Multiple sequence alignment - TraesCS2B01G323900

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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 TraesCS2B01G323900 chr2B 100.000 3386 0 0 1 3386 462948887 462952272 0.000000e+00 6253
1 TraesCS2B01G323900 chr2D 91.916 3241 193 33 1 3217 391391346 391394541 0.000000e+00 4470
2 TraesCS2B01G323900 chr2D 93.714 175 10 1 3213 3386 391394644 391394818 9.320000e-66 261
3 TraesCS2B01G323900 chr2A 93.760 1939 93 15 926 2853 528122030 528123951 0.000000e+00 2885
4 TraesCS2B01G323900 chr2A 89.335 947 66 12 1 926 528118585 528119517 0.000000e+00 1157
5 TraesCS2B01G323900 chr2A 86.562 320 31 6 2906 3218 528124190 528124504 3.240000e-90 342


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 TraesCS2B01G323900 chr2B 462948887 462952272 3385 False 6253.000000 6253 100.000000 1 3386 1 chr2B.!!$F1 3385
1 TraesCS2B01G323900 chr2D 391391346 391394818 3472 False 2365.500000 4470 92.815000 1 3386 2 chr2D.!!$F1 3385
2 TraesCS2B01G323900 chr2A 528118585 528124504 5919 False 1461.333333 2885 89.885667 1 3218 3 chr2A.!!$F1 3217

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
697 717 0.107831 CGAGGACCCTTGAACCACAA 59.892 55.0 0.0 0.0 36.97 3.33 F
841 866 0.584876 AAGGTACGCAGTCGCAAAAC 59.415 50.0 0.0 0.0 43.93 2.43 F
1365 3914 0.909610 TCACCTCCCGCTTCCTCAAT 60.910 55.0 0.0 0.0 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2115 4664 0.400594 GCCCCAAATAGAGCCGGTAT 59.599 55.0 1.9 0.0 0.00 2.73 R
2299 4848 0.905357 GGTGTATGACTGCTCCACCT 59.095 55.0 0.0 0.0 41.83 4.00 R
3293 6175 1.135699 GAAAATGCAGTGATGGCGCG 61.136 55.0 0.0 0.0 0.00 6.86 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
97 101 5.184864 CACAAATATTGTTCCACTTGGCCTA 59.815 40.000 3.32 0.00 43.23 3.93
231 241 3.037485 GCAGACGCTACAAGGAGTC 57.963 57.895 0.00 0.00 36.52 3.36
238 248 4.096682 AGACGCTACAAGGAGTCTATGAAC 59.903 45.833 0.00 0.00 42.73 3.18
271 281 4.208460 CCCAAATGCTTCATAGTACGTACG 59.792 45.833 19.49 15.01 0.00 3.67
272 282 4.208460 CCAAATGCTTCATAGTACGTACGG 59.792 45.833 21.06 13.26 0.00 4.02
273 283 4.906065 AATGCTTCATAGTACGTACGGA 57.094 40.909 21.06 8.59 0.00 4.69
274 284 3.680642 TGCTTCATAGTACGTACGGAC 57.319 47.619 23.27 23.27 0.00 4.79
311 321 2.480244 GGAGCGAAAATGCAGAATTCCC 60.480 50.000 0.65 0.00 37.31 3.97
312 322 2.164219 GAGCGAAAATGCAGAATTCCCA 59.836 45.455 0.65 0.02 37.31 4.37
325 335 3.270433 AGAATTCCCACATCCTTCCACAT 59.730 43.478 0.65 0.00 0.00 3.21
