Multiple sequence alignment - TraesCS7A01G190800

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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 TraesCS7A01G190800 chr7A 100.000 3227 0 0 1 3227 148655847 148659073 0.000000e+00 5960.0
1 TraesCS7A01G190800 chr7A 87.302 378 37 7 2268 2637 148809815 148810189 3.850000e-114 422.0
2 TraesCS7A01G190800 chr7A 96.429 140 5 0 1 140 576847879 576848018 6.960000e-57 231.0
3 TraesCS7A01G190800 chr7A 76.712 438 87 11 1198 1629 105863312 105863740 2.500000e-56 230.0
4 TraesCS7A01G190800 chr7A 80.258 233 28 9 2710 2935 148810193 148810414 3.330000e-35 159.0
5 TraesCS7A01G190800 chr7A 89.655 58 6 0 1921 1978 148809442 148809499 1.240000e-09 75.0
6 TraesCS7A01G190800 chr7D 91.257 3111 159 45 142 3214 147410514 147413549 0.000000e+00 4133.0
7 TraesCS7A01G190800 chr7D 82.288 271 45 1 1359 1629 101806876 101807143 6.960000e-57 231.0
8 TraesCS7A01G190800 chr7B 91.988 2908 155 40 146 3030 110307620 110310472 0.000000e+00 4008.0
9 TraesCS7A01G190800 chr7B 90.987 233 18 3 2275 2506 110345154 110345384 8.690000e-81 311.0
10 TraesCS7A01G190800 chr7B 96.454 141 4 1 1 141 749704651 749704790 6.960000e-57 231.0
11 TraesCS7A01G190800 chr7B 89.655 58 6 0 1921 1978 110344761 110344818 1.240000e-09 75.0
12 TraesCS7A01G190800 chr6A 97.826 138 3 0 1 138 577739826 577739689 4.160000e-59 239.0
13 TraesCS7A01G190800 chr6A 97.101 138 3 1 1 138 577742000 577741864 6.960000e-57 231.0
14 TraesCS7A01G190800 chr3B 97.826 138 3 0 1 138 47250315 47250452 4.160000e-59 239.0
15 TraesCS7A01G190800 chr5A 97.101 138 4 0 1 138 119186854 119186991 1.940000e-57 233.0
16 TraesCS7A01G190800 chr5A 80.556 108 15 4 1499 1603 520706241 520706345 9.600000e-11 78.7
17 TraesCS7A01G190800 chr6B 94.631 149 6 2 1 149 599873332 599873478 2.500000e-56 230.0
18 TraesCS7A01G190800 chr1A 96.403 139 5 0 1 139 579988046 579988184 2.500000e-56 230.0
19 TraesCS7A01G190800 chr1A 96.403 139 5 0 1 139 579994602 579994740 2.500000e-56 230.0


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 TraesCS7A01G190800 chr7A 148655847 148659073 3226 False 5960.000000 5960 100.000000 1 3227 1 chr7A.!!$F2 3226
1 TraesCS7A01G190800 chr7A 148809442 148810414 972 False 218.666667 422 85.738333 1921 2935 3 chr7A.!!$F4 1014
2 TraesCS7A01G190800 chr7D 147410514 147413549 3035 False 4133.000000 4133 91.257000 142 3214 1 chr7D.!!$F2 3072
3 TraesCS7A01G190800 chr7B 110307620 110310472 2852 False 4008.000000 4008 91.988000 146 3030 1 chr7B.!!$F1 2884
4 TraesCS7A01G190800 chr6A 577739689 577742000 2311 True 235.000000 239 97.463500 1 138 2 chr6A.!!$R1 137

