Multiple sequence alignment - TraesCS2B01G367200

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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 TraesCS2B01G367200 chr2B 100.000 2839 0 0 1 2839 523524655 523527493 0.000000e+00 5243.0
1 TraesCS2B01G367200 chr2D 90.489 2271 130 37 420 2626 445387263 445389511 0.000000e+00 2918.0
2 TraesCS2B01G367200 chr2D 87.500 272 19 5 113 371 445386802 445387071 1.650000e-77 300.0
3 TraesCS2B01G367200 chr2D 96.923 65 1 1 2 65 445386560 445386624 1.080000e-19 108.0
4 TraesCS2B01G367200 chr2D 100.000 32 0 0 83 114 445386610 445386641 3.050000e-05 60.2
5 TraesCS2B01G367200 chr2A 87.328 2470 197 54 421 2839 587735469 587737873 0.000000e+00 2721.0
6 TraesCS2B01G367200 chr2A 91.134 1331 62 22 737 2025 610660339 610661655 0.000000e+00 1753.0
7 TraesCS2B01G367200 chr2A 84.637 703 74 22 2024 2717 610662158 610662835 0.000000e+00 669.0
8 TraesCS2B01G367200 chr2A 93.210 324 19 2 420 740 610646085 610646408 9.200000e-130 473.0
9 TraesCS2B01G367200 chr2A 94.932 296 13 2 102 397 610645732 610646025 1.990000e-126 462.0
10 TraesCS2B01G367200 chr2A 88.657 335 16 5 84 397 587735076 587735409 3.430000e-104 388.0
11 TraesCS2B01G367200 chr6B 85.552 353 31 12 1595 1934 145901035 145900690 4.500000e-93 351.0


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 TraesCS2B01G367200 chr2B 523524655 523527493 2838 False 5243.00 5243 100.0000 1 2839 1 chr2B.!!$F1 2838
1 TraesCS2B01G367200 chr2D 445386560 445389511 2951 False 846.55 2918 93.7280 2 2626 4 chr2D.!!$F1 2624
2 TraesCS2B01G367200 chr2A 587735076 587737873 2797 False 1554.50 2721 87.9925 84 2839 2 chr2A.!!$F1 2755
3 TraesCS2B01G367200 chr2A 610660339 610662835 2496 False 1211.00 1753 87.8855 737 2717 2 chr2A.!!$F3 1980
4 TraesCS2B01G367200 chr2A 610645732 610646408 676 False 467.50 473 94.0710 102 740 2 chr2A.!!$F2 638

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
456 785 0.393267 GTACCCAACTGGCGGCATAA 60.393 55.0 13.85 0.0 37.83 1.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2426 3374 0.179056 AACTGTCCACCGACACAAGG 60.179 55.0 0.0 0.0 44.2 3.61 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
67 69 6.630444 AAGATGAACATCATATTGAGTGCC 57.370 37.500 15.63 0.00 36.98 5.01
68 70 5.068636 AGATGAACATCATATTGAGTGCCC 58.931 41.667 15.63 0.00 37.20 5.36
69 71 3.554934 TGAACATCATATTGAGTGCCCC 58.445 45.455 0.00 0.00 0.00 5.80
70 72 3.202818 TGAACATCATATTGAGTGCCCCT 59.797 43.478 0.00 0.00 0.00 4.79
71 73 3.498774 ACATCATATTGAGTGCCCCTC 57.501 47.619 0.00 0.00 40.89 4.30
72 74 8.338289 ATGAACATCATATTGAGTGCCCCTCA 62.338 42.308 0.00 0.00 40.91 3.86
73 75 9.713027 ATGAACATCATATTGAGTGCCCCTCAA 62.713 40.741 15.71 15.71 44.94 3.02
