Multiple sequence alignment - TraesCS2B01G334100

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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 TraesCS2B01G334100 chr2B 100.000 2624 0 0 1 2624 477596967 477594344 0.000000e+00 4846.0
1 TraesCS2B01G334100 chr2B 90.392 791 51 12 484 1255 574921922 574922706 0.000000e+00 1016.0
2 TraesCS2B01G334100 chr2A 89.197 2203 119 53 1 2153 541837920 541835787 0.000000e+00 2639.0
3 TraesCS2B01G334100 chr2A 92.754 483 24 4 2152 2623 541835821 541835339 0.000000e+00 688.0
4 TraesCS2B01G334100 chr2D 88.792 1954 84 42 13 1911 403487292 403485419 0.000000e+00 2270.0
5 TraesCS2B01G334100 chr2D 93.750 512 20 4 2119 2621 403484491 403483983 0.000000e+00 758.0
6 TraesCS2B01G334100 chr2D 94.737 209 10 1 1979 2186 403484665 403484457 9.060000e-85 324.0
7 TraesCS2B01G334100 chr2D 100.000 35 0 0 2152 2186 403484524 403484490 6.060000e-07 65.8
8 TraesCS2B01G334100 chr4B 90.392 791 52 8 484 1255 351297538 351296753 0.000000e+00 1018.0
9 TraesCS2B01G334100 chr4B 89.207 454 30 6 488 926 257300444 257300893 1.370000e-152 549.0
10 TraesCS2B01G334100 chr4B 92.857 322 22 1 931 1251 257344351 257344672 1.420000e-127 466.0


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 TraesCS2B01G334100 chr2B 477594344 477596967 2623 True 4846.00 4846 100.00000 1 2624 1 chr2B.!!$R1 2623
1 TraesCS2B01G334100 chr2B 574921922 574922706 784 False 1016.00 1016 90.39200 484 1255 1 chr2B.!!$F1 771
2 TraesCS2B01G334100 chr2A 541835339 541837920 2581 True 1663.50 2639 90.97550 1 2623 2 chr2A.!!$R1 2622
3 TraesCS2B01G334100 chr2D 403483983 403487292 3309 True 854.45 2270 94.31975 13 2621 4 chr2D.!!$R1 2608
4 TraesCS2B01G334100 chr4B 351296753 351297538 785 True 1018.00 1018 90.39200 484 1255 1 chr4B.!!$R1 771

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
918 1064 0.250814 TTACCCGTTCGCCCAATTGT 60.251 50.0 4.43 0.0 0.0 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2000 2867 1.843368 TCGAACGGAGGGAGTACAAT 58.157 50.0 0.0 0.0 0.0 2.71 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
29 30 1.147824 CTGGCTGCCTACTCCATGG 59.852 63.158 21.03 4.97 0.00 3.66
30 31 2.335092 CTGGCTGCCTACTCCATGGG 62.335 65.000 21.03 5.22 0.00 4.00
31 32 2.378634 GGCTGCCTACTCCATGGGT 61.379 63.158 13.02 11.37 0.00 4.51
