Multiple sequence alignment - TraesCS7A01G209700

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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 TraesCS7A01G209700 chr7A 100.000 3096 0 0 1 3096 172384892 172381797 0.000000e+00 5718.0
1 TraesCS7A01G209700 chr7A 93.233 1064 70 2 2033 3096 664921281 664922342 0.000000e+00 1565.0
2 TraesCS7A01G209700 chr7A 89.004 1064 98 6 982 2033 173264500 173265556 0.000000e+00 1299.0
3 TraesCS7A01G209700 chr7A 84.440 1054 140 12 995 2032 173408814 173409859 0.000000e+00 1016.0
4 TraesCS7A01G209700 chr7A 95.556 45 2 0 943 987 173264442 173264486 4.280000e-09 73.1
5 TraesCS7A01G209700 chr5D 94.831 1064 54 1 2033 3096 164774241 164773179 0.000000e+00 1659.0
6 TraesCS7A01G209700 chr7D 94.549 1064 58 0 2033 3096 12842266 12843329 0.000000e+00 1644.0
7 TraesCS7A01G209700 chr7D 91.714 1062 78 4 888 1940 169777674 169776614 0.000000e+00 1465.0
8 TraesCS7A01G209700 chr7D 89.523 1069 85 10 975 2033 170286486 170287537 0.000000e+00 1328.0
9 TraesCS7A01G209700 chr7D 85.579 1054 128 12 995 2032 170331901 170332946 0.000000e+00 1083.0
10 TraesCS7A01G209700 chr7D 77.273 352 60 9 493 828 555628964 555629311 4.080000e-44 189.0
11 TraesCS7A01G209700 chr7D 93.333 45 3 0 943 987 170286438 170286482 1.990000e-07 67.6
12 TraesCS7A01G209700 chr7B 93.592 1108 60 2 935 2033 135497941 135496836 0.000000e+00 1642.0
13 TraesCS7A01G209700 chr7B 89.158 1116 88 10 943 2033 136365132 136366239 0.000000e+00 1360.0
14 TraesCS7A01G209700 chr7B 85.389 1054 130 13 995 2032 136547265 136548310 0.000000e+00 1072.0
15 TraesCS7A01G209700 chr7B 89.511 696 65 5 1 693 135498727 135498037 0.000000e+00 874.0
16 TraesCS7A01G209700 chr7B 82.798 872 117 21 2 850 720939986 720939125 0.000000e+00 749.0
17 TraesCS7A01G209700 chr7B 82.332 549 75 10 995 1527 136525858 136526400 1.010000e-124 457.0
18 TraesCS7A01G209700 chr3D 93.609 1064 68 0 2033 3096 495882877 495881814 0.000000e+00 1589.0
19 TraesCS7A01G209700 chr3D 85.637 369 48 3 251 614 24524883 24525251 1.740000e-102 383.0
20 TraesCS7A01G209700 chr3D 81.875 160 22 5 693 850 6950500 6950346 9.010000e-26 128.0
21 TraesCS7A01G209700 chr5A 93.233 1064 72 0 2033 3096 561367965 561366902 0.000000e+00 1567.0
22 TraesCS7A01G209700 chr5A 79.215 866 150 18 7 850 482486963 482486106 2.680000e-160 575.0
23 TraesCS7A01G209700 chr5A 78.304 802 133 30 60 834 535555916 535555129 2.160000e-131 479.0
