Multiple sequence alignment - TraesCS5A01G089300

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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 TraesCS5A01G089300 chr5A 100.000 4049 0 0 1 4049 119541577 119545625 0.000000e+00 7478
1 TraesCS5A01G089300 chr5A 79.518 581 106 10 4 577 309945209 309944635 6.300000e-108 401
2 TraesCS5A01G089300 chr5D 95.615 3124 106 12 926 4046 114356336 114359431 0.000000e+00 4981
3 TraesCS5A01G089300 chr5D 89.605 683 67 3 2 683 114355148 114355827 0.000000e+00 865
4 TraesCS5A01G089300 chr5D 92.121 330 22 3 598 924 114355959 114356287 2.850000e-126 462
5 TraesCS5A01G089300 chr5D 78.893 578 109 10 1 571 242579143 242579714 2.950000e-101 379
6 TraesCS5A01G089300 chr5D 79.596 495 93 6 7 495 292148624 292148132 8.330000e-92 348
7 TraesCS5A01G089300 chr5B 98.276 2378 41 0 933 3310 125254598 125256975 0.000000e+00 4165
8 TraesCS5A01G089300 chr5B 96.774 744 19 3 3308 4049 125257098 125257838 0.000000e+00 1236
9 TraesCS5A01G089300 chr5B 90.041 241 17 4 702 941 125248075 125248309 5.080000e-79 305
10 TraesCS5A01G089300 chr5B 93.836 146 9 0 561 706 125235005 125235150 1.890000e-53 220
11 TraesCS5A01G089300 chr6D 83.878 459 66 6 4 459 221215139 221214686 8.040000e-117 431
12 TraesCS5A01G089300 chr6A 82.713 457 71 6 6 459 262045601 262045150 2.270000e-107 399
13 TraesCS5A01G089300 chr3B 79.719 498 94 7 1 492 558546390 558546886 1.790000e-93 353
14 TraesCS5A01G089300 chr3B 77.875 574 107 15 7 569 556500584 556500020 5.010000e-89 339
15 TraesCS5A01G089300 chr1A 79.317 498 93 7 4 495 341292826 341292333 1.390000e-89 340


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 TraesCS5A01G089300 chr5A 119541577 119545625 4048 False 7478.000000 7478 100.000 1 4049 1 chr5A.!!$F1 4048
1 TraesCS5A01G089300 chr5A 309944635 309945209 574 True 401.000000 401 79.518 4 577 1 chr5A.!!$R1 573
2 TraesCS5A01G089300 chr5D 114355148 114359431 4283 False 2102.666667 4981 92.447 2 4046 3 chr5D.!!$F2 4044
3 TraesCS5A01G089300 chr5D 242579143 242579714 571 False 379.000000 379 78.893 1 571 1 chr5D.!!$F1 570
4 TraesCS5A01G089300 chr5B 125254598 125257838 3240 False 2700.500000 4165 97.525 933 4049 2 chr5B.!!$F3 3116
5 TraesCS5A01G089300 chr3B 556500020 556500584 564 True 339.000000 339 77.875 7 569 1 chr3B.!!$R1 562

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
757 989 0.254462 TGCCATGCTCATAAACCCGA 59.746 50.000 0.00 0.0 0.0 5.14 F