356 372 2.887152 GACTGAACCCAAAGCTCACAAT 59.113 45.455 0.00 0.00 0.00 2.71
361 378 4.161189 TGAACCCAAAGCTCACAATGAAAA 59.839 37.500 0.00 0.00 0.00 2.29
386 403 8.907222 AAAAGCAATTAAACATCACCAGAATT 57.093 26.923 0.00 0.00 0.00 2.17
388 405 6.324819 AGCAATTAAACATCACCAGAATTCG 58.675 36.000 0.00 0.00 0.00 3.34
389 406 5.004726 GCAATTAAACATCACCAGAATTCGC 59.995 40.000 0.00 0.00 0.00 4.70
391 408 3.837213 AAACATCACCAGAATTCGCAG 57.163 42.857 0.00 0.00 0.00 5.18
396 413 1.071542 TCACCAGAATTCGCAGAACCA 59.928 47.619 0.00 0.00 45.90 3.67
407 424 2.006888 CGCAGAACCATTACCGTCATT 58.993 47.619 0.00 0.00 0.00 2.57
412 429 0.250793 ACCATTACCGTCATTGCCGA 59.749 50.000 0.00 0.00 0.00 5.54
413 430 1.134220 ACCATTACCGTCATTGCCGAT 60.134 47.619 0.00 0.00 0.00 4.18
422 439 2.289072 CGTCATTGCCGATATCCTCCTT 60.289 50.000 0.00 0.00 0.00 3.36
425 442 1.131638 TTGCCGATATCCTCCTTGCT 58.868 50.000 0.00 0.00 0.00 3.91
432 449 1.402896 TATCCTCCTTGCTGCCCTCG 61.403 60.000 0.00 0.00 0.00 4.63
464 481 0.526211 TCAACATCCTCGACCTCACG 59.474 55.000 0.00 0.00 0.00 4.35
549 566 4.085009 CCTTCCTCTTCTTCTTGGCAAAT 58.915 43.478 0.00 0.00 0.00 2.32
611 628 4.179579 GCATCCAGGAAACGCGCC 62.180 66.667 5.73 0.00 0.00 6.53
639 659 1.531602 GGCCCAAGAACCAAGCAGT 60.532 57.895 0.00 0.00 0.00 4.40
682 702 3.215245 CTCTCCAGGAAGGCGAGG 58.785 66.667 0.00 0.00 44.01 4.63
687 707 2.685380 CAGGAAGGCGAGGACCCT 60.685 66.667 0.00 0.00 0.00 4.34
696 716 1.752198 CGAGGACCCTTGAACCACA 59.248 57.895 0.00 0.00 0.00 4.17
697 717 0.107831 CGAGGACCCTTGAACCACAA 59.892 55.000 0.00 0.00 36.97 3.33
698 718 1.605753 GAGGACCCTTGAACCACAAC 58.394 55.000 0.00 0.00 34.56 3.32
755 779 3.058224 ACGCACAAGGATTAAAACAGAGC 60.058 43.478 0.00 0.00 0.00 4.09
785 809 3.123620 CAGAGCGCCACTGAAGCC 61.124 66.667 22.22 0.00 37.54 4.35
831 856 1.069823 TCGGTTGGTTAAAGGTACGCA 59.930 47.619 0.00 0.00 0.00 5.24
835 860 2.068837 TGGTTAAAGGTACGCAGTCG 57.931 50.000 0.00 0.00 43.93 4.18
841 866 0.584876 AAGGTACGCAGTCGCAAAAC 59.415 50.000 0.00 0.00 43.93 2.43
852 877 2.899044 CGCAAAACCGCCTTCCGAA 61.899 57.895 0.00 0.00 40.02 4.30
923 949 5.605488 TCCTTAGAAAACACAACCTAGGAGT 59.395 40.000 17.98 10.89 0.00 3.85
956 3496 4.801891 ACAAAGACGAACGCAATCTAGTA 58.198 39.130 0.00 0.00 0.00 1.82
958 3498 4.698583 AAGACGAACGCAATCTAGTACT 57.301 40.909 0.00 0.00 0.00 2.73
960 3500 3.065095 AGACGAACGCAATCTAGTACTCC 59.935 47.826 0.00 0.00 0.00 3.85