24 TraesCS7A01G209700 chr5A 74.257 404 77 17 467 850 571462158 571461762 8.950000e-31 145.0
25 TraesCS7A01G209700 chr6D 93.889 1031 63 0 2066 3096 210710497 210711527 0.000000e+00 1555.0
26 TraesCS7A01G209700 chr1D 92.750 1062 76 1 2035 3096 373140004 373141064 0.000000e+00 1533.0
27 TraesCS7A01G209700 chr1D 75.000 368 64 17 505 850 62865977 62866338 8.950000e-31 145.0
28 TraesCS7A01G209700 chr1A 92.596 1067 70 5 2033 3096 566151001 566149941 0.000000e+00 1524.0
29 TraesCS7A01G209700 chr1A 83.717 651 98 6 2 647 66858076 66857429 2.640000e-170 608.0
30 TraesCS7A01G209700 chr4A 92.481 1064 79 1 2033 3096 127099325 127098263 0.000000e+00 1520.0
31 TraesCS7A01G209700 chr4A 79.004 843 139 31 11 832 910297 911122 2.720000e-150 542.0
32 TraesCS7A01G209700 chr4A 83.333 168 19 7 687 850 607375960 607376122 2.490000e-31 147.0
33 TraesCS7A01G209700 chr2B 84.930 856 110 10 2 850 399822242 399823085 0.000000e+00 848.0
34 TraesCS7A01G209700 chr2B 78.298 705 119 18 163 845 572585240 572584548 1.030000e-114 424.0
35 TraesCS7A01G209700 chr3B 82.462 861 128 16 2 845 21280830 21281684 0.000000e+00 732.0
36 TraesCS7A01G209700 chr1B 82.529 870 114 21 2 850 176148118 176147266 0.000000e+00 730.0
37 TraesCS7A01G209700 chr1B 83.149 813 112 15 23 817 50329421 50328616 0.000000e+00 719.0
38 TraesCS7A01G209700 chr5B 86.308 409 54 2 2 408 674260188 674260596 7.880000e-121 444.0
39 TraesCS7A01G209700 chr5B 75.843 712 138 23 163 850 591133920 591134621 6.400000e-87 331.0


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 TraesCS7A01G209700 chr7A 172381797 172384892 3095 True 5718.00 5718 100.0000 1 3096 1 chr7A.!!$R1 3095
1 TraesCS7A01G209700 chr7A 664921281 664922342 1061 False 1565.00 1565 93.2330 2033 3096 1 chr7A.!!$F2 1063
2 TraesCS7A01G209700 chr7A 173408814 173409859 1045 False 1016.00 1016 84.4400 995 2032 1 chr7A.!!$F1 1037
3 TraesCS7A01G209700 chr7A 173264442 173265556 1114 False 686.05 1299 92.2800 943 2033 2 chr7A.!!$F3 1090
4 TraesCS7A01G209700 chr5D 164773179 164774241 1062 True 1659.00 1659 94.8310 2033 3096 1 chr5D.!!$R1 1063
5 TraesCS7A01G209700 chr7D 12842266 12843329 1063 False 1644.00 1644 94.5490 2033 3096 1 chr7D.!!$F1 1063
6 TraesCS7A01G209700 chr7D 169776614 169777674 1060 True 1465.00 1465 91.7140 888 1940 1 chr7D.!!$R1 1052
7 TraesCS7A01G209700 chr7D 170331901 170332946 1045 False 1083.00 1083 85.5790 995 2032 1 chr7D.!!$F2 1037