1068 1351 0.393077 CCAATCTCTCGGCCCGTAAT 59.607 55.000 1.63 0.0 0.0 1.89 F
1093 1376 1.003118 CGAGATCCAACCTTTCCACCA 59.997 52.381 0.00 0.0 0.0 4.17 F
1094 1377 2.552155 CGAGATCCAACCTTTCCACCAA 60.552 50.000 0.00 0.0 0.0 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2670 2953 0.603707 ATGCATCGGGAGTAATGCCG 60.604 55.000 17.59 17.59 46.10 5.69 R
2881 3164 1.253100 TGATCGGTCACAGTACAGCA 58.747 50.000 0.00 0.00 0.00 4.41 R
3039 3322 4.637091 CACACATTGATAACTCAGGCATGA 59.363 41.667 0.00 0.00 31.68 3.07 R
3052 3335 5.302568 ACCAAATCACAACTCACACATTGAT 59.697 36.000 0.00 0.00 32.17 2.57 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
34 35 6.769512 ACATGAGGTGTGTTTTCAGTACTAT 58.230 36.000 0.00 0.00 40.28 2.12
96 97 3.072622 GGTACCTCAGAAGGACACCTTTT 59.927 47.826 4.06 0.00 44.82 2.27
122 124 1.406898 CTAGGTCGATGCTGCAGAAGA 59.593 52.381 20.43 7.34 0.00 2.87
164 166 3.057734 GTGACTCATCGAACCGAAACTT 58.942 45.455 0.00 0.00 39.99 2.66
173 175 3.682858 TCGAACCGAAACTTGAATGGATC 59.317 43.478 0.00 0.00 31.06 3.36
211 215 4.836825 TCTGGCCTTCTTTGTGATAAGAG 58.163 43.478 3.32 0.00 35.69 2.85
212 216 4.532126 TCTGGCCTTCTTTGTGATAAGAGA 59.468 41.667 3.32 0.00 35.69 3.10
232 236 6.357367 AGAGAGTTCCACAAAAGCTAAAAGA 58.643 36.000 0.00 0.00 0.00 2.52
233 237 7.001073 AGAGAGTTCCACAAAAGCTAAAAGAT 58.999 34.615 0.00 0.00 0.00 2.40
235 239 8.691661 AGAGTTCCACAAAAGCTAAAAGATAA 57.308 30.769 0.00 0.00 0.00 1.75
275 282 2.103941 TGACCTGCGATGTTATATGGCA 59.896 45.455 0.00 0.00 0.00 4.92
278 285 4.905429 ACCTGCGATGTTATATGGCATTA 58.095 39.130 4.78 0.00 32.56 1.90
315 322 2.526304 TGGCGACATGTCTAATAGCC 57.474 50.000 25.98 25.98 43.05 3.93
379 386 0.323360 CAAGAAAGGATCGGGCCCAA 60.323 55.000 24.92 2.23 0.00 4.12
394 401 3.119495 GGGCCCAAAATGATGATATACGC 60.119 47.826 19.95 0.00 0.00 4.42
402 409 3.748868 TGATGATATACGCGAGAGAGC 57.251 47.619 15.93 0.00 0.00 4.09
412 419 1.226267 CGAGAGAGCTGAGTGACGC 60.226 63.158 0.00 0.00 0.00 5.19
419 429 2.092882 GCTGAGTGACGCCGGTTAC 61.093 63.158 1.90 0.00 33.13 2.50
420 430 1.800315 CTGAGTGACGCCGGTTACG 60.800 63.158 1.90 0.00 37.70 3.18
446 456 6.240894 AGAAGCTTGTCCAACATCATCTAAA 58.759 36.000 2.10 0.00 0.00 1.85
449 459 8.579850 AAGCTTGTCCAACATCATCTAAAATA 57.420 30.769 0.00 0.00 0.00 1.40
457 467 8.243426 TCCAACATCATCTAAAATAGTTTGTGC 58.757 33.333 0.00 0.00 0.00 4.57