127 128 5.324832 AGGAAACAGGAAAAGAGAATGGA 57.675 39.130 0.00 0.00 0.00 3.41
267 280 4.054359 TCTTTAGCTTCCTCTGTCTCCT 57.946 45.455 0.00 0.00 0.00 3.69
298 311 6.749036 AATTAATCTGGAGTCGGATTAGGT 57.251 37.500 13.27 7.42 46.16 3.08
410 461 3.735029 GCACAGCTGCACTCTGGC 61.735 66.667 15.27 10.70 43.62 4.85
418 469 2.271497 GCACTCTGGCAGCTGGAT 59.729 61.111 17.12 0.00 0.00 3.41
422 473 1.298993 CTCTGGCAGCTGGATGTGT 59.701 57.895 17.12 0.00 0.00 3.72
447 498 2.597455 ACAACAACTCATTCCAAGGGG 58.403 47.619 0.00 0.00 0.00 4.79
461 512 5.052693 TCCAAGGGGAAGTGATGAATATG 57.947 43.478 0.00 0.00 41.32 1.78
462 513 4.726317 TCCAAGGGGAAGTGATGAATATGA 59.274 41.667 0.00 0.00 41.32 2.15
463 514 5.373555 TCCAAGGGGAAGTGATGAATATGAT 59.626 40.000 0.00 0.00 41.32 2.45
464 515 5.709164 CCAAGGGGAAGTGATGAATATGATC 59.291 44.000 0.00 0.00 35.59 2.92
465 516 6.466904 CCAAGGGGAAGTGATGAATATGATCT 60.467 42.308 0.00 0.00 35.59 2.75
466 517 7.256799 CCAAGGGGAAGTGATGAATATGATCTA 60.257 40.741 0.00 0.00 35.59 1.98
467 518 7.493499 AGGGGAAGTGATGAATATGATCTAG 57.507 40.000 0.00 0.00 0.00 2.43
468 519 7.251936 AGGGGAAGTGATGAATATGATCTAGA 58.748 38.462 0.00 0.00 0.00 2.43
469 520 7.399765 AGGGGAAGTGATGAATATGATCTAGAG 59.600 40.741 0.00 0.00 0.00 2.43
470 521 7.180051 GGGGAAGTGATGAATATGATCTAGAGT 59.820 40.741 0.00 0.00 0.00 3.24
471 522 8.592809 GGGAAGTGATGAATATGATCTAGAGTT 58.407 37.037 0.00 0.00 0.00 3.01
472 523 9.638239 GGAAGTGATGAATATGATCTAGAGTTC 57.362 37.037 0.00 0.00 0.00 3.01
484 535 7.678207 TGATCTAGAGTTCTAGTAGACTCCA 57.322 40.000 18.42 9.98 44.74 3.86
485 536 8.091952 TGATCTAGAGTTCTAGTAGACTCCAA 57.908 38.462 18.42 11.05 44.74 3.53
486 537 8.208224 TGATCTAGAGTTCTAGTAGACTCCAAG 58.792 40.741 18.42 16.58 44.74 3.61
487 538 6.891388 TCTAGAGTTCTAGTAGACTCCAAGG 58.109 44.000 18.42 10.90 44.74 3.61
488 539 4.862371 AGAGTTCTAGTAGACTCCAAGGG 58.138 47.826 18.42 0.00 0.00 3.95
489 540 4.540906 AGAGTTCTAGTAGACTCCAAGGGA 59.459 45.833 18.42 0.00 0.00 4.20
490 541 5.015391 AGAGTTCTAGTAGACTCCAAGGGAA 59.985 44.000 18.42 0.00 0.00 3.97
491 542 5.265989 AGTTCTAGTAGACTCCAAGGGAAG 58.734 45.833 0.00 0.00 0.00 3.46
492 543 4.949966 TCTAGTAGACTCCAAGGGAAGT 57.050 45.455 0.00 0.00 0.00 3.01
493 544 4.601084 TCTAGTAGACTCCAAGGGAAGTG 58.399 47.826 0.00 0.00 0.00 3.16
