Multiple sequence alignment - TraesCS6D01G063700

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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 TraesCS6D01G063700 chr6D 100.000 3209 0 0 1 3209 30068521 30065313 0.000000e+00 5927.0
1 TraesCS6D01G063700 chr6D 93.939 990 39 5 1 988 60169441 60170411 0.000000e+00 1476.0
2 TraesCS6D01G063700 chr6D 93.492 922 35 9 5 926 354544188 354545084 0.000000e+00 1347.0
3 TraesCS6D01G063700 chr6D 92.672 928 38 6 1 926 148077458 148078357 0.000000e+00 1310.0
4 TraesCS6D01G063700 chr6D 77.511 458 85 15 1039 1483 29194785 29195237 3.180000e-65 259.0
5 TraesCS6D01G063700 chr6D 76.827 479 92 14 1052 1522 28305120 28304653 5.310000e-63 252.0
6 TraesCS6D01G063700 chr7D 97.621 1009 22 2 2202 3209 14570189 14569182 0.000000e+00 1729.0
7 TraesCS6D01G063700 chr7D 93.051 993 40 13 6 988 101553323 101554296 0.000000e+00 1424.0
8 TraesCS6D01G063700 chr7D 91.892 888 53 5 43 928 487870015 487869145 0.000000e+00 1223.0
9 TraesCS6D01G063700 chr5D 97.431 1012 24 2 2199 3209 483837426 483838436 0.000000e+00 1724.0
10 TraesCS6D01G063700 chr5D 97.525 1010 22 3 2201 3209 530621852 530622859 0.000000e+00 1724.0
11 TraesCS6D01G063700 chr5D 92.480 984 44 7 11 988 513528004 513527045 0.000000e+00 1380.0
12 TraesCS6D01G063700 chr5D 96.985 398 12 0 1021 1418 533536316 533535919 0.000000e+00 669.0
13 TraesCS6D01G063700 chr5D 91.827 208 13 3 1483 1690 533535922 533535719 1.460000e-73 287.0
14 TraesCS6D01G063700 chr1D 97.423 1009 25 1 2201 3209 445612275 445613282 0.000000e+00 1718.0
15 TraesCS6D01G063700 chr1D 97.421 1008 18 7 2202 3209 2340992 2341991 0.000000e+00 1711.0
16 TraesCS6D01G063700 chr4D 97.421 1008 25 1 2202 3209 421068511 421069517 0.000000e+00 1716.0
17 TraesCS6D01G063700 chr2D 97.421 1008 24 2 2202 3209 22129157 22130162 0.000000e+00 1716.0
18 TraesCS6D01G063700 chr2D 97.423 1009 20 6 2202 3209 624713793 624714796 0.000000e+00 1714.0
19 TraesCS6D01G063700 chr2D 93.173 791 40 4 1 791 594199591 594200367 0.000000e+00 1149.0
20 TraesCS6D01G063700 chr3D 97.324 1009 25 2 2202 3209 28144569 28145576 0.000000e+00 1712.0
21 TraesCS6D01G063700 chr3D 91.843 993 44 10 1 986 18749076 18748114 0.000000e+00 1351.0
22 TraesCS6D01G063700 chr3D 96.985 398 12 0 1021 1418 497810866 497810469 0.000000e+00 669.0
23 TraesCS6D01G063700 chr3D 91.346 208 14 3 1483 1690 497810472 497810269 6.780000e-72 281.0
24 TraesCS6D01G063700 chr6B 94.688 960 48 1 1186 2145 57581840 57582796 0.000000e+00 1487.0
25 TraesCS6D01G063700 chr6B 95.283 212 8 2 990 1200 57580137 57580347 5.130000e-88 335.0