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
379 381 0.040646 TCTGGTGTGGGTCTACCGAT 59.959 55.0 0.0 0.0 44.64 4.18 F
380 382 0.175760 CTGGTGTGGGTCTACCGATG 59.824 60.0 0.0 0.0 44.64 3.84 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1506 1593 1.421485 GTCGAATTCGCACAGGCAG 59.579 57.895 22.9 0.0 41.24 4.85 R
2368 3770 2.094182 ACAGTAAGGTGGCATGACTACG 60.094 50.000 0.0 0.0 0.00 3.51 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
80 81 4.807443 ACGAAGAAAAACCGGTTGAAAAA 58.193 34.783 23.08 0.00 0.00 1.94
124 125 4.881850 GGACTATTCAACCAATTCGTCCAT 59.118 41.667 0.00 0.00 40.39 3.41
125 126 5.357032 GGACTATTCAACCAATTCGTCCATT 59.643 40.000 0.00 0.00 40.39 3.16
126 127 6.540914 GGACTATTCAACCAATTCGTCCATTA 59.459 38.462 0.00 0.00 40.39 1.90
127 128 7.066525 GGACTATTCAACCAATTCGTCCATTAA 59.933 37.037 0.00 0.00 40.39 1.40
128 129 8.343168 ACTATTCAACCAATTCGTCCATTAAA 57.657 30.769 0.00 0.00 0.00 1.52
129 130 8.798402 ACTATTCAACCAATTCGTCCATTAAAA 58.202 29.630 0.00 0.00 0.00 1.52
130 131 9.289303 CTATTCAACCAATTCGTCCATTAAAAG 57.711 33.333 0.00 0.00 0.00 2.27
131 132 6.642707 TCAACCAATTCGTCCATTAAAAGT 57.357 33.333 0.00 0.00 0.00 2.66
132 133 7.747155 TCAACCAATTCGTCCATTAAAAGTA 57.253 32.000 0.00 0.00 0.00 2.24
133 134 7.812648 TCAACCAATTCGTCCATTAAAAGTAG 58.187 34.615 0.00 0.00 0.00 2.57
134 135 7.662258 TCAACCAATTCGTCCATTAAAAGTAGA 59.338 33.333 0.00 0.00 0.00 2.59
135 136 7.611213 ACCAATTCGTCCATTAAAAGTAGAG 57.389 36.000 0.00 0.00 0.00 2.43
136 137 7.391620 ACCAATTCGTCCATTAAAAGTAGAGA 58.608 34.615 0.00 0.00 0.00 3.10
137 138 8.047310 ACCAATTCGTCCATTAAAAGTAGAGAT 58.953 33.333 0.00 0.00 0.00 2.75
138 139 9.542462 CCAATTCGTCCATTAAAAGTAGAGATA 57.458 33.333 0.00 0.00 0.00 1.98
170 171 6.415206 TTTTATTCGAGTATGGGTAGGGAG 57.585 41.667 0.00 0.00 0.00 4.30
172 173 3.675348 TTCGAGTATGGGTAGGGAGAA 57.325 47.619 0.00 0.00 0.00 2.87
196 197 5.339008 AAAAAGGGAAGGTTTTGAGTCAC 57.661 39.130 0.00 0.00 0.00 3.67
220 221 8.638565 CACGTGAAATTTTGGTAAGATTTGATC 58.361 33.333 10.90 0.00 0.00 2.92
241 243 5.483174 TCTATATGAGTATGGGTAGGGGG 57.517 47.826 0.00 0.00 0.00 5.40
288 290 7.875971 AGGCGAGATTTTGGTAAAATATGATC 58.124 34.615 0.00 0.00 40.97 2.92
338 340 4.459390 TTCTATTTACACGGTGCTAGCA 57.541 40.909 14.93 14.93 0.00 3.49
342 344 2.979814 TTACACGGTGCTAGCATGAT 57.020 45.000 22.51 12.41 0.00 2.45
345 347 1.480545 ACACGGTGCTAGCATGATACA 59.519 47.619 22.51 0.00 0.00 2.29
353 355 2.094757 TAGCATGATACACCGGCCCG 62.095 60.000 0.00 0.00 0.00 6.13
372 374 4.699522 GCCCGTCTGGTGTGGGTC 62.700 72.222 0.00 0.00 45.19 4.46
