Multiple sequence alignment - TraesCS2D01G301900

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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 TraesCS2D01G301900 chr2D 100.000 5814 0 0 1 5814 385165224 385171037 0.000000e+00 10737.0
1 TraesCS2D01G301900 chr2B 94.598 5220 168 42 2 5154 456022903 456028075 0.000000e+00 7973.0
2 TraesCS2D01G301900 chr2B 92.500 320 20 2 5493 5808 456051170 456051489 6.870000e-124 455.0
3 TraesCS2D01G301900 chr2A 96.119 3453 91 7 893 4314 520307911 520311351 0.000000e+00 5594.0
4 TraesCS2D01G301900 chr2A 92.760 884 31 10 1 857 520306748 520307625 0.000000e+00 1247.0
5 TraesCS2D01G301900 chr2A 91.145 926 38 12 4363 5261 520311652 520312560 0.000000e+00 1216.0
6 TraesCS2D01G301900 chr2A 94.097 559 20 4 5269 5814 520312855 520313413 0.000000e+00 837.0
7 TraesCS2D01G301900 chr2A 89.041 73 8 0 3042 3114 704364911 704364983 2.230000e-14 91.6
8 TraesCS2D01G301900 chr7A 79.545 176 20 4 2949 3112 604392160 604391989 1.710000e-20 111.0
9 TraesCS2D01G301900 chr4A 79.268 164 25 8 2956 3113 175906785 175906625 7.970000e-19 106.0
10 TraesCS2D01G301900 chr4A 85.263 95 11 3 3042 3134 249744622 249744529 1.720000e-15 95.3
11 TraesCS2D01G301900 chr5A 89.474 76 8 0 3042 3117 393296645 393296720 4.800000e-16 97.1
12 TraesCS2D01G301900 chr3D 86.047 86 12 0 3033 3118 45065533 45065618 6.200000e-15 93.5
13 TraesCS2D01G301900 chr1A 85.556 90 12 1 3025 3114 241305251 241305163 6.200000e-15 93.5


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 TraesCS2D01G301900 chr2D 385165224 385171037 5813 False 10737.0 10737 100.00000 1 5814 1 chr2D.!!$F1 5813
1 TraesCS2D01G301900 chr2B 456022903 456028075 5172 False 7973.0 7973 94.59800 2 5154 1 chr2B.!!$F1 5152
2 TraesCS2D01G301900 chr2A 520306748 520313413 6665 False 2223.5 5594 93.53025 1 5814 4 chr2A.!!$F2 5813

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
314 330 1.269102 CGGTCCGTTCGAGCTCATTAT 60.269 52.381 15.40 0.0 36.81 1.28 F
987 1275 1.703438 CTCTGTCGCCTTGCATCTGC 61.703 60.000 0.00 0.0 42.50 4.26 F
1460 1751 0.100503 GGTGGTGATTACAATGGCGC 59.899 55.000 0.00 0.0 0.00 6.53 F
2516 2813 1.211703 TGACACACCACCACAAGATGT 59.788 47.619 0.00 0.0 0.00 3.06 F
3595 3918 0.677288 TTGTGTAGTCCACCGGTCAG 59.323 55.000 2.59 0.0 43.85 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1242 1533 1.202879 CCTTTGGCCACAAGGTACTCA 60.203 52.381 26.30 1.06 38.49 3.41 R
