Multiple sequence alignment - TraesCS3B01G388200

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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 TraesCS3B01G388200 chr3B 100.000 2612 0 0 1 2612 610753880 610751269 0.000000e+00 4824.0
1 TraesCS3B01G388200 chr3D 94.964 1787 69 11 842 2612 460501077 460499296 0.000000e+00 2782.0
2 TraesCS3B01G388200 chr3D 85.145 653 40 21 127 771 460501768 460501165 1.330000e-172 616.0
3 TraesCS3B01G388200 chr3D 90.345 145 3 1 1 134 460502977 460502833 2.070000e-41 180.0
4 TraesCS3B01G388200 chr3A 93.654 1765 85 14 874 2612 602921342 602919579 0.000000e+00 2614.0
5 TraesCS3B01G388200 chr3A 89.310 290 18 3 1 277 602921800 602921511 4.140000e-93 351.0
6 TraesCS3B01G388200 chr3A 97.500 40 1 0 877 916 602921368 602921329 4.660000e-08 69.4


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 TraesCS3B01G388200 chr3B 610751269 610753880 2611 True 4824.000000 4824 100.000000 1 2612 1 chr3B.!!$R1 2611
1 TraesCS3B01G388200 chr3D 460499296 460502977 3681 True 1192.666667 2782 90.151333 1 2612 3 chr3D.!!$R1 2611
2 TraesCS3B01G388200 chr3A 602919579 602921800 2221 True 1011.466667 2614 93.488000 1 2612 3 chr3A.!!$R1 2611

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
565 1658 0.038251 CCAGAGTGCAGCAACTACGA 60.038 55.0 0.0 0.0 0.0 3.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1707 2894 0.74845 TCTCGTTCCTTCGGTGTGTT 59.252 50.0 0.0 0.0 0.0 3.32 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
130 142 2.679930 GCGTTGGAGTTGCCCTTATAGT 60.680 50.000 0.00 0.00 34.97 2.12
177 1263 8.691661 AGCTTAACTCCTCAAACTGATTTTTA 57.308 30.769 0.00 0.00 0.00 1.52
178 1264 8.787852 AGCTTAACTCCTCAAACTGATTTTTAG 58.212 33.333 0.00 0.00 0.00 1.85
194 1281 9.190317 CTGATTTTTAGGGAGTTATAAGCCTTT 57.810 33.333 4.73 0.00 0.00 3.11
225 1312 3.743396 GCCAGAAATGCTCTAATCCTACG 59.257 47.826 0.00 0.00 31.12 3.51
316 1403 7.405292 TGATTTCATCTTAACCTGAGGAATGT 58.595 34.615 4.99 0.00 34.83 2.71
340 1427 7.508977 TGTTCCAGGAAATTTTAGTTCTTCCAT 59.491 33.333 2.45 0.00 39.91 3.41
342 1429 7.010160 TCCAGGAAATTTTAGTTCTTCCATGT 58.990 34.615 0.00 0.00 39.91 3.21
343 1430 7.039784 TCCAGGAAATTTTAGTTCTTCCATGTG 60.040 37.037 0.00 0.00 39.91 3.21
344 1431 6.587608 CAGGAAATTTTAGTTCTTCCATGTGC 59.412 38.462 0.00 0.00 39.91 4.57