373 375 2.923035 CCCGTCTGGTGTGGGTCT 60.923 66.667 0.00 0.00 38.18 3.85
376 378 1.590147 CGTCTGGTGTGGGTCTACC 59.410 63.158 0.00 0.00 40.81 3.18
377 379 1.590147 GTCTGGTGTGGGTCTACCG 59.410 63.158 0.00 0.00 44.64 4.02
379 381 0.040646 TCTGGTGTGGGTCTACCGAT 59.959 55.000 0.00 0.00 44.64 4.18
380 382 0.175760 CTGGTGTGGGTCTACCGATG 59.824 60.000 0.00 0.00 44.64 3.84
381 383 0.251877 TGGTGTGGGTCTACCGATGA 60.252 55.000 0.00 0.00 44.64 2.92
382 384 0.460311 GGTGTGGGTCTACCGATGAG 59.540 60.000 0.00 0.00 44.64 2.90
383 385 0.179108 GTGTGGGTCTACCGATGAGC 60.179 60.000 0.00 0.00 44.64 4.26
387 389 3.669354 GGTCTACCGATGAGCCAAG 57.331 57.895 0.00 0.00 0.00 3.61
438 446 0.383949 CAAACAAACACCGGACAGGG 59.616 55.000 9.46 0.00 46.96 4.45
516 534 0.179124 GCCTCTACTGTCCTCGCAAG 60.179 60.000 0.00 0.00 0.00 4.01
519 537 2.126071 TACTGTCCTCGCAAGCGC 60.126 61.111 9.97 0.00 39.59 5.92
520 538 2.819117 CTACTGTCCTCGCAAGCGCA 62.819 60.000 11.47 0.93 38.40 6.09
521 539 2.428960 TACTGTCCTCGCAAGCGCAA 62.429 55.000 11.47 0.00 38.40 4.85
522 540 3.300667 CTGTCCTCGCAAGCGCAAC 62.301 63.158 11.47 7.98 38.40 4.17
523 541 4.090057 GTCCTCGCAAGCGCAACC 62.090 66.667 11.47 0.00 38.40 3.77
735 816 1.603455 CCCACACAGCCACCGATTT 60.603 57.895 0.00 0.00 0.00 2.17
974 1055 2.609984 CCTGTCGGATCAGATGAGATGC 60.610 54.545 0.00 0.00 37.61 3.91
1281 1368 4.803426 CTCCACCTCCTCGTGCGC 62.803 72.222 0.00 0.00 32.10 6.09
1395 1482 2.331132 GCAGCAGCTGTTCCACCTC 61.331 63.158 23.60 0.33 37.91 3.85
2014 2101 3.411446 ACAAGAAATGGTGCGATGAGAA 58.589 40.909 0.00 0.00 0.00 2.87
2239 3501 5.852827 TGAACATGTGATGTGACTCTGTAA 58.147 37.500 0.00 0.00 44.07 2.41
2563 3969 9.965902 AGTACCAATCTTGTCATTCTTTCTATT 57.034 29.630 0.00 0.00 0.00 1.73
2732 4144 2.602257 TGTCATCGCATAGAAGGGTG 57.398 50.000 0.00 0.00 0.00 4.61
2738 4150 0.108186 CGCATAGAAGGGTGCTGTGA 60.108 55.000 0.00 0.00 39.16 3.58
2751 4163 3.823304 GGTGCTGTGAGGAATCTTCTTTT 59.177 43.478 0.00 0.00 0.00 2.27
2796 4209 6.705825 GGCTAAATGAAACCAACAACTCAAAT 59.294 34.615 0.00 0.00 0.00 2.32
2803 4216 6.322456 TGAAACCAACAACTCAAATATGGTGA 59.678 34.615 0.00 0.00 40.13 4.02
2850 4268 8.547069 GTTAGCATTAAGTAGCTCTTTGATCTG 58.453 37.037 0.00 0.00 42.05 2.90
2883 4301 2.364970 CAGTTTGGAGGATGGTGCAAAA 59.635 45.455 0.00 0.00 39.18 2.44
2884 4302 2.365293 AGTTTGGAGGATGGTGCAAAAC 59.635 45.455 0.00 0.00 39.18 2.43
2886 4304 1.619654 TGGAGGATGGTGCAAAACTG 58.380 50.000 0.00 0.00 0.00 3.16
2887 4305 0.244721 GGAGGATGGTGCAAAACTGC 59.755 55.000 0.00 0.00 0.00 4.40
2888 4306 0.961019 GAGGATGGTGCAAAACTGCA 59.039 50.000 0.00 0.00 43.22 4.41
