Multiple sequence alignment - TraesCS3A01G295600

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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 TraesCS3A01G295600 chr3A 100.000 2840 0 0 1 2840 529778650 529775811 0.000000e+00 5245.0
1 TraesCS3A01G295600 chr3A 96.399 833 26 4 1 830 543714089 543714920 0.000000e+00 1369.0
2 TraesCS3A01G295600 chr3A 94.718 833 36 6 1 833 35028707 35027883 0.000000e+00 1288.0
3 TraesCS3A01G295600 chr3A 91.895 839 55 11 1 833 44809487 44808656 0.000000e+00 1160.0
4 TraesCS3A01G295600 chr3A 86.174 839 91 10 1081 1900 529843474 529842642 0.000000e+00 883.0
5 TraesCS3A01G295600 chr3D 93.542 1951 85 10 908 2836 421314217 421316148 0.000000e+00 2867.0
6 TraesCS3A01G295600 chr3D 86.691 834 86 10 1083 1897 421291127 421291954 0.000000e+00 902.0
7 TraesCS3A01G295600 chr3D 78.864 317 46 13 1300 1604 421704307 421704614 8.030000e-46 195.0
8 TraesCS3A01G295600 chr3D 77.603 317 46 15 1300 1604 422022872 422023175 4.870000e-38 169.0
9 TraesCS3A01G295600 chr3B 94.796 1076 38 8 908 1967 548044857 548045930 0.000000e+00 1661.0
10 TraesCS3A01G295600 chr3B 96.149 857 30 1 1983 2836 548046110 548046966 0.000000e+00 1397.0
11 TraesCS3A01G295600 chr3B 85.988 835 91 11 1083 1897 548039337 548040165 0.000000e+00 870.0
12 TraesCS3A01G295600 chr3B 77.603 317 50 12 1300 1604 549427487 549427794 3.760000e-39 172.0
13 TraesCS3A01G295600 chr6A 95.904 830 30 3 1 829 508761402 508760576 0.000000e+00 1341.0
14 TraesCS3A01G295600 chr6A 92.428 832 55 6 1 829 599979695 599978869 0.000000e+00 1181.0
15 TraesCS3A01G295600 chr5A 95.548 831 31 6 1 829 480738968 480738142 0.000000e+00 1325.0
16 TraesCS3A01G295600 chr5A 95.072 832 32 6 1 829 648888449 648887624 0.000000e+00 1301.0
17 TraesCS3A01G295600 chr2A 95.422 830 34 3 1 829 692852135 692851309 0.000000e+00 1319.0
18 TraesCS3A01G295600 chr2A 91.746 836 55 10 1 832 69189578 69188753 0.000000e+00 1149.0
19 TraesCS3A01G295600 chr2A 79.743 311 47 7 1317 1615 15815519 15815213 7.970000e-51 211.0
20 TraesCS3A01G295600 chrUn 97.778 45 0 1 833 877 90315244 90315201 3.030000e-10 76.8
21 TraesCS3A01G295600 chrUn 97.436 39 1 0 837 875 28773641 28773603 1.830000e-07 67.6
22 TraesCS3A01G295600 chr4B 97.500 40 0 1 842 881 626453169 626453207 1.830000e-07 67.6


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 TraesCS3A01G295600 chr3A 529775811 529778650 2839 True 5245 5245 100.0000 1 2840 1 chr3A.!!$R3 2839
1 TraesCS3A01G295600 chr3A 543714089 543714920 831 False 1369 1369 96.3990 1 830 1 chr3A.!!$F1 829
2 TraesCS3A01G295600 chr3A 35027883 35028707 824 True 1288 1288 94.7180 1 833 1 chr3A.!!$R1 832
