Multiple sequence alignment - TraesCS6A01G258000

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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 TraesCS6A01G258000 chr6A 100.000 2879 0 0 1 2879 480309345 480312223 0.000000e+00 5317.0
1 TraesCS6A01G258000 chr6A 97.059 748 21 1 1 747 560201674 560200927 0.000000e+00 1258.0
2 TraesCS6A01G258000 chr6D 91.844 1741 77 22 753 2446 340212100 340213822 0.000000e+00 2368.0
3 TraesCS6A01G258000 chr6D 80.312 320 30 13 2447 2739 340226193 340226506 8.080000e-51 211.0
4 TraesCS6A01G258000 chr6B 87.081 2206 119 51 772 2879 480654850 480652713 0.000000e+00 2342.0
5 TraesCS6A01G258000 chr6B 97.193 748 19 2 1 747 648505510 648506256 0.000000e+00 1264.0
6 TraesCS6A01G258000 chr6B 96.515 746 25 1 1 745 704145141 704144396 0.000000e+00 1232.0
7 TraesCS6A01G258000 chr5A 97.193 748 20 1 1 747 514033512 514032765 0.000000e+00 1264.0
8 TraesCS6A01G258000 chr5A 95.861 749 28 3 1 747 640620840 640620093 0.000000e+00 1208.0
9 TraesCS6A01G258000 chr1A 96.662 749 24 1 1 748 3215562 3214814 0.000000e+00 1243.0
10 TraesCS6A01G258000 chr5B 96.267 750 27 1 1 749 522679183 522678434 0.000000e+00 1229.0
11 TraesCS6A01G258000 chr5B 95.867 750 30 1 1 749 522787437 522786688 0.000000e+00 1212.0
12 TraesCS6A01G258000 chr5B 95.467 750 32 2 1 749 522724522 522723774 0.000000e+00 1195.0
13 TraesCS6A01G258000 chr2A 74.255 369 67 21 1005 1359 650260318 650259964 2.330000e-26 130.0
14 TraesCS6A01G258000 chr2B 73.670 376 66 24 1005 1359 593018166 593017803 6.520000e-22 115.0
15 TraesCS6A01G258000 chr2D 85.714 84 12 0 1276 1359 505841546 505841463 3.950000e-14 89.8


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 TraesCS6A01G258000 chr6A 480309345 480312223 2878 False 5317 5317 100.000 1 2879 1 chr6A.!!$F1 2878
1 TraesCS6A01G258000 chr6A 560200927 560201674 747 True 1258 1258 97.059 1 747 1 chr6A.!!$R1 746
2 TraesCS6A01G258000 chr6D 340212100 340213822 1722 False 2368 2368 91.844 753 2446 1 chr6D.!!$F1 1693
3 TraesCS6A01G258000 chr6B 480652713 480654850 2137 True 2342 2342 87.081 772 2879 1 chr6B.!!$R1 2107
4 TraesCS6A01G258000 chr6B 648505510 648506256 746 False 1264 1264 97.193 1 747 1 chr6B.!!$F1 746
5 TraesCS6A01G258000 chr6B 704144396 704145141 745 True 1232 1232 96.515 1 745 1 chr6B.!!$R2 744
6 TraesCS6A01G258000 chr5A 514032765 514033512 747 True 1264 1264 97.193 1 747 1 chr5A.!!$R1 746