8 TraesCS7A01G209700 chr7D 170286438 170287537 1099 False 697.80 1328 91.4280 943 2033 2 chr7D.!!$F4 1090
9 TraesCS7A01G209700 chr7B 136365132 136366239 1107 False 1360.00 1360 89.1580 943 2033 1 chr7B.!!$F1 1090
10 TraesCS7A01G209700 chr7B 135496836 135498727 1891 True 1258.00 1642 91.5515 1 2033 2 chr7B.!!$R2 2032
11 TraesCS7A01G209700 chr7B 136547265 136548310 1045 False 1072.00 1072 85.3890 995 2032 1 chr7B.!!$F3 1037
12 TraesCS7A01G209700 chr7B 720939125 720939986 861 True 749.00 749 82.7980 2 850 1 chr7B.!!$R1 848
13 TraesCS7A01G209700 chr7B 136525858 136526400 542 False 457.00 457 82.3320 995 1527 1 chr7B.!!$F2 532
14 TraesCS7A01G209700 chr3D 495881814 495882877 1063 True 1589.00 1589 93.6090 2033 3096 1 chr3D.!!$R2 1063
15 TraesCS7A01G209700 chr5A 561366902 561367965 1063 True 1567.00 1567 93.2330 2033 3096 1 chr5A.!!$R3 1063
16 TraesCS7A01G209700 chr5A 482486106 482486963 857 True 575.00 575 79.2150 7 850 1 chr5A.!!$R1 843
17 TraesCS7A01G209700 chr5A 535555129 535555916 787 True 479.00 479 78.3040 60 834 1 chr5A.!!$R2 774
18 TraesCS7A01G209700 chr6D 210710497 210711527 1030 False 1555.00 1555 93.8890 2066 3096 1 chr6D.!!$F1 1030
19 TraesCS7A01G209700 chr1D 373140004 373141064 1060 False 1533.00 1533 92.7500 2035 3096 1 chr1D.!!$F2 1061
20 TraesCS7A01G209700 chr1A 566149941 566151001 1060 True 1524.00 1524 92.5960 2033 3096 1 chr1A.!!$R2 1063
21 TraesCS7A01G209700 chr1A 66857429 66858076 647 True 608.00 608 83.7170 2 647 1 chr1A.!!$R1 645
22 TraesCS7A01G209700 chr4A 127098263 127099325 1062 True 1520.00 1520 92.4810 2033 3096 1 chr4A.!!$R1 1063
23 TraesCS7A01G209700 chr4A 910297 911122 825 False 542.00 542 79.0040 11 832 1 chr4A.!!$F1 821
24 TraesCS7A01G209700 chr2B 399822242 399823085 843 False 848.00 848 84.9300 2 850 1 chr2B.!!$F1 848
25 TraesCS7A01G209700 chr2B 572584548 572585240 692 True 424.00 424 78.2980 163 845 1 chr2B.!!$R1 682
26 TraesCS7A01G209700 chr3B 21280830 21281684 854 False 732.00 732 82.4620 2 845 1 chr3B.!!$F1 843
27 TraesCS7A01G209700 chr1B 176147266 176148118 852 True 730.00 730 82.5290 2 850 1 chr1B.!!$R2 848
28 TraesCS7A01G209700 chr1B 50328616 50329421 805 True 719.00 719 83.1490 23 817 1 chr1B.!!$R1 794
29 TraesCS7A01G209700 chr5B 591133920 591134621 701 False 331.00 331 75.8430 163 850 1 chr5B.!!$F1 687

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
488 497 0.178068 GGATACGTGCAGGATGGTGT 59.822 55.0 14.38 0.0 35.86 4.16 F
