1.45 0.00 0.00 3.06
4413 5189 1.321743 CGCACGAACAGATGAAGCTAC 59.678 52.381 0.00 0.00 0.00 3.58
4446 5222 5.339990 CGACATTTGACCTTTTTCAGTTGT 58.660 37.500 0.00 0.00 0.00 3.32
4448 5224 6.310224 CGACATTTGACCTTTTTCAGTTGTTT 59.690 34.615 0.00 0.00 0.00 2.83
4449 5225 7.486551 CGACATTTGACCTTTTTCAGTTGTTTA 59.513 33.333 0.00 0.00 0.00 2.01
4488 5265 3.194062 TCTTTTTCTTTTTGGGCTTGCG 58.806 40.909 0.00 0.00 0.00 4.85
4512 5289 4.221422 GCACGAGCGCCCTATGGA 62.221 66.667 2.29 0.00 0.00 3.41
4519 5298 1.807142 GAGCGCCCTATGGAATTAAGC 59.193 52.381 2.29 0.00 0.00 3.09
4524 5303 3.251004 CGCCCTATGGAATTAAGCACTTC 59.749 47.826 0.00 0.00 0.00 3.01
4526 5305 4.889995 GCCCTATGGAATTAAGCACTTCTT 59.110 41.667 0.00 0.00 38.79 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 2.074576 CTCTTCACTGTGACCAGCATG 58.925 52.381 10.56 0.00 42.81 4.06
54 55 4.899352 AGGATTGTGAGTAGAGCACTTT 57.101 40.909 0.00 0.00 37.72 2.66
67 68 2.762535 ACGGAGTTGGTAGGATTGTG 57.237 50.000 0.00 0.00 37.78 3.33
84 85 6.691818 CCTACTTAGCTGATGTTACACTAACG 59.308 42.308 0.00 0.00 41.50 3.18
136 140 1.665442 GGGCGCCAAAAACACATCT 59.335 52.632 30.85 0.00 0.00 2.90
199 203 8.861086 CAGAGAGCTTAGAATAGGGTAACATTA 58.139 37.037 0.00 0.00 39.74 1.90
437 508 9.681692 CAAACATGAAAAATCTTACAGTCATCA 57.318 29.630 0.00 0.00 0.00 3.07
643 714 4.245660 TGATGTCTCTTTCGGCTTAACAG 58.754 43.478 0.00 0.00 0.00 3.16
766 842 0.178873 TAGGGCCCAGAAAGTCAGGT 60.179 55.000 27.56 0.00 0.00 4.00
896 988 0.179070 GAGCCGGAGAAGGGATTGTC 60.179 60.000 5.05 0.00 0.00 3.18
938 1030 1.067669 TGGAGACGATGCAGCAGTATC 59.932 52.381 1.53 7.83 34.00 2.24
1092 1184 2.736670 AGCTCCAAAACCTCAACACT 57.263 45.000 0.00 0.00 0.00 3.55
1093 1185 2.687935 TGAAGCTCCAAAACCTCAACAC 59.312 45.455 0.00 0.00 0.00 3.32
1117 1209 7.530426 AACATAATCAAGAAGAACCAAAGCT 57.470 32.000 0.00 0.00 0.00 3.74
1122 1214 6.661805 GGGGTTAACATAATCAAGAAGAACCA 59.338 38.462 8.10 0.00 36.38 3.67
1206 1303 6.552445 AGAGTGTTCTGAACCTAGCATAAT 57.448 37.500 17.26 0.00 30.72 1.28
1243 1341 0.330604 ACAGCTGGTGGCATCTGAAT 59.669 50.000 19.93 0.00 44.79 2.57
1368 1468 5.833667 ACAAAGGGAAAACCAAAAACCAAAA 59.166 32.000 0.00 0.00 43.89 2.44
1369 1469 5.386060 ACAAAGGGAAAACCAAAAACCAAA 58.614 33.333 0.00 0.00 43.89 3.28
1371 1471 4.642466 ACAAAGGGAAAACCAAAAACCA 57.358 36.364 0.00 0.00 43.89 3.67
