Multiple sequence alignment - TraesCS3B01G190500

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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 TraesCS3B01G190500 chr3B 100.000 3053 0 0 1 3053 203548085 203551137 0.000000e+00 5638
1 TraesCS3B01G190500 chr3B 96.612 1092 27 3 1047 2128 203345718 203346809 0.000000e+00 1803
2 TraesCS3B01G190500 chr3B 90.079 1018 82 9 1040 2050 221912444 221913449 0.000000e+00 1303
3 TraesCS3B01G190500 chr3B 89.921 1012 85 7 1040 2050 221979924 221980919 0.000000e+00 1288
4 TraesCS3B01G190500 chr3B 88.363 1014 99 9 1044 2050 215385166 215386167 0.000000e+00 1201
5 TraesCS3B01G190500 chr3B 95.619 388 17 0 1 388 710580275 710580662 9.300000e-175 623
6 TraesCS3B01G190500 chr3B 95.266 169 6 2 663 829 710580661 710580829 1.800000e-67 267
7 TraesCS3B01G190500 chr3A 96.122 1083 35 3 1047 2128 159831980 159833056 0.000000e+00 1760
8 TraesCS3B01G190500 chr3A 84.497 1103 111 34 1020 2077 181104833 181105920 0.000000e+00 1035
9 TraesCS3B01G190500 chr3A 84.802 987 91 26 1011 1968 177887977 177888933 0.000000e+00 937
10 TraesCS3B01G190500 chr3A 85.795 528 61 8 2128 2646 726271045 726271567 5.760000e-152 547
11 TraesCS3B01G190500 chr6A 91.260 1270 82 15 871 2128 146441809 146440557 0.000000e+00 1703
12 TraesCS3B01G190500 chr6A 91.085 931 59 12 2126 3053 18033615 18032706 0.000000e+00 1238
13 TraesCS3B01G190500 chr4B 96.452 930 26 4 2127 3053 592280716 592281641 0.000000e+00 1528
14 TraesCS3B01G190500 chr4B 90.615 927 69 7 2128 3053 633802883 633801974 0.000000e+00 1214
15 TraesCS3B01G190500 chr4B 92.611 812 54 2 1 806 140868859 140869670 0.000000e+00 1162
16 TraesCS3B01G190500 chr4B 83.033 389 45 12 447 824 167945805 167945427 1.750000e-87 333
17 TraesCS3B01G190500 chr6B 95.032 926 28 6 2128 3053 143717147 143716240 0.000000e+00 1439
18 TraesCS3B01G190500 chr7A 93.797 935 52 4 2123 3053 621762706 621763638 0.000000e+00 1400
19 TraesCS3B01G190500 chr7A 95.961 718 27 1 2336 3053 680114734 680114019 0.000000e+00 1164
20 TraesCS3B01G190500 chr3D 92.557 927 67 2 2128 3053 598252286 598251361 0.000000e+00 1328
21 TraesCS3B01G190500 chr3D 87.625 1099 102 16 1048 2128 149205056 149206138 0.000000e+00 1245
22 TraesCS3B01G190500 chr3D 94.541 806 40 3 1047 1848 141410581 141411386 0.000000e+00 1242
23 TraesCS3B01G190500 chr3D 90.625 928 68 9 1048 1968 147336046 147335131 0.000000e+00 1214
24 TraesCS3B01G190500 chr3D 91.657 839 56 4 1 828 558622949 558622114 0.000000e+00 1149
