Multiple sequence alignment - TraesCS1A01G266800

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 TraesCS1A01G266800 chr1A 100.000 2504 0 0 1 2504 462135940 462138443 0.000000 4625.0
1 TraesCS1A01G266800 chr1B 88.352 1966 128 46 16 1945 486157214 486159114 0.000000 2268.0
2 TraesCS1A01G266800 chr1D 92.151 1325 47 17 637 1945 362920375 362921658 0.000000 1818.0
3 TraesCS1A01G266800 chr1D 88.391 603 42 11 10 588 362918612 362919210 0.000000 701.0
4 TraesCS1A01G266800 chr1D 100.000 28 0 0 611 638 362919205 362919232 0.005000 52.8
5 TraesCS1A01G266800 chr5A 91.725 568 39 4 1943 2504 19267376 19266811 0.000000 782.0
6 TraesCS1A01G266800 chr5A 91.579 570 35 9 1943 2504 677171839 677172403 0.000000 774.0
7 TraesCS1A01G266800 chr4A 90.941 574 42 6 1939 2504 56291939 56291368 0.000000 763.0
8 TraesCS1A01G266800 chr4A 90.877 570 41 7 1943 2504 299608553 299607987 0.000000 754.0
9 TraesCS1A01G266800 chr7A 91.021 568 43 4 1943 2504 533571949 533572514 0.000000 760.0
10 TraesCS1A01G266800 chr7A 90.609 575 42 12 1937 2504 237561437 237560868 0.000000 752.0
11 TraesCS1A01G266800 chr7A 89.547 574 46 7 1936 2503 637593155 637592590 0.000000 715.0
12 TraesCS1A01G266800 chr2A 90.210 572 44 8 1940 2504 598148135 598148701 0.000000 736.0
13 TraesCS1A01G266800 chr6A 89.261 568 48 7 1943 2504 535373282 535373842 0.000000 699.0
14 TraesCS1A01G266800 chr3D 90.698 43 3 1 1229 1270 497369182 497369140 0.000348 56.5


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 TraesCS1A01G266800 chr1A 462135940 462138443 2503 False 4625.000000 4625 100.000 1 2504 1 chr1A.!!$F1 2503
1 TraesCS1A01G266800 chr1B 486157214 486159114 1900 False 2268.000000 2268 88.352 16 1945 1 chr1B.!!$F1 1929
2 TraesCS1A01G266800 chr1D 362918612 362921658 3046 False 857.266667 1818 93.514 10 1945 3 chr1D.!!$F1 1935
3 TraesCS1A01G266800 chr5A 19266811 19267376 565 True 782.000000 782 91.725 1943 2504 1 chr5A.!!$R1 561
4 TraesCS1A01G266800 chr5A 677171839 677172403 564 False 774.000000 774 91.579 1943 2504 1 chr5A.!!$F1 561
5 TraesCS1A01G266800 chr4A 56291368 56291939 571 True 763.000000 763 90.941 1939 2504 1 chr4A.!!$R1 565
6 TraesCS1A01G266800 chr4A 299607987 299608553 566 True 754.000000 754 90.877 1943 2504 1 chr4A.!!$R2 561
7 TraesCS1A01G266800 chr7A 533571949 533572514 565 False 760.000000 760 91.021 1943 2504 1 chr7A.!!$F1 561
8 TraesCS1A01G266800 chr7A 237560868 237561437 569 True 752.000000 752 90.609 1937 2504 1 chr7A.!!$R1 567
9 TraesCS1A01G266800 chr7A 637592590 637593155 565 True 715.000000 715 89.547 1936 2503 1 chr7A.!!$R2 567
