Multiple sequence alignment - TraesCS6B01G093100

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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 TraesCS6B01G093100 chr6B 100.000 2516 0 0 1 2516 68924326 68921811 0.000000e+00 4647
1 TraesCS6B01G093100 chr6B 85.592 701 86 11 1009 1705 709120388 709121077 0.000000e+00 721
2 TraesCS6B01G093100 chr6B 87.069 116 12 1 1396 1511 709099539 709099651 7.310000e-26 128
3 TraesCS6B01G093100 chr6A 88.797 2410 148 54 3 2324 37409033 37406658 0.000000e+00 2843
4 TraesCS6B01G093100 chr6A 87.055 703 72 13 1009 1706 611536160 611536848 0.000000e+00 776
5 TraesCS6B01G093100 chr6A 85.007 707 82 17 1015 1704 611541077 611541776 0.000000e+00 697
6 TraesCS6B01G093100 chr6A 87.239 431 44 7 1051 1477 611544273 611544696 4.870000e-132 481
7 TraesCS6B01G093100 chr6D 92.414 1951 89 27 3 1919 32695833 32693908 0.000000e+00 2728
8 TraesCS6B01G093100 chr6D 79.890 363 39 16 1957 2306 32693831 32693490 4.180000e-58 235
9 TraesCS6B01G093100 chr6D 81.250 192 16 7 2342 2514 32693493 32693303 1.210000e-28 137
10 TraesCS6B01G093100 chr4D 78.764 518 88 19 1007 1513 1203018 1202512 6.710000e-86 327
11 TraesCS6B01G093100 chr4B 78.530 517 91 18 1007 1513 808739 809245 3.120000e-84 322
12 TraesCS6B01G093100 chr4A 78.185 518 91 19 1007 1513 603637560 603638066 6.760000e-81 311


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 TraesCS6B01G093100 chr6B 68921811 68924326 2515 True 4647.000000 4647 100.000 1 2516 1 chr6B.!!$R1 2515
1 TraesCS6B01G093100 chr6B 709120388 709121077 689 False 721.000000 721 85.592 1009 1705 1 chr6B.!!$F2 696
2 TraesCS6B01G093100 chr6A 37406658 37409033 2375 True 2843.000000 2843 88.797 3 2324 1 chr6A.!!$R1 2321
3 TraesCS6B01G093100 chr6A 611536160 611536848 688 False 776.000000 776 87.055 1009 1706 1 chr6A.!!$F1 697
4 TraesCS6B01G093100 chr6A 611541077 611544696 3619 False 589.000000 697 86.123 1015 1704 2 chr6A.!!$F2 689
5 TraesCS6B01G093100 chr6D 32693303 32695833 2530 True 1033.333333 2728 84.518 3 2514 3 chr6D.!!$R1 2511
6 TraesCS6B01G093100 chr4D 1202512 1203018 506 True 327.000000 327 78.764 1007 1513 1 chr4D.!!$R1 506
7 TraesCS6B01G093100 chr4B 808739 809245 506 False 322.000000 322 78.530 1007 1513 1 chr4B.!!$F1 506
8 TraesCS6B01G093100 chr4A 603637560 603638066 506 False 311.000000 311 78.185 1007 1513 1 chr4A.!!$F1 506

