Multiple sequence alignment - TraesCS5A01G193600

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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 TraesCS5A01G193600 chr5A 100.000 2588 0 0 1 2588 396710683 396708096 0.000000e+00 4780.0
1 TraesCS5A01G193600 chr5D 90.247 2143 113 33 512 2588 299425184 299423072 0.000000e+00 2712.0
2 TraesCS5A01G193600 chr5D 93.678 174 11 0 349 522 299425565 299425392 7.100000e-66 261.0
3 TraesCS5A01G193600 chr5B 89.757 1972 114 37 660 2583 340722049 340720118 0.000000e+00 2442.0
4 TraesCS5A01G193600 chr5B 80.952 231 33 7 1 230 340726132 340725912 3.420000e-39 172.0
5 TraesCS5A01G193600 chr5B 84.694 98 11 4 246 343 340725595 340725502 7.620000e-16 95.3
6 TraesCS5A01G193600 chr2A 85.372 417 56 4 2120 2532 41462425 41462840 6.620000e-116 427.0
7 TraesCS5A01G193600 chr2B 84.675 385 58 1 2148 2532 63782986 63783369 1.450000e-102 383.0
8 TraesCS5A01G193600 chr4B 86.842 76 7 2 397 470 646816552 646816478 5.940000e-12 82.4


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 TraesCS5A01G193600 chr5A 396708096 396710683 2587 True 4780.0 4780 100.000000 1 2588 1 chr5A.!!$R1 2587
1 TraesCS5A01G193600 chr5D 299423072 299425565 2493 True 1486.5 2712 91.962500 349 2588 2 chr5D.!!$R1 2239
2 TraesCS5A01G193600 chr5B 340720118 340726132 6014 True 903.1 2442 85.134333 1 2583 3 chr5B.!!$R1 2582

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
286 589 0.101759 GATGGCTACGCAAGGTCGTA 59.898 55.0 0.0 0.0 43.15 3.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2207 5976 0.253044 TGAAAGAGATTGGGGCCTCG 59.747 55.0 0.84 0.0 34.75 4.63 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
46 47 2.596553 TTTGGGTCGTGGCGTCTGTT 62.597 55.000 0.00 0.00 0.00 3.16
47 48 2.737376 GGGTCGTGGCGTCTGTTC 60.737 66.667 0.00 0.00 0.00 3.18
52 53 1.083657 CGTGGCGTCTGTTCGTTTG 60.084 57.895 0.00 0.00 0.00 2.93
69 70 1.575419 TTGGGCCTATACGGACACTT 58.425 50.000 4.53 0.00 45.67 3.16
70 71 0.828022 TGGGCCTATACGGACACTTG 59.172 55.000 4.53 0.00 45.67 3.16
71 72 0.532196 GGGCCTATACGGACACTTGC 60.532 60.000 0.84 0.00 45.67 4.01
72 73 0.177141 GGCCTATACGGACACTTGCA 59.823 55.000 0.00 0.00 42.15 4.08
76 77 2.427453 CCTATACGGACACTTGCAGACT 59.573 50.000 0.00 0.00 33.16 3.24
79 80 1.617322 ACGGACACTTGCAGACTAGA 58.383 50.000 0.00 0.00 0.00 2.43