25 TraesCS3B01G190500 chr3D 94.145 427 20 4 1702 2128 141411308 141411729 0.000000e+00 645
26 TraesCS3B01G190500 chr1B 94.451 829 40 2 1 823 677615354 677614526 0.000000e+00 1271
27 TraesCS3B01G190500 chr1B 91.540 591 44 6 2125 2711 29978067 29977479 0.000000e+00 809
28 TraesCS3B01G190500 chr1B 83.247 388 45 12 447 824 117210476 117210099 3.770000e-89 339
29 TraesCS3B01G190500 chr4A 90.841 928 62 11 2128 3053 616303388 616304294 0.000000e+00 1221
30 TraesCS3B01G190500 chr6D 90.194 928 78 7 2128 3053 111527114 111526198 0.000000e+00 1197
31 TraesCS3B01G190500 chr7D 92.464 836 50 5 1 823 499906219 499905384 0.000000e+00 1182
32 TraesCS3B01G190500 chr7D 82.653 392 47 11 444 824 607123052 607123433 8.160000e-86 327
33 TraesCS3B01G190500 chr2B 92.470 664 39 5 1 654 51849889 51850551 0.000000e+00 939
34 TraesCS3B01G190500 chr5B 96.008 501 18 2 2128 2628 585525135 585524637 0.000000e+00 813
35 TraesCS3B01G190500 chr5B 96.460 452 12 4 2121 2571 396156366 396155918 0.000000e+00 743
36 TraesCS3B01G190500 chr5B 82.038 373 48 10 463 827 455346761 455347122 1.780000e-77 300
37 TraesCS3B01G190500 chr7B 87.102 566 58 9 2215 2776 312347377 312347931 7.190000e-176 627
38 TraesCS3B01G190500 chr4D 88.485 165 17 2 191 355 391480238 391480400 6.680000e-47 198


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 TraesCS3B01G190500 chr3B 203548085 203551137 3052 False 5638.0 5638 100.0000 1 3053 1 chr3B.!!$F2 3052
1 TraesCS3B01G190500 chr3B 203345718 203346809 1091 False 1803.0 1803 96.6120 1047 2128 1 chr3B.!!$F1 1081
2 TraesCS3B01G190500 chr3B 221912444 221913449 1005 False 1303.0 1303 90.0790 1040 2050 1 chr3B.!!$F4 1010
3 TraesCS3B01G190500 chr3B 221979924 221980919 995 False 1288.0 1288 89.9210 1040 2050 1 chr3B.!!$F5 1010
4 TraesCS3B01G190500 chr3B 215385166 215386167 1001 False 1201.0 1201 88.3630 1044 2050 1 chr3B.!!$F3 1006
5 TraesCS3B01G190500 chr3B 710580275 710580829 554 False 445.0 623 95.4425 1 829 2 chr3B.!!$F6 828
6 TraesCS3B01G190500 chr3A 159831980 159833056 1076 False 1760.0 1760 96.1220 1047 2128 1 chr3A.!!$F1 1081
7 TraesCS3B01G190500 chr3A 181104833 181105920 1087 False 1035.0 1035 84.4970 1020 2077 1 chr3A.!!$F3 1057
8 TraesCS3B01G190500 chr3A 177887977 177888933 956 False 937.0 937 84.8020 1011 1968 1 chr3A.!!$F2 957
9 TraesCS3B01G190500 chr3A 726271045 726271567 522 False 547.0 547 85.7950 2128 2646 1 chr3A.!!$F4 518