118 282 9.176460 TGAGTTTCATGCATGAGACATAATTAA 57.824 29.630 37.33 21.59 42.47 1.40
200 364 2.812591 CTCATGATATCCCTGCAAGTGC 59.187 50.000 0.00 0.00 42.50 4.40
346 529 9.061435 GTAACCTCGTGATAAGGTAAGTAGTAT 57.939 37.037 0.00 0.00 46.54 2.12
349 532 8.654997 ACCTCGTGATAAGGTAAGTAGTATAGA 58.345 37.037 0.00 0.00 45.40 1.98
397 689 1.079825 TCTTTGCCCTACCCCTCTGTA 59.920 52.381 0.00 0.00 0.00 2.74
398 690 1.913419 CTTTGCCCTACCCCTCTGTAA 59.087 52.381 0.00 0.00 0.00 2.41
399 691 1.282382 TTGCCCTACCCCTCTGTAAC 58.718 55.000 0.00 0.00 0.00 2.50
401 693 1.121378 GCCCTACCCCTCTGTAACTC 58.879 60.000 0.00 0.00 0.00 3.01
402 694 1.621622 GCCCTACCCCTCTGTAACTCA 60.622 57.143 0.00 0.00 0.00 3.41
403 695 2.829023 CCCTACCCCTCTGTAACTCAA 58.171 52.381 0.00 0.00 0.00 3.02
404 696 3.385115 CCCTACCCCTCTGTAACTCAAT 58.615 50.000 0.00 0.00 0.00 2.57
405 697 3.134804 CCCTACCCCTCTGTAACTCAATG 59.865 52.174 0.00 0.00 0.00 2.82
406 698 2.789409 ACCCCTCTGTAACTCAATGC 57.211 50.000 0.00 0.00 0.00 3.56
409 701 2.026822 CCCCTCTGTAACTCAATGCAGT 60.027 50.000 0.00 0.00 34.96 4.40
410 702 3.005554 CCCTCTGTAACTCAATGCAGTG 58.994 50.000 8.08 8.08 34.96 3.66
412 704 3.557898 CCTCTGTAACTCAATGCAGTGGT 60.558 47.826 15.06 8.33 39.98 4.16
413 705 3.664107 TCTGTAACTCAATGCAGTGGTC 58.336 45.455 15.06 1.56 34.96 4.02
414 706 3.324846 TCTGTAACTCAATGCAGTGGTCT 59.675 43.478 15.06 1.27 34.96 3.85
415 707 3.664107 TGTAACTCAATGCAGTGGTCTC 58.336 45.455 15.06 8.28 0.00 3.36
416 708 3.324846 TGTAACTCAATGCAGTGGTCTCT 59.675 43.478 15.06 0.00 0.00 3.10
417 709 4.526650 TGTAACTCAATGCAGTGGTCTCTA 59.473 41.667 15.06 0.00 0.00 2.43
455 784 1.222387 GTACCCAACTGGCGGCATA 59.778 57.895 13.85 0.00 37.83 3.14
456 785 0.393267 GTACCCAACTGGCGGCATAA 60.393 55.000 13.85 0.00 37.83 1.90
735 1075 5.554822 TGCCGTTTCCATTATTGTTACTC 57.445 39.130 0.00 0.00 0.00 2.59
824 1168 6.443849 ACCAGACACCCTTCTGAATAGATAAA 59.556 38.462 1.60 0.00 45.19 1.40
825 1169 7.127955 ACCAGACACCCTTCTGAATAGATAAAT 59.872 37.037 1.60 0.00 45.19 1.40
870 1214 2.035576 ACCTCTGAACCAACGACTACAC 59.964 50.000 0.00 0.00 0.00 2.90
871 1215 2.035449 CCTCTGAACCAACGACTACACA 59.965 50.000 0.00 0.00 0.00 3.72
872 1216 3.309388 CTCTGAACCAACGACTACACAG 58.691 50.000 0.00 0.00 0.00 3.66
873 1217 2.691526 TCTGAACCAACGACTACACAGT 59.308 45.455 0.00 0.00 37.87 3.55
875 1219 3.191669 TGAACCAACGACTACACAGTTG 58.808 45.455 0.00 1.05 43.31 3.16
893 1237 7.126398 CACAGTTGTAAAGTCAGCTTTTACTC 58.874 38.462 16.57 11.35 41.78 2.59
894 1238 6.260271 ACAGTTGTAAAGTCAGCTTTTACTCC 59.740 38.462 16.57 9.47 41.78 3.85
899 1243 3.686916 AGTCAGCTTTTACTCCAGACC 57.313 47.619 0.00 0.00 0.00 3.85
902 1246 2.631062 TCAGCTTTTACTCCAGACCGAA 59.369 45.455 0.00 0.00 0.00 4.30