10 TraesCS1A01G266800 chr2A 598148135 598148701 566 False 736.000000 736 90.210 1940 2504 1 chr2A.!!$F1 564
11 TraesCS1A01G266800 chr6A 535373282 535373842 560 False 699.000000 699 89.261 1943 2504 1 chr6A.!!$F1 561

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
724 1909 0.034337 GCACCGACCTGTTTACCAGA 59.966 55.0 0.0 0.0 44.49 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1629 2848 0.321298 GCGAGCTCACCCTGGTTTTA 60.321 55.0 15.4 0.0 0.0 1.52 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
123 132 2.805353 CTGGCCTGAACGTCGACG 60.805 66.667 34.58 34.58 46.33 5.12
163 172 2.806244 ACTGCACAAAAGTGACGGATAC 59.194 45.455 0.00 0.00 0.00 2.24
191 200 7.279536 CCGGTTCTCCTTTACTCTTTAATTACC 59.720 40.741 0.00 0.00 0.00 2.85
198 208 9.223099 TCCTTTACTCTTTAATTACCGGAAAAG 57.777 33.333 9.46 9.77 0.00 2.27
218 228 3.279434 AGGGTTAATCAACGCCATTCTC 58.721 45.455 0.00 0.00 46.05 2.87
222 232 4.201920 GGTTAATCAACGCCATTCTCTTCC 60.202 45.833 0.00 0.00 35.34 3.46
249 259 3.182967 GAGCGTTCTATCACCTTCACAG 58.817 50.000 0.00 0.00 0.00 3.66
272 282 2.635915 TCCTTTACCCACATCGACAACT 59.364 45.455 0.00 0.00 0.00 3.16
291 301 4.386867 ACTCGAAGTCTTGTCAAACTCA 57.613 40.909 0.00 0.00 0.00 3.41
293 303 3.123804 TCGAAGTCTTGTCAAACTCAGC 58.876 45.455 0.00 0.00 0.00 4.26
302 312 1.197036 GTCAAACTCAGCGGTAAAGCC 59.803 52.381 0.00 0.00 38.01 4.35
343 356 2.870372 GACAAGGTCCACATGCGC 59.130 61.111 0.00 0.00 0.00 6.09
368 382 1.444553 CTTCCACTCCGCAGTCGAC 60.445 63.158 7.70 7.70 38.10 4.20
394 412 1.264749 CCCGATGTCTTCCCTCACCA 61.265 60.000 0.00 0.00 0.00 4.17
395 413 0.176680 CCGATGTCTTCCCTCACCAG 59.823 60.000 0.00 0.00 0.00 4.00
405 423 4.126908 CTCACCAGGAGGAGCACT 57.873 61.111 0.00 0.00 40.13 4.40
411 429 1.834263 ACCAGGAGGAGCACTGTAATC 59.166 52.381 0.00 0.00 38.69 1.75
420 438 3.614616 GGAGCACTGTAATCTTCAACGAG 59.385 47.826 0.00 0.00 0.00 4.18
458 476 1.541310 ATCCGCTCGTGAACCCTGAA 61.541 55.000 0.00 0.00 0.00 3.02
467 485 3.071892 TCGTGAACCCTGAATTAACCACT 59.928 43.478 0.00 0.00 0.00 4.00
468 486 3.188460 CGTGAACCCTGAATTAACCACTG 59.812 47.826 0.00 0.00 0.00 3.66
470 488 2.215942 ACCCTGAATTAACCACTGCC 57.784 50.000 0.00 0.00 0.00 4.85
472 490 1.272425 CCCTGAATTAACCACTGCCCA 60.272 52.381 0.00 0.00 0.00 5.36
473 491 2.524306 CCTGAATTAACCACTGCCCAA 58.476 47.619 0.00 0.00 0.00 4.12
474 492 2.493278 CCTGAATTAACCACTGCCCAAG 59.507 50.000 0.00 0.00 0.00 3.61
475 493 1.892474 TGAATTAACCACTGCCCAAGC 59.108 47.619 0.00 0.00 40.48 4.01
553 577 0.748367 TGGCCGCGGCATACAAAATA 60.748 50.000 46.88 20.34 44.11 1.40