82 83 2.164422 CGGACACTTGCAGACTAGATGA 59.836 50.000 0.00 0.00 0.00 2.92
174 175 3.264897 GCTATGACCGCCAGCACG 61.265 66.667 0.00 0.00 35.35 5.34
227 333 4.933563 TTGCAGCGCCAGTCAGCA 62.934 61.111 2.29 2.08 35.48 4.41
230 336 2.974148 CAGCGCCAGTCAGCACAA 60.974 61.111 2.29 0.00 35.48 3.33
232 338 2.974698 GCGCCAGTCAGCACAACT 60.975 61.111 0.00 0.00 0.00 3.16
286 589 0.101759 GATGGCTACGCAAGGTCGTA 59.898 55.000 0.00 0.00 43.15 3.43
288 591 0.108992 TGGCTACGCAAGGTCGTAAG 60.109 55.000 0.00 0.00 43.28 2.34
294 597 2.033194 GCAAGGTCGTAAGCCGCTT 61.033 57.895 11.12 11.12 38.35 4.68
295 598 1.967597 GCAAGGTCGTAAGCCGCTTC 61.968 60.000 9.42 0.84 38.35 3.86
296 599 1.079336 AAGGTCGTAAGCCGCTTCC 60.079 57.895 9.42 4.62 38.35 3.46
297 600 2.510918 GGTCGTAAGCCGCTTCCC 60.511 66.667 9.42 2.27 36.19 3.97
302 605 3.075005 TAAGCCGCTTCCCTCGCT 61.075 61.111 9.42 0.00 0.00 4.93
312 615 3.374402 CCCTCGCTGTCGTCCACT 61.374 66.667 0.00 0.00 36.96 4.00
314 617 2.336478 CCTCGCTGTCGTCCACTCT 61.336 63.158 0.00 0.00 36.96 3.24
440 1337 2.001269 GGGTGGCTGTAGGTGGGAT 61.001 63.158 0.00 0.00 0.00 3.85
465 1362 1.120530 GGACGGGTATGACATGGAGT 58.879 55.000 0.00 0.00 0.00 3.85
480 1377 3.941657 GAGTGGGGTGTCAGAGCGC 62.942 68.421 0.00 0.00 35.62 5.92
551 1666 4.715130 AGGGTGCCGGCCAGTCTA 62.715 66.667 26.77 0.00 0.00 2.59
553 1668 4.468689 GGTGCCGGCCAGTCTACC 62.469 72.222 26.77 20.09 0.00 3.18
554 1669 4.468689 GTGCCGGCCAGTCTACCC 62.469 72.222 26.77 0.00 0.00 3.69
570 1685 5.042827 AGTCTACCCTCCATTTAGGTTAGGA 60.043 44.000 0.00 0.00 33.56 2.94
605 1720 3.573967 GGTTGGGTCATTTCATTGTCTGT 59.426 43.478 0.00 0.00 0.00 3.41
606 1721 4.321230 GGTTGGGTCATTTCATTGTCTGTC 60.321 45.833 0.00 0.00 0.00 3.51
607 1722 4.097551 TGGGTCATTTCATTGTCTGTCA 57.902 40.909 0.00 0.00 0.00 3.58
608 1723 3.820467 TGGGTCATTTCATTGTCTGTCAC 59.180 43.478 0.00 0.00 0.00 3.67
609 1724 4.074970 GGGTCATTTCATTGTCTGTCACT 58.925 43.478 0.00 0.00 0.00 3.41
610 1725 5.221823 TGGGTCATTTCATTGTCTGTCACTA 60.222 40.000 0.00 0.00 0.00 2.74
612 1731 6.375455 GGGTCATTTCATTGTCTGTCACTAAT 59.625 38.462 0.00 0.00 0.00 1.73
613 1732 7.246311 GGTCATTTCATTGTCTGTCACTAATG 58.754 38.462 0.00 0.00 33.09 1.90
640 1759 2.417586 GGACGATTCAAACGTTTAGGGG 59.582 50.000 14.20 1.14 43.97 4.79
643 1762 2.676342 CGATTCAAACGTTTAGGGGGAG 59.324 50.000 14.20 0.00 0.00 4.30