1133 1181 0.534203 GCCGTCACCTTCTTCACCAA 60.534 55.0 0.00 0.0 0.00 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1624 1699 0.254178 AAGGAGTTGGCGATGATGCT 59.746 50.0 0.0 0.0 34.52 3.79 R
2574 2651 0.394192 TATTCGCAGGCCCTCTGATG 59.606 55.0 0.0 0.0 46.18 3.07 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
49 50 2.323599 AGATCTCATTGGGATCGAGCA 58.676 47.619 18.56 0.00 42.91 4.26
156 158 4.662961 CAGACTGGTGGCGCGACA 62.663 66.667 24.18 12.71 0.00 4.35
241 244 5.811399 CCTTGTTAAGGCATCATCGTTAA 57.189 39.130 0.00 0.00 42.78 2.01
260 263 5.473039 GTTAAAGTTTGCATCATCAGGCTT 58.527 37.500 0.00 0.00 0.00 4.35
266 270 1.776063 TGCATCATCAGGCTTGGGATA 59.224 47.619 0.00 0.00 0.00 2.59
272 276 1.227674 CAGGCTTGGGATACTCCGC 60.228 63.158 0.00 0.00 37.43 5.54
279 285 1.052124 TGGGATACTCCGCGGGAAAT 61.052 55.000 27.83 15.91 37.43 2.17
292 298 2.609747 CGGGAAATCCTAGATCTGGGA 58.390 52.381 28.02 28.02 44.54 4.37
432 441 2.824041 AACGGATCATGGCGGCAC 60.824 61.111 16.34 0.10 0.00 5.01
459 468 1.678970 GGAGTTTCGGCAATGGGCT 60.679 57.895 0.00 0.00 44.01 5.19
488 497 0.178068 GGATACGTGCAGGATGGTGT 59.822 55.000 14.38 0.00 35.86 4.16
574 586 1.971357 AGATGGACCAGTGAAAGACGT 59.029 47.619 0.00 0.00 0.00 4.34
597 609 2.047844 GCGGCTTCTGAGAGTGCA 60.048 61.111 10.68 0.00 0.00 4.57
734 761 5.564848 GCATAGGAGTAGCGACATGTATTGA 60.565 44.000 0.00 0.00 0.00 2.57
745 772 5.438117 CGACATGTATTGACAAGATGATGC 58.562 41.667 0.00 0.00 39.59 3.91
753 780 2.306805 TGACAAGATGATGCCTTCAGGT 59.693 45.455 0.00 0.00 37.89 4.00
763 790 5.815581 TGATGCCTTCAGGTTTACTAATGT 58.184 37.500 0.00 0.00 37.57 2.71
764 791 6.953101 TGATGCCTTCAGGTTTACTAATGTA 58.047 36.000 0.00 0.00 37.57 2.29
765 792 7.573710 TGATGCCTTCAGGTTTACTAATGTAT 58.426 34.615 0.00 0.00 37.57 2.29
768 795 8.958119 TGCCTTCAGGTTTACTAATGTATTAG 57.042 34.615 9.50 9.50 40.43 1.73
850 879 2.620627 GGTTGGGGTGTATCCTCCTTTG 60.621 54.545 0.00 0.00 35.35 2.77
851 880 2.041216 GTTGGGGTGTATCCTCCTTTGT 59.959 50.000 0.00 0.00 35.35 2.83
852 881 2.354328 TGGGGTGTATCCTCCTTTGTT 58.646 47.619 0.00 0.00 35.35 2.83
853 882 2.719705 TGGGGTGTATCCTCCTTTGTTT 59.280 45.455 0.00 0.00 35.35 2.83
854 883 3.141272 TGGGGTGTATCCTCCTTTGTTTT 59.859 43.478 0.00 0.00 35.35 2.43
855 884 4.157246 GGGGTGTATCCTCCTTTGTTTTT 58.843 43.478 0.00 0.00 36.25 1.94
881 910 2.929531 AAAATCGCAACACACACACA 57.070 40.000 0.00 0.00 0.00 3.72
882 911 2.187351 AAATCGCAACACACACACAC 57.813 45.000 0.00 0.00 0.00 3.82