494 545 3.544698 AGTAGACTCCAAGGGAAGTGA 57.455 47.619 0.00 0.00 0.00 3.41
495 546 3.858135 AGTAGACTCCAAGGGAAGTGAA 58.142 45.455 0.00 0.00 0.00 3.18
499 550 3.913163 AGACTCCAAGGGAAGTGAAGATT 59.087 43.478 0.00 0.00 0.00 2.40
501 552 5.188751 AGACTCCAAGGGAAGTGAAGATTAG 59.811 44.000 0.00 0.00 0.00 1.73
512 563 8.527810 GGGAAGTGAAGATTAGTATGATCTAGG 58.472 40.741 0.00 0.00 33.63 3.02
556 658 2.351418 GCGTGTGCTGCTGTAATTATGA 59.649 45.455 0.00 0.00 38.39 2.15
586 695 3.118884 AGGTTTCACGTAATGGCGACTAT 60.119 43.478 0.00 0.00 35.59 2.12
606 715 1.686587 TGGACGATCATTGACGCCTAT 59.313 47.619 15.38 0.00 0.00 2.57
622 731 4.905269 CGCCTATAATTTTATAAGCGGCC 58.095 43.478 18.80 0.00 45.63 6.13
624 733 5.065988 CGCCTATAATTTTATAAGCGGCCAT 59.934 40.000 18.80 0.00 45.63 4.40
646 755 6.086241 CCATTTTCACGTTTACGATTTGACAG 59.914 38.462 9.53 0.00 43.02 3.51
875 1008 3.426568 GCACGGTCCTCTTGCAGC 61.427 66.667 2.86 0.00 36.22 5.25
908 1054 5.193679 TCTTACTACTACCCTTACCCGTTC 58.806 45.833 0.00 0.00 0.00 3.95
911 1057 1.142531 CTACCCTTACCCGTTCGCC 59.857 63.158 0.00 0.00 0.00 5.54
918 1064 0.250814 TTACCCGTTCGCCCAATTGT 60.251 50.000 4.43 0.00 0.00 2.71
1308 1462 3.532155 GGGACGGAGCTCGCTGAT 61.532 66.667 7.83 0.00 43.89 2.90
1373 1527 4.492160 CGGCGGCTGCTACGAGAA 62.492 66.667 18.85 0.00 42.25 2.87
1437 1591 2.997897 GCCGTGGACAGGAGGACT 60.998 66.667 0.00 0.00 0.00 3.85
1620 1774 2.256461 CTGTTCGCTTGCAAGGGC 59.744 61.111 32.39 22.01 38.70 5.19
1634 1788 1.900545 AAGGGCTGAAGAGGCGTACC 61.901 60.000 0.00 0.00 45.92 3.34
1636 1790 2.202756 GCTGAAGAGGCGTACCGG 60.203 66.667 0.00 0.00 42.76 5.28
1653 1807 4.465512 GCGGCGTCCATGCTTGTG 62.466 66.667 9.37 0.00 34.52 3.33
1656 1810 3.726517 GCGTCCATGCTTGTGCGT 61.727 61.111 12.19 0.00 43.34 5.24
1710 1864 2.288666 CGGGGAAGTGTGATGGTATTG 58.711 52.381 0.00 0.00 0.00 1.90
1769 1923 3.070429 GCACTGCTGTAATAATGTGCC 57.930 47.619 0.00 0.00 43.16 5.01
1901 2055 6.166279 TCAGAATAAGTTAGTGCAAGGTCAG 58.834 40.000 0.00 0.00 0.00 3.51
1956 2113 1.516161 CCGGCATACACATCCATGAG 58.484 55.000 0.00 0.00 0.00 2.90
1962 2119 4.441792 GCATACACATCCATGAGTACACA 58.558 43.478 0.00 0.00 36.84 3.72
1965 2122 4.350368 ACACATCCATGAGTACACAACA 57.650 40.909 0.00 0.00 29.82 3.33