10 TraesCS3B01G190500 chr6A 146440557 146441809 1252 True 1703.0 1703 91.2600 871 2128 1 chr6A.!!$R2 1257
11 TraesCS3B01G190500 chr6A 18032706 18033615 909 True 1238.0 1238 91.0850 2126 3053 1 chr6A.!!$R1 927
12 TraesCS3B01G190500 chr4B 592280716 592281641 925 False 1528.0 1528 96.4520 2127 3053 1 chr4B.!!$F2 926
13 TraesCS3B01G190500 chr4B 633801974 633802883 909 True 1214.0 1214 90.6150 2128 3053 1 chr4B.!!$R2 925
14 TraesCS3B01G190500 chr4B 140868859 140869670 811 False 1162.0 1162 92.6110 1 806 1 chr4B.!!$F1 805
15 TraesCS3B01G190500 chr6B 143716240 143717147 907 True 1439.0 1439 95.0320 2128 3053 1 chr6B.!!$R1 925
16 TraesCS3B01G190500 chr7A 621762706 621763638 932 False 1400.0 1400 93.7970 2123 3053 1 chr7A.!!$F1 930
17 TraesCS3B01G190500 chr7A 680114019 680114734 715 True 1164.0 1164 95.9610 2336 3053 1 chr7A.!!$R1 717
18 TraesCS3B01G190500 chr3D 598251361 598252286 925 True 1328.0 1328 92.5570 2128 3053 1 chr3D.!!$R3 925
19 TraesCS3B01G190500 chr3D 149205056 149206138 1082 False 1245.0 1245 87.6250 1048 2128 1 chr3D.!!$F1 1080
20 TraesCS3B01G190500 chr3D 147335131 147336046 915 True 1214.0 1214 90.6250 1048 1968 1 chr3D.!!$R1 920
21 TraesCS3B01G190500 chr3D 558622114 558622949 835 True 1149.0 1149 91.6570 1 828 1 chr3D.!!$R2 827
22 TraesCS3B01G190500 chr3D 141410581 141411729 1148 False 943.5 1242 94.3430 1047 2128 2 chr3D.!!$F2 1081
23 TraesCS3B01G190500 chr1B 677614526 677615354 828 True 1271.0 1271 94.4510 1 823 1 chr1B.!!$R3 822
24 TraesCS3B01G190500 chr1B 29977479 29978067 588 True 809.0 809 91.5400 2125 2711 1 chr1B.!!$R1 586
25 TraesCS3B01G190500 chr4A 616303388 616304294 906 False 1221.0 1221 90.8410 2128 3053 1 chr4A.!!$F1 925
26 TraesCS3B01G190500 chr6D 111526198 111527114 916 True 1197.0 1197 90.1940 2128 3053 1 chr6D.!!$R1 925
27 TraesCS3B01G190500 chr7D 499905384 499906219 835 True 1182.0 1182 92.4640 1 823 1 chr7D.!!$R1 822
28 TraesCS3B01G190500 chr2B 51849889 51850551 662 False 939.0 939 92.4700 1 654 1 chr2B.!!$F1 653
29 TraesCS3B01G190500 chr7B 312347377 312347931 554 False 627.0 627 87.1020 2215 2776 1 chr7B.!!$F1 561

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
860 884 0.032130 CGGATCTCACACCCCGTATG 59.968 60.0 0.0 0.0 37.40 2.39 F
1951 2165 0.179137 CATGCTTCTCGTACTGCGGA 60.179 55.0 0.0 0.0 41.72 5.54 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1980 2194 0.598419 GCATCCAGATCGCATCGACA 60.598 55.00 0.0 0.0 39.18 4.35 R