2902 4320 5.464389 GCAAAACTGCAAATGTCTTGAGATT 59.536 36.000 0.00 0.00 34.41 2.40
2911 4329 5.886960 AATGTCTTGAGATTGTGCCTAAC 57.113 39.130 0.00 0.00 0.00 2.34
2943 4362 4.300189 AGACGAGACACTTATGATGCTC 57.700 45.455 0.00 0.00 0.00 4.26
2963 4382 4.323868 GCTCATTAAAGGGAAGGACACTCT 60.324 45.833 0.00 0.00 0.00 3.24
2977 4396 1.079256 ACTCTCTGGGGCTGCTACA 59.921 57.895 0.00 0.00 0.00 2.74
3030 4449 6.017192 ACTCACTGGATAAGTTAGGAAGACA 58.983 40.000 0.00 0.00 36.83 3.41
3031 4450 6.497259 ACTCACTGGATAAGTTAGGAAGACAA 59.503 38.462 0.00 0.00 36.83 3.18
3034 4453 6.023603 ACTGGATAAGTTAGGAAGACAAGGA 58.976 40.000 0.00 0.00 34.57 3.36
3035 4454 6.070710 ACTGGATAAGTTAGGAAGACAAGGAC 60.071 42.308 0.00 0.00 34.57 3.85
3036 4455 5.783360 TGGATAAGTTAGGAAGACAAGGACA 59.217 40.000 0.00 0.00 0.00 4.02
3037 4456 6.107343 GGATAAGTTAGGAAGACAAGGACAC 58.893 44.000 0.00 0.00 0.00 3.67
3038 4457 6.070710 GGATAAGTTAGGAAGACAAGGACACT 60.071 42.308 0.00 0.00 0.00 3.55
3039 4458 4.608948 AGTTAGGAAGACAAGGACACTG 57.391 45.455 0.00 0.00 0.00 3.66
3040 4459 3.967987 AGTTAGGAAGACAAGGACACTGT 59.032 43.478 0.00 0.00 0.00 3.55
3041 4460 4.039366 AGTTAGGAAGACAAGGACACTGTC 59.961 45.833 0.00 0.00 0.00 3.51
3042 4461 2.683768 AGGAAGACAAGGACACTGTCT 58.316 47.619 9.08 0.00 43.84 3.41
3054 4473 7.389053 ACAAGGACACTGTCTTGAGATTATTTC 59.611 37.037 19.66 0.00 32.47 2.17
3057 4476 6.314896 GGACACTGTCTTGAGATTATTTCTGG 59.685 42.308 9.08 0.00 31.48 3.86
3088 4507 4.348168 ACAAGGACACAAGGTCTAACTCAT 59.652 41.667 0.00 0.00 46.16 2.90
3113 4535 7.807977 AGTATCTATTGAATTTTCATGCGGT 57.192 32.000 0.00 0.00 37.00 5.68
3136 4558 7.376866 CGGTTCATTATCTGAATTGTTGCATAC 59.623 37.037 0.00 0.00 45.36 2.39
3144 4566 3.900601 TGAATTGTTGCATACCCCTTTGT 59.099 39.130 0.00 0.00 0.00 2.83
3155 4577 5.163550 GCATACCCCTTTGTGAATACCTTTC 60.164 44.000 0.00 0.00 0.00 2.62
3160 4582 5.716703 CCCCTTTGTGAATACCTTTCTGATT 59.283 40.000 0.00 0.00 0.00 2.57
3196 4618 2.496871 TGGCTGAGCAAAACCCATATTG 59.503 45.455 6.82 0.00 0.00 1.90
3218 4640 4.807961 GCTATTACGAGCAACTGTTAACG 58.192 43.478 0.26 2.48 42.36 3.18
3219 4641 3.717350 ATTACGAGCAACTGTTAACGC 57.283 42.857 0.26 0.00 0.00 4.84
3220 4642 2.137129 TACGAGCAACTGTTAACGCA 57.863 45.000 0.26 0.00 0.00 5.24
3221 4643 1.508632 ACGAGCAACTGTTAACGCAT 58.491 45.000 0.26 0.00 0.00 4.73
3222 4644 2.679450 ACGAGCAACTGTTAACGCATA 58.321 42.857 0.26 0.00 0.00 3.14
3223 4645 3.061322 ACGAGCAACTGTTAACGCATAA 58.939 40.909 0.26 0.00 0.00 1.90
3224 4646 3.120786 ACGAGCAACTGTTAACGCATAAC 60.121 43.478 0.26 5.09 43.52 1.89
3225 4647 3.122948 CGAGCAACTGTTAACGCATAACT 59.877 43.478 11.57 0.00 43.60 2.24
