Multiple sequence alignment - TraesCS6A01G275600

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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 TraesCS6A01G275600 chr6A 100.000 2918 0 0 1 2918 502147085 502150002 0.000000e+00 5389.0
1 TraesCS6A01G275600 chr6A 96.774 62 1 1 2395 2455 502149384 502149445 5.140000e-18 102.0
2 TraesCS6A01G275600 chr6A 96.774 62 1 1 2300 2361 502149479 502149539 5.140000e-18 102.0
3 TraesCS6A01G275600 chr6A 100.000 29 0 0 2819 2847 521440791 521440819 1.000000e-03 54.7
4 TraesCS6A01G275600 chr6B 92.899 2056 70 22 350 2372 542499338 542501350 0.000000e+00 2918.0
5 TraesCS6A01G275600 chr6B 87.387 444 37 7 2475 2918 542501418 542501842 2.610000e-135 492.0
6 TraesCS6A01G275600 chr6B 94.297 263 12 3 1 261 542498746 542499007 1.630000e-107 399.0
7 TraesCS6A01G275600 chr6B 97.143 35 1 0 2421 2455 542501305 542501339 3.140000e-05 60.2
8 TraesCS6A01G275600 chr6D 92.937 2053 55 18 391 2397 361178524 361180532 0.000000e+00 2905.0
9 TraesCS6A01G275600 chr6D 96.267 375 11 3 1 374 361178164 361178536 1.920000e-171 612.0
10 TraesCS6A01G275600 chr6D 88.515 357 28 4 2473 2828 361180558 361180902 1.250000e-113 420.0
11 TraesCS6A01G275600 chr6D 76.259 139 29 4 2772 2906 88482965 88483103 1.450000e-08 71.3
12 TraesCS6A01G275600 chr7B 83.026 271 35 8 1243 1503 337024326 337024057 4.860000e-58 235.0
13 TraesCS6A01G275600 chr7A 81.250 288 40 11 1243 1517 200510087 200509801 1.360000e-53 220.0
14 TraesCS6A01G275600 chr5D 83.495 103 13 1 2807 2905 454735251 454735353 3.100000e-15 93.5
15 TraesCS6A01G275600 chr3B 100.000 29 0 0 2819 2847 666687251 666687279 1.000000e-03 54.7
16 TraesCS6A01G275600 chr5A 100.000 28 0 0 1072 1099 481933523 481933496 5.000000e-03 52.8
17 TraesCS6A01G275600 chr2D 100.000 28 0 0 1072 1099 600434755 600434728 5.000000e-03 52.8


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 TraesCS6A01G275600 chr6A 502147085 502150002 2917 False 1864.333333 5389 97.849333 1 2918 3 chr6A.!!$F2 2917
1 TraesCS6A01G275600 chr6B 542498746 542501842 3096 False 967.300000 2918 92.931500 1 2918 4 chr6B.!!$F1 2917
2 TraesCS6A01G275600 chr6D 361178164 361180902 2738 False 1312.333333 2905 92.573000 1 2828 3 chr6D.!!$F2 2827

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