2913 3210 2.783379 TAGCAGACAGATGGGAGGAT 57.217 50.000 0.00 0.00 0.00 3.24 R
3009 3306 0.698238 TCATTGGCTACTTGGTGGCT 59.302 50.000 6.04 0.00 39.93 4.75 R
4469 5077 0.320421 TGAGCTGACCCAAACTACGC 60.320 55.000 0.00 0.00 0.00 4.42 R
5246 5890 0.384669 CTAGCTACTACGGGTGTGGC 59.615 60.000 0.00 5.27 41.29 5.01 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
120 136 2.123428 GGAGGAGCCGTAGCCGTAA 61.123 63.158 0.00 0.00 41.25 3.18
253 269 1.915614 GAGTCGTGGCGGAGAACGTA 61.916 60.000 0.00 0.00 46.52 3.57
314 330 1.269102 CGGTCCGTTCGAGCTCATTAT 60.269 52.381 15.40 0.00 36.81 1.28
319 335 2.285220 CCGTTCGAGCTCATTATGTTGG 59.715 50.000 15.40 0.12 0.00 3.77
423 439 2.892640 GCCATTTCCTTTCCGGGC 59.107 61.111 0.00 0.00 0.00 6.13
429 445 3.912745 TTCCTTTCCGGGCGCCTTC 62.913 63.158 28.56 9.89 0.00 3.46
459 476 5.539048 CGGGAATACCACCAGAAATACTAG 58.461 45.833 0.00 0.00 40.22 2.57
474 494 2.853731 ACTAGTGCTCGAATTCTCGG 57.146 50.000 3.52 0.00 45.49 4.63
754 786 1.961180 ATTTCTCCTCTCCACCCGCG 61.961 60.000 0.00 0.00 0.00 6.46
881 919 3.911698 CCGATCGATGGTCCGGCA 61.912 66.667 18.66 0.00 35.29 5.69
882 920 2.355126 CGATCGATGGTCCGGCAG 60.355 66.667 10.26 0.00 0.00 4.85
977 1265 1.954146 TTGCGTGTTCTCTGTCGCC 60.954 57.895 5.98 0.00 46.57 5.54
987 1275 1.703438 CTCTGTCGCCTTGCATCTGC 61.703 60.000 0.00 0.00 42.50 4.26
1154 1445 4.203618 GAAGCACTTCTACCGGCC 57.796 61.111 0.00 0.00 36.69 6.13
1227 1518 2.729479 CGAGGTGCTCATGGAGGCT 61.729 63.158 0.00 0.00 0.00 4.58
1251 1542 2.711922 CCTCGCCGCTGAGTACCTT 61.712 63.158 10.10 0.00 34.04 3.50
1460 1751 0.100503 GGTGGTGATTACAATGGCGC 59.899 55.000 0.00 0.00 0.00 6.53
2028 2319 4.356405 TGACAAGGCTGAAGATGAGAAA 57.644 40.909 0.00 0.00 0.00 2.52
2074 2365 3.243839 GCATGGTGGTTGTCAGAATTTGT 60.244 43.478 0.00 0.00 0.00 2.83
2146 2437 3.244457 TGCTCATAGGAATGGAGCATCAG 60.244 47.826 11.15 0.00 39.34 2.90
2446 2743 4.284490 TGAATCCTACACTTGCTTCTCAGT 59.716 41.667 0.00 0.00 0.00 3.41
2512 2809 4.278170 ACAATATTGACACACCACCACAAG 59.722 41.667 22.16 0.00 0.00 3.16
2516 2813 1.211703 TGACACACCACCACAAGATGT 59.788 47.619 0.00 0.00 0.00 3.06
2717 3014 2.032528 TTTCGGCCAGTGCTCCAG 59.967 61.111 2.24 0.00 37.74 3.86
2788 3085 2.622942 ACAACTGTGGGTAACAATGCTG 59.377 45.455 0.00 0.00 38.67 4.41
2817 3114 3.237746 TGACAGATTTGCCCAAATTCCA 58.762 40.909 7.59 2.37 40.77 3.53