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
935 951 0.173481 GCCCGAAGCCAAAGGAAATC 59.827 55.0 0.0 0.0 34.35 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1991 2090 0.036952 AGCAGACCACGTTCCATCAG 60.037 55.0 0.0 0.0 0.0 2.9 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
76 78 6.370166 GCAACTCTATATTTCTGCCCAGATAC 59.630 42.308 0.00 0.00 37.29 2.24
77 79 7.675062 CAACTCTATATTTCTGCCCAGATACT 58.325 38.462 0.00 0.00 37.29 2.12
78 80 7.238486 ACTCTATATTTCTGCCCAGATACTG 57.762 40.000 0.00 0.00 37.29 2.74
79 81 6.784969 ACTCTATATTTCTGCCCAGATACTGT 59.215 38.462 0.00 0.00 37.29 3.55
80 82 7.950684 ACTCTATATTTCTGCCCAGATACTGTA 59.049 37.037 0.00 0.00 37.29 2.74
93 102 6.346896 CCAGATACTGTAGTTTTTACCTCCC 58.653 44.000 0.00 0.00 0.00 4.30
122 131 6.160576 AGAAGAGAGAAATAGGCATCTCAC 57.839 41.667 5.67 0.00 43.62 3.51
123 132 5.660417 AGAAGAGAGAAATAGGCATCTCACA 59.340 40.000 5.67 0.00 43.62 3.58
175 185 2.413437 CTAGAGCCCTCATCACGCGG 62.413 65.000 12.47 0.00 0.00 6.46
359 373 1.460699 GCATATCCCTTCCCCACCC 59.539 63.158 0.00 0.00 0.00 4.61
360 374 1.068352 GCATATCCCTTCCCCACCCT 61.068 60.000 0.00 0.00 0.00 4.34
361 375 1.068121 CATATCCCTTCCCCACCCTC 58.932 60.000 0.00 0.00 0.00 4.30
369 383 1.870941 TTCCCCACCCTCGCTCTCTA 61.871 60.000 0.00 0.00 0.00 2.43
382 396 0.871722 CTCTCTATCCTCCGCTCGTG 59.128 60.000 0.00 0.00 0.00 4.35
383 397 0.180642 TCTCTATCCTCCGCTCGTGT 59.819 55.000 0.00 0.00 0.00 4.49
384 398 1.025812 CTCTATCCTCCGCTCGTGTT 58.974 55.000 0.00 0.00 0.00 3.32
394 408 1.595382 GCTCGTGTTCACCACAGCT 60.595 57.895 0.00 0.00 44.78 4.24
420 434 2.029307 GCACCCGGTCCATAGACTCC 62.029 65.000 0.00 0.00 43.05 3.85
422 436 1.075525 CCCGGTCCATAGACTCCCA 60.076 63.158 0.00 0.00 43.05 4.37
424 438 1.734137 CGGTCCATAGACTCCCACG 59.266 63.158 0.00 0.00 43.05 4.94
481 497 4.326766 GCGCGCAGTCCAAAAGCA 62.327 61.111 29.10 0.00 0.00 3.91
483 499 2.721231 GCGCAGTCCAAAAGCACA 59.279 55.556 0.30 0.00 0.00 4.57
574 590 5.012664 ACCCCCACAAAGATCCAATAAAAAC 59.987 40.000 0.00 0.00 0.00 2.43
582 598 2.604969 TCCAATAAAAACTCGCACGC 57.395 45.000 0.00 0.00 0.00 5.34
670 686 4.598894 CAGGCCGCCCTCATCGAG 62.599 72.222 5.55 0.00 40.33 4.04
701 717 0.466189 GGCCCCACATGTCATACAGG 60.466 60.000 0.00 0.00 35.77 4.00
704 720 1.064463 CCCCACATGTCATACAGGCTT 60.064 52.381 0.00 0.00 32.34 4.35