369 711 0.754217 CCTGGGTCTCCGAACCGATA 60.754 60.000 0.0 0.0 43.50 2.92 F
501 843 1.000274 CCAGAAAGGAAAAAGGTGCCG 60.000 52.381 0.0 0.0 41.22 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1227 1610 0.793853 GCTTCTTCCTCGACGACGAC 60.794 60.0 5.75 0.0 43.81 4.34 R
2446 2882 0.035056 CTTCTCACCCGGCCTGAATT 60.035 55.0 0.00 0.0 0.00 2.17 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
58 60 2.150809 GACGATGTGGATCATGCGCG 62.151 60.000 0.00 0.00 36.83 6.86
85 87 2.669569 AGCACGCACGCCATCTTT 60.670 55.556 0.00 0.00 0.00 2.52
178 181 1.471119 CGTAGAGGTGGGTGCTTCTA 58.529 55.000 0.00 0.00 0.00 2.10
367 709 2.678934 CCTGGGTCTCCGAACCGA 60.679 66.667 0.00 0.00 43.50 4.69
368 710 2.058595 CCTGGGTCTCCGAACCGAT 61.059 63.158 0.00 0.00 43.50 4.18
369 711 0.754217 CCTGGGTCTCCGAACCGATA 60.754 60.000 0.00 0.00 43.50 2.92
370 712 1.108776 CTGGGTCTCCGAACCGATAA 58.891 55.000 0.00 0.00 43.50 1.75
371 713 1.479323 CTGGGTCTCCGAACCGATAAA 59.521 52.381 0.00 0.00 43.50 1.40
372 714 1.205417 TGGGTCTCCGAACCGATAAAC 59.795 52.381 0.00 0.00 43.50 2.01
373 715 1.205417 GGGTCTCCGAACCGATAAACA 59.795 52.381 0.00 0.00 40.46 2.83
374 716 2.354003 GGGTCTCCGAACCGATAAACAA 60.354 50.000 0.00 0.00 40.46 2.83
375 717 3.328505 GGTCTCCGAACCGATAAACAAA 58.671 45.455 0.00 0.00 0.00 2.83
376 718 3.747529 GGTCTCCGAACCGATAAACAAAA 59.252 43.478 0.00 0.00 0.00 2.44
377 719 4.393990 GGTCTCCGAACCGATAAACAAAAT 59.606 41.667 0.00 0.00 0.00 1.82
378 720 5.106436 GGTCTCCGAACCGATAAACAAAATT 60.106 40.000 0.00 0.00 0.00 1.82
379 721 6.376177 GTCTCCGAACCGATAAACAAAATTT 58.624 36.000 0.00 0.00 0.00 1.82
380 722 6.859508 GTCTCCGAACCGATAAACAAAATTTT 59.140 34.615 0.00 0.00 0.00 1.82
381 723 7.060289 GTCTCCGAACCGATAAACAAAATTTTC 59.940 37.037 0.00 0.00 0.00 2.29
382 724 6.972722 TCCGAACCGATAAACAAAATTTTCT 58.027 32.000 0.00 0.00 0.00 2.52
383 725 8.097078 TCCGAACCGATAAACAAAATTTTCTA 57.903 30.769 0.00 0.00 0.00 2.10
384 726 8.016801 TCCGAACCGATAAACAAAATTTTCTAC 58.983 33.333 0.00 0.00 0.00 2.59
385 727 7.006742 CCGAACCGATAAACAAAATTTTCTACG 59.993 37.037 0.00 2.25 0.00 3.51
386 728 7.741216 CGAACCGATAAACAAAATTTTCTACGA 59.259 33.333 0.00 0.00 0.00 3.43
387 729 9.384682 GAACCGATAAACAAAATTTTCTACGAA 57.615 29.630 0.00 0.00 0.00 3.85