962 3502 4.194640 ACGAACGCAATCTAGTACTCCTA 58.805 43.478 0.00 0.00 0.00 2.94
964 3504 4.272991 CGAACGCAATCTAGTACTCCTAGT 59.727 45.833 0.00 0.00 43.23 2.57
965 3505 5.464722 CGAACGCAATCTAGTACTCCTAGTA 59.535 44.000 0.00 0.00 43.23 1.82
966 3506 6.346758 CGAACGCAATCTAGTACTCCTAGTAG 60.347 46.154 0.00 0.00 43.23 2.57
968 3508 5.759273 ACGCAATCTAGTACTCCTAGTAGTG 59.241 44.000 0.00 0.00 43.23 2.74
969 3509 5.990386 CGCAATCTAGTACTCCTAGTAGTGA 59.010 44.000 0.00 2.16 43.23 3.41
983 3523 1.614413 GTAGTGACCATCGGGATCTCC 59.386 57.143 0.00 0.00 38.05 3.71
1292 3841 2.829003 CTCCGCCTCGCTCCAGTA 60.829 66.667 0.00 0.00 0.00 2.74
1299 3848 1.693627 CCTCGCTCCAGTACCAGTAT 58.306 55.000 0.00 0.00 0.00 2.12
1344 3893 2.696125 GCCTTCCCCTCCCATCCA 60.696 66.667 0.00 0.00 0.00 3.41
1365 3914 0.909610 TCACCTCCCGCTTCCTCAAT 60.910 55.000 0.00 0.00 0.00 2.57
1376 3925 1.635487 CTTCCTCAATTCCCTCACCCA 59.365 52.381 0.00 0.00 0.00 4.51
1405 3954 3.966543 CCGCAGACCCCAAACCCT 61.967 66.667 0.00 0.00 0.00 4.34
1426 3975 2.104170 CCTCCTTCTACTCCACAGTCC 58.896 57.143 0.00 0.00 33.62 3.85
1448 3997 3.702048 CTTTCCGGCGAGGGTCCA 61.702 66.667 9.30 0.00 41.52 4.02
1450 3999 2.536997 CTTTCCGGCGAGGGTCCATT 62.537 60.000 9.30 0.00 41.52 3.16
1455 4004 4.162690 GCGAGGGTCCATTCGGCT 62.163 66.667 14.57 0.00 37.30 5.52
1474 4023 2.738521 CCACCGTCTGCAAGTCCG 60.739 66.667 0.00 0.00 33.76 4.79
1497 4046 3.188786 GCGTGCGGCTTCTCGAAT 61.189 61.111 0.00 0.00 39.11 3.34
1581 4130 7.934120 GTCTCTGCAGGTATATACAAGGAAAAT 59.066 37.037 15.13 0.00 0.00 1.82
1716 4265 1.003839 GACGGTGGCTGTCATTGGA 60.004 57.895 3.47 0.00 39.36 3.53
1797 4346 1.375523 GGTTGCGTTCCGGTCAGAT 60.376 57.895 0.00 0.00 0.00 2.90
1926 4475 5.248020 TGTGGATTTTGTATTTGGGAATGCT 59.752 36.000 0.00 0.00 0.00 3.79
1941 4490 3.119388 GGAATGCTGCAGCTATGTTTGAA 60.119 43.478 36.61 15.85 42.66 2.69
1947 4496 4.380233 GCTGCAGCTATGTTTGAAGAATGT 60.380 41.667 31.33 0.00 38.21 2.71
2127 4676 1.066858 CCGCAATCATACCGGCTCTAT 60.067 52.381 0.00 0.00 35.14 1.98
2232 4781 2.270297 CTTGGCGAGGGGATTTTGCG 62.270 60.000 0.00 0.00 0.00 4.85
2299 4848 2.677902 GCGAATCAGACATCAAGGGTCA 60.678 50.000 0.00 0.00 37.74 4.02
2313 4862 1.557269 GGGTCAGGTGGAGCAGTCAT 61.557 60.000 0.00 0.00 45.90 3.06
2467 5017 4.787551 TGCTAAATATCCAACCCGTGATT 58.212 39.130 0.00 0.00 0.00 2.57
2860 5628 6.707440 TGTTTGGTTGTCAGTTTATGTCAT 57.293 33.333 0.00 0.00 0.00 3.06
2862 5630 8.226819 TGTTTGGTTGTCAGTTTATGTCATTA 57.773 30.769 0.00 0.00 0.00 1.90