706 722 2.618816 CCCACATGTCATACAGGCTTGT 60.619 50.000 6.72 6.72 40.44 3.16
807 823 3.097162 CCTCCCAGGTTAGCCCCC 61.097 72.222 0.00 0.00 34.57 5.40
886 902 0.883370 CCTCGCCGCCTATTTAACCC 60.883 60.000 0.00 0.00 0.00 4.11
931 947 2.224159 AGAGCCCGAAGCCAAAGGA 61.224 57.895 0.00 0.00 45.47 3.36
932 948 1.303317 GAGCCCGAAGCCAAAGGAA 60.303 57.895 0.00 0.00 45.47 3.36
933 949 0.893727 GAGCCCGAAGCCAAAGGAAA 60.894 55.000 0.00 0.00 45.47 3.13
934 950 0.251787 AGCCCGAAGCCAAAGGAAAT 60.252 50.000 0.00 0.00 45.47 2.17
935 951 0.173481 GCCCGAAGCCAAAGGAAATC 59.827 55.000 0.00 0.00 34.35 2.17
936 952 0.817654 CCCGAAGCCAAAGGAAATCC 59.182 55.000 0.00 0.00 0.00 3.01
937 953 1.544724 CCGAAGCCAAAGGAAATCCA 58.455 50.000 1.67 0.00 38.89 3.41
938 954 1.202348 CCGAAGCCAAAGGAAATCCAC 59.798 52.381 1.67 0.00 38.89 4.02
939 955 2.162681 CGAAGCCAAAGGAAATCCACT 58.837 47.619 1.67 0.00 38.89 4.00
940 956 2.162408 CGAAGCCAAAGGAAATCCACTC 59.838 50.000 1.67 0.00 38.89 3.51
941 957 2.222227 AGCCAAAGGAAATCCACTCC 57.778 50.000 1.67 0.00 38.89 3.85
984 1001 1.668419 CATCTCAAAACCCTAGCCCG 58.332 55.000 0.00 0.00 0.00 6.13
985 1002 1.065418 CATCTCAAAACCCTAGCCCGT 60.065 52.381 0.00 0.00 0.00 5.28
1598 1654 0.721811 GAGAGTCGTGTGTCGTGTCG 60.722 60.000 0.00 0.00 40.80 4.35
1599 1655 1.010350 GAGTCGTGTGTCGTGTCGT 60.010 57.895 0.00 0.00 40.80 4.34
1600 1656 1.260198 GAGTCGTGTGTCGTGTCGTG 61.260 60.000 0.00 0.00 40.80 4.35
1601 1657 1.584483 GTCGTGTGTCGTGTCGTGT 60.584 57.895 0.00 0.00 40.80 4.49
1602 1658 1.297819 TCGTGTGTCGTGTCGTGTC 60.298 57.895 0.00 0.00 40.80 3.67
1726 1783 3.131933 CCTGTGTCTGCTGCTATCTTACT 59.868 47.826 0.00 0.00 0.00 2.24
1779 1836 2.163412 TCCATAATTTGTGCTCGTTGGC 59.837 45.455 0.00 0.00 0.00 4.52
1784 1841 0.380378 TTTGTGCTCGTTGGCTTCAC 59.620 50.000 0.00 0.00 0.00 3.18
1803 1860 3.612423 TCACTATCTGTTTGTCGCATTCG 59.388 43.478 0.00 0.00 0.00 3.34
1815 1872 1.724623 TCGCATTCGTACTTTGTCTGC 59.275 47.619 0.00 0.00 36.96 4.26
1833 1890 1.375098 GCTGCTCCTGACTCCAATGC 61.375 60.000 0.00 0.00 0.00 3.56
1851 1908 2.604174 CGTTGGAACCCGTGTGCTC 61.604 63.158 0.00 0.00 0.00 4.26
1857 1914 1.594331 GAACCCGTGTGCTCTTTCTT 58.406 50.000 0.00 0.00 0.00 2.52
1858 1915 1.947456 GAACCCGTGTGCTCTTTCTTT 59.053 47.619 0.00 0.00 0.00 2.52
1862 1919 1.002468 CCGTGTGCTCTTTCTTTGTGG 60.002 52.381 0.00 0.00 0.00 4.17
