Multiple sequence alignment - TraesCS5D01G483300

Loading Multiple Alignment...

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 TraesCS5D01G483300 chr5D 100.000 2768 0 0 1 2768 520139341 520136574 0.000000e+00 5112.0
1 TraesCS5D01G483300 chr5A 92.663 1949 79 27 846 2768 647374961 647373051 0.000000e+00 2748.0
2 TraesCS5D01G483300 chr5A 90.946 497 38 5 1 497 647378905 647378416 0.000000e+00 662.0
3 TraesCS5D01G483300 chr5A 90.159 315 13 8 497 809 647375261 647374963 7.190000e-106 394.0
4 TraesCS5D01G483300 chr6D 81.891 1745 175 77 1045 2726 473056022 473057688 0.000000e+00 1341.0
5 TraesCS5D01G483300 chr6D 89.320 721 41 14 1069 1777 472997870 472998566 0.000000e+00 872.0
6 TraesCS5D01G483300 chr6D 84.069 408 50 11 2183 2580 473053772 473054174 2.010000e-101 379.0
7 TraesCS5D01G483300 chr6D 81.188 303 33 13 511 797 473055493 473055787 3.590000e-54 222.0
8 TraesCS5D01G483300 chr6B 91.114 709 42 10 1069 1771 718361735 718362428 0.000000e+00 941.0
9 TraesCS5D01G483300 chr6B 81.380 913 110 31 1870 2768 718373439 718374305 0.000000e+00 689.0
10 TraesCS5D01G483300 chr6B 86.131 274 23 5 1326 1594 718373131 718373394 5.840000e-72 281.0
11 TraesCS5D01G483300 chr6B 94.828 58 3 0 817 874 553059000 553059057 1.060000e-14 91.6
12 TraesCS5D01G483300 chr4D 91.864 676 46 6 1069 1741 2804948 2805617 0.000000e+00 935.0
13 TraesCS5D01G483300 chr4D 100.000 32 0 0 846 877 430895627 430895658 2.980000e-05 60.2
14 TraesCS5D01G483300 chr2D 77.586 232 43 9 1082 1309 102725407 102725633 6.220000e-27 132.0
15 TraesCS5D01G483300 chr2A 76.623 231 47 7 1082 1309 101836465 101836691 1.350000e-23 121.0
16 TraesCS5D01G483300 chr2B 78.421 190 33 8 1082 1267 153903604 153903789 1.740000e-22 117.0
17 TraesCS5D01G483300 chr2B 96.154 52 2 0 820 871 473335301 473335250 4.910000e-13 86.1
18 TraesCS5D01G483300 chr7B 98.276 58 1 0 817 874 64413022 64413079 4.880000e-18 102.0
19 TraesCS5D01G483300 chr1B 96.552 58 2 0 817 874 26096849 26096906 2.270000e-16 97.1
20 TraesCS5D01G483300 chr1A 91.667 60 2 1 821 877 41366825 41366766 2.290000e-11 80.5
21 TraesCS5D01G483300 chr7D 90.741 54 0 3 820 873 168580936 168580888 1.780000e-07 67.6
22 TraesCS5D01G483300 chr4A 87.097 62 3 1 821 877 564715252 564715191 6.400000e-07 65.8
23 TraesCS5D01G483300 chrUn 100.000 31 0 0 817 847 377893898 377893868 1.070000e-04 58.4
24 TraesCS5D01G483300 chr5B 80.247 81 13 3 769 846 6675252 6675172 1.070000e-04 58.4


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 TraesCS5D01G483300 chr5D 520136574 520139341 2767 True 5112.000000 5112 100.000000 1 2768 1 chr5D.!!$R1 2767