1372 1472 5.968528 AAACAAAGGGAAAACCAAAAACC 57.031 34.783 0.00 0.00 43.89 3.27
1373 1473 8.101654 ACTAAAACAAAGGGAAAACCAAAAAC 57.898 30.769 0.00 0.00 43.89 2.43
1430 1530 6.073980 TGTGCGTCATTTTGTACTAGAAGAAC 60.074 38.462 0.00 0.00 0.00 3.01
1506 1609 5.302360 AGTGTGCACCGAAATTCTTAGTAA 58.698 37.500 15.69 0.00 0.00 2.24
1508 1611 3.740115 AGTGTGCACCGAAATTCTTAGT 58.260 40.909 15.69 0.00 0.00 2.24
1604 1707 4.551388 GAGGATTGACTGCCTTATACTCG 58.449 47.826 0.00 0.00 33.84 4.18
1710 1813 4.599047 TTGCAAACCGGAAATGAGATTT 57.401 36.364 9.46 0.00 34.64 2.17
1711 1814 4.806640 ATTGCAAACCGGAAATGAGATT 57.193 36.364 9.46 0.00 0.00 2.40
1788 1891 8.897809 CACATTTTACATGTAAACTAAACACGG 58.102 33.333 26.72 12.49 35.05 4.94
1857 1960 1.962100 GCGGATTAGGTGGCTACTAGT 59.038 52.381 0.00 0.00 0.00 2.57
1867 1970 0.541863 CAGTTCCCAGCGGATTAGGT 59.458 55.000 0.00 0.00 38.24 3.08
1878 1981 1.220749 GGTCTATGCGCAGTTCCCA 59.779 57.895 18.32 0.00 0.00 4.37
1896 1999 3.054065 AGCTAATGTCCAGGGAAGGAAAG 60.054 47.826 0.00 0.00 39.92 2.62
1897 2000 2.919602 AGCTAATGTCCAGGGAAGGAAA 59.080 45.455 0.00 0.00 39.92 3.13
1931 2034 2.514205 AAGATGGTGCACAAAGTTGC 57.486 45.000 20.43 0.00 43.31 4.17
2007 2110 4.013267 AGATTTCAGCATCGGGAATAGG 57.987 45.455 0.00 0.00 0.00 2.57
2071 2174 6.451064 AAGAAATCCATAACGGTGAATTCC 57.549 37.500 2.27 0.00 35.57 3.01
2198 2301 6.560253 TCTTTAATCCACTGAAGCAAGAAC 57.440 37.500 0.00 0.00 0.00 3.01
2219 2322 6.710744 ACAGGAACGTTGAAGAAACATATTCT 59.289 34.615 5.00 0.00 38.84 2.40
2224 2327 4.451900 AGACAGGAACGTTGAAGAAACAT 58.548 39.130 5.00 0.00 38.84 2.71
2235 2338 3.488363 AGTAACAGAGAGACAGGAACGT 58.512 45.455 0.00 0.00 0.00 3.99
2237 2340 6.578163 AACTAGTAACAGAGAGACAGGAAC 57.422 41.667 0.00 0.00 0.00 3.62
2322 2425 9.379791 CCTTTCGTTTTGATATCTTTAGGTACT 57.620 33.333 3.98 0.00 46.37 2.73
2352 2455 3.673594 GCCGGACATATACCTGAAGATCG 60.674 52.174 5.05 0.00 0.00 3.69
2413 2618 9.169592 GACACAGAAGTAGAACTATAGAAGAGT 57.830 37.037 6.78 0.00 0.00 3.24
2665 2870 6.203338 ACTGTCAAACACGTACCGAAATAATT 59.797 34.615 0.00 0.00 0.00 1.40
2674 2879 3.125658 ACAAACACTGTCAAACACGTACC 59.874 43.478 0.00 0.00 29.87 3.34
2680 2885 3.855154 GCACACACAAACACTGTCAAACA 60.855 43.478 0.00 0.00 35.47 2.83
2717 2922 4.391155 TCGTGTAAACCCTGCAAAGTAAT 58.609 39.130 0.00 0.00 0.00 1.89