1902 1959 4.272748 GTGCCTATTACCGATCTGAAAACC 59.727 45.833 0.00 0.00 0.00 3.27
1932 1991 6.642683 AATCACGTTTAAGGTTATCGACAG 57.357 37.500 0.00 0.00 0.00 3.51
1933 1992 5.125100 TCACGTTTAAGGTTATCGACAGT 57.875 39.130 0.00 0.00 0.00 3.55
1934 1993 5.156355 TCACGTTTAAGGTTATCGACAGTC 58.844 41.667 0.00 0.00 0.00 3.51
1936 1995 5.060569 CACGTTTAAGGTTATCGACAGTCTG 59.939 44.000 0.00 0.00 0.00 3.51
1937 1996 5.048504 ACGTTTAAGGTTATCGACAGTCTGA 60.049 40.000 6.91 0.00 0.00 3.27
1938 1997 5.860182 CGTTTAAGGTTATCGACAGTCTGAA 59.140 40.000 6.91 0.00 0.00 3.02
1940 1999 6.585695 TTAAGGTTATCGACAGTCTGAACT 57.414 37.500 6.91 0.00 35.60 3.01
1986 2085 3.418684 AAGGCTCGGTACTTTGTTGAT 57.581 42.857 0.00 0.00 0.00 2.57
1987 2086 3.418684 AGGCTCGGTACTTTGTTGATT 57.581 42.857 0.00 0.00 0.00 2.57
1988 2087 3.751518 AGGCTCGGTACTTTGTTGATTT 58.248 40.909 0.00 0.00 0.00 2.17
1989 2088 4.142038 AGGCTCGGTACTTTGTTGATTTT 58.858 39.130 0.00 0.00 0.00 1.82
1990 2089 4.215613 AGGCTCGGTACTTTGTTGATTTTC 59.784 41.667 0.00 0.00 0.00 2.29
1991 2090 4.473199 GCTCGGTACTTTGTTGATTTTCC 58.527 43.478 0.00 0.00 0.00 3.13
1992 2091 4.215613 GCTCGGTACTTTGTTGATTTTCCT 59.784 41.667 0.00 0.00 0.00 3.36
2019 2118 2.103373 ACGTGGTCTGCTATCATGTCT 58.897 47.619 0.00 0.00 0.00 3.41
2020 2119 2.099921 ACGTGGTCTGCTATCATGTCTC 59.900 50.000 0.00 0.00 0.00 3.36
2021 2120 2.544694 CGTGGTCTGCTATCATGTCTCC 60.545 54.545 0.00 0.00 0.00 3.71
2051 2150 5.336990 CGTACATTCACTTCGCTTTTCAAAG 59.663 40.000 0.00 0.00 39.03 2.77
2118 2236 9.690913 TTGATGGATCTTGATTTCTTGATTAGT 57.309 29.630 0.00 0.00 0.00 2.24
2175 2460 4.885907 ACCTTGTTGATGCATGGATCTAAG 59.114 41.667 25.23 22.76 37.20 2.18
2176 2461 4.885907 CCTTGTTGATGCATGGATCTAAGT 59.114 41.667 25.23 0.00 36.21 2.24
2178 2463 5.101648 TGTTGATGCATGGATCTAAGTGA 57.898 39.130 25.23 3.83 0.00 3.41
2179 2464 5.121105 TGTTGATGCATGGATCTAAGTGAG 58.879 41.667 25.23 0.00 0.00 3.51
2180 2465 5.104817 TGTTGATGCATGGATCTAAGTGAGA 60.105 40.000 25.23 2.41 39.01 3.27
2194 2479 7.748691 TCTAAGTGAGATCTGATCTGAGATG 57.251 40.000 24.04 9.98 40.38 2.90
2195 2480 7.289310 TCTAAGTGAGATCTGATCTGAGATGT 58.711 38.462 24.04 7.46 40.38 3.06
2273 2569 8.482128 CACTTGGATTATATATCCTCTCCCTTC 58.518 40.741 12.36 0.00 38.95 3.46
2278 2574 7.015195 GGATTATATATCCTCTCCCTTCTCAGC 59.985 44.444 0.00 0.00 35.36 4.26
2326 2624 0.546598 CCCTCTTTCCAGGCGGTATT 59.453 55.000 0.00 0.00 31.23 1.89