646 1765 3.860968 TCAAACGTTTAGGGGGAGAAA 57.139 42.857 14.20 0.00 0.00 2.52
648 1767 3.884693 TCAAACGTTTAGGGGGAGAAAAC 59.115 43.478 14.20 0.00 0.00 2.43
664 4331 2.762535 AAACGTGGTGTCCTAGATGG 57.237 50.000 0.00 0.00 37.10 3.51
740 4407 5.012239 ACACATATGCAGAAACATCACCTT 58.988 37.500 1.58 0.00 0.00 3.50
741 4408 5.124457 ACACATATGCAGAAACATCACCTTC 59.876 40.000 1.58 0.00 0.00 3.46
742 4409 4.641989 ACATATGCAGAAACATCACCTTCC 59.358 41.667 1.58 0.00 0.00 3.46
743 4410 1.909700 TGCAGAAACATCACCTTCCC 58.090 50.000 0.00 0.00 0.00 3.97
744 4411 0.804989 GCAGAAACATCACCTTCCCG 59.195 55.000 0.00 0.00 0.00 5.14
745 4412 1.610624 GCAGAAACATCACCTTCCCGA 60.611 52.381 0.00 0.00 0.00 5.14
746 4413 2.350522 CAGAAACATCACCTTCCCGAG 58.649 52.381 0.00 0.00 0.00 4.63
786 4453 1.293963 TTGCGCATCACTGTCAGAGC 61.294 55.000 12.75 4.27 0.00 4.09
794 4461 1.138069 TCACTGTCAGAGCCGAACAAA 59.862 47.619 6.91 0.00 0.00 2.83
799 4466 2.003301 GTCAGAGCCGAACAAATCCTC 58.997 52.381 0.00 0.00 0.00 3.71
846 4513 2.995482 CGCTAACACGGCGTCATC 59.005 61.111 10.85 0.00 46.37 2.92
847 4514 2.845739 CGCTAACACGGCGTCATCG 61.846 63.158 10.85 5.92 46.37 3.84
884 4551 2.806945 TCATCCACAAATCACCTCCC 57.193 50.000 0.00 0.00 0.00 4.30
897 4564 2.907917 CTCCCCGTCTCGCCTAGG 60.908 72.222 3.67 3.67 0.00 3.02
917 4589 0.611896 ATCCAAAGGCAAAGGGACCG 60.612 55.000 0.00 0.00 31.04 4.79
943 4620 1.509004 GCGGAGAAGACGAGAGCTT 59.491 57.895 0.00 0.00 0.00 3.74
949 4626 1.816224 AGAAGACGAGAGCTTCAGGAC 59.184 52.381 0.00 0.00 42.60 3.85
962 4639 2.151502 TCAGGACTTCTAGGAGCCAG 57.848 55.000 12.41 6.08 0.00 4.85
1028 4708 4.700365 GCCGCCACCAAACGAAGC 62.700 66.667 0.00 0.00 0.00 3.86
1186 4878 1.134995 TCGACAGATTGCCTGCTGTAG 60.135 52.381 0.00 0.00 46.81 2.74
1220 4946 0.526662 ACTTACGGACGGCTTCTGAG 59.473 55.000 6.84 0.00 34.26 3.35
1250 4977 4.782019 TCTTGAGCTGTTTGTGTTTTGT 57.218 36.364 0.00 0.00 0.00 2.83
1255 4982 3.253230 AGCTGTTTGTGTTTTGTTCAGC 58.747 40.909 0.00 0.00 44.44 4.26
1270 5001 2.154854 TCAGCGTATGCAATAGGAGC 57.845 50.000 10.11 0.00 46.23 4.70
1275 5008 2.032549 GCGTATGCAATAGGAGCAGTTG 60.033 50.000 0.89 0.00 46.36 3.16
1382 5116 0.537188 AGTACATGGACGCCTGGAAG 59.463 55.000 1.41 0.00 0.00 3.46
1396 5130 1.078567 GGAAGCTGCAGGGTCTCAG 60.079 63.158 17.12 0.00 0.00 3.35