1023 1367 2.885135 TGATGACTCAAGTGGCCAAT 57.115 45.000 7.24 1.65 0.00 3.16
1078 1422 3.441290 GGAAGCAGCAGCAGCAGG 61.441 66.667 12.92 0.00 45.49 4.85
1079 1423 4.117661 GAAGCAGCAGCAGCAGGC 62.118 66.667 12.92 6.76 45.49 4.85
1219 1582 3.610040 AGTTTGCACATCGACCTCATA 57.390 42.857 0.00 0.00 0.00 2.15
1257 1629 5.067544 TGCTGAAGTGATTTTGTTGTGATCA 59.932 36.000 0.00 0.00 0.00 2.92
1271 1643 4.356405 TGTGATCAAGCAGGAGAAGAAA 57.644 40.909 0.00 0.00 0.00 2.52
1359 1731 1.875009 CTTCTGCAGTGTCTTGCTCA 58.125 50.000 14.67 0.00 44.38 4.26
1406 1779 4.439057 GCCTGCAATGAATGATTGTTGAT 58.561 39.130 4.61 0.00 43.17 2.57
1428 1801 7.613585 TGATTTGAGCATATTTGGTTGTGAAT 58.386 30.769 0.00 0.00 32.62 2.57
1483 1872 1.482593 CCTCGGGCTACATCAAGTTCT 59.517 52.381 0.00 0.00 0.00 3.01
1561 1950 2.650116 GCCGAGCCTGAGGTGAGAA 61.650 63.158 0.00 0.00 0.00 2.87
1590 1979 2.870411 ACGCTGTTATTTTAGCCGATCC 59.130 45.455 0.00 0.00 36.60 3.36
1592 1981 3.184581 CGCTGTTATTTTAGCCGATCCTC 59.815 47.826 0.00 0.00 36.60 3.71
1715 2129 4.152647 TCTTATACTGGTCGATGCAGGAT 58.847 43.478 0.00 0.00 0.00 3.24
1906 2325 1.125633 GCAGGGGTAGAATTCCGGTA 58.874 55.000 0.00 0.00 0.00 4.02
1968 2394 3.781846 ACACAATCGTTTCGTTTCGTTTG 59.218 39.130 13.31 13.31 40.34 2.93
1974 2400 2.209393 CGTTTCGTTTCGTTTGGTTTCG 59.791 45.455 0.00 0.00 0.00 3.46
1975 2401 3.162831 GTTTCGTTTCGTTTGGTTTCGT 58.837 40.909 0.00 0.00 0.00 3.85
1976 2402 3.468304 TTCGTTTCGTTTGGTTTCGTT 57.532 38.095 0.00 0.00 0.00 3.85
1977 2403 3.468304 TCGTTTCGTTTGGTTTCGTTT 57.532 38.095 0.00 0.00 0.00 3.60
1978 2404 3.415370 TCGTTTCGTTTGGTTTCGTTTC 58.585 40.909 0.00 0.00 0.00 2.78
2106 3037 2.279851 TCGTTGCGTGGGTGACTG 60.280 61.111 0.00 0.00 0.00 3.51
2109 3040 2.203139 TTGCGTGGGTGACTGTGG 60.203 61.111 0.00 0.00 0.00 4.17
2124 3064 2.038033 ACTGTGGTTAACATGGTAGCGT 59.962 45.455 8.10 0.00 38.39 5.07
2137 3077 0.319555 GTAGCGTCCTGTTGCTGTCA 60.320 55.000 0.00 0.00 42.46 3.58
2141 3081 1.961277 GTCCTGTTGCTGTCACCGG 60.961 63.158 0.00 0.00 0.00 5.28
2213 3153 8.996655 TCAACCCTTGTAGTACTAGAGAGTATA 58.003 37.037 12.62 0.00 40.32 1.47
2360 3308 3.634397 TCTTAAATCAGTGAGCAGGGG 57.366 47.619 0.00 0.00 0.00 4.79
2362 3310 0.255890 TAAATCAGTGAGCAGGGGCC 59.744 55.000 0.00 0.00 42.56 5.80
2363 3311 1.792757 AAATCAGTGAGCAGGGGCCA 61.793 55.000 4.39 0.00 42.56 5.36
2364 3312 1.792757 AATCAGTGAGCAGGGGCCAA 61.793 55.000 4.39 0.00 42.56 4.52
2366 3314 1.304713 CAGTGAGCAGGGGCCAAAT 60.305 57.895 4.39 0.00 42.56 2.32
2368 3316 2.681064 TGAGCAGGGGCCAAATGC 60.681 61.111 17.05 17.05 42.56 3.56
2396 3344 1.410153 GCATGTGGTTGATTGGGGATC 59.590 52.381 0.00 0.00 35.21 3.36