3226 4648 4.394795 GAGCAACTGTTAACGCATAACTG 58.605 43.478 13.49 13.49 43.60 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 4.038402 ACCGGTTTTTCTCTTTCTCGTCTA 59.962 41.667 0.00 0.00 0.00 2.59
80 81 1.116308 CCCCACTTTCAACCGGTTTT 58.884 50.000 19.55 0.00 0.00 2.43
141 142 9.991906 CCTACCCATACTCGAATAAAATCTAAA 57.008 33.333 0.00 0.00 0.00 1.85
142 143 8.591072 CCCTACCCATACTCGAATAAAATCTAA 58.409 37.037 0.00 0.00 0.00 2.10
143 144 7.951806 TCCCTACCCATACTCGAATAAAATCTA 59.048 37.037 0.00 0.00 0.00 1.98
144 145 6.785963 TCCCTACCCATACTCGAATAAAATCT 59.214 38.462 0.00 0.00 0.00 2.40
150 151 5.329191 TTCTCCCTACCCATACTCGAATA 57.671 43.478 0.00 0.00 0.00 1.75
154 155 4.748277 TTTTTCTCCCTACCCATACTCG 57.252 45.455 0.00 0.00 0.00 4.18
176 177 2.949644 CGTGACTCAAAACCTTCCCTTT 59.050 45.455 0.00 0.00 0.00 3.11
179 180 1.602377 CACGTGACTCAAAACCTTCCC 59.398 52.381 10.90 0.00 0.00 3.97
180 181 2.557317 TCACGTGACTCAAAACCTTCC 58.443 47.619 15.76 0.00 0.00 3.46
181 182 4.609691 TTTCACGTGACTCAAAACCTTC 57.390 40.909 19.90 0.00 0.00 3.46
182 183 5.576447 AATTTCACGTGACTCAAAACCTT 57.424 34.783 19.90 0.00 0.00 3.50
183 184 5.576447 AAATTTCACGTGACTCAAAACCT 57.424 34.783 19.90 0.00 0.00 3.50
184 185 5.005299 CCAAAATTTCACGTGACTCAAAACC 59.995 40.000 19.90 0.00 0.00 3.27
192 193 7.646130 TCAAATCTTACCAAAATTTCACGTGAC 59.354 33.333 19.90 0.00 0.00 3.67
194 195 7.922505 TCAAATCTTACCAAAATTTCACGTG 57.077 32.000 9.94 9.94 0.00 4.49
196 197 8.970691 AGATCAAATCTTACCAAAATTTCACG 57.029 30.769 0.00 0.00 35.76 4.35
241 243 3.261897 TCAATCAGAACCTTCCTGTCTCC 59.738 47.826 0.00 0.00 33.57 3.71
242 244 4.502962 CTCAATCAGAACCTTCCTGTCTC 58.497 47.826 0.00 0.00 33.57 3.36
246 248 2.363683 GCCTCAATCAGAACCTTCCTG 58.636 52.381 0.00 0.00 0.00 3.86
252 254 2.611225 ATCTCGCCTCAATCAGAACC 57.389 50.000 0.00 0.00 0.00 3.62
338 340 3.556306 CCCGGGCCGGTGTATCAT 61.556 66.667 40.30 0.00 46.80 2.45
361 363 0.175760 CATCGGTAGACCCACACCAG 59.824 60.000 0.00 0.00 34.25 4.00
364 366 0.179108 GCTCATCGGTAGACCCACAC 60.179 60.000 0.00 0.00 0.00 3.82
367 369 0.616395 TTGGCTCATCGGTAGACCCA 60.616 55.000 0.00 0.00 0.00 4.51
368 370 0.105039 CTTGGCTCATCGGTAGACCC 59.895 60.000 0.00 0.00 0.00 4.46
369 371 0.824759 ACTTGGCTCATCGGTAGACC 59.175 55.000 0.00 0.00 0.00 3.85
370 372 1.202428 GGACTTGGCTCATCGGTAGAC 60.202 57.143 0.00 0.00 0.00 2.59
371 373 1.112113 GGACTTGGCTCATCGGTAGA 58.888 55.000 0.00 0.00 0.00 2.59
372 374 0.824109 TGGACTTGGCTCATCGGTAG 59.176 55.000 0.00 0.00 0.00 3.18
373 375 1.207089 CTTGGACTTGGCTCATCGGTA 59.793 52.381 0.00 0.00 0.00 4.02
