Multiple sequence alignment - TraesCS2A01G363900

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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 TraesCS2A01G363900 chr2A 100.000 3427 0 0 1 3427 607877748 607874322 0.000000e+00 6329.0
1 TraesCS2A01G363900 chr2A 78.378 148 22 8 221 360 100674408 100674553 1.690000e-13 87.9
2 TraesCS2A01G363900 chr2D 94.214 2022 71 14 802 2791 466809356 466811363 0.000000e+00 3044.0
3 TraesCS2A01G363900 chr2D 80.220 273 42 11 528 794 650931095 650930829 9.700000e-46 195.0
4 TraesCS2A01G363900 chr2B 92.482 2075 96 31 802 2826 545432383 545434447 0.000000e+00 2913.0
5 TraesCS2A01G363900 chr2B 86.942 605 46 17 2853 3424 170088746 170089350 0.000000e+00 649.0
6 TraesCS2A01G363900 chr2B 85.634 355 43 6 447 794 88183155 88182802 1.940000e-97 366.0
7 TraesCS2A01G363900 chr2B 95.918 49 1 1 1 48 72972928 72972976 1.020000e-10 78.7
8 TraesCS2A01G363900 chr6D 89.250 800 48 13 1 794 166777299 166778066 0.000000e+00 966.0
9 TraesCS2A01G363900 chr6D 87.734 481 59 0 1923 2403 292783295 292783775 2.310000e-156 562.0
10 TraesCS2A01G363900 chr6D 75.758 792 161 22 1063 1834 292782425 292783205 1.500000e-98 370.0
11 TraesCS2A01G363900 chr7D 88.199 805 48 23 2 798 465889593 465890358 0.000000e+00 917.0
12 TraesCS2A01G363900 chr7D 89.256 121 11 2 1 119 30849577 30849457 2.130000e-32 150.0
13 TraesCS2A01G363900 chr7B 90.501 579 47 4 2856 3427 140858768 140858191 0.000000e+00 758.0
14 TraesCS2A01G363900 chr7B 87.065 603 45 16 2855 3427 590461836 590462435 0.000000e+00 651.0
15 TraesCS2A01G363900 chr7B 87.145 599 44 15 2859 3427 714550746 714551341 0.000000e+00 649.0
16 TraesCS2A01G363900 chr7B 81.461 178 27 6 17 190 468825704 468825879 1.280000e-29 141.0
17 TraesCS2A01G363900 chr1B 89.519 582 49 8 2855 3427 383914217 383913639 0.000000e+00 726.0
18 TraesCS2A01G363900 chr1B 87.728 603 43 15 2855 3427 517913839 517914440 0.000000e+00 675.0
19 TraesCS2A01G363900 chr1B 82.516 795 88 31 17 787 357648091 357648858 0.000000e+00 651.0
20 TraesCS2A01G363900 chr1A 89.312 552 46 8 2853 3394 512501004 512501552 0.000000e+00 680.0
21 TraesCS2A01G363900 chr1A 88.199 161 17 2 636 796 590462103 590462261 1.260000e-44 191.0
22 TraesCS2A01G363900 chr1D 87.158 584 61 8 2856 3426 387802642 387803224 0.000000e+00 651.0
23 TraesCS2A01G363900 chr1D 83.824 204 26 7 12 209 260894861 260894659 1.620000e-43 187.0
24 TraesCS2A01G363900 chr1D 100.000 29 0 0 17 45 13398036 13398064 2.000000e-03 54.7
25 TraesCS2A01G363900 chr5A 87.368 570 61 7 2856 3415 46365899 46365331 0.000000e+00 643.0