1410 5144 0.171231 TCTCAGCGTCAAGTCCGATG 59.829 55.000 0.00 0.00 42.62 3.84
1487 5221 2.703675 CTTCAACCAGGCAGGGCACT 62.704 60.000 0.00 0.00 43.89 4.40
1498 5232 1.001641 AGGGCACTGGAGTTGCATC 60.002 57.895 0.00 0.00 0.00 3.91
1500 5234 1.310933 GGGCACTGGAGTTGCATCAG 61.311 60.000 0.00 1.93 34.91 2.90
1501 5235 0.607489 GGCACTGGAGTTGCATCAGT 60.607 55.000 6.67 6.67 41.81 3.41
1502 5236 1.242076 GCACTGGAGTTGCATCAGTT 58.758 50.000 8.98 0.00 39.43 3.16
1503 5237 1.610522 GCACTGGAGTTGCATCAGTTT 59.389 47.619 8.98 0.00 39.43 2.66
1504 5238 2.606308 GCACTGGAGTTGCATCAGTTTG 60.606 50.000 8.98 3.02 39.43 2.93
1505 5239 1.610522 ACTGGAGTTGCATCAGTTTGC 59.389 47.619 6.67 0.00 38.44 3.68
1536 5270 1.615883 CTCAGTGTCAGTGCTACCAGT 59.384 52.381 2.50 0.00 0.00 4.00
1547 5281 3.006967 AGTGCTACCAGTACAAGACCAAG 59.993 47.826 0.00 0.00 32.98 3.61
1700 5447 4.710865 TCCATCAAAATCTGCTATTGCCAA 59.289 37.500 0.00 0.00 38.71 4.52
1702 5449 6.550481 TCCATCAAAATCTGCTATTGCCAATA 59.450 34.615 0.00 0.00 38.71 1.90
1705 5452 6.985117 TCAAAATCTGCTATTGCCAATATCC 58.015 36.000 0.00 0.00 38.71 2.59
1720 5467 2.380084 TATCCGAGAACAACTGCACC 57.620 50.000 0.00 0.00 0.00 5.01
1763 5521 2.026542 AGCAAGTCATCTGCTCAATCCA 60.027 45.455 0.00 0.00 32.98 3.41
1779 5537 5.989477 TCAATCCAACCGAGATAAACTCAT 58.011 37.500 0.00 0.00 45.14 2.90
1793 5551 9.683069 GAGATAAACTCATCACAAAACACAAAT 57.317 29.630 0.00 0.00 44.36 2.32
1972 5741 9.737025 CTAAAATTCACAACTTAACGTAGTAGC 57.263 33.333 0.00 0.00 45.00 3.58
1980 5749 5.044428 ACTTAACGTAGTAGCTCACACAG 57.956 43.478 0.00 0.00 45.00 3.66
2020 5789 3.067106 ACCTTGCCAAATATCTATCGCG 58.933 45.455 0.00 0.00 0.00 5.87
2090 5859 3.758554 TCTTGCAAAACAGAAGCTATCCC 59.241 43.478 0.00 0.00 0.00 3.85
2126 5895 2.828520 CTCTTAGAGAGTGTTGGCCTGA 59.171 50.000 2.53 0.00 37.57 3.86
2153 5922 1.430479 CATCTCTGATCTGCGATGCC 58.570 55.000 16.50 0.00 0.00 4.40
2168 5937 3.134127 GCCACATCCTTGACGGCC 61.134 66.667 0.00 0.00 38.33 6.13
2207 5976 2.528041 ACACCGAAGAAGACTTGGAC 57.472 50.000 0.00 0.00 36.39 4.02
2246 6015 2.291209 TGGTGTCGAAGTACTGGGTA 57.709 50.000 0.00 0.00 0.00 3.69
2504 6273 9.229784 CACATTCATGTTAGATATGCAAAAGAC 57.770 33.333 0.00 0.00 39.39 3.01
2585 6354 6.623486 TGTATGTGGATTGAAAGCAAATGAG 58.377 36.000 0.00 0.00 37.59 2.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 2.600731 CGGCCGCATTCACAAATTTTA 58.399 42.857 14.67 0.00 0.00 1.52