388 730 9.902196 AACCGATAAACAAAATTTTCTACGAAT 57.098 25.926 0.00 0.00 0.00 3.34
395 737 8.944212 AACAAAATTTTCTACGAATAGAACCG 57.056 30.769 0.00 0.00 45.26 4.44
396 738 8.314143 ACAAAATTTTCTACGAATAGAACCGA 57.686 30.769 0.00 0.00 45.26 4.69
397 739 8.943002 ACAAAATTTTCTACGAATAGAACCGAT 58.057 29.630 0.00 0.00 45.26 4.18
501 843 1.000274 CCAGAAAGGAAAAAGGTGCCG 60.000 52.381 0.00 0.00 41.22 5.69
503 845 2.558359 CAGAAAGGAAAAAGGTGCCGAT 59.442 45.455 0.00 0.00 0.00 4.18
585 930 1.446099 CACATGTACGCTCACGCCT 60.446 57.895 0.00 0.00 45.53 5.52
613 958 2.740055 GTGCTGTGCCCTCTCACG 60.740 66.667 0.00 0.00 39.73 4.35
964 1320 3.660111 GCCGCAGCAACGAAAGGT 61.660 61.111 0.00 0.00 39.53 3.50
1227 1610 2.477176 CGAGCAGTCCTCCTCCTCG 61.477 68.421 0.00 0.00 39.28 4.63
1519 1914 2.126618 CGCTCAACGCAGGTACGA 60.127 61.111 0.00 0.00 39.08 3.43
1520 1915 2.434134 CGCTCAACGCAGGTACGAC 61.434 63.158 0.00 0.00 39.08 4.34
1521 1916 2.434134 GCTCAACGCAGGTACGACG 61.434 63.158 0.00 0.00 38.92 5.12
1525 1920 2.554636 AACGCAGGTACGACGTCCA 61.555 57.895 10.58 0.00 43.20 4.02
1921 2319 1.510383 CTGCTCAGAGTCTGACGGG 59.490 63.158 19.10 10.81 35.39 5.28
1983 2381 3.110358 CGTCCTTGTGCATGCATATTTG 58.890 45.455 25.64 13.64 0.00 2.32
1984 2382 3.450578 GTCCTTGTGCATGCATATTTGG 58.549 45.455 25.64 21.22 0.00 3.28
1985 2383 2.431419 TCCTTGTGCATGCATATTTGGG 59.569 45.455 25.64 18.85 0.00 4.12
1986 2384 2.484065 CCTTGTGCATGCATATTTGGGG 60.484 50.000 25.64 14.61 0.00 4.96
1989 2387 2.093606 TGTGCATGCATATTTGGGGTTG 60.094 45.455 25.64 0.00 0.00 3.77
2254 2652 2.022764 TCATGGTATTGTGGACGCAG 57.977 50.000 0.00 0.00 0.00 5.18
2287 2685 0.618968 ATCAACCCCTTCCGCTCTCT 60.619 55.000 0.00 0.00 0.00 3.10
2292 2690 1.271434 ACCCCTTCCGCTCTCTTTTTC 60.271 52.381 0.00 0.00 0.00 2.29
2372 2781 0.392193 ATTCAGGCAAGCTCTCACCG 60.392 55.000 0.00 0.00 0.00 4.94
2398 2834 2.830104 GGGTGAGAAGTAAACACACGT 58.170 47.619 0.00 0.00 36.42 4.49
2400 2836 4.370917 GGGTGAGAAGTAAACACACGTAA 58.629 43.478 0.00 0.00 36.42 3.18
2402 2838 5.467735 GGGTGAGAAGTAAACACACGTAAAT 59.532 40.000 0.00 0.00 36.42 1.40
2403 2839 6.017687 GGGTGAGAAGTAAACACACGTAAATT 60.018 38.462 0.00 0.00 36.42 1.82
2404 2840 6.849305 GGTGAGAAGTAAACACACGTAAATTG 59.151 38.462 0.00 0.00 36.42 2.32