2963 3207 9.985730 CTATAAAAATGCCATGAATTACCACAT 57.014 29.63 0.0 0.0 0.00 3.21 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
283 284 2.741985 CGAGCCATCACAACGCCA 60.742 61.111 0.00 0.00 0.00 5.69
334 335 4.700365 CTCCAGCACGTCGTCGCA 62.700 66.667 17.80 2.00 41.18 5.10
666 683 1.306226 CGGGGAAAGGGAGAGGAGT 60.306 63.158 0.00 0.00 0.00 3.85
734 754 4.295119 GCAGTGGTCCACGACGGT 62.295 66.667 16.44 0.00 39.64 4.83
832 856 3.759101 GGTCGGGGGAGGGGAGTA 61.759 72.222 0.00 0.00 0.00 2.59
833 857 2.443577 GTCGGGGGAGGGGAGTAC 60.444 72.222 0.00 0.00 0.00 2.73
834 858 2.948354 TCGGGGGAGGGGAGTACA 60.948 66.667 0.00 0.00 0.00 2.90
835 859 2.444140 CGGGGGAGGGGAGTACAG 60.444 72.222 0.00 0.00 0.00 2.74
836 860 2.785703 GGGGGAGGGGAGTACAGT 59.214 66.667 0.00 0.00 0.00 3.55
837 861 1.382833 GGGGGAGGGGAGTACAGTC 60.383 68.421 0.00 0.00 0.00 3.51
838 862 1.704704 GGGGAGGGGAGTACAGTCT 59.295 63.158 0.00 0.00 0.00 3.24
839 863 0.397394 GGGGAGGGGAGTACAGTCTC 60.397 65.000 0.00 0.00 0.00 3.36
840 864 0.335361 GGGAGGGGAGTACAGTCTCA 59.665 60.000 0.00 0.00 36.30 3.27
841 865 1.476477 GGAGGGGAGTACAGTCTCAC 58.524 60.000 0.00 0.00 37.16 3.51
842 866 1.096416 GAGGGGAGTACAGTCTCACG 58.904 60.000 0.00 0.00 38.61 4.35
843 867 0.323542 AGGGGAGTACAGTCTCACGG 60.324 60.000 0.00 0.00 38.61 4.94
844 868 0.323178 GGGGAGTACAGTCTCACGGA 60.323 60.000 0.00 0.00 38.61 4.69
845 869 1.685491 GGGGAGTACAGTCTCACGGAT 60.685 57.143 0.00 0.00 38.61 4.18
846 870 1.677052 GGGAGTACAGTCTCACGGATC 59.323 57.143 0.00 0.00 36.30 3.36
847 871 2.645802 GGAGTACAGTCTCACGGATCT 58.354 52.381 0.00 0.00 36.30 2.75
848 872 2.614983 GGAGTACAGTCTCACGGATCTC 59.385 54.545 0.00 0.00 36.30 2.75
849 873 3.271729 GAGTACAGTCTCACGGATCTCA 58.728 50.000 0.00 0.00 34.88 3.27
850 874 3.011119 AGTACAGTCTCACGGATCTCAC 58.989 50.000 0.00 0.00 0.00 3.51
851 875 1.911057 ACAGTCTCACGGATCTCACA 58.089 50.000 0.00 0.00 0.00 3.58
852 876 1.542030 ACAGTCTCACGGATCTCACAC 59.458 52.381 0.00 0.00 0.00 3.82
853 877 1.135257 CAGTCTCACGGATCTCACACC 60.135 57.143 0.00 0.00 0.00 4.16
854 878 0.173708 GTCTCACGGATCTCACACCC 59.826 60.000 0.00 0.00 0.00 4.61
855 879 0.970937 TCTCACGGATCTCACACCCC 60.971 60.000 0.00 0.00 0.00 4.95
856 880 2.184322 CACGGATCTCACACCCCG 59.816 66.667 0.00 0.00 46.65 5.73
858 882 3.929002 CGGATCTCACACCCCGTA 58.071 61.111 0.00 0.00 37.40 4.02
859 883 2.426651 CGGATCTCACACCCCGTAT 58.573 57.895 0.00 0.00 37.40 3.06