2895 5663 7.722949 ATTTGTTGGATTGGTATCAGACATT 57.277 32.000 0.00 0.00 31.49 2.71
2908 5676 5.963176 ATCAGACATTACAAACATGCACA 57.037 34.783 0.00 0.00 0.00 4.57
2926 5694 3.503363 GCACACATCTCTCATGTTCCAAA 59.497 43.478 0.00 0.00 0.00 3.28
2930 5698 6.091849 CACACATCTCTCATGTTCCAAACTAG 59.908 42.308 0.00 0.00 0.00 2.57
2932 5700 7.039011 ACACATCTCTCATGTTCCAAACTAGTA 60.039 37.037 0.00 0.00 0.00 1.82
2936 5704 7.907389 TCTCTCATGTTCCAAACTAGTAACAT 58.093 34.615 13.59 13.59 41.87 2.71
2938 5706 8.997621 TCTCATGTTCCAAACTAGTAACATAC 57.002 34.615 17.32 6.08 39.80 2.39
2953 5721 9.680315 CTAGTAACATACATAACCTTAGCACTC 57.320 37.037 0.00 0.00 0.00 3.51
2960 5728 9.035607 CATACATAACCTTAGCACTCTTACAAG 57.964 37.037 0.00 0.00 0.00 3.16
2999 5767 6.688578 AGTGATAAAGTGAGACGTACATGTT 58.311 36.000 2.30 0.00 0.00 2.71
3003 5771 7.753580 TGATAAAGTGAGACGTACATGTTACAG 59.246 37.037 2.30 0.00 0.00 2.74
3043 5811 8.704234 GCTATATACAATGTTCAGTTGAGCTAC 58.296 37.037 0.00 0.00 0.00 3.58
3057 5825 0.249398 AGCTACGAACAAGGCGGAAT 59.751 50.000 0.00 0.00 0.00 3.01
3058 5826 1.084289 GCTACGAACAAGGCGGAATT 58.916 50.000 0.00 0.00 0.00 2.17
3075 5844 6.592220 GGCGGAATTTTTCTAAAATAAGCCAA 59.408 34.615 20.59 0.00 36.14 4.52
3146 5921 5.936372 GCTCCATCATCATCATAAACAGCTA 59.064 40.000 0.00 0.00 0.00 3.32
3223 6105 6.411492 CACACATTGCAAAGTAAAATTGTTGC 59.589 34.615 7.05 0.40 45.19 4.17
3280 6162 2.197577 GCTGCTACTGAAGAATCGACC 58.802 52.381 0.00 0.00 0.00 4.79
3293 6175 7.919690 TGAAGAATCGACCATGATATTTTCAC 58.080 34.615 0.00 0.00 37.11 3.18
3312 6194 1.135699 CGCGCCATCACTGCATTTTC 61.136 55.000 0.00 0.00 0.00 2.29
3316 6198 1.202222 GCCATCACTGCATTTTCTCGG 60.202 52.381 0.00 0.00 0.00 4.63
3366 6249 2.202570 CGACCGCGTACCCAGAAG 60.203 66.667 4.92 0.00 0.00 2.85
3368 6251 1.588082 GACCGCGTACCCAGAAGAA 59.412 57.895 4.92 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
59 63 6.814644 ACAATATTTGTGAACAGATGGCATTG 59.185 34.615 0.00 4.82 43.48 2.82
97 101 6.421801 GCAATTTGCACTTGTCACTCTAATTT 59.578 34.615 16.35 0.00 44.26 1.82
142 146 1.302993 ATTGTACGTGTGTGGGGGC 60.303 57.895 0.00 0.00 0.00 5.80
144 148 2.232941 AGTAGATTGTACGTGTGTGGGG 59.767 50.000 0.00 0.00 0.00 4.96
150 154 3.936372 ACTGCAGTAGATTGTACGTGT 57.064 42.857 20.16 0.00 0.00 4.49
154 158 7.413438 CCATCAGAAAACTGCAGTAGATTGTAC 60.413 40.741 22.01 6.75 0.00 2.90
178 188 5.857471 ATAAGGTACTATAACACGCACCA 57.143 39.130 0.00 0.00 38.49 4.17