2405 2841 7.404203 GTGAGAAGTAAACACACGTAAATTGT 58.596 34.615 0.00 0.00 35.06 2.71
2417 2853 6.862944 CACGTAAATTGTGTGTCTTTGTTT 57.137 33.333 0.00 0.00 32.68 2.83
2418 2854 7.271936 CACGTAAATTGTGTGTCTTTGTTTT 57.728 32.000 0.00 0.00 32.68 2.43
2419 2855 8.383264 CACGTAAATTGTGTGTCTTTGTTTTA 57.617 30.769 0.00 0.00 32.68 1.52
2454 2890 8.907885 AGAGGATAAAATACAGAAAATTCAGGC 58.092 33.333 0.00 0.00 0.00 4.85
2455 2891 8.011844 AGGATAAAATACAGAAAATTCAGGCC 57.988 34.615 0.00 0.00 0.00 5.19
2456 2892 6.918022 GGATAAAATACAGAAAATTCAGGCCG 59.082 38.462 0.00 0.00 0.00 6.13
2457 2893 4.718940 AAATACAGAAAATTCAGGCCGG 57.281 40.909 0.00 0.00 0.00 6.13
2458 2894 2.122783 TACAGAAAATTCAGGCCGGG 57.877 50.000 2.18 0.00 0.00 5.73
2459 2895 0.112412 ACAGAAAATTCAGGCCGGGT 59.888 50.000 2.18 0.00 0.00 5.28
2460 2896 0.527565 CAGAAAATTCAGGCCGGGTG 59.472 55.000 2.18 0.00 0.00 4.61
2461 2897 0.404040 AGAAAATTCAGGCCGGGTGA 59.596 50.000 2.18 0.00 0.00 4.02
2462 2898 0.811281 GAAAATTCAGGCCGGGTGAG 59.189 55.000 2.18 0.00 0.00 3.51
2463 2899 0.404040 AAAATTCAGGCCGGGTGAGA 59.596 50.000 2.18 0.00 0.00 3.27
2464 2900 0.404040 AAATTCAGGCCGGGTGAGAA 59.596 50.000 2.18 0.00 0.00 2.87
2465 2901 0.035056 AATTCAGGCCGGGTGAGAAG 60.035 55.000 2.18 0.00 0.00 2.85
2466 2902 1.201429 ATTCAGGCCGGGTGAGAAGT 61.201 55.000 2.18 0.00 0.00 3.01
2467 2903 0.543410 TTCAGGCCGGGTGAGAAGTA 60.543 55.000 2.18 0.00 0.00 2.24
2468 2904 0.543410 TCAGGCCGGGTGAGAAGTAA 60.543 55.000 2.18 0.00 0.00 2.24
2469 2905 0.323629 CAGGCCGGGTGAGAAGTAAA 59.676 55.000 2.18 0.00 0.00 2.01
2470 2906 0.323957 AGGCCGGGTGAGAAGTAAAC 59.676 55.000 2.18 0.00 0.00 2.01
2471 2907 0.035739 GGCCGGGTGAGAAGTAAACA 59.964 55.000 2.18 0.00 0.00 2.83
2507 2943 2.751436 CCCCAACGCATGAGGGTG 60.751 66.667 0.00 0.00 41.16 4.61
2533 2969 3.005367 CCTAAATTGACCAACAAAGCCGT 59.995 43.478 0.00 0.00 42.03 5.68
2543 2979 0.818040 ACAAAGCCGTGTCTTGACCC 60.818 55.000 0.00 0.00 0.00 4.46
2612 3048 2.480419 CGAAAGAGCGACAACTCCAAAT 59.520 45.455 0.00 0.00 37.39 2.32
2618 3054 3.214328 AGCGACAACTCCAAATGAACTT 58.786 40.909 0.00 0.00 0.00 2.66
2621 3057 4.211389 CGACAACTCCAAATGAACTTTCG 58.789 43.478 0.00 0.00 0.00 3.46
2626 3062 3.632145 ACTCCAAATGAACTTTCGTTGCT 59.368 39.130 0.00 0.00 36.59 3.91
2646 3082 0.179189 GACGCACCAACTATGCTTGC 60.179 55.000 0.00 0.00 41.10 4.01