26 TraesCS2A01G363900 chr3A 81.675 764 95 28 52 796 714943670 714944407 8.190000e-166 593.0
27 TraesCS2A01G363900 chr3A 91.139 237 16 5 1 232 713661063 713661299 1.980000e-82 316.0
28 TraesCS2A01G363900 chr3A 97.059 34 0 1 33 65 146564803 146564836 4.780000e-04 56.5
29 TraesCS2A01G363900 chr6B 87.942 481 58 0 1923 2403 457310687 457311167 4.960000e-158 568.0
30 TraesCS2A01G363900 chr6B 75.819 794 157 23 1063 1834 457309813 457310593 1.500000e-98 370.0
31 TraesCS2A01G363900 chr6B 90.210 286 17 5 516 794 380542144 380541863 2.510000e-96 363.0
32 TraesCS2A01G363900 chr6A 87.371 483 61 0 1921 2403 428302328 428301846 3.860000e-154 555.0
33 TraesCS2A01G363900 chr6A 75.884 792 160 22 1063 1834 428303205 428302425 3.230000e-100 375.0
34 TraesCS2A01G363900 chr6A 98.413 63 1 0 1 63 256470102 256470040 1.010000e-20 111.0
35 TraesCS2A01G363900 chr6A 94.231 52 2 1 1 51 234099419 234099470 1.020000e-10 78.7
36 TraesCS2A01G363900 chr5D 83.942 274 30 11 524 796 390702491 390702751 2.040000e-62 250.0
37 TraesCS2A01G363900 chr3B 82.418 273 26 15 443 701 782811993 782811729 5.760000e-53 219.0
38 TraesCS2A01G363900 chr3B 76.596 376 58 19 1 365 20088902 20088546 2.720000e-41 180.0
39 TraesCS2A01G363900 chr4A 83.893 149 18 6 1682 1827 691133250 691133395 1.660000e-28 137.0


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 TraesCS2A01G363900 chr2A 607874322 607877748 3426 True 6329 6329 100.0000 1 3427 1 chr2A.!!$R1 3426
1 TraesCS2A01G363900 chr2D 466809356 466811363 2007 False 3044 3044 94.2140 802 2791 1 chr2D.!!$F1 1989
2 TraesCS2A01G363900 chr2B 545432383 545434447 2064 False 2913 2913 92.4820 802 2826 1 chr2B.!!$F3 2024
3 TraesCS2A01G363900 chr2B 170088746 170089350 604 False 649 649 86.9420 2853 3424 1 chr2B.!!$F2 571
4 TraesCS2A01G363900 chr6D 166777299 166778066 767 False 966 966 89.2500 1 794 1 chr6D.!!$F1 793
5 TraesCS2A01G363900 chr6D 292782425 292783775 1350 False 466 562 81.7460 1063 2403 2 chr6D.!!$F2 1340
6 TraesCS2A01G363900 chr7D 465889593 465890358 765 False 917 917 88.1990 2 798 1 chr7D.!!$F1 796
7 TraesCS2A01G363900 chr7B 140858191 140858768 577 True 758 758 90.5010 2856 3427 1 chr7B.!!$R1 571
8 TraesCS2A01G363900 chr7B 590461836 590462435 599 False 651 651 87.0650 2855 3427 1 chr7B.!!$F2 572
9 TraesCS2A01G363900 chr7B 714550746 714551341 595 False 649 649 87.1450 2859 3427 1 chr7B.!!$F3 568
10 TraesCS2A01G363900 chr1B 383913639 383914217 578 True 726 726 89.5190 2855 3427 1 chr1B.!!$R1 572
11 TraesCS2A01G363900 chr1B 517913839 517914440 601 False 675 675 87.7280 2855 3427 1 chr1B.!!$F2 572