7 TraesCS6A01G258000 chr5A 640620093 640620840 747 True 1208 1208 95.861 1 747 1 chr5A.!!$R2 746
8 TraesCS6A01G258000 chr1A 3214814 3215562 748 True 1243 1243 96.662 1 748 1 chr1A.!!$R1 747
9 TraesCS6A01G258000 chr5B 522678434 522679183 749 True 1229 1229 96.267 1 749 1 chr5B.!!$R1 748
10 TraesCS6A01G258000 chr5B 522786688 522787437 749 True 1212 1212 95.867 1 749 1 chr5B.!!$R3 748
11 TraesCS6A01G258000 chr5B 522723774 522724522 748 True 1195 1195 95.467 1 749 1 chr5B.!!$R2 748

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
923 955 0.376152 CTGCGCAATTAGCCTCAGTG 59.624 55.0 13.05 0.0 41.38 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1989 2057 0.101759 TTATACGGGCTCACTCACGC 59.898 55.0 0.0 0.0 0.0 5.34 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
173 175 3.303526 GGTTGAACAAAGTACGCGACATT 60.304 43.478 15.93 3.01 0.00 2.71
293 295 3.671716 GGGAAAGCGAGGAACTTCTTTA 58.328 45.455 0.00 0.00 41.55 1.85
392 394 1.733399 GCGTCGAGCGTTCTTCCTT 60.733 57.895 0.00 0.00 43.66 3.36
474 476 3.181459 TGACGAAGAACTCATGTCCCAAA 60.181 43.478 0.00 0.00 0.00 3.28
549 551 1.070758 GAAGTGTGCTGGAAGAGGTGA 59.929 52.381 0.00 0.00 34.07 4.02
732 734 3.816523 ACGTCCAAATTTACACGTTCCAT 59.183 39.130 16.91 0.12 42.67 3.41
733 735 4.996122 ACGTCCAAATTTACACGTTCCATA 59.004 37.500 16.91 0.00 42.67 2.74
737 739 7.413657 CGTCCAAATTTACACGTTCCATAAGAT 60.414 37.037 11.24 0.00 0.00 2.40
749 751 7.115520 CACGTTCCATAAGATATGCTCTTACAG 59.884 40.741 0.00 0.00 46.61 2.74
750 752 7.148641 CGTTCCATAAGATATGCTCTTACAGT 58.851 38.462 0.00 0.00 46.61 3.55
751 753 7.653713 CGTTCCATAAGATATGCTCTTACAGTT 59.346 37.037 0.00 0.00 46.61 3.16
762 764 4.331717 TGCTCTTACAGTTAATAAAGCGCC 59.668 41.667 2.29 0.00 30.57 6.53
796 798 1.342082 CGAAAGTGGATCGTTCGCGT 61.342 55.000 5.77 0.00 46.48 6.01
802 804 2.621000 GATCGTTCGCGTCCATGC 59.379 61.111 5.77 0.00 42.11 4.06
851 859 2.231235 TGAGCGATGCACACTTCTTCTA 59.769 45.455 0.00 0.00 0.00 2.10
852 860 3.118992 TGAGCGATGCACACTTCTTCTAT 60.119 43.478 0.00 0.00 0.00 1.98
853 861 4.097892 TGAGCGATGCACACTTCTTCTATA 59.902 41.667 0.00 0.00 0.00 1.31
854 862 5.207110 AGCGATGCACACTTCTTCTATAT 57.793 39.130 0.00 0.00 0.00 0.86
855 863 6.016276 TGAGCGATGCACACTTCTTCTATATA 60.016 38.462 0.00 0.00 0.00 0.86
856 864 6.929625 AGCGATGCACACTTCTTCTATATAT 58.070 36.000 0.00 0.00 0.00 0.86
857 865 8.056407 AGCGATGCACACTTCTTCTATATATA 57.944 34.615 0.00 0.00 0.00 0.86