2913 3210 8.050930 ACTTTAAGACCAAAGTAAGTTCCTTCA 58.949 33.333 0.00 0.00 44.83 3.02
3008 3305 2.103263 ACTGATTAATCCCTGCTCGGTC 59.897 50.000 12.90 0.00 0.00 4.79
3009 3306 2.103094 CTGATTAATCCCTGCTCGGTCA 59.897 50.000 12.90 0.00 0.00 4.02
3024 3321 1.374947 GTCAGCCACCAAGTAGCCA 59.625 57.895 0.00 0.00 0.00 4.75
3027 3324 0.813184 CAGCCACCAAGTAGCCAATG 59.187 55.000 0.00 0.00 0.00 2.82
3208 3506 6.017852 CCTTGAAGAAACTTGTCTTGGACTAC 60.018 42.308 0.00 0.00 37.98 2.73
3276 3576 5.181009 CAGTAATTGGCTCAGTGATCTTCA 58.819 41.667 0.00 0.00 0.00 3.02
3307 3607 8.052748 ACTGTTGATAGGTAAATATGCTGGAAA 58.947 33.333 0.00 0.00 0.00 3.13
3421 3744 6.318648 TGCATTCACAGTAAAAGAGAACAAGT 59.681 34.615 0.00 0.00 0.00 3.16
3479 3802 6.205784 TCAGCTAAAAAGGAACATTTTGTCG 58.794 36.000 0.00 0.00 39.63 4.35
3531 3854 1.667830 TGAAGCAGCGTGGCACTAC 60.668 57.895 16.72 7.75 35.83 2.73
3595 3918 0.677288 TTGTGTAGTCCACCGGTCAG 59.323 55.000 2.59 0.00 43.85 3.51
3717 4040 5.401550 GTTATGCTTGCTACATGCTTCAAA 58.598 37.500 6.95 0.00 43.37 2.69
3921 4244 3.354948 TTACATGCAGACCTTCATGCT 57.645 42.857 9.06 1.50 42.72 3.79
4024 4347 6.306199 ACCATCATAATGCCACATAGCTTTA 58.694 36.000 0.00 0.00 36.96 1.85
4166 4489 2.823196 TGTTGTTTCTGTGAAGTGCG 57.177 45.000 0.00 0.00 0.00 5.34
4359 4687 6.879276 AATGAGATAGTGGAAATGCTGATG 57.121 37.500 0.00 0.00 0.00 3.07
4375 4983 4.588528 TGCTGATGATGTAGTGTGCCTATA 59.411 41.667 0.00 0.00 0.00 1.31
4376 4984 4.926238 GCTGATGATGTAGTGTGCCTATAC 59.074 45.833 0.00 0.00 0.00 1.47
4377 4985 5.279206 GCTGATGATGTAGTGTGCCTATACT 60.279 44.000 0.00 0.00 32.61 2.12
4380 4988 6.986231 TGATGATGTAGTGTGCCTATACTTTG 59.014 38.462 0.00 0.00 30.36 2.77
4411 5019 4.214545 TCGGCAAACCACAACTATTTGTAG 59.785 41.667 0.00 0.00 44.57 2.74
4469 5077 8.648557 TTAGCTTATACTTTGAGCTGTATGTG 57.351 34.615 7.30 0.00 45.66 3.21
4601 5209 4.469469 TGAATTCCTTTTGTTCCCCTCT 57.531 40.909 2.27 0.00 0.00 3.69
4610 5218 5.221322 CCTTTTGTTCCCCTCTCAAGAAAAG 60.221 44.000 6.93 6.93 40.23 2.27
4680 5291 3.490759 GTCCATGACAGCGGCGTG 61.491 66.667 9.37 8.36 32.09 5.34
4691 5302 0.391130 AGCGGCGTGATGCTTCTAAA 60.391 50.000 9.37 0.00 45.43 1.85
4710 5321 2.332063 ACTCCTGGCATTATGTTCCG 57.668 50.000 0.00 0.00 0.00 4.30
4738 5349 3.030668 CCAAGACTGGGTTGCAATTTC 57.969 47.619 0.59 0.00 39.30 2.17
4751 5362 5.812127 GGTTGCAATTTCTGAAACTGTTCTT 59.188 36.000 12.48 0.00 42.63 2.52
4753 5364 7.394099 GTTGCAATTTCTGAAACTGTTCTTTC 58.606 34.615 12.48 0.00 40.15 2.62