933 962 2.921754 GCGTGGGTGAGTATATAATCGC 59.078 50.000 13.92 13.92 0.00 4.58
941 970 4.980434 GTGAGTATATAATCGCACAACCGT 59.020 41.667 16.64 0.00 35.20 4.83
949 978 1.735198 CGCACAACCGTGGACGTAT 60.735 57.895 0.00 0.00 43.81 3.06
980 1009 2.279741 GAGACTCACACACTTGCACAA 58.720 47.619 0.00 0.00 0.00 3.33
999 1047 5.741383 GCACAACTGCACCATCTATCTATCT 60.741 44.000 0.00 0.00 43.62 1.98
1056 1104 1.079073 CCCCTTCATGGCCAAAGGT 59.921 57.895 27.32 3.05 40.43 3.50
1133 1181 0.534203 GCCGTCACCTTCTTCACCAA 60.534 55.000 0.00 0.00 0.00 3.67
1139 1187 0.923358 ACCTTCTTCACCAACCCACA 59.077 50.000 0.00 0.00 0.00 4.17
1590 1665 2.967397 CCGCACTGGGACTTCGTA 59.033 61.111 0.00 0.00 0.00 3.43
1594 1669 1.090052 GCACTGGGACTTCGTATGCC 61.090 60.000 0.00 0.00 0.00 4.40
1623 1698 1.712977 GCAGCATGTACTCCAGCAGC 61.713 60.000 0.00 0.00 39.31 5.25
1624 1699 0.392060 CAGCATGTACTCCAGCAGCA 60.392 55.000 0.00 0.00 0.00 4.41
1692 1768 1.602605 GTGGAACAAGAACCGGGGG 60.603 63.158 6.32 0.00 44.16 5.40
1718 1794 1.957668 CATCAAGATGTGGGCGATCA 58.042 50.000 1.90 0.00 34.23 2.92
1733 1809 1.670949 GATCAGACCGCTCTGCCTCA 61.671 60.000 2.67 0.00 43.45 3.86
1779 1855 3.055530 AGCAAAGACGACCATGAGATCTT 60.056 43.478 0.00 0.00 0.00 2.40
1927 2003 1.687840 CCTATGGGTGGTCCGGTCA 60.688 63.158 0.00 0.00 38.76 4.02
1942 2018 0.885879 GGTCAAAATGGTTCGACCCC 59.114 55.000 0.00 0.00 41.77 4.95
1943 2019 1.611519 GTCAAAATGGTTCGACCCCA 58.388 50.000 5.52 5.52 37.50 4.96
1956 2032 0.107654 GACCCCAAGGATCGGTTCAG 60.108 60.000 0.00 0.00 36.73 3.02
1966 2042 2.550208 GGATCGGTTCAGTGACAGGTTT 60.550 50.000 0.00 0.00 0.00 3.27
1984 2060 0.046552 TTGGGGATAGGGGCAAGGTA 59.953 55.000 0.00 0.00 0.00 3.08
2043 2119 6.434340 AGTCACAAGTCAGTCTCATATGTGTA 59.566 38.462 1.90 0.00 38.22 2.90
2053 2129 6.321435 CAGTCTCATATGTGTACTTACCTCCA 59.679 42.308 1.90 0.00 0.00 3.86
2062 2138 6.228258 TGTGTACTTACCTCCAAATGAAGAC 58.772 40.000 0.00 0.00 0.00 3.01
2069 2145 5.520376 ACCTCCAAATGAAGACAACAAAG 57.480 39.130 0.00 0.00 0.00 2.77
2079 2155 8.463930 AATGAAGACAACAAAGGAAGTAATCA 57.536 30.769 0.00 0.00 0.00 2.57
2113 2189 3.318839 GCTAGCCATGCCATGTTTTATGA 59.681 43.478 2.29 0.00 0.00 2.15
2116 2193 4.220724 AGCCATGCCATGTTTTATGATCT 58.779 39.130 3.63 0.00 0.00 2.75
2127 2204 8.810427 CCATGTTTTATGATCTTTTACACATGC 58.190 33.333 14.13 0.00 31.65 4.06
2244 2321 6.639632 AGCTCATGTTGTGTTATGACTTTT 57.360 33.333 0.00 0.00 30.66 2.27