2737 2942 2.732619 GGGGCTCAACCTACCCTCG 61.733 68.421 0.00 0.00 43.68 4.63
2831 3036 6.992123 TCAAATCTGCAGGTATATAACTGTGG 59.008 38.462 25.13 18.33 37.07 4.17
3082 3307 5.867903 TCAGAAACACAAACCAAATGGAT 57.132 34.783 6.42 0.00 38.94 3.41
3275 3593 1.770658 CATGGATCTGTGGGGCTAGAA 59.229 52.381 0.00 0.00 0.00 2.10
3354 3672 6.127814 TGAGAGCAGCAGAAATCTTAATTTGG 60.128 38.462 0.00 0.00 35.21 3.28
3467 3785 1.981256 ATGCCGGGATTTCCATGTAC 58.019 50.000 0.92 0.00 37.91 2.90
3656 3974 1.403647 CGAGATGGACGCCAAAGTGTA 60.404 52.381 2.68 0.00 36.95 2.90
3682 4001 4.943591 CATGGCATGTACGCGCGC 62.944 66.667 32.58 23.91 0.00 6.86
3684 4003 4.612536 GCCATGGCATGTACGCGC 62.613 66.667 32.08 16.78 41.49 6.86
3685 4004 4.297891 CGCCATGGCATGTACGCG 62.298 66.667 34.93 26.65 42.06 6.01
3686 4005 2.885676 CTCGCCATGGCATGTACGC 61.886 63.158 34.93 20.81 42.06 4.42
3687 4006 2.885676 GCTCGCCATGGCATGTACG 61.886 63.158 34.93 25.44 42.06 3.67
3688 4007 1.524621 AGCTCGCCATGGCATGTAC 60.525 57.895 34.93 19.02 42.06 2.90
3718 4069 1.025812 TTAATTTACATGGCGCCGGG 58.974 50.000 23.90 18.93 0.00 5.73
3811 4163 6.206243 ACAAATCCAAGAGAGAACATCAGTTG 59.794 38.462 0.00 0.00 38.30 3.16
3847 4199 1.519408 ATCCCCCGCGAAAAATATCG 58.481 50.000 8.23 0.00 45.41 2.92
3857 4209 0.817634 TCAGCAATAAATCCCCCGCG 60.818 55.000 0.00 0.00 0.00 6.46
3945 4298 0.036306 AAATCACTTTCCGGCCTCGT 59.964 50.000 0.00 0.00 33.95 4.18
3946 4299 0.447801 CAAATCACTTTCCGGCCTCG 59.552 55.000 0.00 0.00 0.00 4.63
4042 4395 6.861065 TTCGTTTCTGCAAAATTCTACTCT 57.139 33.333 0.00 0.00 0.00 3.24
4043 4396 7.061094 CCATTTCGTTTCTGCAAAATTCTACTC 59.939 37.037 0.00 0.00 0.00 2.59
4044 4397 6.863126 CCATTTCGTTTCTGCAAAATTCTACT 59.137 34.615 0.00 0.00 0.00 2.57
4076 4429 6.016276 CCGATTCCCCGATTAATCTGAAAATT 60.016 38.462 13.45 0.28 31.29 1.82
4077 4430 5.473504 CCGATTCCCCGATTAATCTGAAAAT 59.526 40.000 13.45 9.32 31.29 1.82
4105 4458 2.434702 ACTCCTCACGAGAAAAACAGGT 59.565 45.455 0.00 0.00 41.63 4.00
4118 4471 2.814336 GTCCCACATTTTGACTCCTCAC 59.186 50.000 0.00 0.00 0.00 3.51
4141 4494 2.541120 GCATGCATCGGGACTGAGC 61.541 63.158 14.21 0.00 0.00 4.26
4142 4495 0.463295 AAGCATGCATCGGGACTGAG 60.463 55.000 21.98 0.00 0.00 3.35
4156 4509 6.237154 AGAGTTCTTTCTCTAAAGCAAGCAT 58.763 36.000 0.00 0.00 42.18 3.79
4157 4510 5.615289 AGAGTTCTTTCTCTAAAGCAAGCA 58.385 37.500 0.00 0.00 42.18 3.91