3 TraesCS3A01G295600 chr3A 44808656 44809487 831 True 1160 1160 91.8950 1 833 1 chr3A.!!$R2 832
4 TraesCS3A01G295600 chr3A 529842642 529843474 832 True 883 883 86.1740 1081 1900 1 chr3A.!!$R4 819
5 TraesCS3A01G295600 chr3D 421314217 421316148 1931 False 2867 2867 93.5420 908 2836 1 chr3D.!!$F2 1928
6 TraesCS3A01G295600 chr3D 421291127 421291954 827 False 902 902 86.6910 1083 1897 1 chr3D.!!$F1 814
7 TraesCS3A01G295600 chr3B 548044857 548046966 2109 False 1529 1661 95.4725 908 2836 2 chr3B.!!$F3 1928
8 TraesCS3A01G295600 chr3B 548039337 548040165 828 False 870 870 85.9880 1083 1897 1 chr3B.!!$F1 814
9 TraesCS3A01G295600 chr6A 508760576 508761402 826 True 1341 1341 95.9040 1 829 1 chr6A.!!$R1 828
10 TraesCS3A01G295600 chr6A 599978869 599979695 826 True 1181 1181 92.4280 1 829 1 chr6A.!!$R2 828
11 TraesCS3A01G295600 chr5A 480738142 480738968 826 True 1325 1325 95.5480 1 829 1 chr5A.!!$R1 828
12 TraesCS3A01G295600 chr5A 648887624 648888449 825 True 1301 1301 95.0720 1 829 1 chr5A.!!$R2 828
13 TraesCS3A01G295600 chr2A 692851309 692852135 826 True 1319 1319 95.4220 1 829 1 chr2A.!!$R3 828
14 TraesCS3A01G295600 chr2A 69188753 69189578 825 True 1149 1149 91.7460 1 832 1 chr2A.!!$R2 831

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
874 900 0.252835 AAGGGGTTACGAAGGGGCTA 60.253 55.0 0.0 0.0 0.0 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2187 2423 1.144298 GGAAATTAGGGTATGGGCCGT 59.856 52.381 2.58 2.58 0.0 5.68 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
26 27 9.455559 GTTACGAGTTTTCAAACAAAATGTTTC 57.544 29.630 5.54 0.00 46.61 2.78
159 165 8.517062 AAAATCACAATTTGGAAAAATGGTCA 57.483 26.923 0.78 0.00 35.27 4.02
599 619 2.431454 TCCTTGCGCAACATAATGACA 58.569 42.857 21.02 0.00 0.00 3.58
685 707 1.376609 GGACATCGCAACCACCATCC 61.377 60.000 0.00 0.00 0.00 3.51
686 708 0.676466 GACATCGCAACCACCATCCA 60.676 55.000 0.00 0.00 0.00 3.41
813 839 0.376852 GTCTCTTGTTGCAACGCACA 59.623 50.000 23.79 4.86 38.71 4.57
823 849 1.464997 TGCAACGCACACGCATATTTA 59.535 42.857 0.00 0.00 45.53 1.40
833 859 6.785633 CGCACACGCATATTTACTAGTTAATG 59.214 38.462 15.62 8.99 38.40 1.90
834 860 7.306341 CGCACACGCATATTTACTAGTTAATGA 60.306 37.037 15.62 2.84 38.40 2.57
835 861 8.495949 GCACACGCATATTTACTAGTTAATGAT 58.504 33.333 15.62 4.69 38.36 2.45
837 863 9.758651 ACACGCATATTTACTAGTTAATGATCA 57.241 29.630 15.62 0.00 0.00 2.92
855 881 8.651589 AATGATCAATAATCCTAGACCTACGA 57.348 34.615 0.00 0.00 33.01 3.43
856 882 8.651589 ATGATCAATAATCCTAGACCTACGAA 57.348 34.615 0.00 0.00 33.01 3.85