12 TraesCS2A01G363900 chr1B 357648091 357648858 767 False 651 651 82.5160 17 787 1 chr1B.!!$F1 770
13 TraesCS2A01G363900 chr1A 512501004 512501552 548 False 680 680 89.3120 2853 3394 1 chr1A.!!$F1 541
14 TraesCS2A01G363900 chr1D 387802642 387803224 582 False 651 651 87.1580 2856 3426 1 chr1D.!!$F2 570
15 TraesCS2A01G363900 chr5A 46365331 46365899 568 True 643 643 87.3680 2856 3415 1 chr5A.!!$R1 559
16 TraesCS2A01G363900 chr3A 714943670 714944407 737 False 593 593 81.6750 52 796 1 chr3A.!!$F3 744
17 TraesCS2A01G363900 chr6B 457309813 457311167 1354 False 469 568 81.8805 1063 2403 2 chr6B.!!$F1 1340
18 TraesCS2A01G363900 chr6A 428301846 428303205 1359 True 465 555 81.6275 1063 2403 2 chr6A.!!$R2 1340

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
855 885 0.178992 TTGGTTCTGGCCTGTTGGAG 60.179 55.0 3.32 0.0 34.57 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2693 2787 0.031449 GCCGATCTGCTAGAGACACC 59.969 60.0 1.31 0.0 31.75 4.16 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
70 73 9.833182 AAACACAAACATTTTTAAAATGGTGAC 57.167 25.926 27.95 0.00 32.14 3.67
127 132 7.984617 TGAAGAAAAATTTTTGAACCCGAGAAT 59.015 29.630 20.52 0.00 0.00 2.40
145 150 7.646526 CCCGAGAATAATTTTAAAATCCCGAAC 59.353 37.037 13.68 4.92 0.00 3.95
275 284 8.967664 ATGCAAGCATTTTATAAATTGGTGAT 57.032 26.923 19.79 12.31 32.41 3.06
314 323 9.941325 TTGGTACATATTTTCAAATGCAGATTT 57.059 25.926 0.00 0.00 39.30 2.17
628 654 3.756117 AGAAGCCAGTTTAGGAACCTTG 58.244 45.455 0.00 0.00 36.39 3.61
713 743 1.939934 TGCCAGCTATACGTGCATTTC 59.060 47.619 0.00 0.00 0.00 2.17
812 842 1.001503 CCCTCTGCCCTCTCTCACT 59.998 63.158 0.00 0.00 0.00 3.41
854 884 0.467290 GTTGGTTCTGGCCTGTTGGA 60.467 55.000 3.32 0.00 34.57 3.53
855 885 0.178992 TTGGTTCTGGCCTGTTGGAG 60.179 55.000 3.32 0.00 34.57 3.86
1008 1039 4.996434 CGATCCTCCATGGCCGCC 62.996 72.222 6.96 1.04 35.26 6.13
1017 1048 3.872603 ATGGCCGCCTCCGCATTA 61.873 61.111 11.61 0.00 34.03 1.90
1052 1083 2.509916 CCTCCAGCTCCTCCATGC 59.490 66.667 0.00 0.00 0.00 4.06
1392 1429 1.593265 GGGTAACGTGACCATCGGT 59.407 57.895 23.90 0.00 41.73 4.69
1641 1684 1.524621 GATCCACGCTGTGATGGGG 60.525 63.158 9.75 0.00 35.23 4.96
1743 1786 2.017559 GCTGGGACGTCGCCTTCTAT 62.018 60.000 27.39 0.00 0.00 1.98
1779 1822 1.144936 GGGCATCCTCCTCTTCACG 59.855 63.158 0.00 0.00 0.00 4.35
1899 1955 2.481795 GGGCCATGCATGTATTCACAAC 60.482 50.000 24.58 4.49 38.42 3.32
1915 1981 1.134098 ACAACGATGGTGGGATGGATC 60.134 52.381 0.00 0.00 0.00 3.36
2219 2289 0.102663 GCTACCTCTACTTCACCCGC 59.897 60.000 0.00 0.00 0.00 6.13
2393 2463 4.785453 GAAGAGGCTGCCGGTGGG 62.785 72.222 13.96 0.00 0.00 4.61