184 194 9.688592 AATGCGAGTTATAAGGTACTATAACAC 57.311 33.333 19.40 14.75 38.49 3.32
225 235 5.163152 GGGATCCAAATGTTCATAGACTCCT 60.163 44.000 15.23 0.00 0.00 3.69
226 236 5.066593 GGGATCCAAATGTTCATAGACTCC 58.933 45.833 15.23 0.00 0.00 3.85
227 237 5.066593 GGGGATCCAAATGTTCATAGACTC 58.933 45.833 15.23 0.00 0.00 3.36
271 281 2.017049 CCATTTCTTCCATCACCGTCC 58.983 52.381 0.00 0.00 0.00 4.79
272 282 2.939103 CTCCATTTCTTCCATCACCGTC 59.061 50.000 0.00 0.00 0.00 4.79
273 283 2.941415 GCTCCATTTCTTCCATCACCGT 60.941 50.000 0.00 0.00 0.00 4.83
274 284 1.672881 GCTCCATTTCTTCCATCACCG 59.327 52.381 0.00 0.00 0.00 4.94
275 285 1.672881 CGCTCCATTTCTTCCATCACC 59.327 52.381 0.00 0.00 0.00 4.02
311 321 0.729116 GTCGCATGTGGAAGGATGTG 59.271 55.000 6.39 0.00 0.00 3.21
312 322 0.324614 TGTCGCATGTGGAAGGATGT 59.675 50.000 6.39 0.00 0.00 3.06
325 335 0.601558 GGGTTCAGTCTACTGTCGCA 59.398 55.000 9.81 0.00 44.12 5.10
361 378 8.907222 AATTCTGGTGATGTTTAATTGCTTTT 57.093 26.923 0.00 0.00 0.00 2.27
370 387 4.574892 TCTGCGAATTCTGGTGATGTTTA 58.425 39.130 3.52 0.00 0.00 2.01
386 403 0.604073 TGACGGTAATGGTTCTGCGA 59.396 50.000 0.00 0.00 0.00 5.10
388 405 2.477863 GCAATGACGGTAATGGTTCTGC 60.478 50.000 0.00 0.00 0.00 4.26
389 406 2.097466 GGCAATGACGGTAATGGTTCTG 59.903 50.000 0.00 0.00 0.00 3.02
391 408 1.063469 CGGCAATGACGGTAATGGTTC 59.937 52.381 0.00 0.00 0.00 3.62
396 413 3.260884 AGGATATCGGCAATGACGGTAAT 59.739 43.478 5.26 0.00 31.71 1.89
407 424 0.394192 CAGCAAGGAGGATATCGGCA 59.606 55.000 0.00 0.00 0.00 5.69
412 429 1.063183 GAGGGCAGCAAGGAGGATAT 58.937 55.000 0.00 0.00 0.00 1.63
413 430 1.402896 CGAGGGCAGCAAGGAGGATA 61.403 60.000 0.00 0.00 0.00 2.59
432 449 0.625849 ATGTTGATGGTGGGGAGGAC 59.374 55.000 0.00 0.00 0.00 3.85
439 456 1.656652 GTCGAGGATGTTGATGGTGG 58.343 55.000 0.00 0.00 0.00 4.61
441 458 1.482593 GAGGTCGAGGATGTTGATGGT 59.517 52.381 0.00 0.00 0.00 3.55
464 481 5.465532 TGATGTTCCTGATGAGATAGAGC 57.534 43.478 0.00 0.00 0.00 4.09
639 659 1.481871 AACCGCCGAGATTTCCTCTA 58.518 50.000 0.00 0.00 39.78 2.43
682 702 2.495084 GAGAGTTGTGGTTCAAGGGTC 58.505 52.381 0.00 0.00 36.66 4.46
687 707 2.104792 CTCTGGGAGAGTTGTGGTTCAA 59.895 50.000 0.00 0.00 37.57 2.69
696 716 2.573915 GGATTTGGTCTCTGGGAGAGTT 59.426 50.000 0.00 0.00 42.83 3.01
697 717 2.192263 GGATTTGGTCTCTGGGAGAGT 58.808 52.381 0.00 0.00 42.83 3.24
698 718 2.191400 TGGATTTGGTCTCTGGGAGAG 58.809 52.381 0.00 0.00 43.64 3.20