2367 2444 4.487714 TGGTCTGATTACCATCTGGAAC 57.512 45.455 2.55 0.00 44.68 3.62
2448 2525 7.112122 AGCTCACATCAAAACTGGATAATACA 58.888 34.615 0.00 0.00 0.00 2.29
2484 2561 3.866883 AATGTTTATGGGCCAAACTCG 57.133 42.857 11.89 0.00 36.92 4.18
2574 2651 8.250332 TGGCTCATTGTTGGAGATTTTAATTAC 58.750 33.333 0.00 0.00 34.24 1.89
2588 2665 2.355010 AATTACATCAGAGGGCCTGC 57.645 50.000 12.95 2.21 42.62 4.85
2749 2829 3.855689 AGCTTGATTGGATTTTCACCG 57.144 42.857 0.00 0.00 0.00 4.94
2757 2837 0.521735 GGATTTTCACCGGTGCTGAC 59.478 55.000 30.25 17.75 0.00 3.51
2912 2992 7.595819 TGGACTTTGAAGGTTTTATTGACAT 57.404 32.000 0.00 0.00 0.00 3.06
2916 2996 9.959749 GACTTTGAAGGTTTTATTGACATTGTA 57.040 29.630 0.00 0.00 0.00 2.41
3018 3098 2.818432 ACTGAAGATTTGGAGCAAGCAG 59.182 45.455 0.00 0.00 0.00 4.24
3066 3146 7.452880 TGAAAACTGCTGCTTCTATGTTAAT 57.547 32.000 0.00 0.00 0.00 1.40
3073 3153 7.124573 TGCTGCTTCTATGTTAATCTCCTAA 57.875 36.000 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 1.053424 TTTACCTCAGAGTTGCCCGT 58.947 50.000 0.00 0.00 0.00 5.28
49 50 6.624423 ACTACGATACAAAAGTACCGTCATT 58.376 36.000 0.00 0.00 0.00 2.57
156 158 2.673368 GTCGGAGCGATTTTCATCAGTT 59.327 45.455 0.00 0.00 38.42 3.16
240 243 3.306502 CCAAGCCTGATGATGCAAACTTT 60.307 43.478 0.00 0.00 0.00 2.66
241 244 2.232941 CCAAGCCTGATGATGCAAACTT 59.767 45.455 0.00 0.00 0.00 2.66
266 270 0.396695 TCTAGGATTTCCCGCGGAGT 60.397 55.000 30.73 9.21 40.87 3.85
272 276 2.300437 GTCCCAGATCTAGGATTTCCCG 59.700 54.545 13.33 0.00 40.87 5.14
279 285 0.478942 CGGGAGTCCCAGATCTAGGA 59.521 60.000 28.08 5.70 45.83 2.94
343 350 0.593128 GCACTTGCTCCAAACGATGT 59.407 50.000 0.00 0.00 38.21 3.06
365 374 1.227249 CTCCTCTAGTCCCCTCCAGA 58.773 60.000 0.00 0.00 0.00 3.86
415 424 2.824041 GTGCCGCCATGATCCGTT 60.824 61.111 0.00 0.00 0.00 4.44
459 468 2.520020 ACGTATCCATCCGCCCGA 60.520 61.111 0.00 0.00 0.00 5.14
597 609 2.204461 TGTCACACACCGGTCCGAT 61.204 57.895 14.39 0.00 0.00 4.18
658 671 4.099881 ACAAACATCACACCAAAGCTCAAT 59.900 37.500 0.00 0.00 0.00 2.57
661 674 3.715628 ACAAACATCACACCAAAGCTC 57.284 42.857 0.00 0.00 0.00 4.09
734 761 3.446442 AACCTGAAGGCATCATCTTGT 57.554 42.857 0.00 0.00 37.44 3.16
861 890 2.920490 GTGTGTGTGTGTTGCGATTTTT 59.080 40.909 0.00 0.00 0.00 1.94
862 891 2.095008 TGTGTGTGTGTGTTGCGATTTT 60.095 40.909 0.00 0.00 0.00 1.82
863 892 1.470494 TGTGTGTGTGTGTTGCGATTT 59.530 42.857 0.00 0.00 0.00 2.17
864 893 1.090728 TGTGTGTGTGTGTTGCGATT 58.909 45.000 0.00 0.00 0.00 3.34