2409 3357 3.464720 TGGGGATCAATGCTAAAACCA 57.535 42.857 0.00 0.00 0.00 3.67
2420 3368 3.081061 TGCTAAAACCAGCATGTAGGTG 58.919 45.455 11.25 1.82 46.41 4.00
2426 3374 1.815421 CAGCATGTAGGTGGTCGGC 60.815 63.158 0.00 0.00 41.98 5.54
2467 3415 1.019278 TGAAATCAGCGAACGGAGCC 61.019 55.000 0.00 0.00 34.64 4.70
2468 3416 1.003839 AAATCAGCGAACGGAGCCA 60.004 52.632 0.00 0.00 34.64 4.75
2491 3439 1.435577 ATACTCCCGCACGTGTTTTC 58.564 50.000 18.38 0.00 0.00 2.29
2508 3456 3.350219 TTTCAGGGTAGAGGCATGAAC 57.650 47.619 0.00 0.00 30.07 3.18
2515 3467 2.541556 GTAGAGGCATGAACGAAGACC 58.458 52.381 0.00 0.00 0.00 3.85
2516 3468 0.108615 AGAGGCATGAACGAAGACCG 60.109 55.000 0.00 0.00 45.44 4.79
2517 3469 1.079127 AGGCATGAACGAAGACCGG 60.079 57.895 0.00 0.00 43.93 5.28
2518 3470 1.079405 GGCATGAACGAAGACCGGA 60.079 57.895 9.46 0.00 43.93 5.14
2519 3471 1.359459 GGCATGAACGAAGACCGGAC 61.359 60.000 9.46 0.10 43.93 4.79
2520 3472 1.359459 GCATGAACGAAGACCGGACC 61.359 60.000 9.46 0.00 43.93 4.46
2521 3473 0.739813 CATGAACGAAGACCGGACCC 60.740 60.000 9.46 0.00 43.93 4.46
2522 3474 1.189524 ATGAACGAAGACCGGACCCA 61.190 55.000 9.46 0.00 43.93 4.51
2523 3475 1.368579 GAACGAAGACCGGACCCAA 59.631 57.895 9.46 0.00 43.93 4.12
2524 3476 0.947660 GAACGAAGACCGGACCCAAC 60.948 60.000 9.46 0.00 43.93 3.77
2525 3477 2.047560 CGAAGACCGGACCCAACC 60.048 66.667 9.46 0.00 33.91 3.77
2549 3507 2.108168 CCCAAGTAGATCCACCGAAGA 58.892 52.381 0.00 0.00 0.00 2.87
2551 3509 2.761208 CCAAGTAGATCCACCGAAGACT 59.239 50.000 0.00 0.00 0.00 3.24
2558 3516 4.857679 AGATCCACCGAAGACTTAGTACT 58.142 43.478 0.00 0.00 0.00 2.73
2571 3529 3.004524 ACTTAGTACTGATCGAATCCCGC 59.995 47.826 5.39 0.00 38.37 6.13
2577 3535 0.673985 TGATCGAATCCCGCGAGATT 59.326 50.000 16.22 16.22 41.49 2.40
2607 3565 1.737793 CACGCCTTTACATGTCCTTCC 59.262 52.381 0.00 0.00 0.00 3.46
2613 3571 4.141287 CCTTTACATGTCCTTCCACAACA 58.859 43.478 0.00 0.00 0.00 3.33
2619 3577 4.287067 ACATGTCCTTCCACAACACTAGAT 59.713 41.667 0.00 0.00 0.00 1.98
2627 3585 3.261643 TCCACAACACTAGATGCATCACT 59.738 43.478 27.81 11.41 0.00 3.41
2629 3587 4.248058 CACAACACTAGATGCATCACTGA 58.752 43.478 27.81 9.58 0.00 3.41
2631 3589 4.934001 ACAACACTAGATGCATCACTGAAG 59.066 41.667 27.81 17.43 0.00 3.02
2633 3591 3.055602 ACACTAGATGCATCACTGAAGCA 60.056 43.478 27.81 11.17 40.45 3.91
2634 3592 3.937079 CACTAGATGCATCACTGAAGCAA 59.063 43.478 27.81 0.00 39.63 3.91
2671 3630 5.536497 ACCTTATTCCATTTTCTGGGAGT 57.464 39.130 0.00 0.00 45.98 3.85
2683 3642 2.241885 CTGGGAGTCGTCGTCGTCTG 62.242 65.000 6.55 0.00 35.84 3.51
2692 3651 2.290367 TCGTCGTCGTCTGGTCTTTTTA 59.710 45.455 1.33 0.00 38.33 1.52
2702 3661 4.762251 GTCTGGTCTTTTTAAGCAGGACAT 59.238 41.667 2.86 0.00 41.45 3.06