2435 2510 3.788694 CGTTTGAGATCTGATGAGACGTC 59.211 47.826 7.70 7.70 0.00 4.34
2446 2521 0.746659 TGAGACGTCGATGCATGGAT 59.253 50.000 14.85 0.00 0.00 3.41
2447 2522 1.136891 TGAGACGTCGATGCATGGATT 59.863 47.619 14.85 5.15 0.00 3.01
2448 2523 1.524355 GAGACGTCGATGCATGGATTG 59.476 52.381 14.85 12.52 0.00 2.67
2449 2524 0.583438 GACGTCGATGCATGGATTGG 59.417 55.000 14.85 9.69 0.00 3.16
2450 2525 0.177836 ACGTCGATGCATGGATTGGA 59.822 50.000 14.85 6.25 0.00 3.53
2637 2723 1.331447 CATGCACATACGTCACCCATG 59.669 52.381 0.00 0.00 0.00 3.66
2642 2728 3.078097 CACATACGTCACCCATGGAAAA 58.922 45.455 15.22 0.00 0.00 2.29
2683 2777 6.582636 TCAATCTCTAGTTATCACCGCATTT 58.417 36.000 0.00 0.00 0.00 2.32
2693 2787 4.654091 ATCACCGCATTTGGAAATTAGG 57.346 40.909 0.00 0.00 0.00 2.69
2695 2789 2.495669 CACCGCATTTGGAAATTAGGGT 59.504 45.455 0.00 0.00 30.76 4.34
2696 2790 2.495669 ACCGCATTTGGAAATTAGGGTG 59.504 45.455 0.00 0.00 30.76 4.61
2710 2804 1.686355 AGGGTGTCTCTAGCAGATCG 58.314 55.000 0.00 0.00 32.08 3.69
2721 2815 2.789409 AGCAGATCGGCTAAAACCTT 57.211 45.000 19.31 0.00 43.70 3.50
2782 2888 2.483188 CGAATAGGTCCGCTAAAAGCCT 60.483 50.000 0.00 0.00 38.18 4.58
2786 2892 1.674322 GTCCGCTAAAAGCCTGCCA 60.674 57.895 0.00 0.00 38.18 4.92
2792 2898 3.936772 TAAAAGCCTGCCAGCCCGG 62.937 63.158 0.00 0.00 38.11 5.73
2807 2916 2.036862 AGCCCGGAAAAGTCGTATATCC 59.963 50.000 0.73 0.00 0.00 2.59
2812 2921 3.004106 CGGAAAAGTCGTATATCCGTCCT 59.996 47.826 4.45 0.00 45.96 3.85
2815 2924 4.581077 AAAGTCGTATATCCGTCCTTCC 57.419 45.455 0.00 0.00 0.00 3.46
2816 2925 2.149578 AGTCGTATATCCGTCCTTCCG 58.850 52.381 0.00 0.00 0.00 4.30
2826 2935 1.816835 CCGTCCTTCCGCTGCTATATA 59.183 52.381 0.00 0.00 0.00 0.86
2827 2936 2.427453 CCGTCCTTCCGCTGCTATATAT 59.573 50.000 0.00 0.00 0.00 0.86
2828 2937 3.439293 CGTCCTTCCGCTGCTATATATG 58.561 50.000 0.00 0.00 0.00 1.78
2829 2938 3.119459 CGTCCTTCCGCTGCTATATATGT 60.119 47.826 0.00 0.00 0.00 2.29
2830 2939 4.095932 CGTCCTTCCGCTGCTATATATGTA 59.904 45.833 0.00 0.00 0.00 2.29
2831 2940 5.341617 GTCCTTCCGCTGCTATATATGTAC 58.658 45.833 0.00 0.00 0.00 2.90
2832 2941 5.014202 TCCTTCCGCTGCTATATATGTACA 58.986 41.667 0.00 0.00 0.00 2.90
2833 2942 5.656859 TCCTTCCGCTGCTATATATGTACAT 59.343 40.000 13.93 13.93 0.00 2.29
2834 2943 6.831868 TCCTTCCGCTGCTATATATGTACATA 59.168 38.462 17.65 17.65 0.00 2.29
2835 2944 6.918569 CCTTCCGCTGCTATATATGTACATAC 59.081 42.308 17.69 5.68 0.00 2.39
2836 2945 6.056428 TCCGCTGCTATATATGTACATACG 57.944 41.667 17.69 13.11 0.00 3.06
2837 2946 5.008316 TCCGCTGCTATATATGTACATACGG 59.992 44.000 21.97 21.97 33.56 4.02