857 883 8.112016 TGATCAATAATCCTAGACCTACGAAG 57.888 38.462 0.00 0.00 33.01 3.79
858 884 7.176865 TGATCAATAATCCTAGACCTACGAAGG 59.823 40.741 0.00 0.00 40.20 3.46
868 894 2.573941 CCTACGAAGGGGTTACGAAG 57.426 55.000 0.00 0.00 39.48 3.79
869 895 1.135721 CCTACGAAGGGGTTACGAAGG 59.864 57.143 0.00 0.00 39.48 3.46
870 896 1.135721 CTACGAAGGGGTTACGAAGGG 59.864 57.143 0.00 0.00 0.00 3.95
871 897 1.219935 CGAAGGGGTTACGAAGGGG 59.780 63.158 0.00 0.00 0.00 4.79
872 898 1.077930 GAAGGGGTTACGAAGGGGC 60.078 63.158 0.00 0.00 0.00 5.80
873 899 1.540617 AAGGGGTTACGAAGGGGCT 60.541 57.895 0.00 0.00 0.00 5.19
874 900 0.252835 AAGGGGTTACGAAGGGGCTA 60.253 55.000 0.00 0.00 0.00 3.93
875 901 0.979709 AGGGGTTACGAAGGGGCTAC 60.980 60.000 0.00 0.00 0.00 3.58
876 902 1.142531 GGGTTACGAAGGGGCTACG 59.857 63.158 0.00 0.00 0.00 3.51
877 903 1.322538 GGGTTACGAAGGGGCTACGA 61.323 60.000 0.00 0.00 0.00 3.43
878 904 0.749049 GGTTACGAAGGGGCTACGAT 59.251 55.000 0.00 0.00 0.00 3.73
879 905 1.956477 GGTTACGAAGGGGCTACGATA 59.044 52.381 0.00 0.00 0.00 2.92
880 906 2.030451 GGTTACGAAGGGGCTACGATAG 60.030 54.545 0.00 0.00 46.19 2.08
893 919 4.850859 CTACGATAGCTCCGAGTAGATG 57.149 50.000 14.27 0.00 37.54 2.90
894 920 2.428491 ACGATAGCTCCGAGTAGATGG 58.572 52.381 14.27 0.00 42.67 3.51
895 921 2.038689 ACGATAGCTCCGAGTAGATGGA 59.961 50.000 14.27 0.00 42.67 3.41
896 922 3.275143 CGATAGCTCCGAGTAGATGGAT 58.725 50.000 0.00 0.00 32.83 3.41
897 923 3.064682 CGATAGCTCCGAGTAGATGGATG 59.935 52.174 0.00 0.00 32.83 3.51
898 924 0.965439 AGCTCCGAGTAGATGGATGC 59.035 55.000 0.00 0.00 32.83 3.91
899 925 0.676184 GCTCCGAGTAGATGGATGCA 59.324 55.000 0.00 0.00 32.83 3.96
900 926 1.336702 GCTCCGAGTAGATGGATGCAG 60.337 57.143 0.00 0.00 32.83 4.41
901 927 0.676184 TCCGAGTAGATGGATGCAGC 59.324 55.000 0.00 0.00 0.00 5.25
902 928 0.320247 CCGAGTAGATGGATGCAGCC 60.320 60.000 15.83 15.83 0.00 4.85
903 929 0.665670 CGAGTAGATGGATGCAGCCG 60.666 60.000 17.68 0.00 0.00 5.52
904 930 0.390860 GAGTAGATGGATGCAGCCGT 59.609 55.000 17.36 17.36 0.00 5.68
905 931 0.833287 AGTAGATGGATGCAGCCGTT 59.167 50.000 18.48 6.56 0.00 4.44
906 932 1.210478 AGTAGATGGATGCAGCCGTTT 59.790 47.619 18.48 14.70 0.00 3.60
937 963 3.777016 GATCTCGATCCCTACACGC 57.223 57.895 0.00 0.00 31.76 5.34
948 974 0.526662 CCTACACGCGAGGAAGTTCT 59.473 55.000 15.93 0.00 35.99 3.01
969 995 7.180051 AGTTCTGTTCAGATCCAGATATATCCC 59.820 40.741 9.18 0.00 37.54 3.85
974 1000 2.952978 AGATCCAGATATATCCCGTCGC 59.047 50.000 9.18 0.00 0.00 5.19
1053 1083 1.363744 GAGTTGGGCTCTCAATCGTG 58.636 55.000 0.00 0.00 40.98 4.35
1054 1084 0.976641 AGTTGGGCTCTCAATCGTGA 59.023 50.000 0.00 0.00 0.00 4.35