555 579 0.660300 GCCGCGGCATACAAAATAGC 60.660 55.000 43.55 12.60 41.49 2.97
583 607 2.807045 GAGCAGTCGAGCACCGTG 60.807 66.667 0.00 0.00 39.75 4.94
603 627 2.514803 GCTTCCCCAGCTAAAAACTGA 58.485 47.619 0.00 0.00 46.27 3.41
604 628 2.489722 GCTTCCCCAGCTAAAAACTGAG 59.510 50.000 0.00 0.00 46.27 3.35
605 629 2.200373 TCCCCAGCTAAAAACTGAGC 57.800 50.000 0.00 0.00 37.32 4.26
606 630 0.804989 CCCCAGCTAAAAACTGAGCG 59.195 55.000 0.00 0.00 43.72 5.03
607 631 1.610624 CCCCAGCTAAAAACTGAGCGA 60.611 52.381 0.00 0.00 43.72 4.93
608 632 2.359900 CCCAGCTAAAAACTGAGCGAT 58.640 47.619 0.00 0.00 43.72 4.58
609 633 2.352960 CCCAGCTAAAAACTGAGCGATC 59.647 50.000 0.00 0.00 43.72 3.69
671 1856 1.157870 AAAACCGAGCACCTGACACG 61.158 55.000 0.00 0.00 0.00 4.49
724 1909 0.034337 GCACCGACCTGTTTACCAGA 59.966 55.000 0.00 0.00 44.49 3.86
739 1924 0.526524 CCAGACCAACGATCGAGCTC 60.527 60.000 24.34 2.73 0.00 4.09
747 1932 3.423645 CCAACGATCGAGCTCAAAAACTC 60.424 47.826 24.34 0.00 0.00 3.01
757 1942 2.349532 GCTCAAAAACTCACCGTGCTAC 60.350 50.000 0.00 0.00 0.00 3.58
759 1944 4.304110 CTCAAAAACTCACCGTGCTACTA 58.696 43.478 0.00 0.00 0.00 1.82
760 1945 4.053295 TCAAAAACTCACCGTGCTACTAC 58.947 43.478 0.00 0.00 0.00 2.73
761 1946 4.056050 CAAAAACTCACCGTGCTACTACT 58.944 43.478 0.00 0.00 0.00 2.57
762 1947 5.009911 TCAAAAACTCACCGTGCTACTACTA 59.990 40.000 0.00 0.00 0.00 1.82
788 1973 0.246360 ATAAACAAAGCGCCAAGGCC 59.754 50.000 2.29 0.00 37.98 5.19
789 1974 0.825840 TAAACAAAGCGCCAAGGCCT 60.826 50.000 2.29 0.00 37.98 5.19
790 1975 1.685355 AAACAAAGCGCCAAGGCCTT 61.685 50.000 13.78 13.78 37.98 4.35
791 1976 1.685355 AACAAAGCGCCAAGGCCTTT 61.685 50.000 17.61 16.68 39.97 3.11
792 1977 1.373371 CAAAGCGCCAAGGCCTTTC 60.373 57.895 17.61 9.94 38.54 2.62
793 1978 1.832167 AAAGCGCCAAGGCCTTTCA 60.832 52.632 17.61 0.00 37.17 2.69
794 1979 2.087462 AAAGCGCCAAGGCCTTTCAC 62.087 55.000 17.61 7.20 37.17 3.18
795 1980 4.056125 GCGCCAAGGCCTTTCACC 62.056 66.667 17.61 3.26 37.98 4.02
796 1981 2.597217 CGCCAAGGCCTTTCACCA 60.597 61.111 17.61 0.00 37.98 4.17
797 1982 2.629656 CGCCAAGGCCTTTCACCAG 61.630 63.158 17.61 2.84 37.98 4.00
798 1983 1.228552 GCCAAGGCCTTTCACCAGA 60.229 57.895 17.61 0.00 34.56 3.86
799 1984 1.246737 GCCAAGGCCTTTCACCAGAG 61.247 60.000 17.61 1.15 34.56 3.35
800 1985 1.246737 CCAAGGCCTTTCACCAGAGC 61.247 60.000 17.61 0.00 0.00 4.09
801 1986 1.075659 AAGGCCTTTCACCAGAGCC 59.924 57.895 13.78 0.00 44.20 4.70
802 1987 2.747855 GGCCTTTCACCAGAGCCG 60.748 66.667 0.00 0.00 33.18 5.52
803 1988 2.032681 GCCTTTCACCAGAGCCGT 59.967 61.111 0.00 0.00 0.00 5.68