860 884 0.032130 CGGATCTCACACCCCGTATG 59.968 60.000 0.00 0.00 37.40 2.39
861 885 1.410004 GGATCTCACACCCCGTATGA 58.590 55.000 0.00 0.00 0.00 2.15
862 886 1.760613 GGATCTCACACCCCGTATGAA 59.239 52.381 0.00 0.00 0.00 2.57
863 887 2.483188 GGATCTCACACCCCGTATGAAC 60.483 54.545 0.00 0.00 0.00 3.18
864 888 1.933021 TCTCACACCCCGTATGAACT 58.067 50.000 0.00 0.00 0.00 3.01
865 889 2.253610 TCTCACACCCCGTATGAACTT 58.746 47.619 0.00 0.00 0.00 2.66
866 890 2.635915 TCTCACACCCCGTATGAACTTT 59.364 45.455 0.00 0.00 0.00 2.66
867 891 3.071892 TCTCACACCCCGTATGAACTTTT 59.928 43.478 0.00 0.00 0.00 2.27
868 892 3.818773 CTCACACCCCGTATGAACTTTTT 59.181 43.478 0.00 0.00 0.00 1.94
869 893 3.816523 TCACACCCCGTATGAACTTTTTC 59.183 43.478 0.00 0.00 0.00 2.29
888 912 9.898152 ACTTTTTCCCTTTGATTTGTTGATTAA 57.102 25.926 0.00 0.00 0.00 1.40
893 917 9.762933 TTCCCTTTGATTTGTTGATTAAAGAAG 57.237 29.630 0.00 0.00 35.69 2.85
954 979 1.808343 GCCAACCGTTCCGAAAAGTAT 59.192 47.619 0.00 0.00 0.00 2.12
968 993 5.353938 CGAAAAGTATCGGATTGGGTTAGA 58.646 41.667 0.00 0.00 39.12 2.10
970 995 6.314400 CGAAAAGTATCGGATTGGGTTAGAAA 59.686 38.462 0.00 0.00 39.12 2.52
971 996 7.012044 CGAAAAGTATCGGATTGGGTTAGAAAT 59.988 37.037 0.00 0.00 39.12 2.17
972 997 8.589701 AAAAGTATCGGATTGGGTTAGAAATT 57.410 30.769 0.00 0.00 0.00 1.82
973 998 7.568199 AAGTATCGGATTGGGTTAGAAATTG 57.432 36.000 0.00 0.00 0.00 2.32
974 999 4.918810 ATCGGATTGGGTTAGAAATTGC 57.081 40.909 0.00 0.00 0.00 3.56
975 1000 2.680841 TCGGATTGGGTTAGAAATTGCG 59.319 45.455 0.00 0.00 0.00 4.85
976 1001 2.794631 CGGATTGGGTTAGAAATTGCGC 60.795 50.000 0.00 0.00 0.00 6.09
978 1003 1.621992 TTGGGTTAGAAATTGCGCCA 58.378 45.000 4.18 0.00 0.00 5.69
979 1004 1.621992 TGGGTTAGAAATTGCGCCAA 58.378 45.000 4.18 0.00 0.00 4.52
980 1005 2.175202 TGGGTTAGAAATTGCGCCAAT 58.825 42.857 4.18 1.64 35.39 3.16
981 1006 2.165437 TGGGTTAGAAATTGCGCCAATC 59.835 45.455 4.18 0.00 32.43 2.67
982 1007 2.481276 GGGTTAGAAATTGCGCCAATCC 60.481 50.000 4.18 1.53 32.43 3.01
983 1008 2.165437 GGTTAGAAATTGCGCCAATCCA 59.835 45.455 4.18 0.00 32.43 3.41
984 1009 3.181476 GGTTAGAAATTGCGCCAATCCAT 60.181 43.478 4.18 0.00 32.43 3.41
985 1010 2.877043 AGAAATTGCGCCAATCCATC 57.123 45.000 4.18 5.19 32.43 3.51
986 1011 1.066002 AGAAATTGCGCCAATCCATCG 59.934 47.619 4.18 0.00 32.43 3.84
987 1012 1.065401 GAAATTGCGCCAATCCATCGA 59.935 47.619 4.18 0.00 32.43 3.59
988 1013 0.664761 AATTGCGCCAATCCATCGAG 59.335 50.000 4.18 0.00 32.43 4.04