865 894 0.376852 GTGTGTGTGTGTGTTGCGAT 59.623 50.000 0.00 0.00 0.00 4.58
866 895 0.951040 TGTGTGTGTGTGTGTTGCGA 60.951 50.000 0.00 0.00 0.00 5.10
867 896 0.792729 GTGTGTGTGTGTGTGTTGCG 60.793 55.000 0.00 0.00 0.00 4.85
868 897 0.239613 TGTGTGTGTGTGTGTGTTGC 59.760 50.000 0.00 0.00 0.00 4.17
869 898 1.265365 TGTGTGTGTGTGTGTGTGTTG 59.735 47.619 0.00 0.00 0.00 3.33
870 899 1.265635 GTGTGTGTGTGTGTGTGTGTT 59.734 47.619 0.00 0.00 0.00 3.32
871 900 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
872 901 0.179227 CGTGTGTGTGTGTGTGTGTG 60.179 55.000 0.00 0.00 0.00 3.82
873 902 0.319986 TCGTGTGTGTGTGTGTGTGT 60.320 50.000 0.00 0.00 0.00 3.72
874 903 0.793250 TTCGTGTGTGTGTGTGTGTG 59.207 50.000 0.00 0.00 0.00 3.82
875 904 1.075542 CTTCGTGTGTGTGTGTGTGT 58.924 50.000 0.00 0.00 0.00 3.72
876 905 1.355005 TCTTCGTGTGTGTGTGTGTG 58.645 50.000 0.00 0.00 0.00 3.82
877 906 2.309528 ATCTTCGTGTGTGTGTGTGT 57.690 45.000 0.00 0.00 0.00 3.72
878 907 3.673746 AAATCTTCGTGTGTGTGTGTG 57.326 42.857 0.00 0.00 0.00 3.82
879 908 3.247648 GCTAAATCTTCGTGTGTGTGTGT 59.752 43.478 0.00 0.00 0.00 3.72
880 909 3.494626 AGCTAAATCTTCGTGTGTGTGTG 59.505 43.478 0.00 0.00 0.00 3.82
881 910 3.728845 AGCTAAATCTTCGTGTGTGTGT 58.271 40.909 0.00 0.00 0.00 3.72
882 911 6.199154 CCTATAGCTAAATCTTCGTGTGTGTG 59.801 42.308 0.00 0.00 0.00 3.82
917 946 4.384846 CGGTTGTGCGATTATATACTCACC 59.615 45.833 1.54 0.32 0.00 4.02
933 962 1.068125 TCTCATACGTCCACGGTTGTG 60.068 52.381 3.81 2.39 46.00 3.33
941 970 0.170339 CACGCAGTCTCATACGTCCA 59.830 55.000 0.00 0.00 41.61 4.02
949 978 0.593618 GTGAGTCTCACGCAGTCTCA 59.406 55.000 17.00 7.53 42.82 3.27
980 1009 5.128499 GCCATAGATAGATAGATGGTGCAGT 59.872 44.000 0.00 0.00 40.88 4.40
1139 1187 2.746277 GGATGAAGGGCGCGTTGT 60.746 61.111 8.43 0.00 0.00 3.32
1222 1288 1.742880 GCTCATCCGTGCTCTGCAA 60.743 57.895 0.00 0.00 41.47 4.08
1223 1289 2.125391 GCTCATCCGTGCTCTGCA 60.125 61.111 0.00 0.00 35.60 4.41
1236 1302 2.750637 GTCGAGGACGGGAGCTCA 60.751 66.667 17.19 0.00 40.21 4.26
1590 1665 2.438614 CTGCTGCAGCTCTGGCAT 60.439 61.111 36.61 0.00 41.06 4.40
1623 1698 0.463295 AGGAGTTGGCGATGATGCTG 60.463 55.000 0.00 0.00 34.52 4.41
1624 1699 0.254178 AAGGAGTTGGCGATGATGCT 59.746 50.000 0.00 0.00 34.52 3.79
1692 1768 1.656652 CCACATCTTGATGTCGACCC 58.343 55.000 14.12 5.58 31.37 4.46
1693 1769 1.656652 CCCACATCTTGATGTCGACC 58.343 55.000 14.12 0.00 31.37 4.79