804 1989 1.295423 GCCTTTCACCAGAGCCGTA 59.705 57.895 0.00 0.00 0.00 4.02
805 1990 0.107654 GCCTTTCACCAGAGCCGTAT 60.108 55.000 0.00 0.00 0.00 3.06
806 1991 1.138266 GCCTTTCACCAGAGCCGTATA 59.862 52.381 0.00 0.00 0.00 1.47
811 1996 6.331061 CCTTTCACCAGAGCCGTATATATAC 58.669 44.000 12.18 12.18 0.00 1.47
844 2029 5.162826 TGGAGGAGACAGGAGGTGAATATAT 60.163 44.000 0.00 0.00 0.00 0.86
911 2096 3.012518 CACTTGTCCATGATCTTGTCCC 58.987 50.000 7.73 0.00 0.00 4.46
942 2127 2.914097 AGCACCTGCCCACAAAGC 60.914 61.111 0.00 0.00 43.38 3.51
962 2147 1.202580 CCTCCTTGATTACCAGCTCCG 60.203 57.143 0.00 0.00 0.00 4.63
1203 2388 3.699894 CTCTGCAGCAGGTCCGGT 61.700 66.667 22.62 0.00 31.51 5.28
1402 2587 0.459411 GCACGAGGAGAAGAAGGAGC 60.459 60.000 0.00 0.00 0.00 4.70
1406 2591 2.202810 GGAGAAGAAGGAGCCGCG 60.203 66.667 0.00 0.00 0.00 6.46
1488 2673 0.179032 TCCTCAAGGCGTGCAAGAAA 60.179 50.000 2.99 0.00 34.44 2.52
1507 2692 1.348064 ACTCTTCCGGTTGTGATGGA 58.652 50.000 0.00 0.00 0.00 3.41
1508 2693 1.909302 ACTCTTCCGGTTGTGATGGAT 59.091 47.619 0.00 0.00 0.00 3.41
1511 2696 2.009774 CTTCCGGTTGTGATGGATGAC 58.990 52.381 0.00 0.00 0.00 3.06
1512 2697 0.108377 TCCGGTTGTGATGGATGACG 60.108 55.000 0.00 0.00 0.00 4.35
1513 2698 1.089481 CCGGTTGTGATGGATGACGG 61.089 60.000 0.00 0.00 0.00 4.79
1514 2699 1.705337 CGGTTGTGATGGATGACGGC 61.705 60.000 0.00 0.00 0.00 5.68
1542 2727 1.360551 GATCGAGCCGCTTCTGCTA 59.639 57.895 0.00 0.00 39.69 3.49
1559 2744 7.201530 GCTTCTGCTATAACGAAATGTACTTGT 60.202 37.037 0.00 0.00 36.03 3.16
1614 2833 4.030753 TGTTGCATTTGTTTCGTTCGTTTC 59.969 37.500 0.00 0.00 0.00 2.78
1648 2867 0.321298 TAAAACCAGGGTGAGCTCGC 60.321 55.000 19.20 19.20 0.00 5.03
1689 2908 1.336332 TGCGTGTTTGTGCACTTTGTT 60.336 42.857 19.41 0.00 35.90 2.83
1713 2934 3.114809 CTGAGTGCGAGCTTTAGATCTG 58.885 50.000 5.18 0.00 0.00 2.90
1926 3149 6.183360 CGAAATGGCCCAAATAGTAAATCACT 60.183 38.462 0.00 0.00 41.62 3.41
1934 3157 7.419865 GCCCAAATAGTAAATCACTACTACCCT 60.420 40.741 0.00 0.00 42.56 4.34
1956 3179 3.138884 TGCATAAGAGCAACTCCAACA 57.861 42.857 0.00 0.00 42.46 3.33
2006 3230 1.135333 GCTTTTTGTCCGTTTGGGTCA 59.865 47.619 0.00 0.00 37.00 4.02
2050 3274 0.683973 TTCGCATTTGGGTTGGCATT 59.316 45.000 0.00 0.00 0.00 3.56
2054 3278 1.893544 CATTTGGGTTGGCATTTGCA 58.106 45.000 4.74 0.00 44.36 4.08
2055 3279 1.807742 CATTTGGGTTGGCATTTGCAG 59.192 47.619 4.74 0.00 44.36 4.41
2089 3315 1.448893 GACCCATTTAGACGGCGCA 60.449 57.895 10.83 0.00 0.00 6.09
2094 3321 2.416701 CCCATTTAGACGGCGCAAAAAT 60.417 45.455 10.83 7.46 0.00 1.82