989 1014 1.789078 ATTGCGCCAATCCATCGAGC 61.789 55.000 4.18 0.00 26.27 5.03
990 1015 2.590007 GCGCCAATCCATCGAGCT 60.590 61.111 0.00 0.00 0.00 4.09
991 1016 2.890109 GCGCCAATCCATCGAGCTG 61.890 63.158 0.00 0.00 0.00 4.24
992 1017 2.890109 CGCCAATCCATCGAGCTGC 61.890 63.158 0.00 0.00 0.00 5.25
993 1018 2.890109 GCCAATCCATCGAGCTGCG 61.890 63.158 0.00 0.00 42.69 5.18
994 1019 2.249535 CCAATCCATCGAGCTGCGG 61.250 63.158 0.00 0.00 41.33 5.69
995 1020 2.109799 AATCCATCGAGCTGCGGG 59.890 61.111 0.00 0.00 41.33 6.13
996 1021 2.434843 AATCCATCGAGCTGCGGGA 61.435 57.895 0.00 0.00 41.33 5.14
997 1022 1.762522 AATCCATCGAGCTGCGGGAT 61.763 55.000 0.00 0.84 41.07 3.85
998 1023 2.164865 ATCCATCGAGCTGCGGGATC 62.165 60.000 0.00 0.00 36.67 3.36
999 1024 2.356793 CATCGAGCTGCGGGATCC 60.357 66.667 1.92 1.92 41.33 3.36
1000 1025 2.839632 ATCGAGCTGCGGGATCCA 60.840 61.111 15.23 0.00 41.33 3.41
1001 1026 2.865598 ATCGAGCTGCGGGATCCAG 61.866 63.158 15.23 11.38 41.33 3.86
1002 1027 4.598894 CGAGCTGCGGGATCCAGG 62.599 72.222 15.23 5.84 36.03 4.45
1003 1028 4.925861 GAGCTGCGGGATCCAGGC 62.926 72.222 15.23 16.61 0.00 4.85
1502 1583 1.661341 CTTCAAGGGCATCGAGAAGG 58.339 55.000 0.00 0.00 33.77 3.46
1514 1595 1.005569 TCGAGAAGGCCTCCTACTTCA 59.994 52.381 5.23 0.00 44.20 3.02
1535 1616 1.817099 CGCTGGATCAACCTGAGGC 60.817 63.158 0.00 0.00 39.52 4.70
1951 2165 0.179137 CATGCTTCTCGTACTGCGGA 60.179 55.000 0.00 0.00 41.72 5.54
1960 2174 2.986979 TACTGCGGAGTGGCGACA 60.987 61.111 20.91 0.00 33.21 4.35
1980 2194 2.285969 AGGAGCCATGGAGCCAGT 60.286 61.111 18.40 0.00 0.00 4.00
1982 2196 2.673523 GAGCCATGGAGCCAGTGT 59.326 61.111 18.40 0.00 0.00 3.55
1990 2204 2.181777 GAGCCAGTGTCGATGCGA 59.818 61.111 0.00 0.00 0.00 5.10
2918 3162 5.885912 TCATCAAACCTGTTATTAAGCTCCC 59.114 40.000 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 54 3.998672 GTCGTGGGCGGTCTTGGA 61.999 66.667 0.00 0.00 38.89 3.53
75 76 2.528127 TCCCTTGGAGCGGGTGAA 60.528 61.111 0.00 0.00 42.56 3.18
283 284 4.596585 CCGGCCAGGTTTGGTGGT 62.597 66.667 2.24 0.00 46.80 4.16
825 849 0.323178 TCCGTGAGACTGTACTCCCC 60.323 60.000 0.00 0.00 36.22 4.81
829 853 3.011119 GTGAGATCCGTGAGACTGTACT 58.989 50.000 0.00 0.00 0.00 2.73
831 855 2.747989 GTGTGAGATCCGTGAGACTGTA 59.252 50.000 0.00 0.00 0.00 2.74
832 856 1.542030 GTGTGAGATCCGTGAGACTGT 59.458 52.381 0.00 0.00 0.00 3.55
833 857 1.135257 GGTGTGAGATCCGTGAGACTG 60.135 57.143 0.00 0.00 0.00 3.51