889 907 4.280929 ACCCAGCAAGATAAACCAAAAGTC 59.719 41.667 0.00 0.00 0.00 3.01
921 953 1.354506 GCTGCGCAATTAGCCTCAG 59.645 57.895 13.05 0.00 40.93 3.35
922 954 1.372087 GCTGCGCAATTAGCCTCAGT 61.372 55.000 13.05 0.00 40.44 3.41
923 955 0.376152 CTGCGCAATTAGCCTCAGTG 59.624 55.000 13.05 0.00 41.38 3.66
924 956 1.063166 GCGCAATTAGCCTCAGTGC 59.937 57.895 0.30 0.00 41.38 4.40
925 957 1.723870 CGCAATTAGCCTCAGTGCC 59.276 57.895 0.00 0.00 41.38 5.01
926 958 0.745845 CGCAATTAGCCTCAGTGCCT 60.746 55.000 0.00 0.00 41.38 4.75
927 959 1.020437 GCAATTAGCCTCAGTGCCTC 58.980 55.000 0.00 0.00 37.23 4.70
928 960 1.679944 GCAATTAGCCTCAGTGCCTCA 60.680 52.381 0.00 0.00 37.23 3.86
955 987 0.396835 AAGTCCCTCCGGGTAGTAGC 60.397 60.000 0.00 0.00 44.74 3.58
1017 1049 1.728490 GAATGTTGAGCCCCGGCATC 61.728 60.000 8.74 3.58 44.88 3.91
1031 1063 1.522580 GCATCTCGGTCAGGAAGCC 60.523 63.158 0.00 0.00 0.00 4.35
1146 1190 0.243907 CATCGACCACAACCGAGACT 59.756 55.000 0.00 0.00 38.25 3.24
1212 1256 0.902516 ACACTCTGACCTCTGCCTCC 60.903 60.000 0.00 0.00 0.00 4.30
1215 1259 1.000993 TCTGACCTCTGCCTCCTCC 59.999 63.158 0.00 0.00 0.00 4.30
1280 1324 1.006102 ACGACGGCCACTTCAAGAG 60.006 57.895 2.24 0.00 0.00 2.85
1442 1489 2.387445 CGACCATGAAAAGCGGCGA 61.387 57.895 12.98 0.00 0.00 5.54
1444 1491 2.253414 GACCATGAAAAGCGGCGACC 62.253 60.000 12.98 0.00 0.00 4.79
1445 1492 2.040544 CCATGAAAAGCGGCGACCT 61.041 57.895 12.98 0.00 0.00 3.85
1447 1494 1.003839 ATGAAAAGCGGCGACCTGA 60.004 52.632 12.98 0.00 0.00 3.86
1448 1495 0.605319 ATGAAAAGCGGCGACCTGAA 60.605 50.000 12.98 0.00 0.00 3.02
1475 1534 4.341240 CGCTAAAGATCGCCGCGC 62.341 66.667 8.21 0.00 37.29 6.86
1923 1991 8.830580 CCTCGATTCAACATACTATGTCATTTT 58.169 33.333 2.05 0.00 44.07 1.82
1952 2020 6.783708 ATTTCCGGTTAATTAGCATTGGAA 57.216 33.333 0.00 12.63 32.74 3.53
1961 2029 8.664798 GGTTAATTAGCATTGGAAATTTGGAAC 58.335 33.333 0.00 0.00 0.00 3.62
1962 2030 9.435688 GTTAATTAGCATTGGAAATTTGGAACT 57.564 29.630 0.00 0.00 0.00 3.01
1987 2055 6.919662 TGCCACTAGCTTATTATTGTACGTAC 59.080 38.462 18.90 18.90 44.23 3.67
1989 2057 7.114529 GCCACTAGCTTATTATTGTACGTACTG 59.885 40.741 25.12 10.37 38.99 2.74
2032 2100 5.236478 ACAGAGTTCTTTGTGTTATTCCGTG 59.764 40.000 0.00 0.00 0.00 4.94
2150 2222 1.536766 CGTGTACGTTCCAGACTACCA 59.463 52.381 0.00 0.00 34.11 3.25
2251 2327 4.579127 AGCCAGTTGTGGTTGGAC 57.421 55.556 0.00 0.00 46.96 4.02