2096 3323 4.416620 CCATTTAGACGGCGCAAAAATAA 58.583 39.130 10.83 0.00 0.00 1.40
2097 3324 5.040635 CCATTTAGACGGCGCAAAAATAAT 58.959 37.500 10.83 0.00 0.00 1.28
2181 3409 3.681835 GCCGGTGAGAGTCCACGT 61.682 66.667 1.90 0.00 37.91 4.49
2454 3690 2.046892 AGGTCGCGCTCAAGCATT 60.047 55.556 5.56 0.00 42.21 3.56
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.164158 GCGATTTGACACTACTTTTGCAATG 60.164 40.000 0.00 0.00 0.00 2.82
1 2 4.917415 GCGATTTGACACTACTTTTGCAAT 59.083 37.500 0.00 0.00 0.00 3.56
2 3 4.201960 TGCGATTTGACACTACTTTTGCAA 60.202 37.500 0.00 0.00 0.00 4.08
4 5 3.884169 TGCGATTTGACACTACTTTTGC 58.116 40.909 0.00 0.00 0.00 3.68
5 6 5.510671 ACTTGCGATTTGACACTACTTTTG 58.489 37.500 0.00 0.00 0.00 2.44
6 7 5.751243 ACTTGCGATTTGACACTACTTTT 57.249 34.783 0.00 0.00 0.00 2.27
7 8 5.558273 CGAACTTGCGATTTGACACTACTTT 60.558 40.000 0.00 0.00 0.00 2.66
8 9 4.084537 CGAACTTGCGATTTGACACTACTT 60.085 41.667 0.00 0.00 0.00 2.24
11 12 3.386486 ACGAACTTGCGATTTGACACTA 58.614 40.909 0.00 0.00 34.83 2.74
82 91 1.374758 AACGCAAAGAGGCTCTCGG 60.375 57.895 19.03 13.84 35.36 4.63
163 172 3.679824 AAGAGTAAAGGAGAACCGGTG 57.320 47.619 8.52 0.00 41.83 4.94
191 200 2.414957 GGCGTTGATTAACCCTTTTCCG 60.415 50.000 0.00 0.00 33.12 4.30
198 208 3.279434 AGAGAATGGCGTTGATTAACCC 58.721 45.455 0.00 0.00 33.12 4.11
218 228 5.390991 GGTGATAGAACGCTCAAAAAGGAAG 60.391 44.000 0.00 0.00 0.00 3.46
222 232 5.179368 TGAAGGTGATAGAACGCTCAAAAAG 59.821 40.000 0.00 0.00 0.00 2.27
249 259 1.066430 TGTCGATGTGGGTAAAGGAGC 60.066 52.381 0.00 0.00 0.00 4.70
272 282 3.123804 GCTGAGTTTGACAAGACTTCGA 58.876 45.455 5.04 0.00 0.00 3.71
302 312 2.797156 GCAGATGTTCAGCTATGTACCG 59.203 50.000 0.00 0.00 0.00 4.02
308 321 1.123077 TCGGGCAGATGTTCAGCTAT 58.877 50.000 0.00 0.00 0.00 2.97
343 356 3.771160 CGGAGTGGAAGTCGGGGG 61.771 72.222 0.00 0.00 37.07 5.40
394 412 3.445008 TGAAGATTACAGTGCTCCTCCT 58.555 45.455 0.00 0.00 0.00 3.69
395 413 3.895232 TGAAGATTACAGTGCTCCTCC 57.105 47.619 0.00 0.00 0.00 4.30
399 417 3.061429 GCTCGTTGAAGATTACAGTGCTC 59.939 47.826 0.00 0.00 0.00 4.26
401 419 2.222596 CGCTCGTTGAAGATTACAGTGC 60.223 50.000 0.00 0.00 0.00 4.40
402 420 3.242518 TCGCTCGTTGAAGATTACAGTG 58.757 45.455 0.00 0.00 0.00 3.66
403 421 3.190744 TCTCGCTCGTTGAAGATTACAGT 59.809 43.478 0.00 0.00 0.00 3.55
405 423 3.057806 TGTCTCGCTCGTTGAAGATTACA 60.058 43.478 0.00 0.00 0.00 2.41
411 429 2.280183 GCTAATGTCTCGCTCGTTGAAG 59.720 50.000 0.00 0.00 0.00 3.02
420 438 1.840181 TCGATGTGCTAATGTCTCGC 58.160 50.000 0.00 0.00 0.00 5.03
458 476 1.595093 GCGCTTGGGCAGTGGTTAAT 61.595 55.000 0.00 0.00 38.60 1.40