834 858 1.178276 GGTGTGAGATCCGTGAGACT 58.822 55.000 0.00 0.00 0.00 3.24
835 859 0.173708 GGGTGTGAGATCCGTGAGAC 59.826 60.000 0.00 0.00 0.00 3.36
836 860 0.970937 GGGGTGTGAGATCCGTGAGA 60.971 60.000 0.00 0.00 0.00 3.27
837 861 1.517832 GGGGTGTGAGATCCGTGAG 59.482 63.158 0.00 0.00 0.00 3.51
838 862 2.348104 CGGGGTGTGAGATCCGTGA 61.348 63.158 0.00 0.00 37.92 4.35
839 863 2.184322 CGGGGTGTGAGATCCGTG 59.816 66.667 0.00 0.00 37.92 4.94
841 865 0.032130 CATACGGGGTGTGAGATCCG 59.968 60.000 0.00 0.00 46.95 4.18
842 866 1.410004 TCATACGGGGTGTGAGATCC 58.590 55.000 0.00 0.00 30.62 3.36
843 867 2.431057 AGTTCATACGGGGTGTGAGATC 59.569 50.000 0.00 0.00 35.31 2.75
844 868 2.467880 AGTTCATACGGGGTGTGAGAT 58.532 47.619 0.00 0.00 35.31 2.75
845 869 1.933021 AGTTCATACGGGGTGTGAGA 58.067 50.000 0.00 0.00 35.31 3.27
846 870 2.762535 AAGTTCATACGGGGTGTGAG 57.237 50.000 0.00 0.00 35.31 3.51
847 871 3.495434 AAAAGTTCATACGGGGTGTGA 57.505 42.857 0.00 0.00 32.16 3.58
848 872 3.057806 GGAAAAAGTTCATACGGGGTGTG 60.058 47.826 0.00 0.00 35.25 3.82
849 873 3.151554 GGAAAAAGTTCATACGGGGTGT 58.848 45.455 0.00 0.00 35.25 4.16
850 874 2.490509 GGGAAAAAGTTCATACGGGGTG 59.509 50.000 0.00 0.00 35.25 4.61
851 875 2.377531 AGGGAAAAAGTTCATACGGGGT 59.622 45.455 0.00 0.00 35.25 4.95
852 876 3.081710 AGGGAAAAAGTTCATACGGGG 57.918 47.619 0.00 0.00 35.25 5.73
853 877 4.521256 TCAAAGGGAAAAAGTTCATACGGG 59.479 41.667 0.00 0.00 35.25 5.28
854 878 5.699097 TCAAAGGGAAAAAGTTCATACGG 57.301 39.130 0.00 0.00 35.25 4.02
855 879 7.651704 ACAAATCAAAGGGAAAAAGTTCATACG 59.348 33.333 0.00 0.00 35.25 3.06
856 880 8.887036 ACAAATCAAAGGGAAAAAGTTCATAC 57.113 30.769 0.00 0.00 35.25 2.39
857 881 9.323985 CAACAAATCAAAGGGAAAAAGTTCATA 57.676 29.630 0.00 0.00 35.25 2.15
858 882 8.046107 TCAACAAATCAAAGGGAAAAAGTTCAT 58.954 29.630 0.00 0.00 35.25 2.57
859 883 7.390027 TCAACAAATCAAAGGGAAAAAGTTCA 58.610 30.769 0.00 0.00 35.25 3.18
860 884 7.841915 TCAACAAATCAAAGGGAAAAAGTTC 57.158 32.000 0.00 0.00 0.00 3.01
861 885 8.806429 AATCAACAAATCAAAGGGAAAAAGTT 57.194 26.923 0.00 0.00 0.00 2.66
862 886 9.898152 TTAATCAACAAATCAAAGGGAAAAAGT 57.102 25.926 0.00 0.00 0.00 2.66
867 891 9.762933 CTTCTTTAATCAACAAATCAAAGGGAA 57.237 29.630 0.00 0.00 0.00 3.97
868 892 9.142014 TCTTCTTTAATCAACAAATCAAAGGGA 57.858 29.630 0.00 0.00 0.00 4.20
869 893 9.762933 TTCTTCTTTAATCAACAAATCAAAGGG 57.237 29.630 0.00 0.00 0.00 3.95
954 979 2.680841 CGCAATTTCTAACCCAATCCGA 59.319 45.455 0.00 0.00 0.00 4.55