1968 2125 6.472016 ACACATCCATGAGTACACAACATAA 58.528 36.000 0.00 0.00 29.82 1.90
1970 2127 5.880332 ACATCCATGAGTACACAACATAACC 59.120 40.000 0.00 0.00 0.00 2.85
2028 2896 4.251268 CTCCCTCCGTTCGAAAATAACTT 58.749 43.478 0.00 0.00 0.00 2.66
2050 2918 9.581099 AACTTACATGGTTTTAGTTTGAAACTG 57.419 29.630 20.06 4.66 42.84 3.16
2140 3008 8.910351 AAGCTAGTTTTGTATTCTTGAACTCT 57.090 30.769 0.00 0.00 33.13 3.24
2141 3009 8.316640 AGCTAGTTTTGTATTCTTGAACTCTG 57.683 34.615 0.00 0.00 33.13 3.35
2142 3010 8.150945 AGCTAGTTTTGTATTCTTGAACTCTGA 58.849 33.333 0.00 0.00 33.13 3.27
2143 3011 8.774586 GCTAGTTTTGTATTCTTGAACTCTGAA 58.225 33.333 0.00 0.00 33.13 3.02
2146 3014 8.078596 AGTTTTGTATTCTTGAACTCTGAATGC 58.921 33.333 0.00 0.00 34.79 3.56
2147 3015 6.500684 TTGTATTCTTGAACTCTGAATGCC 57.499 37.500 0.00 0.00 33.81 4.40
2148 3016 5.559770 TGTATTCTTGAACTCTGAATGCCA 58.440 37.500 0.00 0.00 33.81 4.92
2149 3017 6.003326 TGTATTCTTGAACTCTGAATGCCAA 58.997 36.000 0.00 0.00 33.81 4.52
2150 3018 4.836125 TTCTTGAACTCTGAATGCCAAC 57.164 40.909 0.00 0.00 0.00 3.77
2151 3019 3.149196 TCTTGAACTCTGAATGCCAACC 58.851 45.455 0.00 0.00 0.00 3.77
2152 3020 2.957402 TGAACTCTGAATGCCAACCT 57.043 45.000 0.00 0.00 0.00 3.50
2153 3021 4.041567 TCTTGAACTCTGAATGCCAACCTA 59.958 41.667 0.00 0.00 0.00 3.08
2154 3022 3.942829 TGAACTCTGAATGCCAACCTAG 58.057 45.455 0.00 0.00 0.00 3.02
2155 3023 3.327757 TGAACTCTGAATGCCAACCTAGT 59.672 43.478 0.00 0.00 0.00 2.57
2156 3024 4.202461 TGAACTCTGAATGCCAACCTAGTT 60.202 41.667 0.00 0.00 0.00 2.24
2157 3025 4.373156 ACTCTGAATGCCAACCTAGTTT 57.627 40.909 0.00 0.00 0.00 2.66
2158 3026 4.729868 ACTCTGAATGCCAACCTAGTTTT 58.270 39.130 0.00 0.00 0.00 2.43
2159 3027 4.520492 ACTCTGAATGCCAACCTAGTTTTG 59.480 41.667 0.00 0.00 0.00 2.44
2160 3028 4.469657 TCTGAATGCCAACCTAGTTTTGT 58.530 39.130 0.00 0.00 0.00 2.83
2161 3029 5.626142 TCTGAATGCCAACCTAGTTTTGTA 58.374 37.500 0.00 0.00 0.00 2.41
2162 3030 6.245408 TCTGAATGCCAACCTAGTTTTGTAT 58.755 36.000 0.00 0.00 0.00 2.29
2371 3309 8.769891 CCAAAACAATCAATTAAACCCTACAAC 58.230 33.333 0.00 0.00 0.00 3.32
2373 3311 6.262193 ACAATCAATTAAACCCTACAACCG 57.738 37.500 0.00 0.00 0.00 4.44
2387 3325 6.373495 ACCCTACAACCGAAACAAAATCTATC 59.627 38.462 0.00 0.00 0.00 2.08
2420 3358 6.743575 ATAATCAGGAAAGAAACTTGACGG 57.256 37.500 0.00 0.00 0.00 4.79