2285 2361 1.012841 GAGTACGTAGGGTCCGTCTG 58.987 60.000 0.00 0.00 39.60 3.51
2376 2452 0.988832 ATTGTCCGGTGCCCTTTCTA 59.011 50.000 0.00 0.00 0.00 2.10
2378 2454 1.122632 TGTCCGGTGCCCTTTCTACA 61.123 55.000 0.00 0.00 0.00 2.74
2379 2455 0.391263 GTCCGGTGCCCTTTCTACAG 60.391 60.000 0.00 0.00 0.00 2.74
2400 2476 2.278857 CTAGCTAGCACGGGCACG 60.279 66.667 18.83 6.92 44.61 5.34
2401 2477 3.774959 CTAGCTAGCACGGGCACGG 62.775 68.421 18.83 2.18 46.48 4.94
2405 2481 3.792053 CTAGCACGGGCACGGGATC 62.792 68.421 18.87 0.00 37.84 3.36
2409 2485 2.189521 ACGGGCACGGGATCATTC 59.810 61.111 15.46 0.00 46.48 2.67
2410 2486 2.591715 CGGGCACGGGATCATTCC 60.592 66.667 0.00 0.00 41.77 3.01
2430 2506 3.818773 TCCCGACTTTGTGAAATTCCTTC 59.181 43.478 0.00 0.00 34.31 3.46
2466 2556 3.613737 GCAACGCCAAAACTCGTACTATA 59.386 43.478 0.00 0.00 0.00 1.31
2483 2573 6.036083 CGTACTATATCAGCACCATTATTGCC 59.964 42.308 0.00 0.00 41.18 4.52
2485 2575 6.176183 ACTATATCAGCACCATTATTGCCTC 58.824 40.000 0.00 0.00 41.18 4.70
2494 2584 5.053145 CACCATTATTGCCTCTACTCACTC 58.947 45.833 0.00 0.00 0.00 3.51
2496 2586 4.038042 CCATTATTGCCTCTACTCACTCGA 59.962 45.833 0.00 0.00 0.00 4.04
2497 2587 5.279206 CCATTATTGCCTCTACTCACTCGAT 60.279 44.000 0.00 0.00 0.00 3.59
2498 2588 5.440234 TTATTGCCTCTACTCACTCGATC 57.560 43.478 0.00 0.00 0.00 3.69
2499 2589 2.420058 TGCCTCTACTCACTCGATCA 57.580 50.000 0.00 0.00 0.00 2.92
2500 2590 2.017782 TGCCTCTACTCACTCGATCAC 58.982 52.381 0.00 0.00 0.00 3.06
2501 2591 2.294074 GCCTCTACTCACTCGATCACT 58.706 52.381 0.00 0.00 0.00 3.41
2502 2592 2.685897 GCCTCTACTCACTCGATCACTT 59.314 50.000 0.00 0.00 0.00 3.16
2503 2593 3.488384 GCCTCTACTCACTCGATCACTTG 60.488 52.174 0.00 0.00 0.00 3.16
2504 2594 3.488384 CCTCTACTCACTCGATCACTTGC 60.488 52.174 0.00 0.00 0.00 4.01
2505 2595 3.081804 TCTACTCACTCGATCACTTGCA 58.918 45.455 0.00 0.00 0.00 4.08
2506 2596 2.820059 ACTCACTCGATCACTTGCAA 57.180 45.000 0.00 0.00 0.00 4.08
2507 2597 2.681706 ACTCACTCGATCACTTGCAAG 58.318 47.619 24.84 24.84 0.00 4.01
2508 2598 1.392853 CTCACTCGATCACTTGCAAGC 59.607 52.381 26.27 8.98 0.00 4.01
2511 2601 1.699656 CTCGATCACTTGCAAGCCCG 61.700 60.000 26.27 21.42 0.00 6.13
2519 2609 2.200170 CTTGCAAGCCCGTTAGGTGC 62.200 60.000 14.65 0.00 37.50 5.01
2536 2626 2.481449 GGTGCTCGGTATAGGTCACTTG 60.481 54.545 0.00 0.00 0.00 3.16
2542 2632 4.202441 TCGGTATAGGTCACTTGTCTACC 58.798 47.826 0.00 0.00 0.00 3.18