345 1432 6.267471 AGGAAATTTTAGTTCTTCCATGTGCA 59.733 34.615 0.00 0.00 39.91 4.57
347 1434 7.095649 GGAAATTTTAGTTCTTCCATGTGCAAC 60.096 37.037 0.00 0.00 37.79 4.17
349 1436 7.759489 ATTTTAGTTCTTCCATGTGCAACTA 57.241 32.000 0.00 0.00 38.04 2.24
351 1438 6.801539 TTAGTTCTTCCATGTGCAACTAAG 57.198 37.500 10.30 0.00 35.57 2.18
352 1439 4.973168 AGTTCTTCCATGTGCAACTAAGA 58.027 39.130 0.00 0.00 38.04 2.10
353 1440 5.564550 AGTTCTTCCATGTGCAACTAAGAT 58.435 37.500 0.00 0.00 38.04 2.40
354 1441 6.006449 AGTTCTTCCATGTGCAACTAAGATT 58.994 36.000 0.00 0.00 38.04 2.40
355 1442 6.491403 AGTTCTTCCATGTGCAACTAAGATTT 59.509 34.615 0.00 0.00 38.04 2.17
356 1443 6.500684 TCTTCCATGTGCAACTAAGATTTC 57.499 37.500 0.00 0.00 38.04 2.17
357 1444 6.003326 TCTTCCATGTGCAACTAAGATTTCA 58.997 36.000 0.00 0.00 38.04 2.69
358 1445 6.660521 TCTTCCATGTGCAACTAAGATTTCAT 59.339 34.615 0.00 0.00 38.04 2.57
359 1446 6.441093 TCCATGTGCAACTAAGATTTCATC 57.559 37.500 0.00 0.00 38.04 2.92
360 1447 6.182627 TCCATGTGCAACTAAGATTTCATCT 58.817 36.000 0.00 0.00 38.64 2.90
361 1448 6.660521 TCCATGTGCAACTAAGATTTCATCTT 59.339 34.615 4.47 4.47 43.33 2.40
362 1449 7.828717 TCCATGTGCAACTAAGATTTCATCTTA 59.171 33.333 6.14 6.14 46.08 2.10
374 1461 7.264294 AGATTTCATCTTAACCAGAAGAGGT 57.736 36.000 0.00 0.00 39.20 3.85
399 1486 6.662865 ATCTGATACTACATCCAAGGTCAG 57.337 41.667 0.00 0.00 34.63 3.51
408 1495 1.095600 TCCAAGGTCAGAGATCGTCG 58.904 55.000 0.00 0.00 0.00 5.12
450 1537 3.018149 TCATGAATTAGCATGTGCAGCA 58.982 40.909 7.83 0.00 44.59 4.41
452 1539 3.938289 TGAATTAGCATGTGCAGCAAA 57.062 38.095 7.83 0.00 45.16 3.68
457 1544 1.608055 AGCATGTGCAGCAAAGTACA 58.392 45.000 7.83 0.00 45.16 2.90
458 1545 2.165167 AGCATGTGCAGCAAAGTACAT 58.835 42.857 7.83 0.00 44.07 2.29
465 1558 6.513806 TGTGCAGCAAAGTACATGATAATT 57.486 33.333 0.00 0.00 0.00 1.40
473 1566 8.604035 AGCAAAGTACATGATAATTCTTACACG 58.396 33.333 0.00 0.00 0.00 4.49
501 1594 9.944663 TCTAATCAACAAACAGTAATGTGAAAC 57.055 29.630 0.00 0.00 37.35 2.78
503 1596 5.031578 TCAACAAACAGTAATGTGAAACGC 58.968 37.500 0.00 0.00 42.39 4.84
523 1616 4.984161 ACGCAAAAGACCAGAATCAAATTG 59.016 37.500 0.00 0.00 0.00 2.32
562 1655 1.342074 AGACCAGAGTGCAGCAACTA 58.658 50.000 0.00 0.00 0.00 2.24
565 1658 0.038251 CCAGAGTGCAGCAACTACGA 60.038 55.000 0.00 0.00 0.00 3.43
624 1717 0.320421 GCCTGCTTACCAAGTCGTGA 60.320 55.000 0.00 0.00 0.00 4.35