961 986 2.481276 GGATTGGCGCAATTTCTAACCC 60.481 50.000 10.83 0.00 33.90 4.11
962 987 2.165437 TGGATTGGCGCAATTTCTAACC 59.835 45.455 10.83 4.53 33.90 2.85
963 988 3.502191 TGGATTGGCGCAATTTCTAAC 57.498 42.857 10.83 0.00 33.90 2.34
964 989 3.243035 CGATGGATTGGCGCAATTTCTAA 60.243 43.478 10.83 0.00 33.90 2.10
965 990 2.290367 CGATGGATTGGCGCAATTTCTA 59.710 45.455 10.83 0.00 33.90 2.10
966 991 1.066002 CGATGGATTGGCGCAATTTCT 59.934 47.619 10.83 0.00 33.90 2.52
968 993 1.066002 CTCGATGGATTGGCGCAATTT 59.934 47.619 10.83 0.00 33.90 1.82
970 995 1.789078 GCTCGATGGATTGGCGCAAT 61.789 55.000 10.83 7.30 36.72 3.56
971 996 2.472059 GCTCGATGGATTGGCGCAA 61.472 57.895 10.83 0.00 0.00 4.85
972 997 2.896854 GCTCGATGGATTGGCGCA 60.897 61.111 10.83 0.00 0.00 6.09
973 998 2.590007 AGCTCGATGGATTGGCGC 60.590 61.111 0.00 0.00 0.00 6.53
974 999 2.890109 GCAGCTCGATGGATTGGCG 61.890 63.158 0.00 0.00 0.00 5.69
975 1000 2.890109 CGCAGCTCGATGGATTGGC 61.890 63.158 0.00 0.00 41.67 4.52
976 1001 2.249535 CCGCAGCTCGATGGATTGG 61.250 63.158 7.07 0.00 41.67 3.16
978 1003 1.762522 ATCCCGCAGCTCGATGGATT 61.763 55.000 7.07 0.00 36.32 3.01
979 1004 2.164865 GATCCCGCAGCTCGATGGAT 62.165 60.000 12.54 12.54 40.41 3.41
980 1005 2.839632 ATCCCGCAGCTCGATGGA 60.840 61.111 7.07 6.59 41.67 3.41
981 1006 2.356793 GATCCCGCAGCTCGATGG 60.357 66.667 7.07 1.99 41.67 3.51
982 1007 2.356793 GGATCCCGCAGCTCGATG 60.357 66.667 0.00 0.00 41.67 3.84
983 1008 2.839632 TGGATCCCGCAGCTCGAT 60.840 61.111 9.90 0.00 41.67 3.59
984 1009 3.531207 CTGGATCCCGCAGCTCGA 61.531 66.667 9.90 0.00 41.67 4.04
985 1010 4.598894 CCTGGATCCCGCAGCTCG 62.599 72.222 9.90 0.00 38.08 5.03
986 1011 4.925861 GCCTGGATCCCGCAGCTC 62.926 72.222 9.90 0.00 0.00 4.09
1404 1485 1.587054 CGGACGCCTCTCTTGTTCT 59.413 57.895 0.00 0.00 0.00 3.01
1502 1583 1.576356 CAGCGATTGAAGTAGGAGGC 58.424 55.000 0.00 0.00 0.00 4.70
1514 1595 1.134280 CCTCAGGTTGATCCAGCGATT 60.134 52.381 0.00 0.00 39.02 3.34
1951 2165 2.659610 GCTCCTCTTGTCGCCACT 59.340 61.111 0.00 0.00 0.00 4.00
1960 2174 1.617536 TGGCTCCATGGCTCCTCTT 60.618 57.895 18.88 0.00 42.34 2.85
1980 2194 0.598419 GCATCCAGATCGCATCGACA 60.598 55.000 0.00 0.00 39.18 4.35
1982 2196 1.372128 CGCATCCAGATCGCATCGA 60.372 57.895 0.00 0.00 41.13 3.59
2963 3207 9.985730 CTATAAAAATGCCATGAATTACCACAT 57.014 29.630 0.00 0.00 0.00 3.21


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

AutoCloner maintained by Alex Coulton.