27 28 2.280524 CAGACGCCACGACCCAAA 60.281 61.111 0.00 0.00 0.00 3.28
33 34 1.227031 AAACGAACAGACGCCACGA 60.227 52.632 0.00 0.00 36.70 4.35
46 47 0.461135 GTCCGTATAGGCCCAAACGA 59.539 55.000 19.57 6.27 40.77 3.85
47 48 0.176219 TGTCCGTATAGGCCCAAACG 59.824 55.000 12.95 12.95 40.77 3.60
52 53 0.532196 GCAAGTGTCCGTATAGGCCC 60.532 60.000 0.00 0.00 40.77 5.80
69 70 2.690497 GCACTACCTCATCTAGTCTGCA 59.310 50.000 0.00 0.00 0.00 4.41
70 71 2.287308 CGCACTACCTCATCTAGTCTGC 60.287 54.545 0.00 0.00 0.00 4.26
71 72 2.946329 ACGCACTACCTCATCTAGTCTG 59.054 50.000 0.00 0.00 0.00 3.51
72 73 3.284793 ACGCACTACCTCATCTAGTCT 57.715 47.619 0.00 0.00 0.00 3.24
76 77 2.688446 CTCCAACGCACTACCTCATCTA 59.312 50.000 0.00 0.00 0.00 1.98
79 80 1.267121 ACTCCAACGCACTACCTCAT 58.733 50.000 0.00 0.00 0.00 2.90
82 83 0.602905 GCAACTCCAACGCACTACCT 60.603 55.000 0.00 0.00 0.00 3.08
208 209 2.667536 CTGACTGGCGCTGCAACT 60.668 61.111 7.64 0.00 0.00 3.16
227 333 2.837883 CGCTTGCAGCCACAGTTGT 61.838 57.895 0.00 0.00 38.18 3.32
230 336 4.943252 AGCGCTTGCAGCCACAGT 62.943 61.111 2.64 0.00 42.66 3.55
286 589 4.767255 CAGCGAGGGAAGCGGCTT 62.767 66.667 16.36 16.36 40.04 4.35
294 597 3.371063 GTGGACGACAGCGAGGGA 61.371 66.667 0.00 0.00 41.64 4.20
295 598 3.343788 GAGTGGACGACAGCGAGGG 62.344 68.421 0.00 0.00 41.64 4.30
296 599 2.179517 GAGTGGACGACAGCGAGG 59.820 66.667 0.00 0.00 41.64 4.63
297 600 1.154131 CAGAGTGGACGACAGCGAG 60.154 63.158 0.00 0.00 41.64 5.03
302 605 1.541588 CTGATGACAGAGTGGACGACA 59.458 52.381 0.00 0.00 46.03 4.35
305 608 2.478709 GCTACTGATGACAGAGTGGACG 60.479 54.545 0.00 0.00 46.03 4.79
312 615 2.017782 GACGAGGCTACTGATGACAGA 58.982 52.381 0.00 0.00 46.03 3.41
314 617 1.103803 GGACGAGGCTACTGATGACA 58.896 55.000 0.00 0.00 0.00 3.58
501 1398 5.776358 ACTAAATTTGGGGGCAATATGAGA 58.224 37.500 6.50 0.00 0.00 3.27
551 1666 5.043762 TCATTCCTAACCTAAATGGAGGGT 58.956 41.667 0.00 0.00 41.36 4.34
553 1668 6.006449 CCATCATTCCTAACCTAAATGGAGG 58.994 44.000 0.00 0.00 42.89 4.30
554 1669 6.006449 CCCATCATTCCTAACCTAAATGGAG 58.994 44.000 0.00 0.00 39.71 3.86
570 1685 0.324275 CCCAACCGAACCCCATCATT 60.324 55.000 0.00 0.00 0.00 2.57
605 1720 2.185867 GTCCGCCCGCATTAGTGA 59.814 61.111 0.00 0.00 0.00 3.41
606 1721 2.971428 ATCGTCCGCCCGCATTAGTG 62.971 60.000 0.00 0.00 0.00 2.74