1 TraesCS5D01G483300 chr5A 647373051 647378905 5854 True 1268.000000 2748 91.256000 1 2768 3 chr5A.!!$R1 2767
2 TraesCS5D01G483300 chr6D 472997870 472998566 696 False 872.000000 872 89.320000 1069 1777 1 chr6D.!!$F1 708
3 TraesCS5D01G483300 chr6D 473053772 473057688 3916 False 647.333333 1341 82.382667 511 2726 3 chr6D.!!$F2 2215
4 TraesCS5D01G483300 chr6B 718361735 718362428 693 False 941.000000 941 91.114000 1069 1771 1 chr6B.!!$F2 702
5 TraesCS5D01G483300 chr6B 718373131 718374305 1174 False 485.000000 689 83.755500 1326 2768 2 chr6B.!!$F3 1442
6 TraesCS5D01G483300 chr4D 2804948 2805617 669 False 935.000000 935 91.864000 1069 1741 1 chr4D.!!$F1 672

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
628 4363 1.203523 GAGAGTGGAAGCATCGAGTGT 59.796 52.381 0.0 0.0 0.0 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1771 5578 0.037877 GCCATGCATCCAGCCTAGAT 59.962 55.0 0.0 0.0 44.83 1.98 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
58 59 2.675348 CAACATCTTCTTTCTCCTCGCC 59.325 50.000 0.00 0.00 0.00 5.54
189 190 4.829518 GGCGGAATTTGGCGCGTC 62.830 66.667 2.29 2.29 0.00 5.19
228 229 2.563179 CGGAGAGTTTTGGGAGAGAGAA 59.437 50.000 0.00 0.00 0.00 2.87
233 234 5.151454 AGAGTTTTGGGAGAGAGAAAGAGA 58.849 41.667 0.00 0.00 0.00 3.10
242 243 4.325030 GGAGAGAGAAAGAGAGAGGGAGAA 60.325 50.000 0.00 0.00 0.00 2.87
243 244 4.860022 AGAGAGAAAGAGAGAGGGAGAAG 58.140 47.826 0.00 0.00 0.00 2.85
244 245 4.540099 AGAGAGAAAGAGAGAGGGAGAAGA 59.460 45.833 0.00 0.00 0.00 2.87
260 261 2.045047 AGAAGAGGAGAGAATGGGGTCA 59.955 50.000 0.00 0.00 0.00 4.02
287 288 4.701437 AGATGGGTGGGCCAGGGT 62.701 66.667 6.40 0.00 36.17 4.34
303 304 2.675371 GTAGGACAAGGTGGGGGC 59.325 66.667 0.00 0.00 0.00 5.80
304 305 3.006728 TAGGACAAGGTGGGGGCG 61.007 66.667 0.00 0.00 0.00 6.13
305 306 3.857521 TAGGACAAGGTGGGGGCGT 62.858 63.158 0.00 0.00 0.00 5.68
349 350 2.182614 CTCGCGGACGCAAACCAAAT 62.183 55.000 17.35 0.00 42.06 2.32
377 378 3.192922 GTCGGAAATGGGTCGCGG 61.193 66.667 6.13 0.00 0.00 6.46
407 408 9.480053 ACAAAAGAATGGACAACAATCTATTTG 57.520 29.630 12.78 12.78 38.38 2.32
412 413 4.068599 TGGACAACAATCTATTTGCGTCA 58.931 39.130 9.37 0.00 40.38 4.35
440 441 5.331458 CGTTGGACAATGATTTTTGTTGACG 60.331 40.000 0.00 0.00 39.85 4.35
479 480 3.056821 CGAATGGACCAAGTGTGTCTCTA 60.057 47.826 0.00 0.00 33.22 2.43
498 499 2.579410 ACGTTGGAGTTGGCCTTATT 57.421 45.000 3.32 0.00 0.00 1.40
499 500 3.706600 ACGTTGGAGTTGGCCTTATTA 57.293 42.857 3.32 0.00 0.00 0.98
500 501 4.023726 ACGTTGGAGTTGGCCTTATTAA 57.976 40.909 3.32 0.00 0.00 1.40