1062 1092 3.378742 GGCTCTCAATCGTGAAGACTAGA 59.621 47.826 0.00 0.00 31.88 2.43
1220 1256 1.876156 CAGCGACAAAGAAAGGCTCTT 59.124 47.619 0.00 0.00 46.92 2.85
1239 1281 5.507985 GCTCTTGTTGCTTGTGGTATTTTCT 60.508 40.000 0.00 0.00 0.00 2.52
1270 1312 2.793946 CGCTCATGCTTTTCCCCG 59.206 61.111 0.00 0.00 36.97 5.73
1315 1357 4.394078 TGTCGTTCTCCGTCGGCG 62.394 66.667 6.34 0.29 37.94 6.46
1741 1796 3.392616 CCTTGCCCATGGTATTCTCTACT 59.607 47.826 11.73 0.00 0.00 2.57
1764 1819 3.873952 GCCTCACAGTTATGACAGATTCC 59.126 47.826 0.00 0.00 0.00 3.01
1870 1926 8.483307 AGGAAATTTATGTGCAATGATTCAAC 57.517 30.769 0.00 0.00 0.00 3.18
1931 1987 8.986477 ACAGGACTTGCATGTTTTAATTAATC 57.014 30.769 6.70 0.00 38.59 1.75
1951 2012 9.751542 ATTAATCTTACTACTTTGTCCTCATCG 57.248 33.333 0.00 0.00 0.00 3.84
1976 2209 8.985694 CGCTAGATTAAAAACAAATACAAGACG 58.014 33.333 0.00 0.00 0.00 4.18
1977 2210 9.821662 GCTAGATTAAAAACAAATACAAGACGT 57.178 29.630 0.00 0.00 0.00 4.34
2044 2280 4.038763 CCGATGACCTAGGTTAGCATAACA 59.961 45.833 20.49 10.02 0.00 2.41
2059 2295 3.559069 CATAACACCATCTGCAGGGAAT 58.441 45.455 15.13 0.00 0.00 3.01
2087 2323 2.352561 TGTGGACCAAGGATCCCTAA 57.647 50.000 8.55 0.00 35.12 2.69
2187 2423 5.122519 TCATTGACAGTAGCAAACTCAACA 58.877 37.500 0.00 0.00 35.76 3.33
2199 2435 1.451387 CTCAACACGGCCCATACCC 60.451 63.158 0.00 0.00 0.00 3.69
2271 2507 5.390461 CGGCAAACAAGACGAAAGATATCAA 60.390 40.000 5.32 0.00 44.57 2.57
2275 2511 9.554724 GCAAACAAGACGAAAGATATCAAATTA 57.445 29.630 5.32 0.00 0.00 1.40
2314 2550 2.162681 AGGCCTGTAGCATTGTTTCAC 58.837 47.619 3.11 0.00 46.50 3.18
2366 2602 4.168760 GCTGTGATGAATTTACTGCCAAC 58.831 43.478 0.00 0.00 34.48 3.77
2567 2803 6.430308 CCATCAGAGGAAGATATGGTTCAATG 59.570 42.308 0.00 0.00 33.81 2.82
2732 2968 6.991485 ACAATAGCAAATGAAAACTCGTTG 57.009 33.333 0.00 0.00 0.00 4.10
2836 3072 8.477419 AGGATTGTTGTTCCTGAAAAGAATAA 57.523 30.769 0.00 0.00 42.11 1.40
2837 3073 8.923270 AGGATTGTTGTTCCTGAAAAGAATAAA 58.077 29.630 0.00 0.00 42.11 1.40
2838 3074 9.541143 GGATTGTTGTTCCTGAAAAGAATAAAA 57.459 29.630 0.00 0.00 0.00 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
152 158 7.099120 GCACTTGATTTTATTTCCTGACCATT 58.901 34.615 0.00 0.00 0.00 3.16
526 546 7.340232 TCATTAACTACGTACTACTCCCAATGT 59.660 37.037 0.00 0.00 0.00 2.71
528 548 7.776969 TCTCATTAACTACGTACTACTCCCAAT 59.223 37.037 0.00 0.00 0.00 3.16
833 859 7.363094 CCCTTCGTAGGTCTAGGATTATTGATC 60.363 44.444 7.37 0.00 40.19 2.92
834 860 6.437793 CCCTTCGTAGGTCTAGGATTATTGAT 59.562 42.308 7.37 0.00 40.19 2.57
835 861 5.773680 CCCTTCGTAGGTCTAGGATTATTGA 59.226 44.000 7.37 0.00 40.19 2.57