462 475 9.499585 CATCATCTAAAATAGTTTGTGCTTCAG 57.500 33.333 0.00 0.00 0.00 3.02
472 485 4.384599 TGCTTCAGCGCATGTCTT 57.615 50.000 11.47 0.00 45.83 3.01
484 497 2.290367 CGCATGTCTTCAGAAACACCAA 59.710 45.455 0.00 0.00 0.00 3.67
496 509 3.010584 AGAAACACCAATGCATAGAGGGT 59.989 43.478 14.90 10.84 0.00 4.34
503 517 4.227300 ACCAATGCATAGAGGGTGTTAAGA 59.773 41.667 14.90 0.00 0.00 2.10
505 519 5.185454 CAATGCATAGAGGGTGTTAAGACA 58.815 41.667 0.00 0.00 0.00 3.41
532 547 2.150397 AACGTCAAGAAAGGTCGAGG 57.850 50.000 0.00 0.00 0.00 4.63
558 573 7.317722 AGACTAACCTAACATCAAAGGAGTT 57.682 36.000 0.00 0.00 36.66 3.01
625 857 2.672874 TCGCGAGGATGACAATTTTCTG 59.327 45.455 3.71 0.00 0.00 3.02
635 867 5.710513 TGACAATTTTCTGTAGCAAGCAT 57.289 34.783 0.00 0.00 0.00 3.79
637 869 4.813027 ACAATTTTCTGTAGCAAGCATGG 58.187 39.130 0.00 0.00 0.00 3.66
645 877 1.066605 GTAGCAAGCATGGCATTCCTG 59.933 52.381 0.00 0.00 37.68 3.86
693 925 6.826893 TTTGTCATGCTTGCTAAAAGAAAC 57.173 33.333 0.00 0.00 0.00 2.78
700 932 6.254281 TGCTTGCTAAAAGAAACTACCATC 57.746 37.500 0.00 0.00 0.00 3.51
713 945 2.832129 ACTACCATCCTCGTGACAACAT 59.168 45.455 0.00 0.00 0.00 2.71
719 951 5.123820 ACCATCCTCGTGACAACATAATTTG 59.876 40.000 0.00 0.00 0.00 2.32
724 956 6.597672 TCCTCGTGACAACATAATTTGCTATT 59.402 34.615 0.00 0.00 0.00 1.73
729 961 7.750458 CGTGACAACATAATTTGCTATTTGAGT 59.250 33.333 0.00 0.00 0.00 3.41
753 985 4.389890 TGGATTTGCCATGCTCATAAAC 57.610 40.909 0.00 0.00 43.33 2.01
757 989 0.254462 TGCCATGCTCATAAACCCGA 59.746 50.000 0.00 0.00 0.00 5.14
760 992 1.670811 CCATGCTCATAAACCCGACAC 59.329 52.381 0.00 0.00 0.00 3.67
762 994 2.851263 TGCTCATAAACCCGACACTT 57.149 45.000 0.00 0.00 0.00 3.16
824 1059 4.084287 GACCCGGATTTTAAACTTCCCTT 58.916 43.478 0.73 0.00 0.00 3.95
894 1129 7.617041 AGTGATTTTAGAATGGTTAGCTGAC 57.383 36.000 0.00 0.00 0.00 3.51
924 1159 3.253432 CACTAAAACCCTGCAAACCTCTC 59.747 47.826 0.00 0.00 0.00 3.20
928 1210 1.672356 CCCTGCAAACCTCTCCACG 60.672 63.158 0.00 0.00 0.00 4.94
1042 1325 3.222855 CCGATCTCCTCCTGCGCT 61.223 66.667 9.73 0.00 0.00 5.92
1068 1351 0.393077 CCAATCTCTCGGCCCGTAAT 59.607 55.000 1.63 0.00 0.00 1.89
1093 1376 1.003118 CGAGATCCAACCTTTCCACCA 59.997 52.381 0.00 0.00 0.00 4.17
1094 1377 2.552155 CGAGATCCAACCTTTCCACCAA 60.552 50.000 0.00 0.00 0.00 3.67
1284 1567 3.338126 CTGCGTCCGCCTCTACGTT 62.338 63.158 9.43 0.00 41.10 3.99
1839 2122 4.899457 ACGATGAAGGATAAGGGTGTATCA 59.101 41.667 0.00 0.00 32.93 2.15