501 502 3.754850 ACGTTGGAGTTGGCCTTATTAAC 59.245 43.478 3.32 0.00 0.00 2.01
507 508 4.566907 GGAGTTGGCCTTATTAACCTGACA 60.567 45.833 3.32 0.00 0.00 3.58
508 509 4.589908 AGTTGGCCTTATTAACCTGACAG 58.410 43.478 3.32 0.00 0.00 3.51
509 510 4.042934 AGTTGGCCTTATTAACCTGACAGT 59.957 41.667 3.32 0.00 0.00 3.55
510 511 4.216411 TGGCCTTATTAACCTGACAGTC 57.784 45.455 3.32 0.00 0.00 3.51
512 513 3.369157 GGCCTTATTAACCTGACAGTCGT 60.369 47.826 0.00 0.00 0.00 4.34
513 514 3.617263 GCCTTATTAACCTGACAGTCGTG 59.383 47.826 0.93 0.00 0.00 4.35
514 515 3.617263 CCTTATTAACCTGACAGTCGTGC 59.383 47.826 0.93 0.00 0.00 5.34
515 516 4.495422 CTTATTAACCTGACAGTCGTGCT 58.505 43.478 0.93 0.00 0.00 4.40
628 4363 1.203523 GAGAGTGGAAGCATCGAGTGT 59.796 52.381 0.00 0.00 0.00 3.55
629 4364 2.423892 GAGAGTGGAAGCATCGAGTGTA 59.576 50.000 0.00 0.00 0.00 2.90
630 4365 2.164624 AGAGTGGAAGCATCGAGTGTAC 59.835 50.000 0.00 0.00 0.00 2.90
703 4444 1.882912 ACTATACATGCATGCCGGTG 58.117 50.000 26.53 13.74 0.00 4.94
704 4445 1.416030 ACTATACATGCATGCCGGTGA 59.584 47.619 26.53 5.60 0.00 4.02
705 4446 2.038952 ACTATACATGCATGCCGGTGAT 59.961 45.455 26.53 12.15 0.00 3.06
724 4465 1.819928 TGTGTGTGTGTCTGCTTTGT 58.180 45.000 0.00 0.00 0.00 2.83
726 4467 2.556189 TGTGTGTGTGTCTGCTTTGTTT 59.444 40.909 0.00 0.00 0.00 2.83
799 4549 5.817816 CCTAGTCTCTTTCTGAGTCTCTCTC 59.182 48.000 0.65 0.00 43.13 3.20
809 4559 8.500753 TTTCTGAGTCTCTCTCTAGTACATTC 57.499 38.462 0.65 0.00 43.13 2.67
810 4560 7.432148 TCTGAGTCTCTCTCTAGTACATTCT 57.568 40.000 0.65 0.00 43.13 2.40
811 4561 7.497595 TCTGAGTCTCTCTCTAGTACATTCTC 58.502 42.308 0.65 0.00 43.13 2.87
813 4563 5.607477 AGTCTCTCTCTAGTACATTCTCGG 58.393 45.833 0.00 0.00 0.00 4.63
814 4564 4.753107 GTCTCTCTCTAGTACATTCTCGGG 59.247 50.000 0.00 0.00 0.00 5.14
815 4565 4.069304 CTCTCTCTAGTACATTCTCGGGG 58.931 52.174 0.00 0.00 0.00 5.73
816 4566 3.715315 TCTCTCTAGTACATTCTCGGGGA 59.285 47.826 0.00 0.00 0.00 4.81
817 4567 4.165565 TCTCTCTAGTACATTCTCGGGGAA 59.834 45.833 0.00 0.00 38.41 3.97
818 4568 4.462133 TCTCTAGTACATTCTCGGGGAAG 58.538 47.826 0.00 0.00 37.36 3.46
819 4569 4.165565 TCTCTAGTACATTCTCGGGGAAGA 59.834 45.833 0.00 0.00 37.36 2.87
820 4570 4.863548 TCTAGTACATTCTCGGGGAAGAA 58.136 43.478 0.00 0.00 39.49 2.52
823 4573 7.064866 TCTAGTACATTCTCGGGGAAGAAATA 58.935 38.462 0.00 0.00 38.69 1.40
825 4575 7.850935 AGTACATTCTCGGGGAAGAAATATA 57.149 36.000 0.00 0.00 38.69 0.86
826 4576 8.258850 AGTACATTCTCGGGGAAGAAATATAA 57.741 34.615 0.00 0.00 38.69 0.98
827 4577 8.368668 AGTACATTCTCGGGGAAGAAATATAAG 58.631 37.037 0.00 0.00 38.69 1.73