655 1748 1.519455 GTCGAATGACCTGAGCCGG 60.519 63.158 0.00 0.00 39.30 6.13
688 1781 1.001487 CTTGGAGACATTGTTGCGCAA 60.001 47.619 21.02 21.02 42.32 4.85
697 1790 2.316237 TGTTGCGCAACAGGTGTAG 58.684 52.632 43.27 0.00 45.42 2.74
706 1799 2.812011 GCAACAGGTGTAGTTTAGGTGG 59.188 50.000 0.00 0.00 0.00 4.61
711 1804 6.251255 ACAGGTGTAGTTTAGGTGGTTTAA 57.749 37.500 0.00 0.00 0.00 1.52
713 1806 5.471116 CAGGTGTAGTTTAGGTGGTTTAACC 59.529 44.000 7.27 7.27 40.85 2.85
724 1817 4.689071 GGTGGTTTAACCTTTTCCTTGTG 58.311 43.478 15.68 0.00 39.58 3.33
725 1818 4.160814 GGTGGTTTAACCTTTTCCTTGTGT 59.839 41.667 15.68 0.00 39.58 3.72
764 1857 4.840716 ACTTCTTCAAGATCAGCCTGAT 57.159 40.909 6.98 6.98 40.34 2.90
768 1861 5.787953 TCTTCAAGATCAGCCTGATAGAG 57.212 43.478 7.30 0.44 37.20 2.43
778 1871 2.557920 CCTGATAGAGGCCATGGTTC 57.442 55.000 14.67 11.70 34.01 3.62
779 1872 1.072965 CCTGATAGAGGCCATGGTTCC 59.927 57.143 14.67 6.98 34.01 3.62
780 1873 1.770658 CTGATAGAGGCCATGGTTCCA 59.229 52.381 14.67 1.19 0.00 3.53
781 1874 1.770658 TGATAGAGGCCATGGTTCCAG 59.229 52.381 14.67 0.00 0.00 3.86
782 1875 2.050144 GATAGAGGCCATGGTTCCAGA 58.950 52.381 14.67 1.27 0.00 3.86
783 1876 1.965414 TAGAGGCCATGGTTCCAGAA 58.035 50.000 14.67 0.00 0.00 3.02
784 1877 1.302907 AGAGGCCATGGTTCCAGAAT 58.697 50.000 14.67 0.00 0.00 2.40
785 1878 2.492025 AGAGGCCATGGTTCCAGAATA 58.508 47.619 14.67 0.00 0.00 1.75
786 1879 3.059097 AGAGGCCATGGTTCCAGAATAT 58.941 45.455 14.67 0.00 0.00 1.28
787 1880 4.242811 AGAGGCCATGGTTCCAGAATATA 58.757 43.478 14.67 0.00 0.00 0.86
788 1881 4.665009 AGAGGCCATGGTTCCAGAATATAA 59.335 41.667 14.67 0.00 0.00 0.98
789 1882 4.990526 AGGCCATGGTTCCAGAATATAAG 58.009 43.478 14.67 0.00 0.00 1.73
790 1883 3.507622 GGCCATGGTTCCAGAATATAAGC 59.492 47.826 14.67 0.00 0.00 3.09
791 1884 4.401925 GCCATGGTTCCAGAATATAAGCT 58.598 43.478 14.67 0.00 0.00 3.74
792 1885 4.457257 GCCATGGTTCCAGAATATAAGCTC 59.543 45.833 14.67 0.00 0.00 4.09
793 1886 5.747248 GCCATGGTTCCAGAATATAAGCTCT 60.747 44.000 14.67 0.00 0.00 4.09
794 1887 6.302269 CCATGGTTCCAGAATATAAGCTCTT 58.698 40.000 2.57 0.00 0.00 2.85
795 1888 6.774656 CCATGGTTCCAGAATATAAGCTCTTT 59.225 38.462 2.57 0.00 0.00 2.52
796 1889 7.286316 CCATGGTTCCAGAATATAAGCTCTTTT 59.714 37.037 2.57 0.00 0.00 2.27
797 1890 9.342308 CATGGTTCCAGAATATAAGCTCTTTTA 57.658 33.333 0.00 0.00 0.00 1.52