2327 2625 1.475213 CCCTCTTTCCAGGCGGTATTC 60.475 57.143 0.00 0.00 31.23 1.75
2330 2628 1.209504 TCTTTCCAGGCGGTATTCCAG 59.790 52.381 0.00 0.00 0.00 3.86
2331 2629 0.988832 TTTCCAGGCGGTATTCCAGT 59.011 50.000 0.00 0.00 0.00 4.00
2333 2631 0.539986 TCCAGGCGGTATTCCAGTTC 59.460 55.000 0.00 0.00 0.00 3.01
2338 2636 1.129811 GGCGGTATTCCAGTTCGTTTG 59.870 52.381 0.00 0.00 0.00 2.93
2357 2655 7.592938 TCGTTTGCATTTCATATATTCCATCC 58.407 34.615 0.00 0.00 0.00 3.51
2371 2669 7.969690 ATATTCCATCCTCACTAGACCATAG 57.030 40.000 0.00 0.00 0.00 2.23
2378 2676 4.402793 TCCTCACTAGACCATAGCAGAAAC 59.597 45.833 0.00 0.00 0.00 2.78
2394 2692 4.400567 GCAGAAACTCCAATAGGCAGATTT 59.599 41.667 0.00 0.00 33.74 2.17
2435 2733 7.694388 ATTCGATGCATCATTTTGATTCAAG 57.306 32.000 25.70 5.38 34.00 3.02
2437 2735 6.492254 TCGATGCATCATTTTGATTCAAGAG 58.508 36.000 25.70 4.33 34.00 2.85
2502 2946 4.262036 GCCCCTTTTTGACTAGGAAAGTTG 60.262 45.833 0.00 0.00 39.07 3.16
2503 2947 4.893524 CCCCTTTTTGACTAGGAAAGTTGT 59.106 41.667 0.00 0.00 39.07 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.837947 TCCCTGAGATCATGGACTGTT 58.162 47.619 3.03 0.00 36.05 3.16
49 51 3.133901 TGGGCAGAAATATAGAGTTGCGA 59.866 43.478 0.00 0.00 32.59 5.10
122 131 1.403814 TCTAGGGCCTGATCGAACTG 58.596 55.000 18.53 0.00 0.00 3.16
123 132 1.967066 CATCTAGGGCCTGATCGAACT 59.033 52.381 18.53 0.00 0.00 3.01
167 177 2.722487 GGTCGAGATCCGCGTGAT 59.278 61.111 4.92 7.64 38.37 3.06
175 185 0.459759 GGGTTTGGACGGTCGAGATC 60.460 60.000 1.43 0.00 0.00 2.75
359 373 0.605319 AGCGGAGGATAGAGAGCGAG 60.605 60.000 0.00 0.00 0.00 5.03
360 374 0.604243 GAGCGGAGGATAGAGAGCGA 60.604 60.000 0.00 0.00 0.00 4.93
361 375 1.873165 GAGCGGAGGATAGAGAGCG 59.127 63.158 0.00 0.00 0.00 5.03
364 378 0.180642 ACACGAGCGGAGGATAGAGA 59.819 55.000 0.00 0.00 0.00 3.10
369 383 1.215647 GTGAACACGAGCGGAGGAT 59.784 57.895 0.00 0.00 0.00 3.24
382 396 0.954452 CAGGGAAAGCTGTGGTGAAC 59.046 55.000 0.00 0.00 0.00 3.18
383 397 0.823356 GCAGGGAAAGCTGTGGTGAA 60.823 55.000 0.00 0.00 0.00 3.18
384 398 1.228245 GCAGGGAAAGCTGTGGTGA 60.228 57.895 0.00 0.00 0.00 4.02
394 408 3.961414 GGACCGGGTGCAGGGAAA 61.961 66.667 14.36 0.00 0.00 3.13
420 434 2.395690 GCGCGTGAGATTTCGTGG 59.604 61.111 8.43 0.00 37.90 4.94
422 436 3.838795 GCGCGCGTGAGATTTCGT 61.839 61.111 32.35 0.00 0.00 3.85