828 4578 7.374975 ACATTCTCGGGGAAGAAATATAAGA 57.625 36.000 0.00 0.00 38.69 2.10
829 4579 7.445945 ACATTCTCGGGGAAGAAATATAAGAG 58.554 38.462 0.00 0.00 38.69 2.85
831 4581 4.022242 TCTCGGGGAAGAAATATAAGAGCG 60.022 45.833 0.00 0.00 0.00 5.03
832 4582 3.640029 TCGGGGAAGAAATATAAGAGCGT 59.360 43.478 0.00 0.00 0.00 5.07
834 4584 4.814771 CGGGGAAGAAATATAAGAGCGTTT 59.185 41.667 0.00 0.00 0.00 3.60
837 4587 7.215085 GGGGAAGAAATATAAGAGCGTTTAGA 58.785 38.462 0.00 0.00 0.00 2.10
881 4631 4.336993 AGTGATCTAAACGCTCCTACAGAG 59.663 45.833 0.00 0.00 46.29 3.35
908 4659 3.067180 CAGTGTATAAAAGGCCATGCAGG 59.933 47.826 5.01 0.00 41.84 4.85
961 4733 4.218312 ACCTCTCAATTTGGTTTCAAGCT 58.782 39.130 0.00 0.00 33.98 3.74
964 4736 5.376854 TCTCAATTTGGTTTCAAGCTAGC 57.623 39.130 6.62 6.62 33.98 3.42
967 4739 6.372659 TCTCAATTTGGTTTCAAGCTAGCTAG 59.627 38.462 19.70 16.84 33.98 3.42
1036 4808 4.261783 GCAACAAGGAAAAGAAAGAGGAGG 60.262 45.833 0.00 0.00 0.00 4.30
1337 5112 2.030562 CACGCCCTTCAACTCCGT 59.969 61.111 0.00 0.00 0.00 4.69
1342 5120 1.597461 CCCTTCAACTCCGTCCCTC 59.403 63.158 0.00 0.00 0.00 4.30
1654 5455 3.112126 GACACCAATGCCGATGCCG 62.112 63.158 0.00 0.00 36.33 5.69
1745 5546 1.399714 CCGTCCACCAGCTATGACTA 58.600 55.000 0.00 0.00 0.00 2.59
1771 5578 1.517361 CACCATGCCGTCTAGCTCA 59.483 57.895 0.00 0.00 0.00 4.26
1777 5584 1.610363 TGCCGTCTAGCTCATCTAGG 58.390 55.000 0.00 0.00 43.93 3.02
1784 5591 3.193267 GTCTAGCTCATCTAGGCTGGATG 59.807 52.174 28.97 28.97 44.60 3.51
1786 5593 0.395686 GCTCATCTAGGCTGGATGCA 59.604 55.000 29.73 19.41 45.15 3.96
1787 5594 1.003349 GCTCATCTAGGCTGGATGCAT 59.997 52.381 29.73 0.00 45.15 3.96
1832 5654 8.145767 TGAGTGTTCCTCTTCTTTAAATAACGA 58.854 33.333 0.00 0.00 41.11 3.85
1849 5671 0.729140 CGAAATCAAACTGCGTGCCC 60.729 55.000 0.00 0.00 0.00 5.36
1851 5673 1.815817 AAATCAAACTGCGTGCCCCC 61.816 55.000 0.00 0.00 0.00 5.40
1852 5674 2.992817 AATCAAACTGCGTGCCCCCA 62.993 55.000 0.00 0.00 0.00 4.96
1976 5833 1.069906 GTGGATGTTGAGTGTGCGTTC 60.070 52.381 0.00 0.00 0.00 3.95
2115 5975 2.514205 AAGCCAAATTCACACACAGC 57.486 45.000 0.00 0.00 0.00 4.40
2117 5977 1.067516 AGCCAAATTCACACACAGCAC 59.932 47.619 0.00 0.00 0.00 4.40
2125 5987 3.865011 TCACACACAGCACATGTTTTT 57.135 38.095 0.00 0.00 41.41 1.94
2167 6029 6.809196 TGTTGTTTTCGCATTTCAAACTAACT 59.191 30.769 0.00 0.00 32.58 2.24
2304 6172 5.215160 GGCATTATAGCGATTTTTCACAGG 58.785 41.667 0.00 0.00 34.64 4.00
2346 6214 1.003839 ACTGGTGTGCCATACCACG 60.004 57.895 9.50 8.58 45.05 4.94