836 862 5.047235 CCCCTTCGTAGGTCTAGGATTATTG 60.047 48.000 7.37 0.00 40.19 1.90
837 863 5.085219 CCCCTTCGTAGGTCTAGGATTATT 58.915 45.833 7.37 0.00 40.19 1.40
838 864 4.107636 ACCCCTTCGTAGGTCTAGGATTAT 59.892 45.833 7.37 0.00 40.19 1.28
839 865 3.464833 ACCCCTTCGTAGGTCTAGGATTA 59.535 47.826 7.37 0.00 40.19 1.75
840 866 2.246849 ACCCCTTCGTAGGTCTAGGATT 59.753 50.000 7.37 0.00 40.19 3.01
841 867 1.858246 ACCCCTTCGTAGGTCTAGGAT 59.142 52.381 7.37 0.00 40.19 3.24
842 868 1.302907 ACCCCTTCGTAGGTCTAGGA 58.697 55.000 7.37 0.00 40.19 2.94
843 869 2.156102 AACCCCTTCGTAGGTCTAGG 57.844 55.000 7.37 3.62 40.19 3.02
844 870 2.615912 CGTAACCCCTTCGTAGGTCTAG 59.384 54.545 7.37 0.00 40.19 2.43
845 871 2.238646 TCGTAACCCCTTCGTAGGTCTA 59.761 50.000 7.37 0.00 40.19 2.59
846 872 1.004745 TCGTAACCCCTTCGTAGGTCT 59.995 52.381 7.37 0.00 40.19 3.85
847 873 1.463674 TCGTAACCCCTTCGTAGGTC 58.536 55.000 7.37 0.00 40.19 3.85
848 874 1.821136 CTTCGTAACCCCTTCGTAGGT 59.179 52.381 7.37 0.00 40.19 3.08
849 875 1.135721 CCTTCGTAACCCCTTCGTAGG 59.864 57.143 0.14 0.14 41.60 3.18
850 876 1.135721 CCCTTCGTAACCCCTTCGTAG 59.864 57.143 0.00 0.00 0.00 3.51
851 877 1.185315 CCCTTCGTAACCCCTTCGTA 58.815 55.000 0.00 0.00 0.00 3.43
852 878 1.547472 CCCCTTCGTAACCCCTTCGT 61.547 60.000 0.00 0.00 0.00 3.85
853 879 1.219935 CCCCTTCGTAACCCCTTCG 59.780 63.158 0.00 0.00 0.00 3.79
854 880 1.077930 GCCCCTTCGTAACCCCTTC 60.078 63.158 0.00 0.00 0.00 3.46
855 881 0.252835 TAGCCCCTTCGTAACCCCTT 60.253 55.000 0.00 0.00 0.00 3.95
856 882 0.979709 GTAGCCCCTTCGTAACCCCT 60.980 60.000 0.00 0.00 0.00 4.79
857 883 1.524002 GTAGCCCCTTCGTAACCCC 59.476 63.158 0.00 0.00 0.00 4.95
858 884 1.142531 CGTAGCCCCTTCGTAACCC 59.857 63.158 0.00 0.00 0.00 4.11
859 885 0.749049 ATCGTAGCCCCTTCGTAACC 59.251 55.000 0.00 0.00 0.00 2.85
860 886 2.606551 GCTATCGTAGCCCCTTCGTAAC 60.607 54.545 5.92 0.00 45.95 2.50
861 887 1.610522 GCTATCGTAGCCCCTTCGTAA 59.389 52.381 5.92 0.00 45.95 3.18
862 888 1.242076 GCTATCGTAGCCCCTTCGTA 58.758 55.000 5.92 0.00 45.95 3.43
863 889 2.039509 GCTATCGTAGCCCCTTCGT 58.960 57.895 5.92 0.00 45.95 3.85
864 890 4.968197 GCTATCGTAGCCCCTTCG 57.032 61.111 5.92 0.00 45.95 3.79
872 898 3.619483 CCATCTACTCGGAGCTATCGTAG 59.381 52.174 4.58 7.09 0.00 3.51
873 899 3.260128 TCCATCTACTCGGAGCTATCGTA 59.740 47.826 4.58 0.00 0.00 3.43
874 900 2.038689 TCCATCTACTCGGAGCTATCGT 59.961 50.000 4.58 0.00 0.00 3.73
875 901 2.701107 TCCATCTACTCGGAGCTATCG 58.299 52.381 4.58 2.87 0.00 2.92
876 902 3.181491 GCATCCATCTACTCGGAGCTATC 60.181 52.174 4.58 0.00 33.97 2.08