26 TraesCS6D01G063700 chr6B 90.055 181 18 0 1046 1226 61789959 61790139 5.350000e-58 235.0
27 TraesCS6D01G063700 chr6B 74.490 490 105 15 1046 1522 49280699 49280217 9.080000e-46 195.0
28 TraesCS6D01G063700 chr6B 74.438 489 105 15 1047 1522 49409225 49408744 3.270000e-45 193.0
29 TraesCS6D01G063700 chr6B 72.866 328 54 23 1749 2063 51501935 51501630 2.650000e-11 80.5
30 TraesCS6D01G063700 chr7A 92.017 952 41 9 40 988 553042119 553041200 0.000000e+00 1304.0
31 TraesCS6D01G063700 chr7A 91.588 951 45 11 40 988 50112370 50113287 0.000000e+00 1280.0
32 TraesCS6D01G063700 chr7A 91.285 895 49 11 40 926 202748844 202749717 0.000000e+00 1194.0
33 TraesCS6D01G063700 chr7A 91.206 887 49 9 43 927 502249148 502248289 0.000000e+00 1179.0
34 TraesCS6D01G063700 chr7A 90.112 536 32 13 3 526 508567055 508566529 0.000000e+00 676.0
35 TraesCS6D01G063700 chr7A 87.915 422 37 6 524 933 508546485 508546066 4.810000e-133 484.0
36 TraesCS6D01G063700 chr7A 87.961 407 28 8 523 927 26462809 26463196 8.110000e-126 460.0
37 TraesCS6D01G063700 chr7A 77.139 748 119 25 40 770 642898212 642898924 1.400000e-103 387.0
38 TraesCS6D01G063700 chr7A 92.982 57 4 0 932 988 202749744 202749800 2.050000e-12 84.2
39 TraesCS6D01G063700 chr6A 91.719 954 42 19 40 988 106476973 106477894 0.000000e+00 1290.0
40 TraesCS6D01G063700 chr6A 77.909 507 85 21 1048 1542 34009387 34009878 1.130000e-74 291.0
41 TraesCS6D01G063700 chr6A 88.462 104 12 0 2034 2137 32746035 32746138 3.360000e-25 126.0
42 TraesCS6D01G063700 chr6A 86.567 67 6 1 1457 1523 30440412 30440475 1.600000e-08 71.3
43 TraesCS6D01G063700 chr3A 90.918 969 50 13 40 986 395555725 395556677 0.000000e+00 1267.0
44 TraesCS6D01G063700 chr2B 88.648 1013 86 13 5 988 664370117 664369105 0.000000e+00 1206.0
45 TraesCS6D01G063700 chr5A 90.601 915 50 13 40 945 38710473 38709586 0.000000e+00 1181.0
46 TraesCS6D01G063700 chrUn 76.735 490 84 27 1033 1503 27364898 27365376 2.470000e-61 246.0
47 TraesCS6D01G063700 chr2A 78.457 311 49 18 1046 1349 761201494 761201195 1.520000e-43 187.0
48 TraesCS6D01G063700 chr2A 87.097 62 1 4 2147 2201 58207175 58207114 2.670000e-06 63.9


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 TraesCS6D01G063700 chr6D 30065313 30068521 3208 True 5927.0 5927 100.0000 1 3209 1 chr6D.!!$R2 3208
1 TraesCS6D01G063700 chr6D 60169441 60170411 970 False 1476.0 1476 93.9390 1 988 1 chr6D.!!$F2 987
2 TraesCS6D01G063700 chr6D 354544188 354545084 896 False 1347.0 1347 93.4920 5 926 1 chr6D.!!$F4 921
3 TraesCS6D01G063700 chr6D 148077458 148078357 899 False 1310.0 1310 92.6720 1 926 1 chr6D.!!$F3 925