2705 3664 6.655003 TCTGGTCTTTTTAAGCAGGACATAAG 59.345 38.462 2.86 0.00 41.45 1.73
2749 3708 1.265454 AAAACGGAGCGGGATCCTCT 61.265 55.000 12.58 9.24 37.20 3.69
2751 3710 2.519541 CGGAGCGGGATCCTCTCA 60.520 66.667 25.33 0.00 37.20 3.27
2755 3714 0.891449 GAGCGGGATCCTCTCATCGA 60.891 60.000 21.74 0.00 0.00 3.59
2759 3718 1.409064 CGGGATCCTCTCATCGACAAA 59.591 52.381 12.58 0.00 0.00 2.83
2760 3719 2.544694 CGGGATCCTCTCATCGACAAAG 60.545 54.545 12.58 0.00 0.00 2.77
2762 3721 2.478831 GATCCTCTCATCGACAAAGGC 58.521 52.381 0.00 0.00 0.00 4.35
2766 3726 1.815421 CTCATCGACAAAGGCCGGG 60.815 63.158 2.18 0.00 0.00 5.73
2771 3731 2.355115 GACAAAGGCCGGGTCCAT 59.645 61.111 2.18 0.00 0.00 3.41
2784 3744 0.830648 GGTCCATCGTTCCTCCATGA 59.169 55.000 0.00 0.00 0.00 3.07
2790 3750 1.481871 TCGTTCCTCCATGACCCTAC 58.518 55.000 0.00 0.00 0.00 3.18
2796 3756 2.189521 CCATGACCCTACGCCCAC 59.810 66.667 0.00 0.00 0.00 4.61
2798 3758 2.285069 ATGACCCTACGCCCACCA 60.285 61.111 0.00 0.00 0.00 4.17
2801 3761 2.683933 ACCCTACGCCCACCAGAG 60.684 66.667 0.00 0.00 0.00 3.35
2809 3769 2.997315 CCCACCAGAGACGAGGCA 60.997 66.667 0.00 0.00 0.00 4.75
2811 3771 2.575993 CACCAGAGACGAGGCAGG 59.424 66.667 0.00 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.712337 AGTTGGTCCACCATGTGTTAAAAA 59.288 37.500 0.00 0.00 46.97 1.94
26 27 8.613482 GTTCATCTTGTTAGAAATAGCCCTAAC 58.387 37.037 0.00 0.00 42.91 2.34
77 79 8.928733 GCATGAAACTCAATATGATGTTTTTGT 58.071 29.630 0.00 0.00 32.24 2.83
78 80 8.927721 TGCATGAAACTCAATATGATGTTTTTG 58.072 29.630 0.00 0.00 32.24 2.44
79 81 9.661563 ATGCATGAAACTCAATATGATGTTTTT 57.338 25.926 0.00 0.00 32.24 1.94
80 82 9.093970 CATGCATGAAACTCAATATGATGTTTT 57.906 29.630 22.59 0.00 32.24 2.43
81 83 8.471609 TCATGCATGAAACTCAATATGATGTTT 58.528 29.630 26.87 0.00 33.61 2.83
82 84 8.002984 TCATGCATGAAACTCAATATGATGTT 57.997 30.769 26.87 0.00 33.08 2.71
118 282 1.740297 TTGTGCACAGTACACGGTTT 58.260 45.000 20.59 0.00 41.03 3.27
200 364 2.607187 AGATAACGTGCGAGTCCAAAG 58.393 47.619 0.00 0.00 0.00 2.77
265 448 3.036429 ATCAGGAAGCAGACCGGGC 62.036 63.158 6.32 0.52 0.00 6.13
346 529 6.540189 GGTACTATTCCACTGTTCGTAGTCTA 59.460 42.308 0.00 0.00 0.00 2.59
349 532 5.012239 TGGTACTATTCCACTGTTCGTAGT 58.988 41.667 0.00 0.00 0.00 2.73
357 540 7.542130 GCAAAGAAAAATGGTACTATTCCACTG 59.458 37.037 4.79 0.84 37.81 3.66
397 689 4.319177 GTTAGAGACCACTGCATTGAGTT 58.681 43.478 5.49 0.00 0.00 3.01
398 690 3.931578 GTTAGAGACCACTGCATTGAGT 58.068 45.455 5.49 1.86 0.00 3.41
412 704 3.967987 GGCCCTTATCTGAAGGTTAGAGA 59.032 47.826 0.00 0.00 35.65 3.10
413 705 3.711704 TGGCCCTTATCTGAAGGTTAGAG 59.288 47.826 0.00 0.00 35.65 2.43
414 706 3.731431 TGGCCCTTATCTGAAGGTTAGA 58.269 45.455 0.00 0.00 35.65 2.10