2838 2947 5.212934 CGCTGCTATATATGTACATACGGG 58.787 45.833 17.69 9.47 0.00 5.28
2839 2948 5.220989 CGCTGCTATATATGTACATACGGGT 60.221 44.000 17.69 4.93 0.00 5.28
2840 2949 6.017687 CGCTGCTATATATGTACATACGGGTA 60.018 42.308 17.69 7.01 0.00 3.69
2841 2950 7.137426 GCTGCTATATATGTACATACGGGTAC 58.863 42.308 17.69 7.10 43.08 3.34
2842 2951 7.250445 TGCTATATATGTACATACGGGTACG 57.750 40.000 17.69 4.74 45.16 3.67
2843 2952 6.260714 TGCTATATATGTACATACGGGTACGG 59.739 42.308 17.69 4.84 45.16 4.02
2844 2953 6.293626 GCTATATATGTACATACGGGTACGGG 60.294 46.154 17.69 3.62 45.16 5.28
2845 2954 1.331214 ATGTACATACGGGTACGGGG 58.669 55.000 6.56 0.00 45.16 5.73
2846 2955 0.754957 TGTACATACGGGTACGGGGG 60.755 60.000 0.00 0.00 45.16 5.40
2847 2956 1.832167 TACATACGGGTACGGGGGC 60.832 63.158 0.00 0.00 46.48 5.80
2848 2957 3.932483 CATACGGGTACGGGGGCC 61.932 72.222 0.00 0.00 46.48 5.80
2849 2958 4.162009 ATACGGGTACGGGGGCCT 62.162 66.667 0.84 0.00 46.48 5.19
2850 2959 3.701760 ATACGGGTACGGGGGCCTT 62.702 63.158 0.84 0.00 46.48 4.35
2851 2960 3.922116 TACGGGTACGGGGGCCTTT 62.922 63.158 0.84 0.00 46.48 3.11
2852 2961 4.037760 CGGGTACGGGGGCCTTTT 62.038 66.667 0.84 0.00 36.18 2.27
2853 2962 2.668120 CGGGTACGGGGGCCTTTTA 61.668 63.158 0.84 0.00 36.18 1.52
2892 3001 2.556287 CGCAGGCGTCAAAAGGAC 59.444 61.111 5.34 0.00 43.36 3.85
2915 3024 1.080501 CTTCGCTGAGGCAAGTCGA 60.081 57.895 0.00 0.00 38.60 4.20
2928 3037 4.309950 GTCGACACTTGGGCCGGT 62.310 66.667 11.55 0.00 0.00 5.28
2964 3078 3.001939 TCGTTCGCTTTTCCTTGTTTCTC 59.998 43.478 0.00 0.00 0.00 2.87
3047 3170 4.326009 CCGGTTTTCAGTTGTTTTGTTCTG 59.674 41.667 0.00 0.00 0.00 3.02
3091 3218 8.661352 TTGATTCCTTTTTGTCCTTTCATTTC 57.339 30.769 0.00 0.00 0.00 2.17
3187 3318 5.412526 TCACCGTGTGTTACAAAAATCTC 57.587 39.130 0.00 0.00 34.79 2.75
3194 3325 6.695278 CGTGTGTTACAAAAATCTCCAATGTT 59.305 34.615 0.00 0.00 0.00 2.71
3238 3369 4.530710 TTACGACATAGTTCACCTTGCT 57.469 40.909 0.00 0.00 0.00 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 4.375272 TGGAATTTGAAAATTTGCTCGCA 58.625 34.783 2.71 0.00 38.64 5.10
63 66 5.105228 CCTGCTTTCAAAATATGGTCACCAT 60.105 40.000 15.46 15.46 46.99 3.55
70 73 8.831715 AAAGTTTACCTGCTTTCAAAATATGG 57.168 30.769 0.00 0.00 29.93 2.74
83 86 8.419076 TTTCTTCATTTCAAAAGTTTACCTGC 57.581 30.769 0.00 0.00 0.00 4.85
536 556 9.567776 TTTTTCTGTTTCCTTTTTCTTTTCCTT 57.432 25.926 0.00 0.00 0.00 3.36
596 622 5.939764 AAACTGGCTTCTTTTCCTTCTTT 57.060 34.783 0.00 0.00 0.00 2.52
599 625 5.070685 TCCTAAACTGGCTTCTTTTCCTTC 58.929 41.667 0.00 0.00 0.00 3.46