755 779 4.903355 CTCTGCCGCTCTCGCTCG 62.903 72.222 0.00 0.00 0.00 5.03
774 798 3.359002 CCACTTGGCTTCAGTGGC 58.641 61.111 15.23 0.00 45.18 5.01
785 809 3.411446 TCTGATAAGCAACCACCACTTG 58.589 45.455 0.00 0.00 0.00 3.16
831 856 2.258726 GGAAGGCGGTTTTGCGACT 61.259 57.895 0.00 0.00 35.06 4.18
835 860 1.081442 CTTCGGAAGGCGGTTTTGC 60.081 57.895 9.93 0.00 0.00 3.68
841 866 1.488261 GCGTATTCTTCGGAAGGCGG 61.488 60.000 17.19 4.77 37.38 6.13
852 877 1.134788 CCCAGTTCGAAGGCGTATTCT 60.135 52.381 0.00 0.00 38.98 2.40
869 894 2.556189 CGTGTGATTCCATGTTTTCCCA 59.444 45.455 0.00 0.00 0.00 4.37
923 949 6.018913 TGCGTTCGTCTTTGTTTTCAGTATAA 60.019 34.615 0.00 0.00 0.00 0.98
956 3496 2.423088 CCCGATGGTCACTACTAGGAGT 60.423 54.545 0.17 0.17 0.00 3.85
958 3498 1.848388 TCCCGATGGTCACTACTAGGA 59.152 52.381 0.00 0.00 0.00 2.94
960 3500 3.754323 GAGATCCCGATGGTCACTACTAG 59.246 52.174 0.00 0.00 0.00 2.57
962 3502 2.588620 GAGATCCCGATGGTCACTACT 58.411 52.381 0.00 0.00 0.00 2.57
964 3504 1.996798 GGAGATCCCGATGGTCACTA 58.003 55.000 0.00 0.00 0.00 2.74
965 3505 2.827715 GGAGATCCCGATGGTCACT 58.172 57.895 0.00 0.00 0.00 3.41
983 3523 1.140652 GCATTTGGGAGAGAGAGAGGG 59.859 57.143 0.00 0.00 0.00 4.30
1299 3848 4.664267 AGGAGGTGGGAGCAGCCA 62.664 66.667 0.00 0.00 38.95 4.75
1301 3850 3.322318 GACAGGAGGTGGGAGCAGC 62.322 68.421 0.00 0.00 0.00 5.25
1341 3890 2.203788 AAGCGGGAGGTGAGTGGA 60.204 61.111 0.00 0.00 42.46 4.02
1344 3893 1.985116 GAGGAAGCGGGAGGTGAGT 60.985 63.158 0.00 0.00 42.46 3.41
1365 3914 2.583441 CGTCTGCTGGGTGAGGGAA 61.583 63.158 0.00 0.00 0.00 3.97
1405 3954 2.291670 GGACTGTGGAGTAGAAGGAGGA 60.292 54.545 0.00 0.00 30.16 3.71
1455 4004 2.280797 GACTTGCAGACGGTGGCA 60.281 61.111 0.37 0.37 38.46 4.92
1487 4036 1.201855 CGTCTTGCACATTCGAGAAGC 60.202 52.381 0.00 0.00 0.00 3.86
1581 4130 1.511850 TCTCGAACGGAACTACGACA 58.488 50.000 0.00 0.00 37.61 4.35
1711 4260 1.533711 CCCGGAAGCCATCTCCAAT 59.466 57.895 0.73 0.00 0.00 3.16
1716 4265 3.854669 CTCGCCCGGAAGCCATCT 61.855 66.667 0.73 0.00 0.00 2.90
1926 4475 4.520111 ACACATTCTTCAAACATAGCTGCA 59.480 37.500 1.02 0.00 0.00 4.41
1941 4490 3.329386 CACCGTCTCAATCACACATTCT 58.671 45.455 0.00 0.00 0.00 2.40
1947 4496 1.374125 CGGCACCGTCTCAATCACA 60.374 57.895 0.00 0.00 34.35 3.58
2049 4598 4.998672 CCATCCACTGTGCAATTTTGAAAT 59.001 37.500 1.29 0.00 0.00 2.17
2115 4664 0.400594 GCCCCAAATAGAGCCGGTAT 59.599 55.000 1.90 0.00 0.00 2.73
2232 4781 4.130118 CCCCATAATACAGTGTCTTGAGC 58.870 47.826 0.00 0.00 0.00 4.26