415 707 4.080299 ACTTGGCCCTTATCTGAAGGTTAG 60.080 45.833 0.00 0.00 35.65 2.34
416 708 3.850173 ACTTGGCCCTTATCTGAAGGTTA 59.150 43.478 0.00 0.00 35.65 2.85
417 709 2.649816 ACTTGGCCCTTATCTGAAGGTT 59.350 45.455 0.00 0.00 35.65 3.50
424 753 2.241430 GTTGGGTACTTGGCCCTTATCT 59.759 50.000 0.00 0.00 46.22 1.98
682 1014 2.236146 ACGGTCAAAGGTATCATGAGCA 59.764 45.455 0.09 0.00 40.60 4.26
735 1075 1.298713 CCTACTAGACTGCTGCGCG 60.299 63.158 0.00 0.00 0.00 6.86
776 1120 6.349363 GGTTTCAGTCTCAGACAAACAAAACT 60.349 38.462 17.93 0.00 33.21 2.66
825 1169 4.335416 GGTTTCATGGAAATCACTCTCCA 58.665 43.478 0.00 0.00 45.65 3.86
870 1214 6.260050 TGGAGTAAAAGCTGACTTTACAACTG 59.740 38.462 17.55 0.00 45.48 3.16
871 1215 6.354130 TGGAGTAAAAGCTGACTTTACAACT 58.646 36.000 17.55 3.52 45.48 3.16
872 1216 6.482308 TCTGGAGTAAAAGCTGACTTTACAAC 59.518 38.462 17.55 11.72 45.48 3.32
873 1217 6.482308 GTCTGGAGTAAAAGCTGACTTTACAA 59.518 38.462 17.55 6.10 45.48 2.41
875 1219 5.408909 GGTCTGGAGTAAAAGCTGACTTTAC 59.591 44.000 10.32 10.32 45.48 2.01
876 1220 5.548406 GGTCTGGAGTAAAAGCTGACTTTA 58.452 41.667 0.00 0.00 45.48 1.85
893 1237 0.179097 GAGCTAAGCCTTCGGTCTGG 60.179 60.000 1.31 0.00 0.00 3.86
894 1238 0.526524 CGAGCTAAGCCTTCGGTCTG 60.527 60.000 6.61 0.00 0.00 3.51
899 1243 3.250280 TGACTATACGAGCTAAGCCTTCG 59.750 47.826 0.00 0.00 40.02 3.79
902 1246 5.314529 TGTATGACTATACGAGCTAAGCCT 58.685 41.667 0.00 0.00 41.68 4.58
906 1250 7.350467 CGTTTCTGTATGACTATACGAGCTAA 58.650 38.462 0.00 0.00 41.68 3.09
971 1315 1.068753 CGCTACTGCTGCTGGCTAT 59.931 57.895 11.29 0.00 42.39 2.97
992 1336 5.662208 ACTTGAGTCATCATCATCTTCCTCT 59.338 40.000 0.00 0.00 34.73 3.69
1023 1367 0.836606 TGTGGTTCCTCTTGCTGTGA 59.163 50.000 0.00 0.00 0.00 3.58
1219 1582 4.697352 CACTTCAGCAGCTAATTTACAGGT 59.303 41.667 0.00 0.00 0.00 4.00
1257 1629 3.137360 ACCTTGTCTTTCTTCTCCTGCTT 59.863 43.478 0.00 0.00 0.00 3.91
1271 1643 1.303398 TCTCTCGCCGACCTTGTCT 60.303 57.895 0.00 0.00 0.00 3.41
1351 1723 2.227626 CAGAGACGAGAAGTGAGCAAGA 59.772 50.000 0.00 0.00 0.00 3.02
1359 1731 1.069204 TGCTTTGCAGAGACGAGAAGT 59.931 47.619 8.73 0.00 33.32 3.01
1386 1759 7.589574 TCAAATCAACAATCATTCATTGCAG 57.410 32.000 0.00 0.00 45.37 4.41
1406 1779 8.929827 CATATTCACAACCAAATATGCTCAAA 57.070 30.769 0.00 0.00 38.38 2.69
1428 1801 0.608130 AAGCTGTGTCCGTCTGCATA 59.392 50.000 0.00 0.00 33.36 3.14
1590 1979 4.034510 GGGAATTTCAGAATAGTGTGCGAG 59.965 45.833 0.00 0.00 0.00 5.03
1592 1981 3.941483 AGGGAATTTCAGAATAGTGTGCG 59.059 43.478 0.00 0.00 0.00 5.34
1700 2089 1.070445 GGGATCCTGCATCGACCAG 59.930 63.158 12.58 7.72 31.26 4.00
1715 2129 1.982395 CAGGCTGTAGTGGTCGGGA 60.982 63.158 6.28 0.00 0.00 5.14