877 903 2.757868 GCATCCATCTACTCGGAGCTAT 59.242 50.000 4.58 0.00 33.97 2.97
878 904 2.163509 GCATCCATCTACTCGGAGCTA 58.836 52.381 4.58 0.00 33.97 3.32
879 905 0.965439 GCATCCATCTACTCGGAGCT 59.035 55.000 4.58 0.00 33.97 4.09
880 906 0.676184 TGCATCCATCTACTCGGAGC 59.324 55.000 4.58 0.00 33.97 4.70
881 907 1.336702 GCTGCATCCATCTACTCGGAG 60.337 57.143 2.83 2.83 33.97 4.63
882 908 0.676184 GCTGCATCCATCTACTCGGA 59.324 55.000 0.00 0.00 35.27 4.55
883 909 0.320247 GGCTGCATCCATCTACTCGG 60.320 60.000 0.55 0.00 0.00 4.63
884 910 0.665670 CGGCTGCATCCATCTACTCG 60.666 60.000 7.47 0.00 0.00 4.18
885 911 0.390860 ACGGCTGCATCCATCTACTC 59.609 55.000 7.47 0.00 0.00 2.59
886 912 0.833287 AACGGCTGCATCCATCTACT 59.167 50.000 7.47 0.00 0.00 2.57
887 913 1.668419 AAACGGCTGCATCCATCTAC 58.332 50.000 7.47 0.00 0.00 2.59
888 914 3.552132 TTAAACGGCTGCATCCATCTA 57.448 42.857 7.47 0.00 0.00 1.98
889 915 2.418368 TTAAACGGCTGCATCCATCT 57.582 45.000 7.47 0.00 0.00 2.90
890 916 3.502191 TTTTAAACGGCTGCATCCATC 57.498 42.857 7.47 0.00 0.00 3.51
891 917 4.497340 CGTATTTTAAACGGCTGCATCCAT 60.497 41.667 7.47 0.00 36.71 3.41
892 918 3.181505 CGTATTTTAAACGGCTGCATCCA 60.182 43.478 7.47 0.00 36.71 3.41
893 919 3.181504 ACGTATTTTAAACGGCTGCATCC 60.182 43.478 0.50 0.00 44.48 3.51
894 920 3.783943 CACGTATTTTAAACGGCTGCATC 59.216 43.478 0.50 0.00 44.48 3.91
895 921 3.437395 TCACGTATTTTAAACGGCTGCAT 59.563 39.130 0.50 0.00 44.48 3.96
896 922 2.806818 TCACGTATTTTAAACGGCTGCA 59.193 40.909 0.50 0.00 44.48 4.41
897 923 3.413558 CTCACGTATTTTAAACGGCTGC 58.586 45.455 3.47 0.00 44.48 5.25
898 924 3.680937 TCCTCACGTATTTTAAACGGCTG 59.319 43.478 3.47 0.00 44.48 4.85
899 925 3.929094 TCCTCACGTATTTTAAACGGCT 58.071 40.909 3.47 0.00 44.48 5.52
900 926 4.569564 AGATCCTCACGTATTTTAAACGGC 59.430 41.667 3.47 0.00 44.48 5.68
901 927 5.051907 CGAGATCCTCACGTATTTTAAACGG 60.052 44.000 3.47 0.00 44.48 4.44
902 928 5.740569 TCGAGATCCTCACGTATTTTAAACG 59.259 40.000 0.00 0.00 45.64 3.60
903 929 7.695869 ATCGAGATCCTCACGTATTTTAAAC 57.304 36.000 0.00 0.00 32.42 2.01
904 930 7.925703 GATCGAGATCCTCACGTATTTTAAA 57.074 36.000 1.77 0.00 32.42 1.52
937 963 3.056536 TGGATCTGAACAGAACTTCCTCG 60.057 47.826 17.93 0.00 41.36 4.63
948 974 5.333581 ACGGGATATATCTGGATCTGAACA 58.666 41.667 12.42 0.00 0.00 3.18
974 1000 3.365265 GGCAGTCCGTTTGGGCAG 61.365 66.667 0.00 0.00 44.71 4.85
984 1010 3.462678 GGAGTCCCGAGGCAGTCC 61.463 72.222 0.00 0.00 0.00 3.85
985 1011 2.363147 AGGAGTCCCGAGGCAGTC 60.363 66.667 5.25 0.00 37.58 3.51
1124 1154 2.124695 GGTCGGAAGGGATGGCAC 60.125 66.667 0.00 0.00 0.00 5.01
1220 1256 5.347342 CAACAGAAAATACCACAAGCAACA 58.653 37.500 0.00 0.00 0.00 3.33