607 1722 2.306255 AATCGTCCGCCCGCATTAGT 62.306 55.000 0.00 0.00 0.00 2.24
608 1723 1.557443 GAATCGTCCGCCCGCATTAG 61.557 60.000 0.00 0.00 0.00 1.73
609 1724 1.593209 GAATCGTCCGCCCGCATTA 60.593 57.895 0.00 0.00 0.00 1.90
610 1725 2.895372 GAATCGTCCGCCCGCATT 60.895 61.111 0.00 0.00 0.00 3.56
612 1731 3.885538 TTTGAATCGTCCGCCCGCA 62.886 57.895 0.00 0.00 0.00 5.69
613 1732 3.122323 TTTGAATCGTCCGCCCGC 61.122 61.111 0.00 0.00 0.00 6.13
640 1759 2.298163 TCTAGGACACCACGTTTTCTCC 59.702 50.000 0.00 0.00 0.00 3.71
643 1762 3.000727 CCATCTAGGACACCACGTTTTC 58.999 50.000 0.00 0.00 41.22 2.29
646 1765 1.275291 CACCATCTAGGACACCACGTT 59.725 52.381 0.00 0.00 41.22 3.99
648 1767 0.895530 ACACCATCTAGGACACCACG 59.104 55.000 0.00 0.00 41.22 4.94
649 1768 4.161565 TGATTACACCATCTAGGACACCAC 59.838 45.833 0.00 0.00 41.22 4.16
744 4411 3.296709 ATGTGCACGGTCGGGACTC 62.297 63.158 13.13 0.00 0.00 3.36
745 4412 3.296709 GATGTGCACGGTCGGGACT 62.297 63.158 13.13 0.00 0.00 3.85
746 4413 2.813908 GATGTGCACGGTCGGGAC 60.814 66.667 13.13 0.00 0.00 4.46
786 4453 0.443869 CGTGCTGAGGATTTGTTCGG 59.556 55.000 0.00 0.00 0.00 4.30
794 4461 2.364842 AGGAGGCGTGCTGAGGAT 60.365 61.111 0.00 0.00 0.00 3.24
799 4466 1.372087 GGAAATCAGGAGGCGTGCTG 61.372 60.000 20.45 20.45 43.37 4.41
850 4517 2.222027 GGATGAAACTAAGCCCGATGG 58.778 52.381 0.00 0.00 0.00 3.51
884 4551 1.107538 TTGGATCCTAGGCGAGACGG 61.108 60.000 14.23 0.00 0.00 4.79
897 4564 1.186200 GGTCCCTTTGCCTTTGGATC 58.814 55.000 0.00 0.00 0.00 3.36
908 4575 1.296056 CGCGTTTGATCGGTCCCTTT 61.296 55.000 0.00 0.00 0.00 3.11
917 4589 0.640768 CGTCTTCTCCGCGTTTGATC 59.359 55.000 4.92 0.00 0.00 2.92
943 4620 1.359474 ACTGGCTCCTAGAAGTCCTGA 59.641 52.381 0.00 0.00 0.00 3.86
949 4626 2.461695 TCTTGGACTGGCTCCTAGAAG 58.538 52.381 4.81 0.00 45.00 2.85
1186 4878 2.412325 CGTAAGTTGATCGGCACAAACC 60.412 50.000 0.00 0.00 0.00 3.27
1189 4881 1.001068 TCCGTAAGTTGATCGGCACAA 59.999 47.619 9.89 0.00 43.35 3.33
1212 4934 3.254166 TCAAGATTTTGTGCCTCAGAAGC 59.746 43.478 0.00 0.00 35.73 3.86
1250 4977 2.158971 TGCTCCTATTGCATACGCTGAA 60.159 45.455 0.00 0.00 39.64 3.02
1255 4982 3.198068 ACAACTGCTCCTATTGCATACG 58.802 45.455 0.00 0.00 39.86 3.06
1270 5001 4.542735 GGGTTACCGATCAAAAACAACTG 58.457 43.478 0.00 0.00 0.00 3.16