2549 2639 0.317160 TCACTTGTCTACCGTGGCTG 59.683 55.000 0.00 0.00 0.00 4.85
2550 2640 0.670546 CACTTGTCTACCGTGGCTGG 60.671 60.000 0.00 0.00 0.00 4.85
2569 2659 0.441533 GCTAGCATCAATCATCGCCG 59.558 55.000 10.63 0.00 0.00 6.46
2571 2661 2.138320 CTAGCATCAATCATCGCCGTT 58.862 47.619 0.00 0.00 0.00 4.44
2587 2677 2.357952 GCCGTTTCTGACCAAGTTTCTT 59.642 45.455 0.00 0.00 0.00 2.52
2594 2706 1.946768 TGACCAAGTTTCTTGCTTCGG 59.053 47.619 4.22 0.00 0.00 4.30
2651 2763 2.252855 GACGATCGAGCTAGGCGG 59.747 66.667 24.34 0.00 0.00 6.13
2652 2764 3.882835 GACGATCGAGCTAGGCGGC 62.883 68.421 24.34 0.00 0.00 6.53
2654 2766 2.653702 GATCGAGCTAGGCGGCAT 59.346 61.111 13.08 0.00 34.17 4.40
2695 2807 0.806102 ATGATGCGCTGGTACACGTC 60.806 55.000 9.73 0.00 35.84 4.34
2713 2825 2.672651 TACACGACGGGGCGAGAA 60.673 61.111 0.43 0.00 34.83 2.87
2723 2835 1.497722 GGGCGAGAAAAGCACGAAG 59.502 57.895 0.00 0.00 36.08 3.79
2743 2855 4.077300 AGAGCATATGGAATCTTTGCGA 57.923 40.909 4.56 0.00 38.32 5.10
2754 2879 0.245266 TCTTTGCGAGCACCGTATGA 59.755 50.000 0.00 0.00 41.15 2.15
2769 2896 2.545742 CGTATGAAGGCGATCATGTCCA 60.546 50.000 16.03 0.00 40.21 4.02
2779 2906 4.441913 GGCGATCATGTCCAAATCCATTTT 60.442 41.667 0.00 0.00 0.00 1.82
2783 2910 6.694411 CGATCATGTCCAAATCCATTTTCTTC 59.306 38.462 0.00 0.00 0.00 2.87
2793 2920 2.910319 TCCATTTTCTTCCCTTCCGAGA 59.090 45.455 0.00 0.00 0.00 4.04
2797 2924 1.267121 TTCTTCCCTTCCGAGACAGG 58.733 55.000 0.00 0.00 0.00 4.00
2801 2928 3.787001 CCTTCCGAGACAGGCCCC 61.787 72.222 0.00 0.00 0.00 5.80
2802 2929 4.148825 CTTCCGAGACAGGCCCCG 62.149 72.222 0.00 0.00 0.00 5.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
133 135 4.222810 TCAACCGCATAGCTGATGGTATAT 59.777 41.667 0.00 0.00 35.38 0.86
293 295 3.228453 TCTTCTGTGGGACGACTACTTT 58.772 45.455 0.00 0.00 0.00 2.66
392 394 2.885861 GAGCGCGAGGAGGAAGAA 59.114 61.111 12.10 0.00 0.00 2.52
474 476 3.612241 CGCAACACAATGAACACATCCAT 60.612 43.478 0.00 0.00 0.00 3.41
737 739 6.202188 GGCGCTTTATTAACTGTAAGAGCATA 59.798 38.462 7.64 0.00 42.66 3.14
762 764 8.934507 ATCCACTTTCGTTTCTAGATAAAGAG 57.065 34.615 17.42 12.30 32.72 2.85
796 798 2.125713 CCGCACTGTACGCATGGA 60.126 61.111 0.00 0.00 0.00 3.41
802 804 3.426117 CTAGCCCCCGCACTGTACG 62.426 68.421 0.00 0.00 37.52 3.67
851 859 2.238898 GCTGGGTCGGGGCTTTATATAT 59.761 50.000 0.00 0.00 0.00 0.86
852 860 1.626825 GCTGGGTCGGGGCTTTATATA 59.373 52.381 0.00 0.00 0.00 0.86