2683 3120 1.482593 CAGGTGGGTGATAGGACTCAC 59.517 57.143 0.00 0.00 45.27 3.51
2717 3154 3.339253 TGTCATGGTCTTGGACTCATG 57.661 47.619 15.92 15.92 39.83 3.07
2726 3163 0.392863 TTGGACTCATGCATGACGGG 60.393 55.000 25.42 17.84 32.50 5.28
2758 3195 3.593328 TCCCCTGAAGAACAATCCAGAAT 59.407 43.478 0.00 0.00 0.00 2.40
2797 3234 0.953960 GGAACAATGTCGAGGGCGTT 60.954 55.000 0.00 0.00 38.98 4.84
2848 3285 2.046314 CGCCCGGAGACAACCAAT 60.046 61.111 0.73 0.00 0.00 3.16
2859 3296 4.262635 GGAGACAACCAATCAAGTGAGAGA 60.263 45.833 0.00 0.00 0.00 3.10
2896 3333 0.179004 ACCACAATGACGCCTCCAAA 60.179 50.000 0.00 0.00 0.00 3.28
2897 3334 0.523072 CCACAATGACGCCTCCAAAG 59.477 55.000 0.00 0.00 0.00 2.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 12 6.042638 TCCCTTGATAAGTTCTGAAGTCTG 57.957 41.667 0.00 0.00 0.00 3.51
80 82 8.186821 CACTTCAAGAGTTTTGAGTTCAAAGAT 58.813 33.333 7.30 1.42 45.34 2.40
85 87 4.943705 AGCACTTCAAGAGTTTTGAGTTCA 59.056 37.500 0.00 0.00 36.10 3.18
369 711 9.389570 CGGTTCTATTCGTAGAAAATTTTGTTT 57.610 29.630 8.47 0.00 45.90 2.83
370 712 8.776470 TCGGTTCTATTCGTAGAAAATTTTGTT 58.224 29.630 8.47 0.00 45.90 2.83
371 713 8.314143 TCGGTTCTATTCGTAGAAAATTTTGT 57.686 30.769 8.47 7.01 45.90 2.83
383 725 8.985805 GGAAATGTTTATATCGGTTCTATTCGT 58.014 33.333 0.00 0.00 0.00 3.85
384 726 8.984764 TGGAAATGTTTATATCGGTTCTATTCG 58.015 33.333 0.00 0.00 0.00 3.34
388 730 9.621629 ACAATGGAAATGTTTATATCGGTTCTA 57.378 29.630 0.00 0.00 0.00 2.10
389 731 8.519799 ACAATGGAAATGTTTATATCGGTTCT 57.480 30.769 0.00 0.00 0.00 3.01
390 732 9.233232 GAACAATGGAAATGTTTATATCGGTTC 57.767 33.333 0.00 0.00 40.90 3.62
391 733 8.744652 TGAACAATGGAAATGTTTATATCGGTT 58.255 29.630 0.00 0.00 40.90 4.44
392 734 8.287439 TGAACAATGGAAATGTTTATATCGGT 57.713 30.769 0.00 0.00 40.90 4.69
393 735 7.862372 CCTGAACAATGGAAATGTTTATATCGG 59.138 37.037 0.00 0.00 40.90 4.18
394 736 8.405531 ACCTGAACAATGGAAATGTTTATATCG 58.594 33.333 0.00 0.00 40.90 2.92
395 737 9.736023 GACCTGAACAATGGAAATGTTTATATC 57.264 33.333 0.00 0.00 40.90 1.63
396 738 9.253832 TGACCTGAACAATGGAAATGTTTATAT 57.746 29.630 0.00 0.00 40.90 0.86
397 739 8.519526 GTGACCTGAACAATGGAAATGTTTATA 58.480 33.333 0.00 0.00 40.90 0.98
501 843 3.000022 GCTCGGCGTCAGTAAAAGTTATC 60.000 47.826 6.85 0.00 0.00 1.75