1968 2394 3.564225 AGGATGTTCACAGAAACGAAACC 59.436 43.478 0.00 0.00 31.58 3.27
1974 2400 3.141398 TGCTGAGGATGTTCACAGAAAC 58.859 45.455 0.00 0.00 32.90 2.78
1975 2401 3.071457 TCTGCTGAGGATGTTCACAGAAA 59.929 43.478 0.00 0.00 34.92 2.52
1976 2402 2.634453 TCTGCTGAGGATGTTCACAGAA 59.366 45.455 0.00 0.00 34.92 3.02
1977 2403 2.028658 GTCTGCTGAGGATGTTCACAGA 60.029 50.000 0.00 0.00 35.18 3.41
1978 2404 2.344950 GTCTGCTGAGGATGTTCACAG 58.655 52.381 0.00 0.00 32.43 3.66
2106 3037 2.004733 GGACGCTACCATGTTAACCAC 58.995 52.381 2.48 0.00 0.00 4.16
2109 3040 2.968675 ACAGGACGCTACCATGTTAAC 58.031 47.619 0.00 0.00 0.00 2.01
2124 3064 2.425592 CCGGTGACAGCAACAGGA 59.574 61.111 5.35 0.00 30.28 3.86
2137 3077 3.316308 GCTGATTTTGATGATTAGCCGGT 59.684 43.478 1.90 0.00 31.93 5.28
2141 3081 5.975939 GGAACTGCTGATTTTGATGATTAGC 59.024 40.000 0.00 0.00 36.85 3.09
2368 3316 0.323633 TCAACCACATGCCCTGATGG 60.324 55.000 0.00 0.00 38.26 3.51
2371 3319 1.548081 CAATCAACCACATGCCCTGA 58.452 50.000 0.00 0.00 0.00 3.86
2372 3320 0.533491 CCAATCAACCACATGCCCTG 59.467 55.000 0.00 0.00 0.00 4.45
2373 3321 0.615544 CCCAATCAACCACATGCCCT 60.616 55.000 0.00 0.00 0.00 5.19
2374 3322 1.616091 CCCCAATCAACCACATGCCC 61.616 60.000 0.00 0.00 0.00 5.36
2375 3323 0.614415 TCCCCAATCAACCACATGCC 60.614 55.000 0.00 0.00 0.00 4.40
2376 3324 1.410153 GATCCCCAATCAACCACATGC 59.590 52.381 0.00 0.00 34.26 4.06
2409 3357 2.584608 GCCGACCACCTACATGCT 59.415 61.111 0.00 0.00 0.00 3.79
2414 3362 1.375523 CACAAGGCCGACCACCTAC 60.376 63.158 0.00 0.00 36.14 3.18
2420 3368 4.309950 ACCGACACAAGGCCGACC 62.310 66.667 0.00 0.00 0.00 4.79
2423 3371 4.308458 TCCACCGACACAAGGCCG 62.308 66.667 0.00 0.00 0.00 6.13
2426 3374 0.179056 AACTGTCCACCGACACAAGG 60.179 55.000 0.00 0.00 44.20 3.61
2447 3395 0.371645 GCTCCGTTCGCTGATTTCAG 59.628 55.000 3.13 3.13 46.40 3.02
2467 3415 0.442310 CACGTGCGGGAGTATTTGTG 59.558 55.000 0.82 0.00 0.00 3.33
2468 3416 0.034337 ACACGTGCGGGAGTATTTGT 59.966 50.000 17.22 0.00 0.00 2.83
2491 3439 0.824109 TCGTTCATGCCTCTACCCTG 59.176 55.000 0.00 0.00 0.00 4.45
2508 3456 2.047560 GGTTGGGTCCGGTCTTCG 60.048 66.667 0.00 0.00 38.88 3.79
2516 3468 3.562732 CTTGGGTCCGGTTGGGTCC 62.563 68.421 0.00 0.00 42.68 4.46
2517 3469 1.482748 TACTTGGGTCCGGTTGGGTC 61.483 60.000 0.00 0.00 37.00 4.46
2518 3470 1.461849 TACTTGGGTCCGGTTGGGT 60.462 57.895 0.00 0.00 37.00 4.51
2519 3471 1.196104 TCTACTTGGGTCCGGTTGGG 61.196 60.000 0.00 0.00 35.24 4.12
2520 3472 0.909623 ATCTACTTGGGTCCGGTTGG 59.090 55.000 0.00 0.00 0.00 3.77
2521 3473 1.134491 GGATCTACTTGGGTCCGGTTG 60.134 57.143 0.00 0.00 0.00 3.77
2522 3474 1.201424 GGATCTACTTGGGTCCGGTT 58.799 55.000 0.00 0.00 0.00 4.44