1396 5130 3.195698 GGGCATCGGACTTGACGC 61.196 66.667 0.00 0.00 0.00 5.19
1421 5155 0.895100 TGATGGAGCAAGTTGGGCAC 60.895 55.000 4.75 0.00 0.00 5.01
1504 5238 1.734465 GACACTGAGTATGCTTGTGGC 59.266 52.381 17.19 12.86 42.22 5.01
1505 5239 2.998670 CTGACACTGAGTATGCTTGTGG 59.001 50.000 17.19 5.12 35.40 4.17
1516 5250 1.615883 ACTGGTAGCACTGACACTGAG 59.384 52.381 0.00 0.00 0.00 3.35
1536 5270 6.237901 ACACATGATAAAGCTTGGTCTTGTA 58.762 36.000 21.84 4.08 30.71 2.41
1700 5447 2.501723 AGGTGCAGTTGTTCTCGGATAT 59.498 45.455 0.00 0.00 0.00 1.63
1702 5449 0.687354 AGGTGCAGTTGTTCTCGGAT 59.313 50.000 0.00 0.00 0.00 4.18
1705 5452 1.800805 ATGAGGTGCAGTTGTTCTCG 58.199 50.000 0.00 0.00 0.00 4.04
1745 5503 3.350833 GGTTGGATTGAGCAGATGACTT 58.649 45.455 0.00 0.00 0.00 3.01
1747 5505 1.667724 CGGTTGGATTGAGCAGATGAC 59.332 52.381 0.00 0.00 0.00 3.06
1749 5507 1.938577 CTCGGTTGGATTGAGCAGATG 59.061 52.381 0.00 0.00 0.00 2.90
1751 5509 1.266178 TCTCGGTTGGATTGAGCAGA 58.734 50.000 0.00 0.00 0.00 4.26
1752 5510 2.322355 ATCTCGGTTGGATTGAGCAG 57.678 50.000 0.00 0.00 0.00 4.24
1753 5511 3.904800 TTATCTCGGTTGGATTGAGCA 57.095 42.857 0.00 0.00 0.00 4.26
1763 5521 6.485313 TGTTTTGTGATGAGTTTATCTCGGTT 59.515 34.615 0.00 0.00 45.46 4.44
1834 5596 1.654954 GCAAGTGAGCCTGGATGCTG 61.655 60.000 0.00 0.00 42.95 4.41
1836 5598 1.246056 TTGCAAGTGAGCCTGGATGC 61.246 55.000 0.00 0.00 0.00 3.91
1869 5631 3.950395 AGTTTAGCCAGATTCCTGAATGC 59.050 43.478 0.00 0.00 43.02 3.56
1942 5704 9.365311 CTACGTTAAGTTGTGAATTTTAGTGTG 57.635 33.333 0.00 0.00 0.00 3.82
1972 5741 7.432545 CGTGAGTAATTTATCTACCTGTGTGAG 59.567 40.741 0.00 0.00 0.00 3.51
1980 5749 6.200475 GCAAGGTCGTGAGTAATTTATCTACC 59.800 42.308 0.00 0.00 0.00 3.18
2090 5859 4.033709 TCTAAGAGGAGGACCATGGAAAG 58.966 47.826 21.47 0.00 38.94 2.62
2126 5895 2.048601 CAGATCAGAGATGGGCTCCTT 58.951 52.381 0.00 0.00 45.10 3.36
2153 5922 2.438434 GGGGCCGTCAAGGATGTG 60.438 66.667 0.00 0.00 45.00 3.21
2207 5976 0.253044 TGAAAGAGATTGGGGCCTCG 59.747 55.000 0.84 0.00 34.75 4.63
2246 6015 3.245371 ACATCATGGACATGGTTCTGGTT 60.245 43.478 11.98 0.00 39.24 3.67
2438 6207 2.045926 ATGAGGTCGGCAGCCAAC 60.046 61.111 13.30 2.05 0.00 3.77
2504 6273 2.905959 TTGATGCGTGCTCAGAATTG 57.094 45.000 0.00 0.00 0.00 2.32


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

AutoCloner maintained by Alex Coulton.