4 TraesCS6D01G063700 chr7D 14569182 14570189 1007 True 1729.0 1729 97.6210 2202 3209 1 chr7D.!!$R1 1007
5 TraesCS6D01G063700 chr7D 101553323 101554296 973 False 1424.0 1424 93.0510 6 988 1 chr7D.!!$F1 982
6 TraesCS6D01G063700 chr7D 487869145 487870015 870 True 1223.0 1223 91.8920 43 928 1 chr7D.!!$R2 885
7 TraesCS6D01G063700 chr5D 483837426 483838436 1010 False 1724.0 1724 97.4310 2199 3209 1 chr5D.!!$F1 1010
8 TraesCS6D01G063700 chr5D 530621852 530622859 1007 False 1724.0 1724 97.5250 2201 3209 1 chr5D.!!$F2 1008
9 TraesCS6D01G063700 chr5D 513527045 513528004 959 True 1380.0 1380 92.4800 11 988 1 chr5D.!!$R1 977
10 TraesCS6D01G063700 chr5D 533535719 533536316 597 True 478.0 669 94.4060 1021 1690 2 chr5D.!!$R2 669
11 TraesCS6D01G063700 chr1D 445612275 445613282 1007 False 1718.0 1718 97.4230 2201 3209 1 chr1D.!!$F2 1008
12 TraesCS6D01G063700 chr1D 2340992 2341991 999 False 1711.0 1711 97.4210 2202 3209 1 chr1D.!!$F1 1007
13 TraesCS6D01G063700 chr4D 421068511 421069517 1006 False 1716.0 1716 97.4210 2202 3209 1 chr4D.!!$F1 1007
14 TraesCS6D01G063700 chr2D 22129157 22130162 1005 False 1716.0 1716 97.4210 2202 3209 1 chr2D.!!$F1 1007
15 TraesCS6D01G063700 chr2D 624713793 624714796 1003 False 1714.0 1714 97.4230 2202 3209 1 chr2D.!!$F3 1007
16 TraesCS6D01G063700 chr2D 594199591 594200367 776 False 1149.0 1149 93.1730 1 791 1 chr2D.!!$F2 790
17 TraesCS6D01G063700 chr3D 28144569 28145576 1007 False 1712.0 1712 97.3240 2202 3209 1 chr3D.!!$F1 1007
18 TraesCS6D01G063700 chr3D 18748114 18749076 962 True 1351.0 1351 91.8430 1 986 1 chr3D.!!$R1 985
19 TraesCS6D01G063700 chr3D 497810269 497810866 597 True 475.0 669 94.1655 1021 1690 2 chr3D.!!$R2 669
20 TraesCS6D01G063700 chr6B 57580137 57582796 2659 False 911.0 1487 94.9855 990 2145 2 chr6B.!!$F2 1155
21 TraesCS6D01G063700 chr7A 553041200 553042119 919 True 1304.0 1304 92.0170 40 988 1 chr7A.!!$R4 948
22 TraesCS6D01G063700 chr7A 50112370 50113287 917 False 1280.0 1280 91.5880 40 988 1 chr7A.!!$F2 948
23 TraesCS6D01G063700 chr7A 502248289 502249148 859 True 1179.0 1179 91.2060 43 927 1 chr7A.!!$R1 884
24 TraesCS6D01G063700 chr7A 508566529 508567055 526 True 676.0 676 90.1120 3 526 1 chr7A.!!$R3 523
25 TraesCS6D01G063700 chr7A 202748844 202749800 956 False 639.1 1194 92.1335 40 988 2 chr7A.!!$F4 948
26 TraesCS6D01G063700 chr7A 642898212 642898924 712 False 387.0 387 77.1390 40 770 1 chr7A.!!$F3 730
27 TraesCS6D01G063700 chr6A 106476973 106477894 921 False 1290.0 1290 91.7190 40 988 1 chr6A.!!$F4 948