468 486 4.722700 TTGAGGAGGCGCTTGGGC 62.723 66.667 7.64 0.81 42.69 5.36
470 488 1.743252 GACTTGAGGAGGCGCTTGG 60.743 63.158 7.64 0.00 0.00 3.61
472 490 0.108585 TTTGACTTGAGGAGGCGCTT 59.891 50.000 7.64 0.00 35.50 4.68
473 491 0.321122 CTTTGACTTGAGGAGGCGCT 60.321 55.000 7.64 0.00 35.50 5.92
474 492 0.320771 TCTTTGACTTGAGGAGGCGC 60.321 55.000 0.00 0.00 35.50 6.53
475 493 1.270305 TGTCTTTGACTTGAGGAGGCG 60.270 52.381 0.00 0.00 35.50 5.52
479 503 4.480115 TCCTAGTGTCTTTGACTTGAGGA 58.520 43.478 9.37 9.37 34.41 3.71
555 579 3.384014 GACTGCTCGTCCTCGTCGG 62.384 68.421 0.00 0.00 36.62 4.79
584 608 2.489722 GCTCAGTTTTTAGCTGGGGAAG 59.510 50.000 0.00 0.00 35.12 3.46
585 609 2.514803 GCTCAGTTTTTAGCTGGGGAA 58.485 47.619 0.00 0.00 35.12 3.97
586 610 1.610624 CGCTCAGTTTTTAGCTGGGGA 60.611 52.381 0.00 0.00 35.12 4.81
587 611 0.804989 CGCTCAGTTTTTAGCTGGGG 59.195 55.000 0.00 0.00 35.12 4.96
588 612 1.808411 TCGCTCAGTTTTTAGCTGGG 58.192 50.000 0.00 0.00 37.50 4.45
589 613 3.063180 CAGATCGCTCAGTTTTTAGCTGG 59.937 47.826 0.00 0.00 36.56 4.85
590 614 3.484886 GCAGATCGCTCAGTTTTTAGCTG 60.485 47.826 0.00 0.00 36.56 4.24
591 615 2.675348 GCAGATCGCTCAGTTTTTAGCT 59.325 45.455 0.00 0.00 36.56 3.32
592 616 3.044959 GCAGATCGCTCAGTTTTTAGC 57.955 47.619 2.84 0.00 37.77 3.09
604 628 1.945387 TGGAAGATGAAGCAGATCGC 58.055 50.000 1.92 1.92 42.91 4.58
605 629 3.264947 TGTTGGAAGATGAAGCAGATCG 58.735 45.455 0.00 0.00 0.00 3.69
606 630 4.332268 GTCTGTTGGAAGATGAAGCAGATC 59.668 45.833 0.00 0.00 34.63 2.75
607 631 4.260170 GTCTGTTGGAAGATGAAGCAGAT 58.740 43.478 0.00 0.00 34.63 2.90
608 632 3.071457 TGTCTGTTGGAAGATGAAGCAGA 59.929 43.478 0.00 0.00 0.00 4.26
609 633 3.405831 TGTCTGTTGGAAGATGAAGCAG 58.594 45.455 0.00 0.00 0.00 4.24
671 1856 4.509737 GGTGGCGTCTACGAGGGC 62.510 72.222 6.71 1.54 43.02 5.19
724 1909 2.163818 TTTTGAGCTCGATCGTTGGT 57.836 45.000 15.94 14.38 0.00 3.67
739 1924 4.056050 AGTAGTAGCACGGTGAGTTTTTG 58.944 43.478 13.29 0.00 0.00 2.44
747 1932 2.921754 GCAAACTAGTAGTAGCACGGTG 59.078 50.000 17.97 3.15 31.98 4.94
757 1942 5.508224 GCGCTTTGTTTATGCAAACTAGTAG 59.492 40.000 0.00 0.00 43.73 2.57
759 1944 4.226761 GCGCTTTGTTTATGCAAACTAGT 58.773 39.130 0.00 0.00 43.73 2.57
760 1945 3.608073 GGCGCTTTGTTTATGCAAACTAG 59.392 43.478 7.64 0.00 43.73 2.57
761 1946 3.004839 TGGCGCTTTGTTTATGCAAACTA 59.995 39.130 7.64 0.00 43.73 2.24
762 1947 2.223923 TGGCGCTTTGTTTATGCAAACT 60.224 40.909 7.64 0.00 43.73 2.66
802 1987 8.256605 TCTCCTCCACACTACTCGTATATATAC 58.743 40.741 12.18 12.18 0.00 1.47