503 845 2.331194 GCTCGGCGTCAGTAAAAGTTA 58.669 47.619 6.85 0.00 0.00 2.24
585 930 2.120282 CACAGCACACAGGCCACAA 61.120 57.895 5.01 0.00 0.00 3.33
845 1201 2.194201 TAAGGTGGTTAGCACTTGGC 57.806 50.000 14.31 0.00 45.30 4.52
846 1202 3.057526 GCTTTAAGGTGGTTAGCACTTGG 60.058 47.826 14.31 0.74 0.00 3.61
948 1304 0.669318 TCTACCTTTCGTTGCTGCGG 60.669 55.000 0.00 0.00 0.00 5.69
957 1313 1.795889 GCGCACTCTCTCTACCTTTCG 60.796 57.143 0.30 0.00 0.00 3.46
964 1320 1.027255 AAGCTCGCGCACTCTCTCTA 61.027 55.000 8.75 0.00 39.10 2.43
1227 1610 0.793853 GCTTCTTCCTCGACGACGAC 60.794 60.000 5.75 0.00 43.81 4.34
1332 1727 2.511600 CCGAAGATGGTGCCCGTC 60.512 66.667 5.54 5.54 39.68 4.79
1520 1915 4.920112 TTGTGCGGGTGGTGGACG 62.920 66.667 0.00 0.00 0.00 4.79
1521 1916 3.284449 GTTGTGCGGGTGGTGGAC 61.284 66.667 0.00 0.00 0.00 4.02
1525 1920 4.116585 TGTGGTTGTGCGGGTGGT 62.117 61.111 0.00 0.00 0.00 4.16
1533 1928 1.563435 CTGCTCTCGCTGTGGTTGTG 61.563 60.000 0.00 0.00 36.97 3.33
1548 1943 4.687215 TTTGGCGCTCGAGCTGCT 62.687 61.111 35.24 0.00 39.33 4.24
1556 1951 1.589716 AATCTGTGGCTTTGGCGCTC 61.590 55.000 7.64 0.00 39.38 5.03
1783 2181 0.823769 TACATCAGATCGCCCTCGCT 60.824 55.000 0.00 0.00 35.26 4.93
1983 2381 5.854010 AGAGAAAGAAAGAAAACAACCCC 57.146 39.130 0.00 0.00 0.00 4.95
1984 2382 6.042777 CCAAGAGAAAGAAAGAAAACAACCC 58.957 40.000 0.00 0.00 0.00 4.11
1985 2383 6.042777 CCCAAGAGAAAGAAAGAAAACAACC 58.957 40.000 0.00 0.00 0.00 3.77
1986 2384 6.631016 ACCCAAGAGAAAGAAAGAAAACAAC 58.369 36.000 0.00 0.00 0.00 3.32
1989 2387 6.127451 TGGAACCCAAGAGAAAGAAAGAAAAC 60.127 38.462 0.00 0.00 0.00 2.43
2254 2652 2.222027 GGTTGATCGAATGGATGGGAC 58.778 52.381 0.00 0.00 34.82 4.46
2287 2685 4.273969 ACAATTTACGTGCTCTCGGAAAAA 59.726 37.500 0.00 0.00 44.83 1.94
2292 2690 2.066262 ACACAATTTACGTGCTCTCGG 58.934 47.619 0.00 0.00 37.93 4.63
2372 2781 1.534163 GTTTACTTCTCACCCGGTTGC 59.466 52.381 0.00 0.00 0.00 4.17
2428 2864 8.907885 GCCTGAATTTTCTGTATTTTATCCTCT 58.092 33.333 0.00 0.00 0.00 3.69
2429 2865 8.138074 GGCCTGAATTTTCTGTATTTTATCCTC 58.862 37.037 0.00 0.00 0.00 3.71
2430 2866 7.201821 CGGCCTGAATTTTCTGTATTTTATCCT 60.202 37.037 0.00 0.00 0.00 3.24
2431 2867 6.918022 CGGCCTGAATTTTCTGTATTTTATCC 59.082 38.462 0.00 0.00 0.00 2.59