2567 3513 6.986904 ATTCCTTGCTTTTGTACTACTAGC 57.013 37.500 0.00 0.00 0.00 3.42
2601 3547 0.321298 GCTTAAAGGTGTCGGCCTCA 60.321 55.000 0.00 0.00 38.03 3.86
2617 3563 5.128827 TCGGCCTCATGAAGTTAATCTACTT 59.871 40.000 0.00 0.00 40.92 2.24
2623 3569 5.584649 TCATGAAGTTAATCTACTTTGCGGG 59.415 40.000 0.00 0.00 38.43 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 3.670377 GCTTCGCCAACCACCACC 61.670 66.667 0.00 0.00 0.00 4.61
30 31 4.025401 CGCTTCGCCAACCACCAC 62.025 66.667 0.00 0.00 0.00 4.16
31 32 4.243008 TCGCTTCGCCAACCACCA 62.243 61.111 0.00 0.00 0.00 4.17
127 128 2.018515 TGCTTTTCCGTCGGTTTCTTT 58.981 42.857 11.88 0.00 0.00 2.52
267 280 8.018537 TCCGACTCCAGATTAATTAAAGATGA 57.981 34.615 1.21 0.00 0.00 2.92
298 311 6.410388 CCAAAATCTAGATTAGCACCCCCTAA 60.410 42.308 18.23 0.00 0.00 2.69
402 453 1.025113 CACATCCAGCTGCCAGAGTG 61.025 60.000 8.66 8.27 0.00 3.51
403 454 1.298993 CACATCCAGCTGCCAGAGT 59.701 57.895 8.66 0.00 0.00 3.24
410 461 3.314913 TGTTGTTGTTACACATCCAGCTG 59.685 43.478 6.78 6.78 32.98 4.24
413 464 5.065859 TGAGTTGTTGTTGTTACACATCCAG 59.934 40.000 0.00 0.00 32.98 3.86
418 469 5.416013 TGGAATGAGTTGTTGTTGTTACACA 59.584 36.000 0.00 0.00 32.98 3.72
422 473 5.068460 CCCTTGGAATGAGTTGTTGTTGTTA 59.932 40.000 0.00 0.00 0.00 2.41
458 509 9.382307 TGGAGTCTACTAGAACTCTAGATCATA 57.618 37.037 18.52 2.23 46.80 2.15
459 510 8.270137 TGGAGTCTACTAGAACTCTAGATCAT 57.730 38.462 18.52 1.22 46.80 2.45
460 511 7.678207 TGGAGTCTACTAGAACTCTAGATCA 57.322 40.000 18.52 4.63 46.80 2.92
461 512 7.660208 CCTTGGAGTCTACTAGAACTCTAGATC 59.340 44.444 18.52 8.93 46.80 2.75
462 513 7.420913 CCCTTGGAGTCTACTAGAACTCTAGAT 60.421 44.444 18.52 7.23 46.80 1.98
463 514 6.126710 CCCTTGGAGTCTACTAGAACTCTAGA 60.127 46.154 18.52 0.00 46.80 2.43
464 515 7.583809 TTCCCTTGGAGTCTACTAGAACTCTAG 60.584 44.444 17.77 11.46 41.36 2.43
465 516 5.730207 TCCCTTGGAGTCTACTAGAACTCTA 59.270 44.000 17.77 12.55 0.00 2.43
466 517 4.540906 TCCCTTGGAGTCTACTAGAACTCT 59.459 45.833 17.77 4.18 0.00 3.24
467 518 4.857679 TCCCTTGGAGTCTACTAGAACTC 58.142 47.826 13.01 13.01 0.00 3.01
468 519 4.949966 TCCCTTGGAGTCTACTAGAACT 57.050 45.455 0.00 0.00 0.00 3.01
469 520 5.018149 ACTTCCCTTGGAGTCTACTAGAAC 58.982 45.833 0.00 0.00 31.21 3.01