4754 5365 6.629128 TGCAATTTCTGAAACTGTTCTTTCA 58.371 32.000 12.48 0.00 37.73 2.69
4861 5478 3.121279 ACTGAATTCGACGAATGAACACG 59.879 43.478 22.93 16.62 32.14 4.49
4937 5561 1.202639 AGCATCTCACGGACACAACAA 60.203 47.619 0.00 0.00 0.00 2.83
5214 5858 0.459237 CTGCTGCTGAAGTAGTCGGG 60.459 60.000 0.00 0.00 34.15 5.14
5275 6182 1.003008 GTAGTAGCTAGTTCGCCGTCC 60.003 57.143 6.36 0.00 0.00 4.79
5276 6183 1.298190 GTAGCTAGTTCGCCGTCCG 60.298 63.158 0.00 0.00 38.61 4.79
5277 6184 1.450134 TAGCTAGTTCGCCGTCCGA 60.450 57.895 0.00 0.00 45.77 4.55
5284 6191 2.511829 TCGCCGTCCGAGAGAGAG 60.512 66.667 0.00 0.00 41.89 3.20
5286 6193 1.890041 CGCCGTCCGAGAGAGAGAT 60.890 63.158 0.00 0.00 40.02 2.75
5287 6194 1.652012 GCCGTCCGAGAGAGAGATG 59.348 63.158 0.00 0.00 0.00 2.90
5304 6235 2.302445 AGATGAAACTGAGAGCTGCTGT 59.698 45.455 7.01 1.44 0.00 4.40
5316 6247 0.034616 GCTGCTGTCTCCACTTGAGT 59.965 55.000 0.00 0.00 42.12 3.41
5355 6286 8.677148 ACTAAGAACATCAGCAAACTTAAGAA 57.323 30.769 10.09 0.00 0.00 2.52
5391 6322 7.914859 AGCTAACAAGGTAGTACAGGTTAAAT 58.085 34.615 2.06 0.00 0.00 1.40
5399 6330 6.154706 AGGTAGTACAGGTTAAATCTCCAGTG 59.845 42.308 2.06 0.00 0.00 3.66
5410 6341 4.330944 AATCTCCAGTGTTCACGTGTAA 57.669 40.909 16.51 5.90 0.00 2.41
5411 6342 3.364889 TCTCCAGTGTTCACGTGTAAG 57.635 47.619 16.51 0.00 0.00 2.34
5570 6513 2.724174 GCAACAACGACTTGGTAAATGC 59.276 45.455 0.00 0.00 0.00 3.56
5617 6560 2.409870 GGCGGCATCCTCTTTGGTG 61.410 63.158 3.07 0.00 37.07 4.17
5626 6569 0.320771 CCTCTTTGGTGTCCTCCACG 60.321 60.000 0.00 0.00 45.52 4.94
5746 6689 0.387929 GGTGGACTTCGTGTGAGACA 59.612 55.000 0.00 0.00 0.00 3.41
5749 6692 2.731976 GTGGACTTCGTGTGAGACAATC 59.268 50.000 0.00 0.00 0.00 2.67
5767 6710 0.397941 TCCCTGCCTTGAACTCTGTG 59.602 55.000 0.00 0.00 0.00 3.66
5809 6752 6.986250 AGCCTCATGAACCTTAAAAAGAAAG 58.014 36.000 0.00 0.00 0.00 2.62
5810 6753 6.777580 AGCCTCATGAACCTTAAAAAGAAAGA 59.222 34.615 0.00 0.00 0.00 2.52
5811 6754 7.040132 AGCCTCATGAACCTTAAAAAGAAAGAG 60.040 37.037 0.00 0.00 0.00 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
112 128 1.033746 CAGAGGGTCGGTTACGGCTA 61.034 60.000 0.00 0.00 45.74 3.93
120 136 4.779733 ATCCGCCAGAGGGTCGGT 62.780 66.667 13.49 2.89 46.91 4.69
253 269 2.036862 GTCTCGTAAGTTTCCACCCACT 59.963 50.000 0.00 0.00 39.48 4.00
302 318 2.481276 CCGTCCAACATAATGAGCTCGA 60.481 50.000 9.64 0.00 0.00 4.04