803 1988 8.256605 GTCTCCTCCACACTACTCGTATATATA 58.743 40.741 0.00 0.00 0.00 0.86
804 1989 7.104939 GTCTCCTCCACACTACTCGTATATAT 58.895 42.308 0.00 0.00 0.00 0.86
805 1990 6.042437 TGTCTCCTCCACACTACTCGTATATA 59.958 42.308 0.00 0.00 0.00 0.86
806 1991 5.163227 TGTCTCCTCCACACTACTCGTATAT 60.163 44.000 0.00 0.00 0.00 0.86
811 1996 1.740585 CTGTCTCCTCCACACTACTCG 59.259 57.143 0.00 0.00 0.00 4.18
812 1997 2.096248 CCTGTCTCCTCCACACTACTC 58.904 57.143 0.00 0.00 0.00 2.59
816 2001 0.252012 CCTCCTGTCTCCTCCACACT 60.252 60.000 0.00 0.00 0.00 3.55
822 2007 8.602472 AATATATATTCACCTCCTGTCTCCTC 57.398 38.462 1.91 0.00 0.00 3.71
872 2057 1.671379 GAGAGTTGGTGAACCCCGC 60.671 63.158 0.00 0.00 31.81 6.13
942 2127 1.202580 CGGAGCTGGTAATCAAGGAGG 60.203 57.143 0.00 0.00 0.00 4.30
962 2147 2.358247 TCCCTGCTTCCGCGAAAC 60.358 61.111 8.23 0.00 39.65 2.78
1406 2591 4.516195 GCCGACCTTCCTCTCGCC 62.516 72.222 0.00 0.00 0.00 5.54
1488 2673 1.348064 TCCATCACAACCGGAAGAGT 58.652 50.000 9.46 0.00 0.00 3.24
1507 2692 0.385751 ATCGATCGACAAGCCGTCAT 59.614 50.000 22.06 0.00 45.70 3.06
1508 2693 0.248498 GATCGATCGACAAGCCGTCA 60.248 55.000 22.06 0.00 45.70 4.35
1542 2727 9.436957 AGAGATCAAACAAGTACATTTCGTTAT 57.563 29.630 0.00 0.00 0.00 1.89
1559 2744 5.010922 CCCAACAATCAACCAAGAGATCAAA 59.989 40.000 0.00 0.00 0.00 2.69
1614 2833 2.347731 GTTTTAGCTCCTCCTCAACGG 58.652 52.381 0.00 0.00 0.00 4.44
1629 2848 0.321298 GCGAGCTCACCCTGGTTTTA 60.321 55.000 15.40 0.00 0.00 1.52
1713 2934 0.539051 CCACACTCCCAGTCTCATCC 59.461 60.000 0.00 0.00 0.00 3.51
1791 3012 4.915099 GTCCATTTGACTCCGGTCTCCG 62.915 59.091 0.00 0.85 42.88 4.63
1792 3013 0.902531 TCCATTTGACTCCGGTCTCC 59.097 55.000 0.00 0.00 42.54 3.71
1816 3037 3.723348 GGTTGCGCACGAACTCCC 61.723 66.667 11.12 0.00 0.00 4.30
1917 3140 9.640963 CTTATGCATAGGGTAGTAGTGATTTAC 57.359 37.037 7.93 0.00 0.00 2.01
1918 3141 9.596308 TCTTATGCATAGGGTAGTAGTGATTTA 57.404 33.333 15.15 0.00 0.00 1.40
1919 3142 8.492415 TCTTATGCATAGGGTAGTAGTGATTT 57.508 34.615 15.15 0.00 0.00 2.17
1926 3149 5.839063 AGTTGCTCTTATGCATAGGGTAGTA 59.161 40.000 15.15 3.99 42.96 1.82
1934 3157 4.842574 TGTTGGAGTTGCTCTTATGCATA 58.157 39.130 1.16 1.16 42.96 3.14
2006 3230 2.680352 ATCCGTGTCCGTCTGGCT 60.680 61.111 0.00 0.00 34.14 4.75
2133 3361 7.921745 GTGGCCGGCTTTAATGTTTAATTAATA 59.078 33.333 28.56 0.00 0.00 0.98
2448 3684 1.641577 GCGAGTACGAGGAAATGCTT 58.358 50.000 0.00 0.00 42.66 3.91
2454 3690 1.214589 GCAAGGCGAGTACGAGGAA 59.785 57.895 0.00 0.00 42.66 3.36


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

AutoCloner maintained by Alex Coulton.