470 521 5.017490 CACTTCCCTTGGAGTCTACTAGAA 58.983 45.833 0.00 0.00 31.21 2.10
471 522 4.291513 TCACTTCCCTTGGAGTCTACTAGA 59.708 45.833 0.00 0.00 31.21 2.43
472 523 4.601084 TCACTTCCCTTGGAGTCTACTAG 58.399 47.826 0.00 0.00 31.21 2.57
473 524 4.669866 TCACTTCCCTTGGAGTCTACTA 57.330 45.455 0.00 0.00 31.21 1.82
474 525 3.544698 TCACTTCCCTTGGAGTCTACT 57.455 47.619 0.00 0.00 31.21 2.57
475 526 3.833070 TCTTCACTTCCCTTGGAGTCTAC 59.167 47.826 0.00 0.00 31.21 2.59
476 527 4.127918 TCTTCACTTCCCTTGGAGTCTA 57.872 45.455 0.00 0.00 31.21 2.59
477 528 2.977808 TCTTCACTTCCCTTGGAGTCT 58.022 47.619 0.00 0.00 31.21 3.24
478 529 3.990959 ATCTTCACTTCCCTTGGAGTC 57.009 47.619 0.00 0.00 31.21 3.36
479 530 4.846940 ACTAATCTTCACTTCCCTTGGAGT 59.153 41.667 0.00 0.00 31.21 3.85
480 531 5.428184 ACTAATCTTCACTTCCCTTGGAG 57.572 43.478 0.00 0.00 31.21 3.86
481 532 6.672218 TCATACTAATCTTCACTTCCCTTGGA 59.328 38.462 0.00 0.00 0.00 3.53
482 533 6.889198 TCATACTAATCTTCACTTCCCTTGG 58.111 40.000 0.00 0.00 0.00 3.61
483 534 8.428063 AGATCATACTAATCTTCACTTCCCTTG 58.572 37.037 0.00 0.00 29.01 3.61
484 535 8.560124 AGATCATACTAATCTTCACTTCCCTT 57.440 34.615 0.00 0.00 29.01 3.95
485 536 9.308000 CTAGATCATACTAATCTTCACTTCCCT 57.692 37.037 0.00 0.00 35.20 4.20
486 537 8.527810 CCTAGATCATACTAATCTTCACTTCCC 58.472 40.741 0.00 0.00 35.20 3.97
487 538 8.032451 GCCTAGATCATACTAATCTTCACTTCC 58.968 40.741 0.00 0.00 35.20 3.46
488 539 8.802267 AGCCTAGATCATACTAATCTTCACTTC 58.198 37.037 0.00 0.00 35.20 3.01
489 540 8.719645 AGCCTAGATCATACTAATCTTCACTT 57.280 34.615 0.00 0.00 35.20 3.16
490 541 8.719645 AAGCCTAGATCATACTAATCTTCACT 57.280 34.615 0.00 0.00 35.20 3.41
491 542 8.802267 AGAAGCCTAGATCATACTAATCTTCAC 58.198 37.037 0.00 0.00 35.60 3.18
492 543 8.948401 AGAAGCCTAGATCATACTAATCTTCA 57.052 34.615 0.00 0.00 35.60 3.02
512 563 3.610585 CGTCCTCGGATGAATCTAGAAGC 60.611 52.174 0.00 0.00 33.22 3.86
556 658 5.583457 GCCATTACGTGAAACCTACTTATGT 59.417 40.000 0.00 0.00 0.00 2.29
586 695 1.107945 TAGGCGTCAATGATCGTCCA 58.892 50.000 14.78 0.27 31.78 4.02
606 715 6.693545 CGTGAAAATGGCCGCTTATAAAATTA 59.306 34.615 0.00 0.00 0.00 1.40
622 731 6.397480 GCTGTCAAATCGTAAACGTGAAAATG 60.397 38.462 2.02 0.00 40.80 2.32
624 733 4.965158 GCTGTCAAATCGTAAACGTGAAAA 59.035 37.500 2.02 0.00 40.80 2.29