1992 2275 9.347240 ACTATGCTGTATTGCTTATCAAAGAAT 57.653 29.630 0.00 0.00 38.34 2.40
2607 2890 7.169308 GCTCATACTTACAATGTACTAATGCGT 59.831 37.037 0.00 0.00 0.00 5.24
2871 3154 4.559300 GCCAAAGAAATTCTAGCTGCAACA 60.559 41.667 1.02 0.00 0.00 3.33
2881 3164 4.082845 TCTAGCTGCAACAGAGTCTAGTT 58.917 43.478 1.02 0.00 32.44 2.24
3039 3322 1.406069 CGTACCAGAGAGCCTGCAATT 60.406 52.381 0.00 0.00 41.57 2.32
3082 3365 6.873605 TGTGTGAGTTGTGATTTGGTATCTAG 59.126 38.462 0.00 0.00 0.00 2.43
3184 3468 3.073798 ACCAACATCACTGTCCATAACCA 59.926 43.478 0.00 0.00 33.36 3.67
3295 3579 0.756294 TCACTTGGAACTTCTCGGCA 59.244 50.000 0.00 0.00 0.00 5.69
3344 3753 7.170828 CAGGAATGATATGGATTTGCACATTTG 59.829 37.037 0.00 0.00 0.00 2.32
3483 3892 2.168521 TGCGAATACTGGAGAGGAAAGG 59.831 50.000 0.00 0.00 0.00 3.11
3792 4203 8.491152 CAGTCTGTAGCTTAATATTATGTGTGC 58.509 37.037 0.00 4.38 0.00 4.57
3806 4217 3.266541 TGTGTGCTGCGAAAAGTTATG 57.733 42.857 0.00 0.00 0.00 1.90
3816 4227 3.550030 GCGAAAAGTTATGTGTGCCTTGT 60.550 43.478 0.00 0.00 0.00 3.16
3872 4306 2.955477 TGCAACACAGCAATGTTCAA 57.045 40.000 2.82 0.00 40.89 2.69
3873 4307 3.455990 TGCAACACAGCAATGTTCAAT 57.544 38.095 2.82 0.00 40.89 2.57
3874 4308 3.124560 TGCAACACAGCAATGTTCAATG 58.875 40.909 2.82 0.00 40.89 2.82
3875 4309 3.125316 GCAACACAGCAATGTTCAATGT 58.875 40.909 2.82 0.00 40.89 2.71
3876 4310 4.202090 TGCAACACAGCAATGTTCAATGTA 60.202 37.500 2.82 0.00 40.89 2.29
3877 4311 4.383649 GCAACACAGCAATGTTCAATGTAG 59.616 41.667 2.82 0.00 40.89 2.74
3878 4312 4.164822 ACACAGCAATGTTCAATGTAGC 57.835 40.909 0.00 0.00 0.00 3.58
3879 4313 3.822735 ACACAGCAATGTTCAATGTAGCT 59.177 39.130 0.00 0.00 0.00 3.32
3881 4315 3.176708 CAGCAATGTTCAATGTAGCTGC 58.823 45.455 0.00 0.00 41.03 5.25
3882 4316 2.821378 AGCAATGTTCAATGTAGCTGCA 59.179 40.909 7.05 7.05 0.00 4.41
3883 4317 2.919229 GCAATGTTCAATGTAGCTGCAC 59.081 45.455 6.66 0.00 0.00 4.57
3884 4318 3.366679 GCAATGTTCAATGTAGCTGCACT 60.367 43.478 6.66 0.00 0.00 4.40
3885 4319 4.142622 GCAATGTTCAATGTAGCTGCACTA 60.143 41.667 6.66 0.00 0.00 2.74
3886 4320 5.619757 GCAATGTTCAATGTAGCTGCACTAA 60.620 40.000 6.66 0.00 30.90 2.24
3887 4321 6.558009 CAATGTTCAATGTAGCTGCACTAAT 58.442 36.000 6.66 0.00 30.90 1.73
3888 4322 6.764308 ATGTTCAATGTAGCTGCACTAATT 57.236 33.333 6.66 0.00 30.90 1.40
3896 4330 4.690748 TGTAGCTGCACTAATTTGTCTCAC 59.309 41.667 0.00 0.00 30.90 3.51