799 1892 9.342308 TGGTTCCAGAATATAAGCTCTTTTATG 57.658 33.333 0.00 0.00 0.00 1.90
800 1893 9.561069 GGTTCCAGAATATAAGCTCTTTTATGA 57.439 33.333 0.00 0.00 0.00 2.15
828 1921 4.686191 ATGAACAAGATCAGGCTAGGAG 57.314 45.455 0.00 0.00 31.76 3.69
829 1922 2.169352 TGAACAAGATCAGGCTAGGAGC 59.831 50.000 0.00 0.00 41.46 4.70
840 1933 1.555967 GCTAGGAGCCTAGGAGGATG 58.444 60.000 21.70 0.00 44.48 3.51
841 1934 1.894978 GCTAGGAGCCTAGGAGGATGG 60.895 61.905 21.70 0.00 44.48 3.51
842 1935 1.431243 CTAGGAGCCTAGGAGGATGGT 59.569 57.143 14.75 0.00 41.58 3.55
843 1936 1.547099 AGGAGCCTAGGAGGATGGTA 58.453 55.000 14.75 0.00 37.67 3.25
849 1982 4.679331 AGCCTAGGAGGATGGTATCTTAC 58.321 47.826 14.75 0.00 37.67 2.34
854 1987 6.435904 CCTAGGAGGATGGTATCTTACTGAAG 59.564 46.154 1.05 0.00 37.67 3.02
869 2002 1.376466 GAAGGGAGTTGCTGGCTGA 59.624 57.895 0.00 0.00 0.00 4.26
871 2004 1.708993 AAGGGAGTTGCTGGCTGACA 61.709 55.000 0.00 0.00 0.00 3.58
872 2005 1.968540 GGGAGTTGCTGGCTGACAC 60.969 63.158 0.00 0.00 0.00 3.67
875 2008 1.287730 GAGTTGCTGGCTGACACGAG 61.288 60.000 0.00 0.00 0.00 4.18
975 2137 0.804364 GCAAATCACACGGCAGATGA 59.196 50.000 0.00 0.00 0.00 2.92
988 2150 1.067142 GCAGATGACCGTAACCTCACA 60.067 52.381 0.00 0.00 0.00 3.58
1064 2226 1.743958 TGCTCTCACGCTCCTACTAAC 59.256 52.381 0.00 0.00 0.00 2.34
1142 2319 3.031736 AGACCATAACGCTCTACACCAT 58.968 45.455 0.00 0.00 0.00 3.55
1191 2368 1.002502 CCCTTCCTCGAAACACCCC 60.003 63.158 0.00 0.00 0.00 4.95
1257 2434 3.241530 ACCTTGACGCTGCCTGGA 61.242 61.111 0.00 0.00 0.00 3.86
1284 2461 2.666190 CCTGGCACTGTGACCGTG 60.666 66.667 11.84 2.59 35.53 4.94
1285 2462 2.421314 CTGGCACTGTGACCGTGA 59.579 61.111 11.84 0.00 34.35 4.35
1287 2464 0.603707 CTGGCACTGTGACCGTGATT 60.604 55.000 11.84 0.00 34.35 2.57
1623 2809 0.884704 TCAAGTGAAGGCCGTGAAGC 60.885 55.000 0.00 0.00 0.00 3.86
1641 2827 1.561076 AGCCTCACATACCATTCTGCA 59.439 47.619 0.00 0.00 0.00 4.41
1707 2894 4.395959 ACTTGTAGACCGACAGTTCAAA 57.604 40.909 0.00 0.00 0.00 2.69
1869 3056 6.187727 ACAACCTCTTCACCTATCTTTCAA 57.812 37.500 0.00 0.00 0.00 2.69
1985 3172 8.714179 CAAGGTCGTTATACAAACACAGAATTA 58.286 33.333 0.00 0.00 0.00 1.40
2043 3230 0.729116 ATTCGCAGCATTCAGAACCG 59.271 50.000 0.00 0.00 0.00 4.44
2070 3257 2.189594 TCATCTCAGTGTTGCCTTGG 57.810 50.000 0.00 0.00 0.00 3.61
2206 3393 3.523792 TCTCATATGGGGATCATCAGCA 58.476 45.455 1.90 0.00 37.30 4.41