2523 3475 0.042131 TGGATCTACTTGGGTCCGGT 59.958 55.000 0.00 0.00 33.39 5.28
2524 3476 0.464452 GTGGATCTACTTGGGTCCGG 59.536 60.000 1.27 0.00 33.39 5.14
2525 3477 0.464452 GGTGGATCTACTTGGGTCCG 59.536 60.000 9.27 0.00 33.39 4.79
2549 3507 3.004524 GCGGGATTCGATCAGTACTAAGT 59.995 47.826 0.00 0.00 42.43 2.24
2551 3509 2.031420 CGCGGGATTCGATCAGTACTAA 60.031 50.000 0.00 0.00 42.43 2.24
2558 3516 0.673985 AATCTCGCGGGATTCGATCA 59.326 50.000 28.12 0.00 42.43 2.92
2571 3529 0.586748 CGTGTCTCCGACGAATCTCG 60.587 60.000 0.00 0.00 46.93 4.04
2577 3535 1.236616 TAAAGGCGTGTCTCCGACGA 61.237 55.000 0.00 0.00 41.94 4.20
2595 3553 4.836175 TCTAGTGTTGTGGAAGGACATGTA 59.164 41.667 0.00 0.00 0.00 2.29
2607 3565 4.248058 TCAGTGATGCATCTAGTGTTGTG 58.752 43.478 26.32 11.96 0.00 3.33
2613 3571 3.900966 TGCTTCAGTGATGCATCTAGT 57.099 42.857 25.22 13.24 37.70 2.57
2619 3577 0.251033 AGCCTTGCTTCAGTGATGCA 60.251 50.000 25.22 25.22 40.15 3.96
2627 3585 1.596934 CCCGTCTAGCCTTGCTTCA 59.403 57.895 0.00 0.00 40.44 3.02
2629 3587 1.198759 TTCCCCGTCTAGCCTTGCTT 61.199 55.000 0.00 0.00 40.44 3.91
2631 3589 1.025113 GTTTCCCCGTCTAGCCTTGC 61.025 60.000 0.00 0.00 0.00 4.01
2633 3591 0.546988 AGGTTTCCCCGTCTAGCCTT 60.547 55.000 0.00 0.00 38.74 4.35
2634 3592 0.546988 AAGGTTTCCCCGTCTAGCCT 60.547 55.000 0.00 0.00 38.74 4.58
2671 3630 0.664761 AAAAGACCAGACGACGACGA 59.335 50.000 15.32 0.00 42.66 4.20
2683 3642 5.393135 GGCTTATGTCCTGCTTAAAAAGACC 60.393 44.000 0.00 0.00 0.00 3.85
2725 3684 0.616891 ATCCCGCTCCGTTTTAGGTT 59.383 50.000 0.00 0.00 0.00 3.50
2740 3699 2.224161 CCTTTGTCGATGAGAGGATCCC 60.224 54.545 8.55 0.00 33.66 3.85
2741 3700 2.804933 GCCTTTGTCGATGAGAGGATCC 60.805 54.545 2.48 2.48 33.66 3.36
2749 3708 2.267642 CCCGGCCTTTGTCGATGA 59.732 61.111 0.00 0.00 43.95 2.92
2751 3710 2.267961 GACCCGGCCTTTGTCGAT 59.732 61.111 0.00 0.00 43.95 3.59
2755 3714 2.355115 GATGGACCCGGCCTTTGT 59.645 61.111 0.00 0.00 0.00 2.83
2759 3718 3.782443 GAACGATGGACCCGGCCT 61.782 66.667 0.00 0.00 0.00 5.19
2760 3719 4.851179 GGAACGATGGACCCGGCC 62.851 72.222 0.00 0.00 0.00 6.13
2762 3721 2.499685 GAGGAACGATGGACCCGG 59.500 66.667 0.00 0.00 0.00 5.73
2766 3726 1.473434 GGTCATGGAGGAACGATGGAC 60.473 57.143 0.00 0.00 35.82 4.02
2771 3731 1.481871 GTAGGGTCATGGAGGAACGA 58.518 55.000 0.00 0.00 0.00 3.85
2784 3744 2.683933 CTCTGGTGGGCGTAGGGT 60.684 66.667 0.00 0.00 0.00 4.34
2790 3750 4.135153 CCTCGTCTCTGGTGGGCG 62.135 72.222 0.00 0.00 0.00 6.13
2796 3756 4.154347 GGCCTGCCTCGTCTCTGG 62.154 72.222 0.00 0.00 0.00 3.86
2798 3758 3.073735 CTGGCCTGCCTCGTCTCT 61.074 66.667 9.97 0.00 36.94 3.10


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

AutoCloner maintained by Alex Coulton.