3958 4392 9.414295 CTCATTTATCTCATTGTTTTCTTGCAA 57.586 29.630 0.00 0.00 0.00 4.08
4014 4448 2.545106 GTGCAAATGCTGTTCTTTTGGG 59.455 45.455 6.97 0.00 42.66 4.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.944055 ACACACCTCATGTACTCAGTC 57.056 47.619 0.00 0.00 40.64 3.51
34 35 0.968901 TTCCTTCTCCTCGCGCCTAA 60.969 55.000 0.00 0.00 0.00 2.69
96 97 2.693074 TGCAGCATCGACCTAGATACAA 59.307 45.455 0.00 0.00 0.00 2.41
122 124 7.997223 AGTCACATCTTCATCAATATCACCATT 59.003 33.333 0.00 0.00 0.00 3.16
164 166 1.031571 GGCGCCACTTGATCCATTCA 61.032 55.000 24.80 0.00 0.00 2.57
173 175 2.256461 GAAGCTTGGCGCCACTTG 59.744 61.111 30.57 23.39 40.39 3.16
195 197 6.931281 TGTGGAACTCTCTTATCACAAAGAAG 59.069 38.462 0.00 0.00 38.04 2.85
211 215 9.914131 ATTTATCTTTTAGCTTTTGTGGAACTC 57.086 29.630 0.00 0.00 38.04 3.01
232 236 9.490379 GGTCAAACATCGTCCTATAGAATTTAT 57.510 33.333 0.00 0.00 0.00 1.40
233 237 8.701895 AGGTCAAACATCGTCCTATAGAATTTA 58.298 33.333 0.00 0.00 0.00 1.40
235 239 6.986817 CAGGTCAAACATCGTCCTATAGAATT 59.013 38.462 0.00 0.00 0.00 2.17
251 258 4.554723 GCCATATAACATCGCAGGTCAAAC 60.555 45.833 0.00 0.00 0.00 2.93
252 259 3.563808 GCCATATAACATCGCAGGTCAAA 59.436 43.478 0.00 0.00 0.00 2.69
275 282 5.673514 CCATTTAGCTGGCCAACATTTAAT 58.326 37.500 7.01 0.00 0.00 1.40
278 285 3.615224 CCATTTAGCTGGCCAACATTT 57.385 42.857 7.01 0.00 0.00 2.32
290 297 5.389935 GCTATTAGACATGTCGCCATTTAGC 60.390 44.000 19.85 19.94 34.09 3.09
308 315 6.490381 CACATCTCTACTACACCTGGCTATTA 59.510 42.308 0.00 0.00 0.00 0.98
315 322 4.142071 ACATGCACATCTCTACTACACCTG 60.142 45.833 0.00 0.00 0.00 4.00
379 386 5.098893 GCTCTCTCGCGTATATCATCATTT 58.901 41.667 5.77 0.00 0.00 2.32
394 401 1.226267 GCGTCACTCAGCTCTCTCG 60.226 63.158 0.00 0.00 0.00 4.04
402 409 1.800315 CGTAACCGGCGTCACTCAG 60.800 63.158 6.01 0.00 0.00 3.35
419 429 1.734465 GATGTTGGACAAGCTTCTCCG 59.266 52.381 15.10 0.00 0.00 4.63
420 430 2.783135 TGATGTTGGACAAGCTTCTCC 58.217 47.619 13.47 13.47 0.00 3.71
446 456 1.879380 TGCGCTGAAGCACAAACTATT 59.121 42.857 9.73 0.00 42.92 1.73
449 459 3.826221 TGCGCTGAAGCACAAACT 58.174 50.000 9.73 0.00 42.92 2.66
457 467 1.718396 TCTGAAGACATGCGCTGAAG 58.282 50.000 9.73 0.00 0.00 3.02
462 475 1.400242 GGTGTTTCTGAAGACATGCGC 60.400 52.381 0.00 0.00 31.02 6.09
469 482 5.559770 TCTATGCATTGGTGTTTCTGAAGA 58.440 37.500 3.54 0.00 0.00 2.87
472 485 4.264253 CCTCTATGCATTGGTGTTTCTGA 58.736 43.478 3.54 0.00 0.00 3.27