646 755 1.334869 CCACGGCATTCTTAATCAGGC 59.665 52.381 0.00 0.00 0.00 4.85
875 1008 2.533266 AGTAGTAAGATGCATGGGCG 57.467 50.000 2.46 0.00 45.35 6.13
918 1064 1.610038 CAACTGCAAGAGGACAATGCA 59.390 47.619 0.00 0.00 46.97 3.96
1086 1237 2.328099 CCTGCCGTCCTTGTGCTTC 61.328 63.158 0.00 0.00 0.00 3.86
1356 1510 4.492160 TTCTCGTAGCAGCCGCCG 62.492 66.667 0.00 0.00 39.83 6.46
1390 1544 3.394836 GCACGGCTTCCTCTCCCT 61.395 66.667 0.00 0.00 0.00 4.20
1437 1591 4.064768 TCCTCCCGGGGCTCGTAA 62.065 66.667 23.50 0.00 37.11 3.18
1636 1790 4.465512 CACAAGCATGGACGCCGC 62.466 66.667 0.00 0.00 0.00 6.53
1639 1793 3.726517 ACGCACAAGCATGGACGC 61.727 61.111 5.88 0.00 42.27 5.19
1641 1795 1.081906 CACACGCACAAGCATGGAC 60.082 57.895 0.00 0.00 38.49 4.02
1642 1796 2.906939 GCACACGCACAAGCATGGA 61.907 57.895 0.00 0.00 38.49 3.41
1643 1797 2.429571 GCACACGCACAAGCATGG 60.430 61.111 0.00 0.00 38.49 3.66
1644 1798 2.797850 CGCACACGCACAAGCATG 60.798 61.111 0.00 0.00 40.38 4.06
1656 1810 3.413861 GCACGACAGATGCGCACA 61.414 61.111 14.90 0.00 32.45 4.57
1710 1864 7.861176 TGAACAAAAATTAACTTATCACGCC 57.139 32.000 0.00 0.00 0.00 5.68
1807 1961 5.099484 ACAGCGAAATATATACACGACGA 57.901 39.130 0.00 0.00 0.00 4.20
1845 1999 3.639094 CTGAACTGAGGATAGGTTCGGAT 59.361 47.826 7.80 0.00 44.44 4.18
1846 2000 3.024547 CTGAACTGAGGATAGGTTCGGA 58.975 50.000 7.80 0.00 44.44 4.55
1901 2055 5.978919 TCAATCAGACAAACAAACTCAATGC 59.021 36.000 0.00 0.00 0.00 3.56
2000 2867 1.843368 TCGAACGGAGGGAGTACAAT 58.157 50.000 0.00 0.00 0.00 2.71
2028 2896 8.185505 GTGACAGTTTCAAACTAAAACCATGTA 58.814 33.333 1.43 0.00 40.46 2.29
2130 2998 3.149196 GGTTGGCATTCAGAGTTCAAGA 58.851 45.455 0.00 0.00 0.00 3.02
2131 2999 3.152341 AGGTTGGCATTCAGAGTTCAAG 58.848 45.455 0.00 0.00 0.00 3.02
2132 3000 3.228188 AGGTTGGCATTCAGAGTTCAA 57.772 42.857 0.00 0.00 0.00 2.69
2133 3001 2.957402 AGGTTGGCATTCAGAGTTCA 57.043 45.000 0.00 0.00 0.00 3.18
2134 3002 3.944087 ACTAGGTTGGCATTCAGAGTTC 58.056 45.455 0.00 0.00 0.00 3.01
2135 3003 4.373156 AACTAGGTTGGCATTCAGAGTT 57.627 40.909 0.00 0.00 0.00 3.01
2136 3004 4.373156 AAACTAGGTTGGCATTCAGAGT 57.627 40.909 0.00 0.00 0.00 3.24
2137 3005 4.520492 ACAAAACTAGGTTGGCATTCAGAG 59.480 41.667 11.73 0.00 0.00 3.35