2607 3796 8.579682 AAAAGTAGATGCAACAGACAAAAATC 57.420 30.769 0.00 0.00 0.00 2.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
130 142 2.792967 ACTTCTACCCCTTCCCCAAAAA 59.207 45.455 0.00 0.00 0.00 1.94
177 1263 5.510430 CTCCAAAAAGGCTTATAACTCCCT 58.490 41.667 0.00 0.00 37.29 4.20
178 1264 4.098044 GCTCCAAAAAGGCTTATAACTCCC 59.902 45.833 0.00 0.00 37.29 4.30
194 1281 1.876497 GCATTTCTGGCCGCTCCAAA 61.876 55.000 0.00 0.00 46.01 3.28
225 1312 4.584394 CGTATTGGCGATTGAAAAGTACC 58.416 43.478 0.00 0.00 0.00 3.34
316 1403 7.508977 ACATGGAAGAACTAAAATTTCCTGGAA 59.491 33.333 4.68 4.68 39.80 3.53
328 1415 6.530120 TCTTAGTTGCACATGGAAGAACTAA 58.470 36.000 15.20 15.20 36.98 2.24
363 1450 7.355101 TGTAGTATCAGATAACCTCTTCTGGT 58.645 38.462 0.00 0.00 43.11 4.00
364 1451 7.825331 TGTAGTATCAGATAACCTCTTCTGG 57.175 40.000 0.00 0.00 39.84 3.86
365 1452 8.519526 GGATGTAGTATCAGATAACCTCTTCTG 58.480 40.741 0.00 0.00 40.58 3.02
366 1453 8.228206 TGGATGTAGTATCAGATAACCTCTTCT 58.772 37.037 0.00 0.00 29.16 2.85
367 1454 8.410673 TGGATGTAGTATCAGATAACCTCTTC 57.589 38.462 0.00 0.00 29.16 2.87
368 1455 8.783660 TTGGATGTAGTATCAGATAACCTCTT 57.216 34.615 0.00 0.00 29.16 2.85
369 1456 7.453126 CCTTGGATGTAGTATCAGATAACCTCT 59.547 40.741 0.00 0.00 33.14 3.69
370 1457 7.233757 ACCTTGGATGTAGTATCAGATAACCTC 59.766 40.741 0.00 0.00 0.00 3.85
371 1458 7.076446 ACCTTGGATGTAGTATCAGATAACCT 58.924 38.462 0.00 0.00 0.00 3.50
372 1459 7.015292 TGACCTTGGATGTAGTATCAGATAACC 59.985 40.741 0.00 0.00 0.00 2.85
373 1460 7.952671 TGACCTTGGATGTAGTATCAGATAAC 58.047 38.462 0.00 0.00 0.00 1.89
374 1461 8.004801 TCTGACCTTGGATGTAGTATCAGATAA 58.995 37.037 0.00 0.00 37.12 1.75
399 1486 1.035932 TCCCCCACTTCGACGATCTC 61.036 60.000 0.00 0.00 0.00 2.75
408 1495 1.539124 AGACCCTGTCCCCCACTTC 60.539 63.158 0.00 0.00 32.18 3.01
465 1558 7.870954 ACTGTTTGTTGATTAGATCGTGTAAGA 59.129 33.333 0.00 0.00 0.00 2.10
501 1594 4.984161 ACAATTTGATTCTGGTCTTTTGCG 59.016 37.500 2.79 0.00 0.00 4.85
503 1596 8.139989 AGAGAACAATTTGATTCTGGTCTTTTG 58.860 33.333 14.71 0.00 37.25 2.44
523 1616 5.069383 GGTCTTCCATTAGTCCCTAGAGAAC 59.931 48.000 0.00 0.00 0.00 3.01
570 1663 2.043652 AGAGCGCATGGGGCATTT 60.044 55.556 11.47 0.00 44.06 2.32
580 1673 2.172483 GACTTCTTGGGGAGAGCGCA 62.172 60.000 11.47 0.00 35.37 6.09