376 378 1.649664 CTCTTGGACTTGGCTCATCG 58.350 55.000 0.00 0.00 0.00 3.84
377 379 1.339438 TGCTCTTGGACTTGGCTCATC 60.339 52.381 0.00 0.00 0.00 2.92
379 381 0.035881 CTGCTCTTGGACTTGGCTCA 59.964 55.000 0.00 0.00 0.00 4.26
380 382 1.304509 GCTGCTCTTGGACTTGGCTC 61.305 60.000 0.00 0.00 0.00 4.70
381 383 1.303155 GCTGCTCTTGGACTTGGCT 60.303 57.895 0.00 0.00 0.00 4.75
382 384 1.584380 CTGCTGCTCTTGGACTTGGC 61.584 60.000 0.00 0.00 0.00 4.52
383 385 1.584380 GCTGCTGCTCTTGGACTTGG 61.584 60.000 8.53 0.00 36.03 3.61
384 386 0.887836 TGCTGCTGCTCTTGGACTTG 60.888 55.000 17.00 0.00 40.48 3.16
387 389 1.302351 ACTGCTGCTGCTCTTGGAC 60.302 57.895 17.00 0.00 40.48 4.02
425 433 4.643387 GCTGCCCTGTCCGGTGTT 62.643 66.667 0.00 0.00 0.00 3.32
427 435 4.641645 TTGCTGCCCTGTCCGGTG 62.642 66.667 0.00 0.00 0.00 4.94
428 436 4.335647 CTTGCTGCCCTGTCCGGT 62.336 66.667 0.00 0.00 0.00 5.28
735 816 2.668632 GCGGAGGATTGTGGTGGA 59.331 61.111 0.00 0.00 0.00 4.02
888 969 1.734388 AAAAGGAGCGCAAAAGCGGT 61.734 50.000 14.59 14.59 46.63 5.68
935 1016 0.942962 GGCCAGAGATGCGATCTTTG 59.057 55.000 0.00 8.68 40.38 2.77
1506 1593 1.421485 GTCGAATTCGCACAGGCAG 59.579 57.895 22.90 0.00 41.24 4.85
1689 1776 3.721706 AGCCGCCCTTCCTCCAAG 61.722 66.667 0.00 0.00 0.00 3.61
2368 3770 2.094182 ACAGTAAGGTGGCATGACTACG 60.094 50.000 0.00 0.00 0.00 3.51
2491 3893 7.363431 ACTTTGAGCATTCTTGTAAGTAAAGC 58.637 34.615 0.00 0.00 0.00 3.51
2540 3946 7.177216 TGCAATAGAAAGAATGACAAGATTGGT 59.823 33.333 0.00 0.00 0.00 3.67
2581 3991 7.820648 ACTGAAGCAAAACTCAGGTAATATTG 58.179 34.615 0.00 0.00 34.77 1.90
2590 4000 9.424319 TCTAATTAGTACTGAAGCAAAACTCAG 57.576 33.333 12.19 0.00 36.39 3.35
2661 4073 0.250234 TCTCCTGCATGGTTCGGAAG 59.750 55.000 0.00 0.00 37.07 3.46
2662 4074 0.690192 TTCTCCTGCATGGTTCGGAA 59.310 50.000 0.00 0.00 37.07 4.30
2716 4128 1.224075 CAGCACCCTTCTATGCGATG 58.776 55.000 0.00 0.00 46.74 3.84
2732 4144 6.749923 ATACAAAAGAAGATTCCTCACAGC 57.250 37.500 0.00 0.00 0.00 4.40
2751 4163 5.693769 GCCCTAAGCATTATCCCTATACA 57.306 43.478 0.00 0.00 42.97 2.29
2796 4209 6.928348 AACCACCGATAAGATATCACCATA 57.072 37.500 5.32 0.00 0.00 2.74
2803 4216 6.742559 AACCAGTAACCACCGATAAGATAT 57.257 37.500 0.00 0.00 0.00 1.63
2850 4268 3.068165 CCTCCAAACTGAAACAAGAACCC 59.932 47.826 0.00 0.00 0.00 4.11
2883 4301 4.558095 GCACAATCTCAAGACATTTGCAGT 60.558 41.667 0.00 0.00 0.00 4.40
2884 4302 3.918591 GCACAATCTCAAGACATTTGCAG 59.081 43.478 0.00 0.00 0.00 4.41
2886 4304 3.057033 AGGCACAATCTCAAGACATTTGC 60.057 43.478 0.00 0.00 0.00 3.68
2887 4305 4.778534 AGGCACAATCTCAAGACATTTG 57.221 40.909 0.00 0.00 0.00 2.32