319 335 2.340328 ATTTTCCGCCTTGGCCGTC 61.340 57.895 6.02 0.00 37.80 4.79
400 416 1.604147 GGAAAGGAAATGGCGTGGGG 61.604 60.000 0.00 0.00 0.00 4.96
401 417 1.890174 GGAAAGGAAATGGCGTGGG 59.110 57.895 0.00 0.00 0.00 4.61
429 445 1.087771 GGTGGTATTCCCGCGAACTG 61.088 60.000 8.23 0.00 45.28 3.16
474 494 7.442364 TCATGGAAAAGAATGGAATATCTCGTC 59.558 37.037 0.00 0.00 0.00 4.20
657 689 2.735857 GTGCGGGTACACGTGGAC 60.736 66.667 23.21 23.21 35.98 4.02
669 701 2.359975 GTTTGGGGAGAGGTGCGG 60.360 66.667 0.00 0.00 0.00 5.69
754 786 2.482490 CCAGGATAATTTGCTTGCAGCC 60.482 50.000 5.82 0.00 41.51 4.85
1242 1533 1.202879 CCTTTGGCCACAAGGTACTCA 60.203 52.381 26.30 1.06 38.49 3.41
1356 1647 2.101770 CGGGAGTCGTAGAACGCC 59.898 66.667 0.00 0.00 42.21 5.68
1460 1751 5.496556 TCCCATTGTAGTTACCATTGTCAG 58.503 41.667 0.00 0.00 0.00 3.51
1965 2256 4.038042 TCAGCCTTCTCGTCCATAATACTG 59.962 45.833 0.00 0.00 0.00 2.74
2028 2319 6.311200 GCAAATTATTTTCAACGCTTGATCCT 59.689 34.615 0.00 0.00 39.84 3.24
2146 2437 3.341823 CCAATGCAGTATCTCTATGGGC 58.658 50.000 0.00 0.00 0.00 5.36
2317 2608 3.619487 GCTGCTTCTTCTTGGAGTCTCAT 60.619 47.826 1.47 0.00 0.00 2.90
2436 2727 3.242518 CGAACAATCGTACTGAGAAGCA 58.757 45.455 0.00 0.00 44.06 3.91
2499 2796 3.067106 GTCTACATCTTGTGGTGGTGTG 58.933 50.000 0.00 0.00 30.33 3.82
2512 2809 6.760298 TCAGCTGAATCAATCAAGTCTACATC 59.240 38.462 15.67 0.00 37.67 3.06
2516 2813 9.322773 CTTTATCAGCTGAATCAATCAAGTCTA 57.677 33.333 22.50 0.21 37.67 2.59
2717 3014 3.426159 CGCCTCCATTGAACATACAACAC 60.426 47.826 0.00 0.00 32.50 3.32
2788 3085 4.523083 TGGGCAAATCTGTCAGTATTACC 58.477 43.478 0.00 1.10 0.00 2.85
2913 3210 2.783379 TAGCAGACAGATGGGAGGAT 57.217 50.000 0.00 0.00 0.00 3.24
3008 3305 0.813184 CATTGGCTACTTGGTGGCTG 59.187 55.000 6.04 0.00 39.93 4.85
3009 3306 0.698238 TCATTGGCTACTTGGTGGCT 59.302 50.000 6.04 0.00 39.93 4.75
3024 3321 6.564557 AATTGGCCCATAAATCAGTTCATT 57.435 33.333 0.00 0.00 0.00 2.57
3027 3324 4.610945 CGAATTGGCCCATAAATCAGTTC 58.389 43.478 0.00 0.00 0.00 3.01
3054 3351 1.477014 GGCTGGCAAGTAGGGGATTAC 60.477 57.143 0.00 0.00 0.00 1.89
3208 3506 9.260002 ACACAAAAATGATTGCCTAAACTTAAG 57.740 29.630 0.00 0.00 33.52 1.85
3307 3607 9.507329 CAGTAATGAAACTATTGGCCATATAGT 57.493 33.333 23.74 23.74 39.80 2.12
3312 3612 7.902920 AATCAGTAATGAAACTATTGGCCAT 57.097 32.000 6.09 0.00 0.00 4.40