2366 6243 1.002251 GCGAAACAATCCGGAAACACA 60.002 47.619 9.01 0.00 0.00 3.72
2423 6301 5.541868 TCATGTATTGGGGTTCACAAACATT 59.458 36.000 0.00 0.00 37.10 2.71
2424 6302 5.878406 TGTATTGGGGTTCACAAACATTT 57.122 34.783 0.00 0.00 37.10 2.32
2553 6435 1.200020 CGTGAAAATGCTCAAGGGACC 59.800 52.381 0.00 0.00 0.00 4.46
2714 6604 4.023980 TCATAACACCCAACCAACAACAA 58.976 39.130 0.00 0.00 0.00 2.83
2715 6605 2.753055 AACACCCAACCAACAACAAC 57.247 45.000 0.00 0.00 0.00 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.094752 GTCACCATAGCCGCAACATTTT 60.095 45.455 0.00 0.00 0.00 1.82
153 154 0.664761 CGCCACAATCCTTGCCATAG 59.335 55.000 0.00 0.00 0.00 2.23
155 156 2.053865 CCGCCACAATCCTTGCCAT 61.054 57.895 0.00 0.00 0.00 4.40
156 157 2.676121 CCGCCACAATCCTTGCCA 60.676 61.111 0.00 0.00 0.00 4.92
160 161 2.837031 ATTCCGCCGCCACAATCCTT 62.837 55.000 0.00 0.00 0.00 3.36
166 167 3.369400 CCAAATTCCGCCGCCACA 61.369 61.111 0.00 0.00 0.00 4.17
167 168 4.794439 GCCAAATTCCGCCGCCAC 62.794 66.667 0.00 0.00 0.00 5.01
207 208 2.171840 TCTCTCTCCCAAAACTCTCCG 58.828 52.381 0.00 0.00 0.00 4.63
212 213 5.151454 TCTCTCTTTCTCTCTCCCAAAACT 58.849 41.667 0.00 0.00 0.00 2.66
228 229 3.197983 TCTCCTCTTCTCCCTCTCTCTT 58.802 50.000 0.00 0.00 0.00 2.85
233 234 3.374098 CCATTCTCTCCTCTTCTCCCTCT 60.374 52.174 0.00 0.00 0.00 3.69
242 243 1.364328 ACTGACCCCATTCTCTCCTCT 59.636 52.381 0.00 0.00 0.00 3.69
243 244 1.484240 CACTGACCCCATTCTCTCCTC 59.516 57.143 0.00 0.00 0.00 3.71
244 245 1.203364 ACACTGACCCCATTCTCTCCT 60.203 52.381 0.00 0.00 0.00 3.69
287 288 3.006728 CGCCCCCACCTTGTCCTA 61.007 66.667 0.00 0.00 0.00 2.94
334 335 0.312416 TTGGATTTGGTTTGCGTCCG 59.688 50.000 0.00 0.00 0.00 4.79
336 337 4.625311 CCTAATTTGGATTTGGTTTGCGTC 59.375 41.667 0.00 0.00 34.63 5.19
349 350 3.626222 CCCATTTCCGACCCTAATTTGGA 60.626 47.826 7.57 0.00 0.00 3.53
377 378 3.701241 TGTTGTCCATTCTTTTGTTCGC 58.299 40.909 0.00 0.00 0.00 4.70
412 413 4.050553 CAAAAATCATTGTCCAACGTGCT 58.949 39.130 0.00 0.00 0.00 4.40
415 416 5.518487 GTCAACAAAAATCATTGTCCAACGT 59.482 36.000 0.00 0.00 42.49 3.99
424 425 4.298332 GGTCTGCGTCAACAAAAATCATT 58.702 39.130 0.00 0.00 0.00 2.57
440 441 0.313672 TCGCATTTGTTTGGGTCTGC 59.686 50.000 0.00 0.00 0.00 4.26
479 480 2.579410 AATAAGGCCAACTCCAACGT 57.421 45.000 5.01 0.00 0.00 3.99
498 499 0.317160 CCAGCACGACTGTCAGGTTA 59.683 55.000 8.73 0.00 45.68 2.85
499 500 1.069765 CCAGCACGACTGTCAGGTT 59.930 57.895 8.73 0.00 45.68 3.50
500 501 2.088674 GACCAGCACGACTGTCAGGT 62.089 60.000 8.73 7.04 45.68 4.00
501 502 1.373497 GACCAGCACGACTGTCAGG 60.373 63.158 8.73 3.99 45.68 3.86