424 438 4.559386 CGGCGCGCGTGAGATTTC 62.559 66.667 32.35 11.65 0.00 2.17
481 497 5.734634 ACTAGGGTTAGGTTGGGATATTTGT 59.265 40.000 0.00 0.00 0.00 2.83
483 499 5.371769 GGACTAGGGTTAGGTTGGGATATTT 59.628 44.000 0.00 0.00 0.00 1.40
536 552 2.288025 GGGGTGACTAGGGTTGCGA 61.288 63.158 0.00 0.00 0.00 5.10
538 554 2.228480 TGGGGGTGACTAGGGTTGC 61.228 63.158 0.00 0.00 0.00 4.17
603 619 2.217038 TGGGCCCAGAGTGTCAGAC 61.217 63.158 24.45 0.00 0.00 3.51
605 621 2.348998 GTGGGCCCAGAGTGTCAG 59.651 66.667 29.55 0.00 0.00 3.51
665 681 2.733301 CTGCGGATGCCTCTCGAT 59.267 61.111 0.00 0.00 41.78 3.59
666 682 3.531207 CCTGCGGATGCCTCTCGA 61.531 66.667 0.00 0.00 41.78 4.04
701 717 1.000274 GTGACCCATTCCAACACAAGC 60.000 52.381 0.00 0.00 0.00 4.01
704 720 0.181587 ACGTGACCCATTCCAACACA 59.818 50.000 0.00 0.00 0.00 3.72
706 722 1.169661 GCACGTGACCCATTCCAACA 61.170 55.000 22.23 0.00 0.00 3.33
899 915 0.747283 GGCTCTGTGATCTGGCAAGG 60.747 60.000 0.00 0.00 0.00 3.61
931 947 3.630828 GGGGATTGGATTGGAGTGGATTT 60.631 47.826 0.00 0.00 0.00 2.17
932 948 2.091111 GGGGATTGGATTGGAGTGGATT 60.091 50.000 0.00 0.00 0.00 3.01
933 949 1.500736 GGGGATTGGATTGGAGTGGAT 59.499 52.381 0.00 0.00 0.00 3.41
934 950 0.926293 GGGGATTGGATTGGAGTGGA 59.074 55.000 0.00 0.00 0.00 4.02
935 951 0.630673 TGGGGATTGGATTGGAGTGG 59.369 55.000 0.00 0.00 0.00 4.00
936 952 1.005805 TGTGGGGATTGGATTGGAGTG 59.994 52.381 0.00 0.00 0.00 3.51
937 953 1.285962 CTGTGGGGATTGGATTGGAGT 59.714 52.381 0.00 0.00 0.00 3.85
938 954 1.565759 TCTGTGGGGATTGGATTGGAG 59.434 52.381 0.00 0.00 0.00 3.86
939 955 1.679981 TCTGTGGGGATTGGATTGGA 58.320 50.000 0.00 0.00 0.00 3.53
940 956 2.530460 TTCTGTGGGGATTGGATTGG 57.470 50.000 0.00 0.00 0.00 3.16
941 957 3.385755 GGATTTCTGTGGGGATTGGATTG 59.614 47.826 0.00 0.00 0.00 2.67
1174 1199 2.126228 GATCACGCGGTGGAACGA 60.126 61.111 12.47 0.00 38.12 3.85
1558 1596 4.840911 TCTTATTTAGATCGACGACACGG 58.159 43.478 0.00 0.00 0.00 4.94
1598 1654 0.320508 GACGGACAAGGGGAAGACAC 60.321 60.000 0.00 0.00 0.00 3.67
1599 1655 1.477685 GGACGGACAAGGGGAAGACA 61.478 60.000 0.00 0.00 0.00 3.41
1600 1656 1.295746 GGACGGACAAGGGGAAGAC 59.704 63.158 0.00 0.00 0.00 3.01
1601 1657 2.280552 CGGACGGACAAGGGGAAGA 61.281 63.158 0.00 0.00 0.00 2.87
1602 1658 1.614241 ATCGGACGGACAAGGGGAAG 61.614 60.000 0.00 0.00 0.00 3.46
1726 1783 3.436704 GCGGAGTTCATCTCATTCAAACA 59.563 43.478 0.00 0.00 44.40 2.83