1694 1770 1.009829 GCCCACATCTTGATGTCGAC 58.990 55.000 9.11 9.11 31.37 4.20
1718 1794 3.753434 CGTGAGGCAGAGCGGTCT 61.753 66.667 12.24 12.24 0.00 3.85
1779 1855 1.979155 CTCGAGTCCAGCCAGTCCA 60.979 63.158 3.62 0.00 0.00 4.02
1927 2003 1.146152 TCCTTGGGGTCGAACCATTTT 59.854 47.619 23.64 0.00 41.02 1.82
1942 2018 2.341257 CTGTCACTGAACCGATCCTTG 58.659 52.381 0.00 0.00 0.00 3.61
1943 2019 1.276421 CCTGTCACTGAACCGATCCTT 59.724 52.381 0.00 0.00 0.00 3.36
1956 2032 1.064685 CCCTATCCCCAAACCTGTCAC 60.065 57.143 0.00 0.00 0.00 3.67
1966 2042 0.401395 CTACCTTGCCCCTATCCCCA 60.401 60.000 0.00 0.00 0.00 4.96
2009 2085 2.983136 CTGACTTGTGACTTAGCACTCG 59.017 50.000 7.91 2.99 39.49 4.18
2043 2119 5.690865 TGTTGTCTTCATTTGGAGGTAAGT 58.309 37.500 0.00 0.00 0.00 2.24
2053 2129 8.912988 TGATTACTTCCTTTGTTGTCTTCATTT 58.087 29.630 0.00 0.00 0.00 2.32
2062 2138 4.148838 TGGGGTGATTACTTCCTTTGTTG 58.851 43.478 0.00 0.00 0.00 3.33
2069 2145 3.644966 TGACATGGGGTGATTACTTCC 57.355 47.619 0.00 0.00 0.00 3.46
2079 2155 1.281199 TGGCTAGCATGACATGGGGT 61.281 55.000 18.24 0.29 0.00 4.95
2113 2189 9.836864 TCTACTCATTATGCATGTGTAAAAGAT 57.163 29.630 10.16 0.00 39.99 2.40
2116 2193 8.397906 GCTTCTACTCATTATGCATGTGTAAAA 58.602 33.333 10.16 0.00 39.99 1.52
2127 2204 8.538701 AGGATATTCCAGCTTCTACTCATTATG 58.461 37.037 0.00 0.00 39.61 1.90
2244 2321 9.613428 TCAAATTGTTCTCTCTTAGTTTCTTGA 57.387 29.630 0.00 0.00 0.00 3.02
2292 2369 7.007723 TGTATTGGTTGAACCTTTTAGGACAT 58.992 34.615 16.33 0.00 39.58 3.06
2367 2444 4.695455 TCTCTGCCTTTGAAAAGATTACCG 59.305 41.667 4.34 0.00 38.28 4.02
2457 2534 8.374184 AGTTTGGCCCATAAACATTAGTTATT 57.626 30.769 16.89 0.00 39.78 1.40
2484 2561 4.541973 AAATTCAGTTTTGCCCTCCATC 57.458 40.909 0.00 0.00 0.00 3.51
2574 2651 0.394192 TATTCGCAGGCCCTCTGATG 59.606 55.000 0.00 0.00 46.18 3.07
2588 2665 4.461081 CACCTCCTCCTCTATTCCTATTCG 59.539 50.000 0.00 0.00 0.00 3.34
2685 2765 4.225042 TGCATATTACTCCAGGTGAACTGT 59.775 41.667 0.00 0.00 46.06 3.55
2721 2801 4.813750 AATCCAATCAAGCTTTTCCAGG 57.186 40.909 0.00 0.00 0.00 4.45
2749 2829 0.465460 TTGTTGGTCCAGTCAGCACC 60.465 55.000 0.00 0.00 0.00 5.01
2765 2845 4.469657 TGCAAGAGTATTTGGGAACTTGT 58.530 39.130 0.00 0.00 37.57 3.16
3021 3101 3.996150 ATGGTTTTGTTGAGCTGTGAG 57.004 42.857 0.00 0.00 0.00 3.51
3066 3146 9.618890 CTTTGATCTTCAATACCATTTAGGAGA 57.381 33.333 0.00 0.00 36.35 3.71


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

AutoCloner maintained by Alex Coulton.