28 TraesCS6D01G063700 chr3A 395555725 395556677 952 False 1267.0 1267 90.9180 40 986 1 chr3A.!!$F1 946
29 TraesCS6D01G063700 chr2B 664369105 664370117 1012 True 1206.0 1206 88.6480 5 988 1 chr2B.!!$R1 983
30 TraesCS6D01G063700 chr5A 38709586 38710473 887 True 1181.0 1181 90.6010 40 945 1 chr5A.!!$R1 905

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
906 1047 2.749865 GCGCGCCAAATCTACTGCA 61.750 57.895 23.24 0.0 0.0 4.41 F
1512 3199 0.036875 CCACTTCCAGTTCCAGGTCC 59.963 60.000 0.00 0.0 0.0 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2032 3719 0.036858 GAAGACACCCTCAGCTGTCC 60.037 60.0 14.67 0.0 38.04 4.02 R
3083 4780 0.967380 CCTTTTGCGGGCCTGAATCT 60.967 55.0 18.31 0.0 0.00 2.40 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
211 285 3.389002 TCATCACCATCATCATCCTCGTT 59.611 43.478 0.00 0.00 0.00 3.85
581 670 3.781307 TTCATCTGCGACCGGGGG 61.781 66.667 6.32 0.00 0.00 5.40
695 784 4.753662 TCGGCGGAGTACCAGCCT 62.754 66.667 17.92 0.00 46.01 4.58
903 1044 2.890474 CGGCGCGCCAAATCTACT 60.890 61.111 45.26 0.00 35.37 2.57
906 1047 2.749865 GCGCGCCAAATCTACTGCA 61.750 57.895 23.24 0.00 0.00 4.41
988 1168 4.111016 GGCGCCCGCTAAAACCAC 62.111 66.667 18.11 0.00 41.60 4.16
1017 1197 2.202987 CCCGCATGAGGAGTGAGC 60.203 66.667 18.16 0.00 0.00 4.26
1029 1209 3.838271 GTGAGCGGGCCGAGATGA 61.838 66.667 33.44 5.57 0.00 2.92
1241 2928 2.351276 GACAGCCACCCCATCGTT 59.649 61.111 0.00 0.00 0.00 3.85
1512 3199 0.036875 CCACTTCCAGTTCCAGGTCC 59.963 60.000 0.00 0.00 0.00 4.46
1543 3230 3.075998 GCTAGACGACGACGACGA 58.924 61.111 25.15 3.20 42.66 4.20
1544 3231 1.635281 GCTAGACGACGACGACGAT 59.365 57.895 25.15 15.17 42.66 3.73
1546 3233 0.919300 CTAGACGACGACGACGATGA 59.081 55.000 25.15 8.92 42.66 2.92
1547 3234 1.322637 CTAGACGACGACGACGATGAA 59.677 52.381 25.15 7.49 42.66 2.57
1548 3235 0.094901 AGACGACGACGACGATGAAG 59.905 55.000 25.15 2.87 42.66 3.02
1549 3236 0.094216 GACGACGACGACGATGAAGA 59.906 55.000 25.15 0.00 42.66 2.87
1631 3318 4.844085 TGGGGAAATCTCTTCTCAACACTA 59.156 41.667 0.00 0.00 0.00 2.74
1691 3378 0.397564 TGGTTGGGGACTCCGTTTAC 59.602 55.000 0.00 0.00 38.76 2.01
1693 3380 1.338484 GGTTGGGGACTCCGTTTACTC 60.338 57.143 0.00 0.00 38.76 2.59
1694 3381 1.345415 GTTGGGGACTCCGTTTACTCA 59.655 52.381 0.00 0.00 38.76 3.41
1735 3422 6.397272 CAGGCTATGAATTAGATCCAGAGAC 58.603 44.000 0.00 0.00 0.00 3.36
1736 3423 5.184864 AGGCTATGAATTAGATCCAGAGACG 59.815 44.000 0.00 0.00 32.78 4.18
1738 3425 4.944619 ATGAATTAGATCCAGAGACGCA 57.055 40.909 0.00 0.00 0.00 5.24
1880 3567 1.737793 GTATCAAACTTCACCGCCCAG 59.262 52.381 0.00 0.00 0.00 4.45