628 654 2.823154 CTCGGATCTGGGATCCTTCTAC 59.177 54.545 20.06 1.16 36.07 2.59
798 828 3.307445 CCCAGTGAGAGAGGGCAG 58.693 66.667 0.00 0.00 35.44 4.85
812 842 1.068194 CGTTTCCGCTATTTTTGCCCA 60.068 47.619 0.00 0.00 0.00 5.36
854 884 1.608590 CCGCATGAGTCAAACAAACCT 59.391 47.619 0.00 0.00 0.00 3.50
855 885 1.335872 CCCGCATGAGTCAAACAAACC 60.336 52.381 0.00 0.00 0.00 3.27
1008 1039 3.330853 GCGGCGAGTAATGCGGAG 61.331 66.667 12.98 0.00 34.93 4.63
1013 1044 2.960129 GGACGGCGGCGAGTAATG 60.960 66.667 38.93 7.38 0.00 1.90
1153 1184 2.927580 ATGAGACGCCGGACACGTT 61.928 57.895 5.05 0.00 45.24 3.99
1392 1429 2.646719 GTGTACTGGTCGGCGTCA 59.353 61.111 6.85 6.15 0.00 4.35
1536 1579 2.655685 GACGAGGCGGCGAAGATC 60.656 66.667 12.98 0.54 34.83 2.75
1556 1599 0.433492 CAGGAACGCGAAGTACAACG 59.567 55.000 15.93 1.21 0.00 4.10
1558 1601 0.947180 GCCAGGAACGCGAAGTACAA 60.947 55.000 15.93 0.00 0.00 2.41
1743 1786 1.270839 CCCTTGAAGAAGCCGAAGACA 60.271 52.381 0.00 0.00 0.00 3.41
1779 1822 2.240500 GCCGATGAGCACGATGACC 61.241 63.158 0.00 0.00 0.00 4.02
1899 1955 0.037882 CTCGATCCATCCCACCATCG 60.038 60.000 0.00 0.00 39.60 3.84
1915 1981 2.587194 CCCGCTCCTGCATTCTCG 60.587 66.667 0.00 0.00 39.64 4.04
2242 2312 1.067776 GGTACTTGTAGCTGAGCACGT 60.068 52.381 7.39 0.00 0.00 4.49
2435 2510 1.233019 GACCTCCAATCCATGCATCG 58.767 55.000 0.00 0.00 0.00 3.84
2446 2521 6.747414 ACAGCTATATATGTTGACCTCCAA 57.253 37.500 0.00 0.00 0.00 3.53
2447 2522 8.967918 GTATACAGCTATATATGTTGACCTCCA 58.032 37.037 0.00 0.00 0.00 3.86
2448 2523 8.967918 TGTATACAGCTATATATGTTGACCTCC 58.032 37.037 0.08 0.00 0.00 4.30
2548 2634 2.492484 CTCCGTGCAAGAAGGTAGTACT 59.508 50.000 0.00 0.00 0.00 2.73
2549 2635 2.877335 CTCCGTGCAAGAAGGTAGTAC 58.123 52.381 0.00 0.00 0.00 2.73
2550 2636 1.203994 GCTCCGTGCAAGAAGGTAGTA 59.796 52.381 0.00 0.00 42.31 1.82
2642 2728 7.184862 AGAGATTGAACCCCTGAATGTATTTT 58.815 34.615 0.00 0.00 0.00 1.82
2646 2732 5.964477 ACTAGAGATTGAACCCCTGAATGTA 59.036 40.000 0.00 0.00 0.00 2.29
2683 2777 4.101114 TGCTAGAGACACCCTAATTTCCA 58.899 43.478 0.00 0.00 0.00 3.53
2693 2787 0.031449 GCCGATCTGCTAGAGACACC 59.969 60.000 1.31 0.00 31.75 4.16
2695 2789 2.640316 TAGCCGATCTGCTAGAGACA 57.360 50.000 14.15 0.00 42.75 3.41
2696 2790 3.992260 TTTAGCCGATCTGCTAGAGAC 57.008 47.619 16.94 0.00 44.18 3.36
2710 2804 2.571757 GGCGGCAAGGTTTTAGCC 59.428 61.111 3.07 0.00 44.89 3.93
2757 2863 0.757935 TTAGCGGACCTATTCGGGCT 60.758 55.000 0.00 0.00 42.26 5.19
2761 2867 1.865340 GGCTTTTAGCGGACCTATTCG 59.135 52.381 0.00 0.00 43.62 3.34
2782 2888 2.282180 GACTTTTCCGGGCTGGCA 60.282 61.111 7.74 0.00 37.80 4.92