853 861 0.400594 GCTGGGTCGGGGCTTTATAT 59.599 55.000 0.00 0.00 0.00 0.86
854 862 0.983905 TGCTGGGTCGGGGCTTTATA 60.984 55.000 0.00 0.00 0.00 0.98
855 863 1.858739 TTGCTGGGTCGGGGCTTTAT 61.859 55.000 0.00 0.00 0.00 1.40
856 864 2.478335 CTTGCTGGGTCGGGGCTTTA 62.478 60.000 0.00 0.00 0.00 1.85
857 865 3.868200 CTTGCTGGGTCGGGGCTTT 62.868 63.158 0.00 0.00 0.00 3.51
889 907 1.587613 GCAGCGCTCTAGGTTCTCG 60.588 63.158 7.13 0.00 0.00 4.04
921 953 1.560860 GACTTGCTCGTGTGAGGCAC 61.561 60.000 0.00 0.00 42.79 5.01
922 954 1.300931 GACTTGCTCGTGTGAGGCA 60.301 57.895 0.00 0.00 42.79 4.75
923 955 2.029844 GGACTTGCTCGTGTGAGGC 61.030 63.158 0.00 0.00 42.79 4.70
924 956 1.374758 GGGACTTGCTCGTGTGAGG 60.375 63.158 0.00 0.00 42.79 3.86
925 957 0.389166 GAGGGACTTGCTCGTGTGAG 60.389 60.000 0.00 0.00 41.55 3.51
926 958 1.666011 GAGGGACTTGCTCGTGTGA 59.334 57.895 0.00 0.00 41.55 3.58
927 959 1.374758 GGAGGGACTTGCTCGTGTG 60.375 63.158 0.00 0.00 41.55 3.82
928 960 2.932234 CGGAGGGACTTGCTCGTGT 61.932 63.158 0.00 0.00 41.55 4.49
972 1004 2.091852 CTCTTGTCCTTCAGGAGTGC 57.908 55.000 0.00 0.00 46.49 4.40
979 1011 4.422073 TTCTTTCTGCTCTTGTCCTTCA 57.578 40.909 0.00 0.00 0.00 3.02
1212 1256 0.390860 CCCATAGCAAGGACGAGGAG 59.609 60.000 0.00 0.00 0.00 3.69
1215 1259 0.390860 CCTCCCATAGCAAGGACGAG 59.609 60.000 0.00 0.00 31.44 4.18
1338 1382 2.255554 GACACGACGCTCTGCTCA 59.744 61.111 0.00 0.00 0.00 4.26
1447 1494 4.382320 TTTAGCGCCGCCCGTCTT 62.382 61.111 4.98 0.00 39.71 3.01
1448 1495 4.814294 CTTTAGCGCCGCCCGTCT 62.814 66.667 4.98 0.00 39.71 4.18
1475 1534 3.103911 GTTCGACGCTGTCACCGG 61.104 66.667 0.00 0.00 32.09 5.28
1497 1556 2.029844 GCAGGCCTCAACAGTCGTC 61.030 63.158 0.00 0.00 0.00 4.20
1498 1557 2.031163 GCAGGCCTCAACAGTCGT 59.969 61.111 0.00 0.00 0.00 4.34
1499 1558 3.114616 CGCAGGCCTCAACAGTCG 61.115 66.667 0.00 0.00 0.00 4.18
1961 2029 5.983720 ACGTACAATAATAAGCTAGTGGCAG 59.016 40.000 0.00 0.00 44.79 4.85
1962 2030 5.909477 ACGTACAATAATAAGCTAGTGGCA 58.091 37.500 0.00 0.00 44.79 4.92
1987 2055 2.284798 ATACGGGCTCACTCACGCAG 62.285 60.000 0.00 0.00 0.00 5.18
1989 2057 0.101759 TTATACGGGCTCACTCACGC 59.898 55.000 0.00 0.00 0.00 5.34
2032 2100 7.266400 AGAAGAACGGAGACAAAATATACTCC 58.734 38.462 0.00 0.00 43.58 3.85
2134 2202 4.025040 TCTTCTGGTAGTCTGGAACGTA 57.975 45.455 0.00 0.00 0.00 3.57
2135 2203 2.872732 TCTTCTGGTAGTCTGGAACGT 58.127 47.619 0.00 0.00 0.00 3.99