496 509 7.654116 TCTTGACGTTATCAATGTGTCTTAACA 59.346 33.333 0.00 0.00 46.37 2.41
503 517 5.763204 ACCTTTCTTGACGTTATCAATGTGT 59.237 36.000 0.00 0.00 46.37 3.72
505 519 5.120208 CGACCTTTCTTGACGTTATCAATGT 59.880 40.000 0.00 0.00 46.37 2.71
523 537 3.735720 AGGTTAGTCTACCTCGACCTT 57.264 47.619 0.00 0.00 45.44 3.50
532 547 7.838884 ACTCCTTTGATGTTAGGTTAGTCTAC 58.161 38.462 0.00 0.00 33.15 2.59
625 857 1.066605 CAGGAATGCCATGCTTGCTAC 59.933 52.381 0.00 0.00 36.29 3.58
672 904 5.772825 AGTTTCTTTTAGCAAGCATGACA 57.227 34.783 0.00 0.00 0.00 3.58
693 925 3.526931 ATGTTGTCACGAGGATGGTAG 57.473 47.619 0.00 0.00 0.00 3.18
700 932 4.685169 AGCAAATTATGTTGTCACGAGG 57.315 40.909 0.00 0.00 0.00 4.63
713 945 9.421806 CAAATCCAACACTCAAATAGCAAATTA 57.578 29.630 0.00 0.00 0.00 1.40
719 951 4.176271 GGCAAATCCAACACTCAAATAGC 58.824 43.478 0.00 0.00 34.01 2.97
753 985 1.662876 CGTTGCAAATCAAGTGTCGGG 60.663 52.381 0.00 0.00 34.91 5.14
757 989 4.202101 TGGATTTCGTTGCAAATCAAGTGT 60.202 37.500 0.00 0.00 42.40 3.55
760 992 5.903764 TTTGGATTTCGTTGCAAATCAAG 57.096 34.783 0.00 0.00 42.40 3.02
789 1023 6.850752 AAATCCGGGTCTATGATTTGTTTT 57.149 33.333 0.00 0.00 37.33 2.43
870 1105 7.168219 TGTCAGCTAACCATTCTAAAATCACT 58.832 34.615 0.00 0.00 0.00 3.41
878 1113 5.105310 GGAGAGTTGTCAGCTAACCATTCTA 60.105 44.000 0.00 0.00 0.00 2.10
894 1129 2.814336 GCAGGGTTTTAGTGGAGAGTTG 59.186 50.000 0.00 0.00 0.00 3.16
924 1159 0.523966 GTGTCTCTCCTGTCTCGTGG 59.476 60.000 0.00 0.00 0.00 4.94
928 1210 1.509004 GCGGTGTCTCTCCTGTCTC 59.491 63.158 0.00 0.00 0.00 3.36
1059 1342 4.963428 CTCGGCGGATTACGGGCC 62.963 72.222 7.21 0.00 44.51 5.80
1068 1351 1.550130 AAAGGTTGGATCTCGGCGGA 61.550 55.000 7.21 3.43 0.00 5.54
1759 2042 2.079170 TTGCAGAACCCATCAACCAA 57.921 45.000 0.00 0.00 0.00 3.67
1992 2275 0.918983 CTACCTCTTTGGCCATCCCA 59.081 55.000 6.09 0.00 43.51 4.37
2204 2487 4.112634 GTGGTTTGCCTTTGAAGAACTTC 58.887 43.478 7.51 7.51 36.56 3.01
2607 2890 1.234615 GCCCTACTGAACAAAGCGCA 61.235 55.000 11.47 0.00 0.00 6.09
2670 2953 0.603707 ATGCATCGGGAGTAATGCCG 60.604 55.000 17.59 17.59 46.10 5.69
2871 3154 4.216687 GTCACAGTACAGCAACTAGACTCT 59.783 45.833 0.00 0.00 33.90 3.24
2881 3164 1.253100 TGATCGGTCACAGTACAGCA 58.747 50.000 0.00 0.00 0.00 4.41
3039 3322 4.637091 CACACATTGATAACTCAGGCATGA 59.363 41.667 0.00 0.00 31.68 3.07
3052 3335 5.302568 ACCAAATCACAACTCACACATTGAT 59.697 36.000 0.00 0.00 32.17 2.57