507 508 2.919856 AGGCAGACCAGCACGACT 60.920 61.111 0.00 0.00 39.06 4.18
508 509 2.740055 CAGGCAGACCAGCACGAC 60.740 66.667 0.00 0.00 39.06 4.34
509 510 1.468506 TAACAGGCAGACCAGCACGA 61.469 55.000 0.00 0.00 39.06 4.35
510 511 0.391661 ATAACAGGCAGACCAGCACG 60.392 55.000 0.00 0.00 39.06 5.34
512 513 3.433598 GGAATATAACAGGCAGACCAGCA 60.434 47.826 0.00 0.00 39.06 4.41
513 514 3.142174 GGAATATAACAGGCAGACCAGC 58.858 50.000 0.00 0.00 39.06 4.85
514 515 3.392616 AGGGAATATAACAGGCAGACCAG 59.607 47.826 0.00 0.00 39.06 4.00
515 516 3.136443 CAGGGAATATAACAGGCAGACCA 59.864 47.826 0.00 0.00 39.06 4.02
516 517 3.744660 CAGGGAATATAACAGGCAGACC 58.255 50.000 0.00 0.00 0.00 3.85
517 518 3.142174 GCAGGGAATATAACAGGCAGAC 58.858 50.000 0.00 0.00 0.00 3.51
519 520 2.880890 GTGCAGGGAATATAACAGGCAG 59.119 50.000 0.00 0.00 0.00 4.85
628 4363 7.073854 AGAACCCTAACCTAATCAGCATAGTA 58.926 38.462 0.00 0.00 0.00 1.82
629 4364 5.905913 AGAACCCTAACCTAATCAGCATAGT 59.094 40.000 0.00 0.00 0.00 2.12
630 4365 6.426646 AGAACCCTAACCTAATCAGCATAG 57.573 41.667 0.00 0.00 0.00 2.23
703 4444 2.355756 ACAAAGCAGACACACACACATC 59.644 45.455 0.00 0.00 0.00 3.06
704 4445 2.368439 ACAAAGCAGACACACACACAT 58.632 42.857 0.00 0.00 0.00 3.21
705 4446 1.819928 ACAAAGCAGACACACACACA 58.180 45.000 0.00 0.00 0.00 3.72
737 4478 7.040823 ACCAGATGCTATGCTAATTAAAAGAGC 60.041 37.037 6.70 6.70 36.72 4.09
775 4525 5.745227 AGAGAGACTCAGAAAGAGACTAGG 58.255 45.833 5.02 0.00 46.84 3.02
790 4540 5.454187 CCCGAGAATGTACTAGAGAGAGACT 60.454 48.000 0.00 0.00 0.00 3.24
791 4541 4.753107 CCCGAGAATGTACTAGAGAGAGAC 59.247 50.000 0.00 0.00 0.00 3.36
799 4549 5.593679 TTTCTTCCCCGAGAATGTACTAG 57.406 43.478 0.00 0.00 35.70 2.57
809 4559 4.238514 CGCTCTTATATTTCTTCCCCGAG 58.761 47.826 0.00 0.00 0.00 4.63
810 4560 3.640029 ACGCTCTTATATTTCTTCCCCGA 59.360 43.478 0.00 0.00 0.00 5.14
811 4561 3.991367 ACGCTCTTATATTTCTTCCCCG 58.009 45.455 0.00 0.00 0.00 5.73
813 4563 8.834749 ATCTAAACGCTCTTATATTTCTTCCC 57.165 34.615 0.00 0.00 0.00 3.97
825 4575 9.303537 GTGATCTTTAGTAATCTAAACGCTCTT 57.696 33.333 0.00 0.00 40.05 2.85
826 4576 8.688151 AGTGATCTTTAGTAATCTAAACGCTCT 58.312 33.333 0.00 0.00 40.05 4.09
827 4577 8.859517 AGTGATCTTTAGTAATCTAAACGCTC 57.140 34.615 0.00 0.00 40.05 5.03
828 4578 9.733219 GTAGTGATCTTTAGTAATCTAAACGCT 57.267 33.333 0.00 0.00 40.05 5.07
829 4579 9.733219 AGTAGTGATCTTTAGTAATCTAAACGC 57.267 33.333 0.00 0.00 40.05 4.84
873 4623 2.145397 TACACTGCTCCCTCTGTAGG 57.855 55.000 0.00 0.00 43.25 3.18
881 4631 2.298610 GGCCTTTTATACACTGCTCCC 58.701 52.381 0.00 0.00 0.00 4.30