2138 3006 4.469657 ACAAAACTAGGTTGGCATTCAGA 58.530 39.130 11.73 0.00 0.00 3.27
2139 3007 4.853924 ACAAAACTAGGTTGGCATTCAG 57.146 40.909 11.73 0.00 0.00 3.02
2140 3008 6.719370 AGAATACAAAACTAGGTTGGCATTCA 59.281 34.615 19.04 0.00 35.78 2.57
2141 3009 7.158099 AGAATACAAAACTAGGTTGGCATTC 57.842 36.000 11.60 11.60 34.73 2.67
2142 3010 7.232534 TCAAGAATACAAAACTAGGTTGGCATT 59.767 33.333 11.73 3.56 0.00 3.56
2143 3011 6.719370 TCAAGAATACAAAACTAGGTTGGCAT 59.281 34.615 11.73 0.00 0.00 4.40
2144 3012 6.065374 TCAAGAATACAAAACTAGGTTGGCA 58.935 36.000 11.73 0.00 0.00 4.92
2145 3013 6.569179 TCAAGAATACAAAACTAGGTTGGC 57.431 37.500 11.73 0.00 0.00 4.52
2146 3014 9.626045 GAATTCAAGAATACAAAACTAGGTTGG 57.374 33.333 11.73 3.48 0.00 3.77
2149 3017 9.793259 TCAGAATTCAAGAATACAAAACTAGGT 57.207 29.630 8.44 0.00 0.00 3.08
2153 3021 9.415544 GCATTCAGAATTCAAGAATACAAAACT 57.584 29.630 19.47 1.50 31.26 2.66
2154 3022 8.650714 GGCATTCAGAATTCAAGAATACAAAAC 58.349 33.333 19.47 9.58 31.26 2.43
2155 3023 8.366401 TGGCATTCAGAATTCAAGAATACAAAA 58.634 29.630 19.47 7.13 31.26 2.44
2156 3024 7.894708 TGGCATTCAGAATTCAAGAATACAAA 58.105 30.769 19.47 8.84 31.26 2.83
2157 3025 7.465353 TGGCATTCAGAATTCAAGAATACAA 57.535 32.000 19.47 9.91 31.26 2.41
2158 3026 7.315142 GTTGGCATTCAGAATTCAAGAATACA 58.685 34.615 19.47 18.05 31.26 2.29
2159 3027 6.753744 GGTTGGCATTCAGAATTCAAGAATAC 59.246 38.462 19.47 15.74 31.26 1.89
2160 3028 6.664816 AGGTTGGCATTCAGAATTCAAGAATA 59.335 34.615 19.47 7.68 31.26 1.75
2161 3029 5.482878 AGGTTGGCATTCAGAATTCAAGAAT 59.517 36.000 16.11 16.11 32.53 2.40
2162 3030 4.834496 AGGTTGGCATTCAGAATTCAAGAA 59.166 37.500 8.44 11.51 0.00 2.52
2225 3162 3.311871 GCATTGCACCAAACAAACATTGA 59.688 39.130 3.15 0.00 0.00 2.57
2346 3283 8.769891 GGTTGTAGGGTTTAATTGATTGTTTTG 58.230 33.333 0.00 0.00 0.00 2.44
2363 3301 6.373216 TGATAGATTTTGTTTCGGTTGTAGGG 59.627 38.462 0.00 0.00 0.00 3.53
2401 3339 2.436542 TCCCGTCAAGTTTCTTTCCTGA 59.563 45.455 0.00 0.00 0.00 3.86
2418 3356 1.990563 GTGATACGTGTCAAACTCCCG 59.009 52.381 17.08 0.00 0.00 5.14
2420 3358 4.557205 AGAAGTGATACGTGTCAAACTCC 58.443 43.478 17.08 4.22 0.00 3.85
2519 3465 2.122564 CATGTCGTGTCCTGATGATCG 58.877 52.381 0.00 0.00 0.00 3.69


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

AutoCloner maintained by Alex Coulton.