2280 4829 3.054802 ACCTGACCCTTGATGTCTGATTC 60.055 47.826 0.00 0.00 34.66 2.52
2299 4848 0.905357 GGTGTATGACTGCTCCACCT 59.095 55.000 0.00 0.00 41.83 4.00
2313 4862 2.103941 TGTGACATGCTGTTCTGGTGTA 59.896 45.455 0.00 0.00 0.00 2.90
2394 4943 7.043961 TCGCTAATCTGAACATTGACTCTAT 57.956 36.000 0.00 0.00 0.00 1.98
2467 5017 2.297033 GACTTGCTTGCAATTCAGGGAA 59.703 45.455 17.01 0.00 31.71 3.97
2532 5082 4.099573 CCAGATCACTTCGGGTTATGTACT 59.900 45.833 0.00 0.00 35.19 2.73
2637 5194 3.964688 TCAGTAGTCACTCCAGGAAACAA 59.035 43.478 0.00 0.00 30.46 2.83
2643 5200 4.697352 CCAATTTTCAGTAGTCACTCCAGG 59.303 45.833 0.00 0.00 30.46 4.45
2694 5251 5.898174 TGAATACCACACGACTACAATAGG 58.102 41.667 0.00 0.00 0.00 2.57
2860 5628 8.472007 ACCAATCCAACAAATTAGTCAGTTAA 57.528 30.769 0.00 0.00 0.00 2.01
2862 5630 6.976934 ACCAATCCAACAAATTAGTCAGTT 57.023 33.333 0.00 0.00 0.00 3.16
2895 5663 4.640364 TGAGAGATGTGTGCATGTTTGTA 58.360 39.130 0.00 0.00 35.07 2.41
2908 5676 6.365970 ACTAGTTTGGAACATGAGAGATGT 57.634 37.500 0.00 0.00 39.30 3.06
2926 5694 9.198475 AGTGCTAAGGTTATGTATGTTACTAGT 57.802 33.333 0.00 0.00 0.00 2.57
2930 5698 8.943909 AAGAGTGCTAAGGTTATGTATGTTAC 57.056 34.615 0.00 0.00 0.00 2.50
2932 5700 8.537016 TGTAAGAGTGCTAAGGTTATGTATGTT 58.463 33.333 0.00 0.00 0.00 2.71
2936 5704 8.357290 TCTTGTAAGAGTGCTAAGGTTATGTA 57.643 34.615 0.00 0.00 0.00 2.29
2938 5706 7.763172 CTCTTGTAAGAGTGCTAAGGTTATG 57.237 40.000 12.41 0.00 45.84 1.90
2953 5721 8.181573 TCACTTTTGCTTGTAAACTCTTGTAAG 58.818 33.333 0.00 0.00 0.00 2.34
2960 5728 8.958043 CACTTTATCACTTTTGCTTGTAAACTC 58.042 33.333 0.00 0.00 0.00 3.01
2999 5767 9.409918 GTATATAGCAGATCAGTTATCCCTGTA 57.590 37.037 0.00 0.00 34.90 2.74
3003 5771 9.539825 CATTGTATATAGCAGATCAGTTATCCC 57.460 37.037 0.00 0.00 34.90 3.85
3043 5811 3.282831 AGAAAAATTCCGCCTTGTTCG 57.717 42.857 0.00 0.00 0.00 3.95
3223 6105 6.169419 TGTCGACAAATCATAAAGAAGCAG 57.831 37.500 17.62 0.00 0.00 4.24
3263 6145 4.046938 TCATGGTCGATTCTTCAGTAGC 57.953 45.455 0.00 0.00 0.00 3.58
3280 6162 2.753989 TGGCGCGTGAAAATATCATG 57.246 45.000 8.43 0.00 46.09 3.07
3293 6175 1.135699 GAAAATGCAGTGATGGCGCG 61.136 55.000 0.00 0.00 0.00 6.86
3316 6198 4.116238 GTCCAGATTTCGGAACAGATCTC 58.884 47.826 0.00 0.00 33.29 2.75
3328 6210 6.090493 GGTCGTTTACTAACAGTCCAGATTTC 59.910 42.308 0.00 0.00 33.75 2.17


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

AutoCloner maintained by Alex Coulton.