3314 3614 7.068716 AGGAAATCAGTAATGAAACTATTGGCC 59.931 37.037 0.00 0.00 0.00 5.36
3421 3744 5.738619 TTCCAGTAGCTACAAATGAGTCA 57.261 39.130 25.28 0.00 0.00 3.41
3515 3838 2.738521 CGTAGTGCCACGCTGCTT 60.739 61.111 0.00 0.00 34.78 3.91
3531 3854 3.488047 CCATCTTGAGCATTACTTTGGCG 60.488 47.826 0.00 0.00 0.00 5.69
3648 3971 6.149633 GGCAACTTATAAAACAGGTGTCAAG 58.850 40.000 0.00 0.00 32.21 3.02
3738 4061 9.619316 CTGATAGACAGCAGATTGTATTAGTAC 57.381 37.037 0.00 0.00 40.79 2.73
3753 4076 4.099266 ACCATCTCACTTCTGATAGACAGC 59.901 45.833 0.00 0.00 45.38 4.40
3921 4244 3.055328 TGGATCATTTAGGCCCATCTCA 58.945 45.455 0.00 0.00 0.00 3.27
4166 4489 4.224762 AGTAGGTAAATGAGAGGTAGGCC 58.775 47.826 0.00 0.00 0.00 5.19
4359 4687 6.574350 AGTCAAAGTATAGGCACACTACATC 58.426 40.000 0.00 0.00 33.70 3.06
4375 4983 3.314357 GGTTTGCCGACTAAAGTCAAAGT 59.686 43.478 10.55 0.00 44.99 2.66
4376 4984 3.314080 TGGTTTGCCGACTAAAGTCAAAG 59.686 43.478 10.55 0.13 44.99 2.77
4377 4985 3.065648 GTGGTTTGCCGACTAAAGTCAAA 59.934 43.478 10.55 1.90 44.99 2.69
4380 4988 2.215196 TGTGGTTTGCCGACTAAAGTC 58.785 47.619 0.00 0.00 41.47 3.01
4411 5019 3.239449 AGACACCCCCTTTTTCCAATTC 58.761 45.455 0.00 0.00 0.00 2.17
4464 5072 2.933492 GCTGACCCAAACTACGCACATA 60.933 50.000 0.00 0.00 0.00 2.29
4469 5077 0.320421 TGAGCTGACCCAAACTACGC 60.320 55.000 0.00 0.00 0.00 4.42
4562 5170 7.395489 AGGAATTCAAAGCAATCTACACAGAAT 59.605 33.333 7.93 0.00 33.50 2.40
4610 5218 8.579682 ACTAGCATGTTGTTCATTTTCTTTTC 57.420 30.769 0.00 0.00 34.09 2.29
4678 5289 2.680339 GCCAGGAGTTTAGAAGCATCAC 59.320 50.000 0.00 0.00 0.00 3.06
4679 5290 2.305635 TGCCAGGAGTTTAGAAGCATCA 59.694 45.455 0.00 0.00 0.00 3.07
4680 5291 2.991250 TGCCAGGAGTTTAGAAGCATC 58.009 47.619 0.00 0.00 0.00 3.91
4691 5302 1.559682 ACGGAACATAATGCCAGGAGT 59.440 47.619 0.00 0.00 0.00 3.85
4738 5349 7.223387 CCTGGAAAAATGAAAGAACAGTTTCAG 59.777 37.037 5.38 0.00 46.80 3.02
4751 5362 6.556874 ACCTCCATAAAACCTGGAAAAATGAA 59.443 34.615 0.00 0.00 42.12 2.57
4753 5364 6.358974 ACCTCCATAAAACCTGGAAAAATG 57.641 37.500 0.00 0.00 42.12 2.32
4754 5365 7.223584 CAAACCTCCATAAAACCTGGAAAAAT 58.776 34.615 0.00 0.00 42.12 1.82
4861 5478 8.950208 ATTTCCAGCTAATACTAGAACAACTC 57.050 34.615 0.00 0.00 0.00 3.01
4937 5561 0.390078 TGGACGTGTGTTCGTGTGTT 60.390 50.000 0.00 0.00 44.21 3.32
5222 5866 4.629523 TGGGTCCGCGTTTGGTCC 62.630 66.667 4.92 0.00 36.59 4.46
5223 5867 3.047877 CTGGGTCCGCGTTTGGTC 61.048 66.667 4.92 0.00 0.00 4.02