2136 2204 4.882427 TCTATCTTCTGGTAGTCTGGAACG 59.118 45.833 0.00 0.00 0.00 3.95
2138 2206 5.765677 CGATCTATCTTCTGGTAGTCTGGAA 59.234 44.000 0.00 0.00 0.00 3.53
2139 2207 5.309638 CGATCTATCTTCTGGTAGTCTGGA 58.690 45.833 0.00 0.00 0.00 3.86
2150 2222 0.315568 GCACGCCCGATCTATCTTCT 59.684 55.000 0.00 0.00 0.00 2.85
2228 2304 3.716006 CCACAACTGGCTGTCGCG 61.716 66.667 0.00 0.00 36.88 5.87
2251 2327 1.397692 GTACTCTCTCTCACGTTCCCG 59.602 57.143 0.00 0.00 40.83 5.14
2259 2335 2.170187 GGACCCTACGTACTCTCTCTCA 59.830 54.545 0.00 0.00 0.00 3.27
2401 2477 2.985896 TCACAAAGTCGGGAATGATCC 58.014 47.619 0.00 0.00 45.77 3.36
2402 2478 5.567138 ATTTCACAAAGTCGGGAATGATC 57.433 39.130 0.00 0.00 0.00 2.92
2403 2479 5.105756 GGAATTTCACAAAGTCGGGAATGAT 60.106 40.000 0.00 0.00 36.41 2.45
2404 2480 4.217550 GGAATTTCACAAAGTCGGGAATGA 59.782 41.667 0.00 0.00 36.41 2.57
2405 2481 4.218417 AGGAATTTCACAAAGTCGGGAATG 59.782 41.667 0.00 0.00 36.41 2.67
2406 2482 4.407365 AGGAATTTCACAAAGTCGGGAAT 58.593 39.130 0.00 0.00 36.41 3.01
2407 2483 3.827722 AGGAATTTCACAAAGTCGGGAA 58.172 40.909 0.00 0.00 36.41 3.97
2408 2484 3.502123 AGGAATTTCACAAAGTCGGGA 57.498 42.857 0.00 0.00 36.41 5.14
2409 2485 3.057526 GGAAGGAATTTCACAAAGTCGGG 60.058 47.826 0.00 0.00 36.41 5.14
2410 2486 3.057526 GGGAAGGAATTTCACAAAGTCGG 60.058 47.826 0.00 0.00 39.13 4.79
2411 2487 3.364964 CGGGAAGGAATTTCACAAAGTCG 60.365 47.826 0.00 0.00 39.28 4.18
2412 2488 3.568430 ACGGGAAGGAATTTCACAAAGTC 59.432 43.478 0.00 0.00 39.28 3.01
2413 2489 3.317993 CACGGGAAGGAATTTCACAAAGT 59.682 43.478 0.00 0.00 39.28 2.66
2414 2490 3.857010 GCACGGGAAGGAATTTCACAAAG 60.857 47.826 0.00 0.00 39.28 2.77
2415 2491 2.035321 GCACGGGAAGGAATTTCACAAA 59.965 45.455 0.00 0.00 39.28 2.83
2430 2506 3.761140 TTGCCATGCATGCACGGG 61.761 61.111 32.04 29.67 38.76 5.28
2446 2522 5.653507 TGATATAGTACGAGTTTTGGCGTT 58.346 37.500 0.00 0.00 41.49 4.84
2447 2523 5.252969 TGATATAGTACGAGTTTTGGCGT 57.747 39.130 0.00 0.00 43.86 5.68
2466 2556 3.589951 AGAGGCAATAATGGTGCTGAT 57.410 42.857 0.00 0.00 41.88 2.90
2483 2573 3.127721 TGCAAGTGATCGAGTGAGTAGAG 59.872 47.826 0.00 0.00 0.00 2.43
2485 2575 3.494045 TGCAAGTGATCGAGTGAGTAG 57.506 47.619 0.00 0.00 0.00 2.57
2494 2584 1.577328 AACGGGCTTGCAAGTGATCG 61.577 55.000 26.55 23.54 0.00 3.69
2496 2586 1.453155 CTAACGGGCTTGCAAGTGAT 58.547 50.000 26.55 14.15 0.00 3.06
2497 2587 0.605319 CCTAACGGGCTTGCAAGTGA 60.605 55.000 26.55 0.82 0.00 3.41