3082 3365 6.441274 CATCATTCATGTACCAAATAGCACC 58.559 40.000 0.00 0.00 0.00 5.01
3184 3468 4.828939 TCATCAAAACAGATTGCAAGGAGT 59.171 37.500 4.94 0.00 0.00 3.85
3295 3579 4.556592 AATGCAATACAAAGCAATGGGT 57.443 36.364 0.00 0.00 44.88 4.51
3344 3753 5.706916 TCTTCTGCAAAGATTTTCAGATGC 58.293 37.500 8.18 0.00 39.50 3.91
3346 3755 7.230108 TGACTTCTTCTGCAAAGATTTTCAGAT 59.770 33.333 8.18 0.00 39.50 2.90
3483 3892 2.726633 TCACTTTTTGTTAGCTTGCGC 58.273 42.857 0.00 0.00 0.00 6.09
3792 4203 2.226437 AGGCACACATAACTTTTCGCAG 59.774 45.455 0.00 0.00 0.00 5.18
3806 4217 5.573146 GCTTCTTAATATGACAAGGCACAC 58.427 41.667 0.00 0.00 0.00 3.82
3816 4227 5.128827 ACTCCAAGGTCGCTTCTTAATATGA 59.871 40.000 0.00 0.00 0.00 2.15
3867 4301 6.381801 ACAAATTAGTGCAGCTACATTGAAC 58.618 36.000 17.43 0.00 33.31 3.18
3868 4302 6.430925 AGACAAATTAGTGCAGCTACATTGAA 59.569 34.615 17.43 0.00 33.31 2.69
3869 4303 5.939883 AGACAAATTAGTGCAGCTACATTGA 59.060 36.000 17.43 0.00 33.31 2.57
3870 4304 6.128200 TGAGACAAATTAGTGCAGCTACATTG 60.128 38.462 0.00 3.22 34.34 2.82
3871 4305 5.939883 TGAGACAAATTAGTGCAGCTACATT 59.060 36.000 0.00 0.00 0.00 2.71
3872 4306 5.352569 GTGAGACAAATTAGTGCAGCTACAT 59.647 40.000 0.00 0.00 0.00 2.29
3873 4307 4.690748 GTGAGACAAATTAGTGCAGCTACA 59.309 41.667 0.00 0.00 0.00 2.74
3874 4308 4.093556 GGTGAGACAAATTAGTGCAGCTAC 59.906 45.833 0.00 0.00 0.00 3.58
3875 4309 4.020218 AGGTGAGACAAATTAGTGCAGCTA 60.020 41.667 0.00 0.00 32.76 3.32
3876 4310 3.077359 GGTGAGACAAATTAGTGCAGCT 58.923 45.455 0.00 0.00 0.00 4.24
3877 4311 3.077359 AGGTGAGACAAATTAGTGCAGC 58.923 45.455 0.00 0.00 0.00 5.25
3878 4312 4.999950 AGAAGGTGAGACAAATTAGTGCAG 59.000 41.667 0.00 0.00 0.00 4.41
3879 4313 4.973168 AGAAGGTGAGACAAATTAGTGCA 58.027 39.130 0.00 0.00 0.00 4.57
3880 4314 4.997395 TGAGAAGGTGAGACAAATTAGTGC 59.003 41.667 0.00 0.00 0.00 4.40
3881 4315 7.388776 TCAATGAGAAGGTGAGACAAATTAGTG 59.611 37.037 0.00 0.00 0.00 2.74
3882 4316 7.453393 TCAATGAGAAGGTGAGACAAATTAGT 58.547 34.615 0.00 0.00 0.00 2.24
3883 4317 7.912056 TCAATGAGAAGGTGAGACAAATTAG 57.088 36.000 0.00 0.00 0.00 1.73
3958 4392 1.897802 CCTTTTGGAAATCAGCAGCCT 59.102 47.619 0.00 0.00 44.07 4.58
4014 4448 4.989797 TGCATGATGTGGAATGTTTGTTTC 59.010 37.500 0.00 0.00 0.00 2.78
4026 4460 2.793585 GCATCGAGTTTGCATGATGTGG 60.794 50.000 4.64 0.00 40.20 4.17


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

AutoCloner maintained by Alex Coulton.