4158 4511 6.164408 GAGAGTTCTTTCTCTAAAGCAAGC 57.836 41.667 0.00 0.00 43.74 4.01
4208 4971 1.668151 GACCAGGTGACCTCGTTGC 60.668 63.158 0.00 0.00 0.00 4.17
4212 4975 2.258591 CGTGACCAGGTGACCTCG 59.741 66.667 0.00 0.00 0.00 4.63
4215 4978 1.594293 CACACGTGACCAGGTGACC 60.594 63.158 25.01 0.00 46.69 4.02
4216 4979 0.179094 TTCACACGTGACCAGGTGAC 60.179 55.000 25.01 0.00 46.69 3.67
4217 4980 0.179094 GTTCACACGTGACCAGGTGA 60.179 55.000 25.01 11.54 46.69 4.02
4219 4982 1.145377 GGTTCACACGTGACCAGGT 59.855 57.895 25.01 0.00 39.66 4.00
4220 4983 0.462937 TTGGTTCACACGTGACCAGG 60.463 55.000 25.01 6.09 39.80 4.45
4221 4984 0.937304 CTTGGTTCACACGTGACCAG 59.063 55.000 25.01 14.49 39.80 4.00
4222 4985 0.537653 TCTTGGTTCACACGTGACCA 59.462 50.000 25.01 22.27 39.66 4.02
4289 5053 2.995939 TGCTACAAGAAATGAGCTCACG 59.004 45.455 20.97 6.08 34.94 4.35
4295 5059 4.391216 CAGTGGACTGCTACAAGAAATGAG 59.609 45.833 0.00 0.00 37.15 2.90
4305 5073 5.302059 TCAGATATAACCAGTGGACTGCTAC 59.698 44.000 18.40 1.65 42.47 3.58
4311 5079 4.409247 AGGGTTCAGATATAACCAGTGGAC 59.591 45.833 18.40 0.00 46.85 4.02
4349 5117 2.681706 GATGGATGTGTCGCTCATAGG 58.318 52.381 0.00 0.00 0.00 2.57
4352 5128 0.249615 CCGATGGATGTGTCGCTCAT 60.250 55.000 0.00 0.00 36.57 2.90
4355 5131 1.613317 TTCCCGATGGATGTGTCGCT 61.613 55.000 0.00 0.00 41.40 4.93
4372 5148 1.537202 ACATGTGCCGCTCTTTCTTTC 59.463 47.619 0.00 0.00 0.00 2.62
4374 5150 1.160137 GACATGTGCCGCTCTTTCTT 58.840 50.000 1.15 0.00 0.00 2.52
4376 5152 1.421485 CGACATGTGCCGCTCTTTC 59.579 57.895 1.15 0.00 0.00 2.62
4385 5161 1.154599 CTGTTCGTGCGACATGTGC 60.155 57.895 1.15 8.25 0.00 4.57
4393 5169 1.321743 GTAGCTTCATCTGTTCGTGCG 59.678 52.381 0.00 0.00 0.00 5.34
4396 5172 3.190744 TCTTCGTAGCTTCATCTGTTCGT 59.809 43.478 0.00 0.00 0.00 3.85
4398 5174 5.403246 TCTTCTTCGTAGCTTCATCTGTTC 58.597 41.667 0.00 0.00 0.00 3.18
4413 5189 2.092838 GGTCAAATGTCGCTCTTCTTCG 59.907 50.000 0.00 0.00 0.00 3.79
4462 5238 6.569418 GCAAGCCCAAAAAGAAAAAGAAAACA 60.569 34.615 0.00 0.00 0.00 2.83
4506 5283 9.132521 CAACAAAAGAAGTGCTTAATTCCATAG 57.867 33.333 0.00 0.00 35.24 2.23
4512 5289 4.209080 GCGCAACAAAAGAAGTGCTTAATT 59.791 37.500 0.30 0.00 35.24 1.40


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

AutoCloner maintained by Alex Coulton.