2498 2588 0.889186 ACCTAACGGGCTTGCAAGTG 60.889 55.000 26.55 18.58 39.10 3.16
2499 2589 0.889186 CACCTAACGGGCTTGCAAGT 60.889 55.000 26.55 9.88 39.10 3.16
2500 2590 1.875963 CACCTAACGGGCTTGCAAG 59.124 57.895 22.44 22.44 39.10 4.01
2501 2591 2.265182 GCACCTAACGGGCTTGCAA 61.265 57.895 0.00 0.00 37.14 4.08
2502 2592 2.671619 GCACCTAACGGGCTTGCA 60.672 61.111 0.00 0.00 37.14 4.08
2503 2593 2.359975 AGCACCTAACGGGCTTGC 60.360 61.111 0.00 0.00 37.36 4.01
2504 2594 2.100631 CGAGCACCTAACGGGCTTG 61.101 63.158 0.00 0.00 37.08 4.01
2505 2595 2.264794 CGAGCACCTAACGGGCTT 59.735 61.111 0.00 0.00 37.08 4.35
2506 2596 3.771160 CCGAGCACCTAACGGGCT 61.771 66.667 0.00 0.00 42.48 5.19
2511 2601 2.954318 TGACCTATACCGAGCACCTAAC 59.046 50.000 0.00 0.00 0.00 2.34
2519 2609 4.275443 GGTAGACAAGTGACCTATACCGAG 59.725 50.000 0.00 0.00 0.00 4.63
2536 2626 1.437986 CTAGCCAGCCACGGTAGAC 59.562 63.158 0.00 0.00 0.00 2.59
2549 2639 0.801251 GGCGATGATTGATGCTAGCC 59.199 55.000 13.29 0.00 36.32 3.93
2550 2640 0.441533 CGGCGATGATTGATGCTAGC 59.558 55.000 8.10 8.10 0.00 3.42
2569 2659 4.639135 AGCAAGAAACTTGGTCAGAAAC 57.361 40.909 9.83 0.00 0.00 2.78
2571 2661 3.312421 CGAAGCAAGAAACTTGGTCAGAA 59.688 43.478 14.80 0.00 0.00 3.02
2644 2756 3.272334 GCGTCCAATGCCGCCTAG 61.272 66.667 4.54 0.00 43.96 3.02
2651 2763 3.308878 GACCACGTGCGTCCAATGC 62.309 63.158 20.16 2.14 0.00 3.56
2652 2764 2.860293 GACCACGTGCGTCCAATG 59.140 61.111 20.16 4.63 0.00 2.82
2654 2766 3.902086 TCGACCACGTGCGTCCAA 61.902 61.111 22.99 13.60 40.69 3.53
2695 2807 2.203972 TTTCTCGCCCCGTCGTGTAG 62.204 60.000 0.00 0.00 0.00 2.74
2713 2825 3.266510 TCCATATGCTCTTCGTGCTTT 57.733 42.857 0.00 0.00 0.00 3.51
2723 2835 3.364764 GCTCGCAAAGATTCCATATGCTC 60.365 47.826 0.00 0.00 34.93 4.26
2727 2839 2.880890 GGTGCTCGCAAAGATTCCATAT 59.119 45.455 0.00 0.00 0.00 1.78
2743 2855 0.249489 GATCGCCTTCATACGGTGCT 60.249 55.000 0.00 0.00 32.14 4.40
2754 2879 2.301346 GGATTTGGACATGATCGCCTT 58.699 47.619 0.00 0.00 0.00 4.35
2769 2896 4.672899 TCGGAAGGGAAGAAAATGGATTT 58.327 39.130 0.00 0.00 0.00 2.17
2779 2906 1.258445 GCCTGTCTCGGAAGGGAAGA 61.258 60.000 0.00 0.00 46.15 2.87
2783 2910 3.787001 GGGCCTGTCTCGGAAGGG 61.787 72.222 0.84 0.00 33.87 3.95
2855 2982 2.582498 CGCGGACGGATCTGTTCC 60.582 66.667 8.99 10.38 41.59 3.62


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

AutoCloner maintained by Alex Coulton.