624 1717 0.252284 ATTCGACTGTCCTCCCCTGT 60.252 55.000 1.55 0.00 0.00 4.00
655 1748 2.677337 GTCTCCAAGAATTCTCTGCTGC 59.323 50.000 8.78 0.00 30.03 5.25
688 1781 4.783560 AAACCACCTAAACTACACCTGT 57.216 40.909 0.00 0.00 0.00 4.00
706 1799 5.585820 TGGACACAAGGAAAAGGTTAAAC 57.414 39.130 0.00 0.00 0.00 2.01
711 1804 5.205056 TGTATTTGGACACAAGGAAAAGGT 58.795 37.500 0.00 0.00 37.97 3.50
713 1806 6.633500 TCTGTATTTGGACACAAGGAAAAG 57.367 37.500 0.00 0.00 37.97 2.27
719 1812 4.578516 TGGTGTTCTGTATTTGGACACAAG 59.421 41.667 7.48 0.00 37.97 3.16
721 1814 4.157849 TGGTGTTCTGTATTTGGACACA 57.842 40.909 7.48 0.00 0.00 3.72
722 1815 4.578928 AGTTGGTGTTCTGTATTTGGACAC 59.421 41.667 0.00 0.00 0.00 3.67
723 1816 4.787551 AGTTGGTGTTCTGTATTTGGACA 58.212 39.130 0.00 0.00 0.00 4.02
724 1817 5.531287 AGAAGTTGGTGTTCTGTATTTGGAC 59.469 40.000 0.00 0.00 32.86 4.02
725 1818 5.690865 AGAAGTTGGTGTTCTGTATTTGGA 58.309 37.500 0.00 0.00 32.86 3.53
764 1857 1.965414 TTCTGGAACCATGGCCTCTA 58.035 50.000 13.04 5.97 0.00 2.43
768 1861 3.507622 GCTTATATTCTGGAACCATGGCC 59.492 47.826 13.04 6.55 0.00 5.36
771 1864 7.814264 AAAGAGCTTATATTCTGGAACCATG 57.186 36.000 0.00 0.00 0.00 3.66
773 1866 9.342308 CATAAAAGAGCTTATATTCTGGAACCA 57.658 33.333 0.00 0.00 0.00 3.67
796 1889 8.677300 GCCTGATCTTGTTCATAAAAGTTCATA 58.323 33.333 0.00 0.00 33.74 2.15
797 1890 7.395489 AGCCTGATCTTGTTCATAAAAGTTCAT 59.605 33.333 0.00 0.00 33.74 2.57
798 1891 6.716628 AGCCTGATCTTGTTCATAAAAGTTCA 59.283 34.615 0.00 0.00 33.36 3.18
799 1892 7.150783 AGCCTGATCTTGTTCATAAAAGTTC 57.849 36.000 0.00 0.00 0.00 3.01
800 1893 7.337942 CCTAGCCTGATCTTGTTCATAAAAGTT 59.662 37.037 0.00 0.00 0.00 2.66
801 1894 6.825721 CCTAGCCTGATCTTGTTCATAAAAGT 59.174 38.462 0.00 0.00 0.00 2.66
805 1898 5.453903 GCTCCTAGCCTGATCTTGTTCATAA 60.454 44.000 0.00 0.00 34.48 1.90
828 1921 4.464597 CAGTAAGATACCATCCTCCTAGGC 59.535 50.000 2.96 0.00 34.61 3.93
829 1922 5.893500 TCAGTAAGATACCATCCTCCTAGG 58.106 45.833 0.82 0.82 36.46 3.02
830 1923 6.435904 CCTTCAGTAAGATACCATCCTCCTAG 59.564 46.154 0.00 0.00 34.37 3.02
833 1926 4.284746 CCCTTCAGTAAGATACCATCCTCC 59.715 50.000 0.00 0.00 34.37 4.30
834 1927 5.148502 TCCCTTCAGTAAGATACCATCCTC 58.851 45.833 0.00 0.00 34.37 3.71
836 1929 4.902448 ACTCCCTTCAGTAAGATACCATCC 59.098 45.833 0.00 0.00 34.37 3.51
837 1930 6.284459 CAACTCCCTTCAGTAAGATACCATC 58.716 44.000 0.00 0.00 34.37 3.51