2786 2892 2.036862 GGATATACGACTTTTCCGGGCT 59.963 50.000 0.00 0.00 0.00 5.19
2792 2898 4.981054 GGAAGGACGGATATACGACTTTTC 59.019 45.833 15.86 14.75 35.82 2.29
2807 2916 3.119459 ACATATATAGCAGCGGAAGGACG 60.119 47.826 0.00 0.00 0.00 4.79
2812 2921 6.459161 CCGTATGTACATATATAGCAGCGGAA 60.459 42.308 22.89 0.00 35.30 4.30
2815 2924 5.212934 CCCGTATGTACATATATAGCAGCG 58.787 45.833 18.27 13.44 0.00 5.18
2816 2925 6.145338 ACCCGTATGTACATATATAGCAGC 57.855 41.667 18.27 2.76 0.00 5.25
2826 2935 1.331214 CCCCGTACCCGTATGTACAT 58.669 55.000 13.93 13.93 40.91 2.29
2827 2936 0.754957 CCCCCGTACCCGTATGTACA 60.755 60.000 0.00 0.00 40.91 2.90
2828 2937 2.041153 CCCCCGTACCCGTATGTAC 58.959 63.158 0.00 0.00 38.16 2.90
2829 2938 1.832167 GCCCCCGTACCCGTATGTA 60.832 63.158 0.00 0.00 0.00 2.29
2830 2939 3.156556 GCCCCCGTACCCGTATGT 61.157 66.667 0.00 0.00 0.00 2.29
2831 2940 3.932483 GGCCCCCGTACCCGTATG 61.932 72.222 0.00 0.00 0.00 2.39
2832 2941 3.701760 AAGGCCCCCGTACCCGTAT 62.702 63.158 0.00 0.00 0.00 3.06
2833 2942 3.922116 AAAGGCCCCCGTACCCGTA 62.922 63.158 0.00 0.00 0.00 4.02
2835 2944 2.598098 CTAAAAGGCCCCCGTACCCG 62.598 65.000 0.00 0.00 0.00 5.28
2836 2945 1.225426 CTAAAAGGCCCCCGTACCC 59.775 63.158 0.00 0.00 0.00 3.69
2837 2946 1.225426 CCTAAAAGGCCCCCGTACC 59.775 63.158 0.00 0.00 0.00 3.34
2838 2947 1.225426 CCCTAAAAGGCCCCCGTAC 59.775 63.158 0.00 0.00 32.73 3.67
2839 2948 3.744137 CCCTAAAAGGCCCCCGTA 58.256 61.111 0.00 0.00 32.73 4.02
2847 2956 6.573434 GTCAAATAGGATTTGCCCTAAAAGG 58.427 40.000 6.99 0.00 41.71 3.11
2848 2957 6.265577 CGTCAAATAGGATTTGCCCTAAAAG 58.734 40.000 6.99 0.00 41.71 2.27
2849 2958 5.393678 GCGTCAAATAGGATTTGCCCTAAAA 60.394 40.000 6.99 0.00 41.71 1.52
2850 2959 4.097286 GCGTCAAATAGGATTTGCCCTAAA 59.903 41.667 6.99 0.00 41.71 1.85
2851 2960 3.630312 GCGTCAAATAGGATTTGCCCTAA 59.370 43.478 6.99 0.00 41.71 2.69
2852 2961 3.211045 GCGTCAAATAGGATTTGCCCTA 58.789 45.455 6.99 0.00 42.51 3.53
2853 2962 2.024414 GCGTCAAATAGGATTTGCCCT 58.976 47.619 6.99 0.00 40.29 5.19
2915 3024 4.265056 GTGGACCGGCCCAAGTGT 62.265 66.667 12.64 0.00 38.06 3.55
2941 3050 3.002348 AGAAACAAGGAAAAGCGAACGAG 59.998 43.478 0.00 0.00 0.00 4.18
2951 3060 5.890424 AAAGAACACGAGAAACAAGGAAA 57.110 34.783 0.00 0.00 0.00 3.13
3008 3131 1.760029 ACCGGCCAAAACAGTGAAAAT 59.240 42.857 0.00 0.00 0.00 1.82
3102 3229 9.801873 CAGAAACAGAAAATAGAAAAGGAAACA 57.198 29.630 0.00 0.00 0.00 2.83
3187 3318 6.306356 CGATGAGCACTTTCTTAAAACATTGG 59.694 38.462 0.00 0.00 0.00 3.16
3220 3351 2.926200 CAGAGCAAGGTGAACTATGTCG 59.074 50.000 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.