1975 3662 6.043854 ACTACTTTCCCTGAATTCAGAGTC 57.956 41.667 32.49 0.00 46.59 3.36
1978 3665 3.988976 TTCCCTGAATTCAGAGTCTGG 57.011 47.619 32.49 24.16 46.59 3.86
2032 3719 5.716703 AGGAAAATAATCTGGTGTTCTTGGG 59.283 40.000 0.00 0.00 0.00 4.12
2033 3720 5.105351 GGAAAATAATCTGGTGTTCTTGGGG 60.105 44.000 0.00 0.00 0.00 4.96
2042 3729 0.397941 TGTTCTTGGGGACAGCTGAG 59.602 55.000 23.35 6.07 44.54 3.35
2081 3768 2.545526 ACTTGAGTCATTGCAGTTCACG 59.454 45.455 0.00 0.00 0.00 4.35
2094 3781 2.221055 CAGTTCACGAAACTTTCCGGAG 59.779 50.000 3.34 0.00 46.26 4.63
2096 3783 2.144482 TCACGAAACTTTCCGGAGAC 57.856 50.000 3.34 0.00 0.00 3.36
2124 3811 1.341209 TCCCTCGTCATCATCCATTCG 59.659 52.381 0.00 0.00 0.00 3.34
2145 3832 7.458409 TTCGAAAGTGTCTATACTACAGGTT 57.542 36.000 0.00 0.00 0.00 3.50
2146 3833 6.849502 TCGAAAGTGTCTATACTACAGGTTG 58.150 40.000 0.00 0.00 0.00 3.77
2147 3834 6.656270 TCGAAAGTGTCTATACTACAGGTTGA 59.344 38.462 0.00 0.00 0.00 3.18
2148 3835 7.338703 TCGAAAGTGTCTATACTACAGGTTGAT 59.661 37.037 0.00 0.00 0.00 2.57
2149 3836 7.432545 CGAAAGTGTCTATACTACAGGTTGATG 59.567 40.741 0.00 0.00 0.00 3.07
2150 3837 6.150396 AGTGTCTATACTACAGGTTGATGC 57.850 41.667 0.00 0.00 0.00 3.91
2151 3838 5.069251 AGTGTCTATACTACAGGTTGATGCC 59.931 44.000 0.00 0.00 0.00 4.40
2152 3839 4.344102 TGTCTATACTACAGGTTGATGCCC 59.656 45.833 0.00 0.00 0.00 5.36
2153 3840 3.901844 TCTATACTACAGGTTGATGCCCC 59.098 47.826 0.00 0.00 0.00 5.80
2154 3841 2.263895 TACTACAGGTTGATGCCCCT 57.736 50.000 0.00 0.00 0.00 4.79
2155 3842 0.912486 ACTACAGGTTGATGCCCCTC 59.088 55.000 0.00 0.00 0.00 4.30
2156 3843 0.179073 CTACAGGTTGATGCCCCTCG 60.179 60.000 0.00 0.00 0.00 4.63
2157 3844 0.616395 TACAGGTTGATGCCCCTCGA 60.616 55.000 0.00 0.00 0.00 4.04
2158 3845 1.153289 CAGGTTGATGCCCCTCGAG 60.153 63.158 5.13 5.13 0.00 4.04
2159 3846 2.190578 GGTTGATGCCCCTCGAGG 59.809 66.667 25.36 25.36 0.00 4.63
2160 3847 2.670148 GGTTGATGCCCCTCGAGGT 61.670 63.158 29.25 11.61 0.00 3.85
2161 3848 1.153349 GTTGATGCCCCTCGAGGTC 60.153 63.158 29.25 20.06 0.00 3.85
2162 3849 1.306141 TTGATGCCCCTCGAGGTCT 60.306 57.895 29.25 11.08 0.00 3.85
2163 3850 1.617018 TTGATGCCCCTCGAGGTCTG 61.617 60.000 29.25 18.00 0.00 3.51
2164 3851 2.765807 ATGCCCCTCGAGGTCTGG 60.766 66.667 29.25 23.33 0.00 3.86
2167 3854 2.284699 CCCCTCGAGGTCTGGGTT 60.285 66.667 29.25 0.00 39.31 4.11
2168 3855 1.918800 CCCCTCGAGGTCTGGGTTT 60.919 63.158 29.25 0.00 39.31 3.27
2169 3856 1.296715 CCCTCGAGGTCTGGGTTTG 59.703 63.158 29.25 7.44 36.32 2.93
2170 3857 1.192146 CCCTCGAGGTCTGGGTTTGA 61.192 60.000 29.25 0.00 36.32 2.69