838 1931 5.396884 GCAACTCCCTTCAGTAAGATACCAT 60.397 44.000 0.00 0.00 34.37 3.55
839 1932 4.081087 GCAACTCCCTTCAGTAAGATACCA 60.081 45.833 0.00 0.00 34.37 3.25
840 1933 4.162509 AGCAACTCCCTTCAGTAAGATACC 59.837 45.833 0.00 0.00 34.37 2.73
841 1934 5.112686 CAGCAACTCCCTTCAGTAAGATAC 58.887 45.833 0.00 0.00 34.37 2.24
842 1935 4.162320 CCAGCAACTCCCTTCAGTAAGATA 59.838 45.833 0.00 0.00 34.37 1.98
843 1936 3.054802 CCAGCAACTCCCTTCAGTAAGAT 60.055 47.826 0.00 0.00 34.37 2.40
849 1982 0.959372 CAGCCAGCAACTCCCTTCAG 60.959 60.000 0.00 0.00 0.00 3.02
854 1987 1.968540 GTGTCAGCCAGCAACTCCC 60.969 63.158 0.00 0.00 0.00 4.30
869 2002 0.957395 CAGCTCCATTTGGCTCGTGT 60.957 55.000 0.00 0.00 36.59 4.49
871 2004 2.042831 GCAGCTCCATTTGGCTCGT 61.043 57.895 0.00 0.00 36.59 4.18
872 2005 1.748122 AGCAGCTCCATTTGGCTCG 60.748 57.895 0.00 0.00 36.59 5.03
875 2008 1.538687 AACCAGCAGCTCCATTTGGC 61.539 55.000 0.00 0.00 34.44 4.52
975 2137 0.316204 CTCGGTTGTGAGGTTACGGT 59.684 55.000 0.00 0.00 32.18 4.83
988 2150 1.244019 GGTTGCATCTTGGCTCGGTT 61.244 55.000 0.00 0.00 34.04 4.44
1263 2440 4.314440 GTCACAGTGCCAGGCCGA 62.314 66.667 9.64 0.00 0.00 5.54
1266 2443 4.626081 ACGGTCACAGTGCCAGGC 62.626 66.667 3.66 3.66 0.00 4.85
1269 2446 0.884259 CAATCACGGTCACAGTGCCA 60.884 55.000 2.74 0.00 39.31 4.92
1284 2461 0.716108 CGTGGAACTGCTCGTCAATC 59.284 55.000 0.00 0.00 31.75 2.67
1285 2462 0.670546 CCGTGGAACTGCTCGTCAAT 60.671 55.000 0.00 0.00 31.75 2.57
1287 2464 2.338620 CCGTGGAACTGCTCGTCA 59.661 61.111 0.00 0.00 31.75 4.35
1422 2599 3.616076 CGAAGAACCTGATGCTGTCTTCT 60.616 47.826 9.35 0.00 32.46 2.85
1623 2809 4.641541 TGATTTGCAGAATGGTATGTGAGG 59.358 41.667 0.00 0.00 35.86 3.86
1695 2882 1.267832 CGGTGTGTTTTGAACTGTCGG 60.268 52.381 0.00 0.00 0.00 4.79
1696 2883 1.661617 TCGGTGTGTTTTGAACTGTCG 59.338 47.619 0.00 0.00 0.00 4.35
1707 2894 0.748450 TCTCGTTCCTTCGGTGTGTT 59.252 50.000 0.00 0.00 0.00 3.32
1985 3172 4.474651 TCACCAACTGGATCCATTCAGTAT 59.525 41.667 16.63 0.00 42.67 2.12
2043 3230 6.054295 AGGCAACACTGAGATGAATCTATTC 58.946 40.000 0.00 0.00 36.56 1.75
2070 3257 5.447818 CGCAAAAGGATCTTGGATGAGTAAC 60.448 44.000 0.00 0.00 0.00 2.50
2206 3393 4.101430 ACAATTGAATTCAAGCCCAACACT 59.899 37.500 24.17 3.41 39.47 3.55


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

AutoCloner maintained by Alex Coulton.