2888 4306 6.006449 AGTTAGGCACAATCTCAAGACATTT 58.994 36.000 0.00 0.00 0.00 2.32
2890 4308 4.940046 CAGTTAGGCACAATCTCAAGACAT 59.060 41.667 0.00 0.00 0.00 3.06
2902 4320 2.495155 ATGCATCACAGTTAGGCACA 57.505 45.000 0.00 0.00 37.30 4.57
2911 4329 3.111838 GTGTCTCGTCTATGCATCACAG 58.888 50.000 0.19 0.00 0.00 3.66
2943 4362 5.181748 CAGAGAGTGTCCTTCCCTTTAATG 58.818 45.833 0.00 0.00 0.00 1.90
2963 4382 0.324943 GTTTCTGTAGCAGCCCCAGA 59.675 55.000 7.39 7.39 33.59 3.86
2977 4396 4.773149 CCTACTCCTACCTCAGTTGTTTCT 59.227 45.833 0.00 0.00 0.00 2.52
3030 4449 7.605691 CAGAAATAATCTCAAGACAGTGTCCTT 59.394 37.037 19.71 10.39 35.73 3.36
3031 4450 7.102346 CAGAAATAATCTCAAGACAGTGTCCT 58.898 38.462 19.71 3.76 35.73 3.85
3034 4453 6.176183 CCCAGAAATAATCTCAAGACAGTGT 58.824 40.000 0.00 0.00 35.73 3.55
3035 4454 6.176183 ACCCAGAAATAATCTCAAGACAGTG 58.824 40.000 0.00 0.00 35.73 3.66
3036 4455 6.380079 ACCCAGAAATAATCTCAAGACAGT 57.620 37.500 0.00 0.00 35.73 3.55
3037 4456 7.362401 CCAAACCCAGAAATAATCTCAAGACAG 60.362 40.741 0.00 0.00 35.73 3.51
3038 4457 6.434028 CCAAACCCAGAAATAATCTCAAGACA 59.566 38.462 0.00 0.00 35.73 3.41
3039 4458 6.127619 CCCAAACCCAGAAATAATCTCAAGAC 60.128 42.308 0.00 0.00 35.73 3.01
3040 4459 5.951747 CCCAAACCCAGAAATAATCTCAAGA 59.048 40.000 0.00 0.00 35.73 3.02
3041 4460 5.951747 TCCCAAACCCAGAAATAATCTCAAG 59.048 40.000 0.00 0.00 35.73 3.02
3042 4461 5.714806 GTCCCAAACCCAGAAATAATCTCAA 59.285 40.000 0.00 0.00 35.73 3.02
3043 4462 5.222233 TGTCCCAAACCCAGAAATAATCTCA 60.222 40.000 0.00 0.00 35.73 3.27
3044 4463 5.261216 TGTCCCAAACCCAGAAATAATCTC 58.739 41.667 0.00 0.00 35.73 2.75
3054 4473 0.184933 TGTCCTTGTCCCAAACCCAG 59.815 55.000 0.00 0.00 0.00 4.45
3057 4476 1.681264 CTTGTGTCCTTGTCCCAAACC 59.319 52.381 0.00 0.00 0.00 3.27
3088 4507 8.902540 ACCGCATGAAAATTCAATAGATACTA 57.097 30.769 0.00 0.00 41.13 1.82
3136 4558 4.662278 TCAGAAAGGTATTCACAAAGGGG 58.338 43.478 0.00 0.00 0.00 4.79
3155 4577 7.876582 TCAGCCATATGAAGATTAGTGAATCAG 59.123 37.037 3.65 0.00 43.51 2.90
3160 4582 5.070847 TGCTCAGCCATATGAAGATTAGTGA 59.929 40.000 3.65 0.00 0.00 3.41
3163 4585 6.872628 TTTGCTCAGCCATATGAAGATTAG 57.127 37.500 3.65 0.00 0.00 1.73
3171 4593 2.101783 TGGGTTTTGCTCAGCCATATG 58.898 47.619 0.00 0.00 36.87 1.78
3177 4599 2.543641 GCAATATGGGTTTTGCTCAGC 58.456 47.619 0.00 0.00 43.75 4.26
3196 4618 4.778154 GCGTTAACAGTTGCTCGTAATAGC 60.778 45.833 6.39 0.00 43.08 2.97
3204 4626 4.394795 CAGTTATGCGTTAACAGTTGCTC 58.605 43.478 6.39 0.00 42.30 4.26


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

AutoCloner maintained by Alex Coulton.