1779 1836 5.536554 AATGCGACAAACAGATAGTGAAG 57.463 39.130 0.00 0.00 0.00 3.02
1784 1841 4.798907 AGTACGAATGCGACAAACAGATAG 59.201 41.667 0.00 0.00 41.64 2.08
1803 1860 2.072298 CAGGAGCAGCAGACAAAGTAC 58.928 52.381 0.00 0.00 0.00 2.73
1815 1872 1.088340 CGCATTGGAGTCAGGAGCAG 61.088 60.000 0.00 0.00 0.00 4.24
1833 1890 2.590575 AGCACACGGGTTCCAACG 60.591 61.111 0.00 0.00 0.00 4.10
1862 1919 1.859080 GCACGGAAATCGAGTGGATAC 59.141 52.381 4.20 0.00 42.43 2.24
1919 1978 4.810790 CAGTTCAGACTGTCGATAACCTT 58.189 43.478 14.83 1.47 46.57 3.50
1932 1991 2.610727 GGCTCTGTACACCAGTTCAGAC 60.611 54.545 0.00 0.72 44.15 3.51
1933 1992 1.618837 GGCTCTGTACACCAGTTCAGA 59.381 52.381 0.00 5.14 45.97 3.27
1934 1993 1.620819 AGGCTCTGTACACCAGTTCAG 59.379 52.381 4.01 0.00 42.52 3.02
1936 1995 1.402984 CGAGGCTCTGTACACCAGTTC 60.403 57.143 13.50 0.68 42.19 3.01
1937 1996 0.603569 CGAGGCTCTGTACACCAGTT 59.396 55.000 13.50 0.00 42.19 3.16
1938 1997 1.251527 CCGAGGCTCTGTACACCAGT 61.252 60.000 13.50 0.00 42.19 4.00
1940 1999 0.038599 TACCGAGGCTCTGTACACCA 59.961 55.000 13.89 0.00 0.00 4.17
1941 2000 0.739561 CTACCGAGGCTCTGTACACC 59.260 60.000 13.89 0.00 0.00 4.16
1942 2001 1.671845 CTCTACCGAGGCTCTGTACAC 59.328 57.143 13.89 0.00 33.51 2.90
1943 2002 1.558294 TCTCTACCGAGGCTCTGTACA 59.442 52.381 13.89 4.53 37.86 2.90
1946 2005 2.217510 TTTCTCTACCGAGGCTCTGT 57.782 50.000 15.94 15.94 37.86 3.41
1949 2008 2.894902 CCTTTTTCTCTACCGAGGCTC 58.105 52.381 3.87 3.87 37.86 4.70
1953 2051 2.531206 CGAGCCTTTTTCTCTACCGAG 58.469 52.381 0.00 0.00 38.67 4.63
1989 2088 0.608130 CAGACCACGTTCCATCAGGA 59.392 55.000 0.00 0.00 43.93 3.86
1990 2089 1.021390 GCAGACCACGTTCCATCAGG 61.021 60.000 0.00 0.00 0.00 3.86
1991 2090 0.036952 AGCAGACCACGTTCCATCAG 60.037 55.000 0.00 0.00 0.00 2.90
1992 2091 1.262417 TAGCAGACCACGTTCCATCA 58.738 50.000 0.00 0.00 0.00 3.07
2001 2100 2.697751 AGGAGACATGATAGCAGACCAC 59.302 50.000 0.00 0.00 0.00 4.16
2019 2118 0.042131 AGTGAATGTACGGGGGAGGA 59.958 55.000 0.00 0.00 0.00 3.71
2020 2119 0.909623 AAGTGAATGTACGGGGGAGG 59.090 55.000 0.00 0.00 0.00 4.30
2021 2120 1.470979 CGAAGTGAATGTACGGGGGAG 60.471 57.143 0.00 0.00 0.00 4.30
2175 2460 5.335897 GCCTACATCTCAGATCAGATCTCAC 60.336 48.000 10.25 0.00 37.58 3.51
2176 2461 4.766373 GCCTACATCTCAGATCAGATCTCA 59.234 45.833 10.25 0.00 37.58 3.27