2171 3858 0.685097 CCTCGAGGTCTGGGTTTGAA 59.315 55.000 24.04 0.00 0.00 2.69
2172 3859 1.338200 CCTCGAGGTCTGGGTTTGAAG 60.338 57.143 24.04 0.00 0.00 3.02
2173 3860 1.344763 CTCGAGGTCTGGGTTTGAAGT 59.655 52.381 3.91 0.00 0.00 3.01
2174 3861 1.070134 TCGAGGTCTGGGTTTGAAGTG 59.930 52.381 0.00 0.00 0.00 3.16
2175 3862 1.070134 CGAGGTCTGGGTTTGAAGTGA 59.930 52.381 0.00 0.00 0.00 3.41
2176 3863 2.772287 GAGGTCTGGGTTTGAAGTGAG 58.228 52.381 0.00 0.00 0.00 3.51
2177 3864 2.368875 GAGGTCTGGGTTTGAAGTGAGA 59.631 50.000 0.00 0.00 0.00 3.27
2178 3865 2.982488 AGGTCTGGGTTTGAAGTGAGAT 59.018 45.455 0.00 0.00 0.00 2.75
2179 3866 3.395941 AGGTCTGGGTTTGAAGTGAGATT 59.604 43.478 0.00 0.00 0.00 2.40
2180 3867 4.141158 AGGTCTGGGTTTGAAGTGAGATTT 60.141 41.667 0.00 0.00 0.00 2.17
2181 3868 4.584743 GGTCTGGGTTTGAAGTGAGATTTT 59.415 41.667 0.00 0.00 0.00 1.82
2182 3869 5.069119 GGTCTGGGTTTGAAGTGAGATTTTT 59.931 40.000 0.00 0.00 0.00 1.94
2623 4310 9.474313 AAAGTGAAAATAGATGCCCTTATACAA 57.526 29.630 0.00 0.00 0.00 2.41
3098 4795 1.678635 CCAAGATTCAGGCCCGCAA 60.679 57.895 0.00 0.00 0.00 4.85
3141 4838 1.061546 AAAGAGAACGGTTAGGCCCA 58.938 50.000 0.00 0.00 0.00 5.36
3178 4875 4.704103 AGCTCGAGAGGGTGGGCA 62.704 66.667 18.75 0.00 0.00 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
211 285 0.528924 CGATACCTCGGACAACACCA 59.471 55.000 0.00 0.00 41.27 4.17
813 950 3.330720 CCCTCCCCTCGCAACCTT 61.331 66.667 0.00 0.00 0.00 3.50
976 1156 5.334646 GGAAGAAAGTAAGTGGTTTTAGCGG 60.335 44.000 0.00 0.00 0.00 5.52
988 1168 2.939103 CTCATGCGGGGAAGAAAGTAAG 59.061 50.000 0.00 0.00 0.00 2.34
1436 3123 3.119096 GCCCTCTCCGCGTCAAAC 61.119 66.667 4.92 0.00 0.00 2.93
1512 3199 1.335496 GTCTAGCGCTCCTACCAAGAG 59.665 57.143 16.34 1.55 0.00 2.85
1566 3253 2.656560 ACGCAGGTGAAGACAGATAC 57.343 50.000 0.00 0.00 0.00 2.24
1604 3291 4.672587 TGAGAAGAGATTTCCCCATACG 57.327 45.455 0.00 0.00 0.00 3.06
1631 3318 6.875076 ACTAACATAAGACTCCGCTGTAATT 58.125 36.000 0.00 0.00 0.00 1.40
1694 3381 5.242795 AGCCTGGTGAAGTAACAAGTATT 57.757 39.130 0.00 0.00 0.00 1.89
1735 3422 4.154737 TCAAATCAAACTCAAGGATCTGCG 59.845 41.667 0.00 0.00 0.00 5.18
1736 3423 5.633830 TCAAATCAAACTCAAGGATCTGC 57.366 39.130 0.00 0.00 0.00 4.26
1738 3425 7.362747 GCATCTTCAAATCAAACTCAAGGATCT 60.363 37.037 0.00 0.00 0.00 2.75
1834 3521 1.439524 TAAACCCAGCCCACCACCAT 61.440 55.000 0.00 0.00 0.00 3.55
1880 3567 5.920840 GCAGTCAGTTTTCCTTTTCCATAAC 59.079 40.000 0.00 0.00 0.00 1.89
1889 3576 3.068590 CACCATTGCAGTCAGTTTTCCTT 59.931 43.478 0.00 0.00 0.00 3.36
1975 3662 7.182206 ACCCTATTATGCTTATTAGGTACCCAG 59.818 40.741 8.74 0.00 32.80 4.45