2432 2868 6.918022 CCGGCCTGAATTTTCTGTATTTTATC 59.082 38.462 0.00 0.00 0.00 1.75
2433 2869 6.183360 CCCGGCCTGAATTTTCTGTATTTTAT 60.183 38.462 0.00 0.00 0.00 1.40
2434 2870 5.126384 CCCGGCCTGAATTTTCTGTATTTTA 59.874 40.000 0.00 0.00 0.00 1.52
2435 2871 4.081697 CCCGGCCTGAATTTTCTGTATTTT 60.082 41.667 0.00 0.00 0.00 1.82
2436 2872 3.447229 CCCGGCCTGAATTTTCTGTATTT 59.553 43.478 0.00 0.00 0.00 1.40
2437 2873 3.023832 CCCGGCCTGAATTTTCTGTATT 58.976 45.455 0.00 0.00 0.00 1.89
2438 2874 2.025321 ACCCGGCCTGAATTTTCTGTAT 60.025 45.455 0.00 0.00 0.00 2.29
2439 2875 1.353022 ACCCGGCCTGAATTTTCTGTA 59.647 47.619 0.00 0.00 0.00 2.74
2440 2876 0.112412 ACCCGGCCTGAATTTTCTGT 59.888 50.000 0.00 0.00 0.00 3.41
2441 2877 0.527565 CACCCGGCCTGAATTTTCTG 59.472 55.000 0.00 0.00 0.00 3.02
2442 2878 0.404040 TCACCCGGCCTGAATTTTCT 59.596 50.000 0.00 0.00 0.00 2.52
2443 2879 0.811281 CTCACCCGGCCTGAATTTTC 59.189 55.000 0.00 0.00 0.00 2.29
2444 2880 0.404040 TCTCACCCGGCCTGAATTTT 59.596 50.000 0.00 0.00 0.00 1.82
2445 2881 0.404040 TTCTCACCCGGCCTGAATTT 59.596 50.000 0.00 0.00 0.00 1.82
2446 2882 0.035056 CTTCTCACCCGGCCTGAATT 60.035 55.000 0.00 0.00 0.00 2.17
2447 2883 1.201429 ACTTCTCACCCGGCCTGAAT 61.201 55.000 0.00 0.00 0.00 2.57
2448 2884 0.543410 TACTTCTCACCCGGCCTGAA 60.543 55.000 0.00 0.00 0.00 3.02
2449 2885 0.543410 TTACTTCTCACCCGGCCTGA 60.543 55.000 0.00 0.00 0.00 3.86
2450 2886 0.323629 TTTACTTCTCACCCGGCCTG 59.676 55.000 0.00 0.00 0.00 4.85
2451 2887 0.323957 GTTTACTTCTCACCCGGCCT 59.676 55.000 0.00 0.00 0.00 5.19
2452 2888 0.035739 TGTTTACTTCTCACCCGGCC 59.964 55.000 0.00 0.00 0.00 6.13
2453 2889 1.154197 GTGTTTACTTCTCACCCGGC 58.846 55.000 0.00 0.00 0.00 6.13
2454 2890 2.140717 GTGTGTTTACTTCTCACCCGG 58.859 52.381 0.00 0.00 0.00 5.73
2455 2891 2.542595 GTGTGTGTTTACTTCTCACCCG 59.457 50.000 0.00 0.00 0.00 5.28
2456 2892 3.311596 GTGTGTGTGTTTACTTCTCACCC 59.688 47.826 0.00 0.00 0.00 4.61
2457 2893 3.936453 TGTGTGTGTGTTTACTTCTCACC 59.064 43.478 0.00 0.00 31.70 4.02
2458 2894 4.390603 TGTGTGTGTGTGTTTACTTCTCAC 59.609 41.667 0.00 0.00 32.45 3.51
2459 2895 4.390603 GTGTGTGTGTGTGTTTACTTCTCA 59.609 41.667 0.00 0.00 0.00 3.27
2460 2896 4.390603 TGTGTGTGTGTGTGTTTACTTCTC 59.609 41.667 0.00 0.00 0.00 2.87