2178 2463 4.738685 TGCCTACATCTCAGATCAGATCT 58.261 43.478 7.15 7.15 41.15 2.75
2179 2464 5.465532 TTGCCTACATCTCAGATCAGATC 57.534 43.478 1.64 1.64 30.07 2.75
2180 2465 5.883685 TTTGCCTACATCTCAGATCAGAT 57.116 39.130 0.00 0.00 33.00 2.90
2182 2467 6.939132 AATTTTGCCTACATCTCAGATCAG 57.061 37.500 0.00 0.00 0.00 2.90
2183 2468 8.267183 TCTTAATTTTGCCTACATCTCAGATCA 58.733 33.333 0.00 0.00 0.00 2.92
2188 2473 8.786898 GCATATCTTAATTTTGCCTACATCTCA 58.213 33.333 0.00 0.00 0.00 3.27
2189 2474 7.959651 CGCATATCTTAATTTTGCCTACATCTC 59.040 37.037 0.00 0.00 0.00 2.75
2190 2475 7.661437 TCGCATATCTTAATTTTGCCTACATCT 59.339 33.333 0.00 0.00 0.00 2.90
2191 2476 7.806690 TCGCATATCTTAATTTTGCCTACATC 58.193 34.615 0.00 0.00 0.00 3.06
2192 2477 7.744087 TCGCATATCTTAATTTTGCCTACAT 57.256 32.000 0.00 0.00 0.00 2.29
2193 2478 7.228507 ACATCGCATATCTTAATTTTGCCTACA 59.771 33.333 0.00 0.00 0.00 2.74
2194 2479 7.535258 CACATCGCATATCTTAATTTTGCCTAC 59.465 37.037 0.00 0.00 0.00 3.18
2195 2480 7.443879 TCACATCGCATATCTTAATTTTGCCTA 59.556 33.333 0.00 0.00 0.00 3.93
2273 2569 1.666054 GCCAAGAGAATCCAGCTGAG 58.334 55.000 17.39 5.49 33.66 3.35
2278 2574 1.078214 TGCCGCCAAGAGAATCCAG 60.078 57.895 0.00 0.00 33.66 3.86
2326 2624 5.895636 ATATGAAATGCAAACGAACTGGA 57.104 34.783 0.00 0.00 0.00 3.86
2327 2625 7.379529 GGAATATATGAAATGCAAACGAACTGG 59.620 37.037 0.00 0.00 0.00 4.00
2330 2628 8.801715 ATGGAATATATGAAATGCAAACGAAC 57.198 30.769 0.00 0.00 0.00 3.95
2331 2629 8.081633 GGATGGAATATATGAAATGCAAACGAA 58.918 33.333 0.00 0.00 0.00 3.85
2333 2631 7.596494 AGGATGGAATATATGAAATGCAAACG 58.404 34.615 0.00 0.00 0.00 3.60
2338 2636 7.934855 AGTGAGGATGGAATATATGAAATGC 57.065 36.000 0.00 0.00 0.00 3.56
2357 2655 5.451242 GGAGTTTCTGCTATGGTCTAGTGAG 60.451 48.000 0.00 0.00 0.00 3.51
2371 2669 2.991250 TCTGCCTATTGGAGTTTCTGC 58.009 47.619 0.00 0.00 34.57 4.26
2378 2676 6.757897 TGTTTACAAATCTGCCTATTGGAG 57.242 37.500 0.00 0.00 34.57 3.86
2394 2692 9.684448 TGCATCGAATTTTATTTCTTGTTTACA 57.316 25.926 0.00 0.00 0.00 2.41
2413 2711 6.439675 TCTTGAATCAAAATGATGCATCGA 57.560 33.333 21.34 12.35 41.78 3.59
2427 2725 7.334421 GGACATGTTAGTAAAGCTCTTGAATCA 59.666 37.037 0.00 0.00 0.00 2.57
2435 2733 4.508662 AGCAGGACATGTTAGTAAAGCTC 58.491 43.478 0.00 0.00 0.00 4.09
2437 2735 5.629079 AAAGCAGGACATGTTAGTAAAGC 57.371 39.130 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.