1994 3681 8.673251 AGATTATTTTCCTCAGCATACCCTATT 58.327 33.333 0.00 0.00 0.00 1.73
1995 3682 8.105829 CAGATTATTTTCCTCAGCATACCCTAT 58.894 37.037 0.00 0.00 0.00 2.57
2006 3693 6.434028 CCAAGAACACCAGATTATTTTCCTCA 59.566 38.462 0.00 0.00 0.00 3.86
2032 3719 0.036858 GAAGACACCCTCAGCTGTCC 60.037 60.000 14.67 0.00 38.04 4.02
2033 3720 0.681733 TGAAGACACCCTCAGCTGTC 59.318 55.000 14.67 3.29 37.63 3.51
2042 3729 3.356529 AGTTGGATCATGAAGACACCC 57.643 47.619 0.00 0.00 0.00 4.61
2081 3768 2.144482 TGACGTCTCCGGAAAGTTTC 57.856 50.000 17.92 7.09 38.78 2.78
2094 3781 3.031660 GACGAGGGAACATGACGTC 57.968 57.895 9.11 9.11 44.19 4.34
2096 3783 1.135112 TGATGACGAGGGAACATGACG 60.135 52.381 0.00 0.00 0.00 4.35
2102 3789 2.918712 ATGGATGATGACGAGGGAAC 57.081 50.000 0.00 0.00 0.00 3.62
2124 3811 7.222999 GCATCAACCTGTAGTATAGACACTTTC 59.777 40.741 0.00 0.00 0.00 2.62
2152 3839 0.685097 TTCAAACCCAGACCTCGAGG 59.315 55.000 30.11 30.11 42.17 4.63
2153 3840 1.344763 ACTTCAAACCCAGACCTCGAG 59.655 52.381 5.13 5.13 0.00 4.04
2154 3841 1.070134 CACTTCAAACCCAGACCTCGA 59.930 52.381 0.00 0.00 0.00 4.04
2155 3842 1.070134 TCACTTCAAACCCAGACCTCG 59.930 52.381 0.00 0.00 0.00 4.63
2156 3843 2.368875 TCTCACTTCAAACCCAGACCTC 59.631 50.000 0.00 0.00 0.00 3.85
2157 3844 2.408565 TCTCACTTCAAACCCAGACCT 58.591 47.619 0.00 0.00 0.00 3.85
2158 3845 2.930826 TCTCACTTCAAACCCAGACC 57.069 50.000 0.00 0.00 0.00 3.85
2159 3846 5.774498 AAAATCTCACTTCAAACCCAGAC 57.226 39.130 0.00 0.00 0.00 3.51
2181 3868 0.322187 GCTCTGGGCCCGAGTAAAAA 60.322 55.000 31.16 9.32 34.27 1.94
2182 3869 1.298667 GCTCTGGGCCCGAGTAAAA 59.701 57.895 31.16 9.99 34.27 1.52
2183 3870 2.987125 GCTCTGGGCCCGAGTAAA 59.013 61.111 31.16 10.65 34.27 2.01
2192 3879 1.486211 TTCTACTAGTGGCTCTGGGC 58.514 55.000 5.39 0.00 40.90 5.36
2193 3880 3.515901 AGTTTTCTACTAGTGGCTCTGGG 59.484 47.826 5.39 0.00 34.56 4.45
2194 3881 4.499183 CAGTTTTCTACTAGTGGCTCTGG 58.501 47.826 5.39 0.00 34.56 3.86
2195 3882 4.499183 CCAGTTTTCTACTAGTGGCTCTG 58.501 47.826 5.39 8.75 34.56 3.35
2196 3883 3.515901 CCCAGTTTTCTACTAGTGGCTCT 59.484 47.826 5.39 0.00 34.56 4.09
2197 3884 3.863041 CCCAGTTTTCTACTAGTGGCTC 58.137 50.000 5.39 0.00 34.56 4.70
3021 4718 3.502123 GCCCAGTAGGTGGCATTATTA 57.498 47.619 0.00 0.00 46.45 0.98
3083 4780 0.967380 CCTTTTGCGGGCCTGAATCT 60.967 55.000 18.31 0.00 0.00 2.40
3141 4838 1.143684 TCCTCTCAACTGCAGGCTTTT 59.856 47.619 19.93 0.00 0.00 2.27
3178 4875 3.408634 AGTGGTTTATAAGCGCTGTTGT 58.591 40.909 12.58 0.00 46.81 3.32


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

AutoCloner maintained by Alex Coulton.