2461 2897 4.320023 TGTGTGTGTGTGTGTTTACTTCT 58.680 39.130 0.00 0.00 0.00 2.85
2462 2898 4.671880 TGTGTGTGTGTGTGTTTACTTC 57.328 40.909 0.00 0.00 0.00 3.01
2463 2899 5.637006 ATTGTGTGTGTGTGTGTTTACTT 57.363 34.783 0.00 0.00 0.00 2.24
2464 2900 5.644206 TGTATTGTGTGTGTGTGTGTTTACT 59.356 36.000 0.00 0.00 0.00 2.24
2465 2901 5.870444 TGTATTGTGTGTGTGTGTGTTTAC 58.130 37.500 0.00 0.00 0.00 2.01
2466 2902 6.315551 GTTGTATTGTGTGTGTGTGTGTTTA 58.684 36.000 0.00 0.00 0.00 2.01
2467 2903 5.157781 GTTGTATTGTGTGTGTGTGTGTTT 58.842 37.500 0.00 0.00 0.00 2.83
2468 2904 4.380023 GGTTGTATTGTGTGTGTGTGTGTT 60.380 41.667 0.00 0.00 0.00 3.32
2469 2905 3.127895 GGTTGTATTGTGTGTGTGTGTGT 59.872 43.478 0.00 0.00 0.00 3.72
2470 2906 3.488384 GGGTTGTATTGTGTGTGTGTGTG 60.488 47.826 0.00 0.00 0.00 3.82
2471 2907 2.685897 GGGTTGTATTGTGTGTGTGTGT 59.314 45.455 0.00 0.00 0.00 3.72
2507 2943 4.982295 GCTTTGTTGGTCAATTTAGGACAC 59.018 41.667 0.00 0.00 37.00 3.67
2533 2969 2.549134 CCATACAACGTGGGTCAAGACA 60.549 50.000 2.29 0.00 32.98 3.41
2543 2979 4.375606 CGTGTACAAAGTCCATACAACGTG 60.376 45.833 0.00 0.00 30.90 4.49
2546 2982 5.260027 GACGTGTACAAAGTCCATACAAC 57.740 43.478 17.34 0.00 30.90 3.32
2626 3062 1.155889 CAAGCATAGTTGGTGCGTCA 58.844 50.000 0.00 0.00 46.86 4.35
2683 3120 4.280819 ACCATGACATTTCCAGGGTTATG 58.719 43.478 0.00 0.00 45.19 1.90
2717 3154 0.393077 AGCTATGTACCCCGTCATGC 59.607 55.000 0.00 0.00 0.00 4.06
2726 3163 2.679082 TCTTCAGGGGAGCTATGTACC 58.321 52.381 0.00 0.00 0.00 3.34
2758 3195 0.894835 TCTGTTGATGCTCACCGCTA 59.105 50.000 0.00 0.00 40.11 4.26
2770 3207 3.554960 CCTCGACATTGTTCCTCTGTTGA 60.555 47.826 0.00 0.00 33.40 3.18
2797 3234 2.547855 CGGTTCCAGATCGATAATGGCA 60.548 50.000 19.73 10.01 33.92 4.92
2805 3242 2.022195 CTAGGTTCGGTTCCAGATCGA 58.978 52.381 0.00 0.00 0.00 3.59
2836 3273 3.999663 CTCTCACTTGATTGGTTGTCTCC 59.000 47.826 0.00 0.00 0.00 3.71
2848 3285 1.271652 ACCTCGCTCTCTCTCACTTGA 60.272 52.381 0.00 0.00 0.00 3.02
2859 3296 0.108138 GTATGTTGGCACCTCGCTCT 60.108 55.000 0.00 0.00 41.91 4.09
2896 3333 1.067295 TGTGGGCATTGTTCTCCTCT 58.933 50.000 0.00 0.00 0.00 3.69
2897 3334 1.747355 CATGTGGGCATTGTTCTCCTC 59.253 52.381 0.00 0.00 31.99 3.71


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

AutoCloner maintained by Alex Coulton.