883 4633 3.243201 GCATGGCCTTTTATACACTGCTC 60.243 47.826 3.32 0.00 0.00 4.26
908 4659 1.139947 GACCTACGTCTGGCTCTGC 59.860 63.158 7.35 0.00 35.99 4.26
961 4733 0.954449 CCGCTACCGCTAGCTAGCTA 60.954 60.000 36.02 24.17 46.85 3.32
964 4736 2.627737 CCCCGCTACCGCTAGCTAG 61.628 68.421 16.84 16.84 43.07 3.42
967 4739 3.979739 CTCCCCGCTACCGCTAGC 61.980 72.222 4.06 4.06 41.97 3.42
968 4740 3.979739 GCTCCCCGCTACCGCTAG 61.980 72.222 0.00 0.00 35.14 3.42
1654 5455 2.125512 ACTCTTGACGGCGGCATC 60.126 61.111 19.81 3.14 0.00 3.91
1745 5546 2.191375 CGGCATGGTGGAGCTCAT 59.809 61.111 17.19 0.00 0.00 2.90
1771 5578 0.037877 GCCATGCATCCAGCCTAGAT 59.962 55.000 0.00 0.00 44.83 1.98
1777 5584 2.596631 ATCGGCCATGCATCCAGC 60.597 61.111 2.24 0.00 45.96 4.85
1786 5593 1.452953 CTCATGCTTGCATCGGCCAT 61.453 55.000 2.24 0.00 40.13 4.40
1787 5594 2.045143 TCATGCTTGCATCGGCCA 60.045 55.556 2.24 0.00 40.13 5.36
1798 5605 2.758736 GAGGAACACTCACTCATGCT 57.241 50.000 0.00 0.00 45.85 3.79
1832 5654 1.665442 GGGGCACGCAGTTTGATTT 59.335 52.632 0.00 0.00 41.61 2.17
1849 5671 4.781616 TGCATGCATGGGGGTGGG 62.782 66.667 27.34 0.11 0.00 4.61
1989 5846 2.550208 GGTAGCCATGCACATACTACCC 60.550 54.545 21.00 10.51 40.44 3.69
1990 5847 2.550208 GGGTAGCCATGCACATACTACC 60.550 54.545 22.34 22.34 42.85 3.18
1991 5848 2.550208 GGGGTAGCCATGCACATACTAC 60.550 54.545 14.06 11.72 32.86 2.73
2095 5955 2.954989 TGCTGTGTGTGAATTTGGCTTA 59.045 40.909 0.00 0.00 0.00 3.09
2096 5956 1.755959 TGCTGTGTGTGAATTTGGCTT 59.244 42.857 0.00 0.00 0.00 4.35
2097 5957 1.067516 GTGCTGTGTGTGAATTTGGCT 59.932 47.619 0.00 0.00 0.00 4.75
2145 6007 9.522804 AATTAGTTAGTTTGAAATGCGAAAACA 57.477 25.926 0.00 0.00 36.48 2.83
2304 6172 4.142381 GGCCACCTGTAAGATTTTCATGTC 60.142 45.833 0.00 0.00 34.07 3.06
2346 6214 1.002251 TGTGTTTCCGGATTGTTTCGC 60.002 47.619 4.15 0.00 0.00 4.70
2372 6249 4.630505 CAGAGATGTTGTGAAGAGTCCATG 59.369 45.833 0.00 0.00 0.00 3.66
2378 6255 7.548427 ACATGATTACAGAGATGTTGTGAAGAG 59.452 37.037 0.00 0.00 0.00 2.85
2423 6301 6.652481 TGTTTTGGGATACGGTTACGATTTAA 59.348 34.615 0.00 0.00 44.60 1.52
2424 6302 6.169094 TGTTTTGGGATACGGTTACGATTTA 58.831 36.000 0.00 0.00 44.60 1.40
2553 6435 3.981071 TCACCAGTTCACTATCTTGGG 57.019 47.619 0.00 0.00 0.00 4.12
2669 6559 2.907042 GGGGGTGCTATGCTAGTTATCT 59.093 50.000 0.00 0.00 0.00 1.98
2714 6604 1.774254 TCCGATCCCTGCATATTTGGT 59.226 47.619 0.00 0.00 0.00 3.67
2715 6605 2.566833 TCCGATCCCTGCATATTTGG 57.433 50.000 0.00 0.00 0.00 3.28


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

AutoCloner maintained by Alex Coulton.