1270 1312 1.473434 GGCCTGCTCCATGTAGTACAC 60.473 57.143 4.80 0.00 0.00 2.90
1315 1357 4.874977 GCCCTCGTAGCCAGCGAC 62.875 72.222 0.00 0.00 34.47 5.19
1365 1407 2.280592 GTGAGGTTGAACGCCGGT 60.281 61.111 1.90 0.00 0.00 5.28
1663 1715 1.737735 CAGCGCATCACCTTGTCGA 60.738 57.895 11.47 0.00 0.00 4.20
1714 1769 1.873178 ATACCATGGGCAAGGTGGCA 61.873 55.000 18.09 0.00 45.76 4.92
1741 1796 4.507710 GAATCTGTCATAACTGTGAGGCA 58.492 43.478 0.00 0.00 0.00 4.75
1764 1819 2.049228 GATGGTCTACGATTTACCGCG 58.951 52.381 0.00 0.00 35.98 6.46
1793 1848 7.063780 CCTTGAAAATTCATCGGAAAATCCTTG 59.936 37.037 0.00 0.00 37.00 3.61
1870 1926 2.602211 CAGCAGTACATTCAGCTTCGAG 59.398 50.000 0.00 0.00 34.61 4.04
1926 1982 7.705325 GCGATGAGGACAAAGTAGTAAGATTAA 59.295 37.037 0.00 0.00 0.00 1.40
1927 1983 7.068348 AGCGATGAGGACAAAGTAGTAAGATTA 59.932 37.037 0.00 0.00 0.00 1.75
1929 1985 5.361285 AGCGATGAGGACAAAGTAGTAAGAT 59.639 40.000 0.00 0.00 0.00 2.40
1930 1986 4.705507 AGCGATGAGGACAAAGTAGTAAGA 59.294 41.667 0.00 0.00 0.00 2.10
1931 1987 5.000012 AGCGATGAGGACAAAGTAGTAAG 58.000 43.478 0.00 0.00 0.00 2.34
1951 2012 9.821662 ACGTCTTGTATTTGTTTTTAATCTAGC 57.178 29.630 0.00 0.00 0.00 3.42
1976 2209 5.856126 TTATCTTTGGTTCACGTGATCAC 57.144 39.130 20.80 16.21 0.00 3.06
1977 2210 7.174080 TCAAATTATCTTTGGTTCACGTGATCA 59.826 33.333 20.80 17.50 0.00 2.92
1978 2211 7.526608 TCAAATTATCTTTGGTTCACGTGATC 58.473 34.615 20.80 18.44 0.00 2.92
1979 2212 7.447374 TCAAATTATCTTTGGTTCACGTGAT 57.553 32.000 20.80 4.00 0.00 3.06
1980 2213 6.869315 TCAAATTATCTTTGGTTCACGTGA 57.131 33.333 15.76 15.76 0.00 4.35
1981 2214 7.304735 TCATCAAATTATCTTTGGTTCACGTG 58.695 34.615 9.94 9.94 0.00 4.49
2044 2280 4.603171 TGGATATTATTCCCTGCAGATGGT 59.397 41.667 17.39 0.83 34.67 3.55
2087 2323 3.640029 GCATGATCAATCAATCCCCTTGT 59.360 43.478 0.00 0.00 40.69 3.16
2187 2423 1.144298 GGAAATTAGGGTATGGGCCGT 59.856 52.381 2.58 2.58 0.00 5.68
2199 2435 4.686554 CCGCGGAGATAAGAAGGAAATTAG 59.313 45.833 24.07 0.00 0.00 1.73
2271 2507 9.000486 GCCTAGTTTGAACTACTTTCTGTAATT 58.000 33.333 0.00 0.00 40.37 1.40
2275 2511 5.071923 AGGCCTAGTTTGAACTACTTTCTGT 59.928 40.000 1.29 0.00 40.37 3.41
2314 2550 9.088512 GGTAAATAACTTCATCACTCACACTAG 57.911 37.037 0.00 0.00 0.00 2.57
2366 2602 1.745489 CTTCCCTTTCGGCTTCGGG 60.745 63.158 0.00 0.00 38.07 5.14
2390 2626 3.695830 TTTGGAGACCCACACTATGAC 57.304 47.619 0.00 0.00 43.41 3.06
2732 2968 4.094590 CCTGATGACAGCTTCATGAAGAAC 59.905 45.833 34.43 19.73 45.67 3.01


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

AutoCloner maintained by Alex Coulton.