5224 5868 4.636435 CCTGGGTCCGCGTTTGGT 62.636 66.667 4.92 0.00 0.00 3.67
5225 5869 4.323477 TCCTGGGTCCGCGTTTGG 62.323 66.667 4.92 0.00 0.00 3.28
5246 5890 0.384669 CTAGCTACTACGGGTGTGGC 59.615 60.000 0.00 5.27 41.29 5.01
5247 5891 1.760192 ACTAGCTACTACGGGTGTGG 58.240 55.000 0.00 0.00 0.00 4.17
5275 6182 4.496341 GCTCTCAGTTTCATCTCTCTCTCG 60.496 50.000 0.00 0.00 0.00 4.04
5276 6183 4.641989 AGCTCTCAGTTTCATCTCTCTCTC 59.358 45.833 0.00 0.00 0.00 3.20
5277 6184 4.400251 CAGCTCTCAGTTTCATCTCTCTCT 59.600 45.833 0.00 0.00 0.00 3.10
5278 6185 4.675510 CAGCTCTCAGTTTCATCTCTCTC 58.324 47.826 0.00 0.00 0.00 3.20
5279 6186 3.119029 GCAGCTCTCAGTTTCATCTCTCT 60.119 47.826 0.00 0.00 0.00 3.10
5280 6187 3.119029 AGCAGCTCTCAGTTTCATCTCTC 60.119 47.826 0.00 0.00 0.00 3.20
5282 6189 2.931325 CAGCAGCTCTCAGTTTCATCTC 59.069 50.000 0.00 0.00 0.00 2.75
5283 6190 2.302445 ACAGCAGCTCTCAGTTTCATCT 59.698 45.455 0.00 0.00 0.00 2.90
5284 6191 2.672381 GACAGCAGCTCTCAGTTTCATC 59.328 50.000 0.00 0.00 0.00 2.92
5286 6193 1.690893 AGACAGCAGCTCTCAGTTTCA 59.309 47.619 0.01 0.00 0.00 2.69
5287 6194 2.336667 GAGACAGCAGCTCTCAGTTTC 58.663 52.381 6.76 0.00 35.21 2.78
5316 6247 7.339466 TGATGTTCTTAGTAGAGTAGTGCATGA 59.661 37.037 0.00 0.00 0.00 3.07
5355 6286 6.896307 ACTACCTTGTTAGCTCTAACCAGTAT 59.104 38.462 14.97 8.06 43.47 2.12
5391 6322 2.035449 CCTTACACGTGAACACTGGAGA 59.965 50.000 25.01 0.00 0.00 3.71
5399 6330 2.475487 GCTTGAGTCCTTACACGTGAAC 59.525 50.000 25.01 11.52 0.00 3.18
5410 6341 2.093235 GGTGCAATCTAGCTTGAGTCCT 60.093 50.000 10.46 0.00 34.99 3.85
5411 6342 2.284190 GGTGCAATCTAGCTTGAGTCC 58.716 52.381 10.46 5.13 34.99 3.85
5551 6494 3.004315 CCAGCATTTACCAAGTCGTTGTT 59.996 43.478 0.00 0.00 30.95 2.83
5570 6513 3.058160 CCAGAAACCTGGCGCCAG 61.058 66.667 43.23 43.23 44.11 4.85
5591 6534 3.799755 GGATGCCGCCGTGTGAAC 61.800 66.667 0.00 0.00 0.00 3.18
5599 6542 2.044946 ACCAAAGAGGATGCCGCC 60.045 61.111 0.00 0.00 41.22 6.13
5617 6560 3.462678 GAGGAGCCCGTGGAGGAC 61.463 72.222 0.00 0.00 45.00 3.85
5626 6569 1.144936 CACATCTTCGGAGGAGCCC 59.855 63.158 0.00 0.00 0.00 5.19
5746 6689 1.707427 ACAGAGTTCAAGGCAGGGATT 59.293 47.619 0.00 0.00 0.00 3.01
5749 6692 0.607489 CCACAGAGTTCAAGGCAGGG 60.607 60.000 0.00 0.00 0.00 4.45
5767 6710 0.778815 CTATCGCGCGTGAAGAATCC 59.221 55.000 30.98 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.