Multiple sequence alignment - TraesCS6A01G150800

Loading Multiple Alignment...

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 TraesCS6A01G150800 chr6A 100.000 2843 0 0 1 2843 134933956 134936798 0.000000e+00 5251.0
1 TraesCS6A01G150800 chr6B 89.171 1302 63 34 687 1958 198977208 198978461 0.000000e+00 1552.0
2 TraesCS6A01G150800 chr6B 85.986 421 44 3 232 644 198976640 198977053 1.210000e-118 436.0
3 TraesCS6A01G150800 chr6B 85.957 235 18 6 1 223 198974537 198974768 1.320000e-58 237.0
4 TraesCS6A01G150800 chr6B 78.322 143 23 4 2157 2297 630476962 630477098 5.050000e-13 86.1
5 TraesCS6A01G150800 chr6D 87.245 1325 100 39 687 1974 110331464 110332756 0.000000e+00 1447.0
6 TraesCS6A01G150800 chr6D 88.125 640 46 12 1 623 110330644 110331270 0.000000e+00 734.0
7 TraesCS6A01G150800 chr6D 88.832 197 13 2 1958 2154 110332771 110332958 1.700000e-57 233.0
8 TraesCS6A01G150800 chr7B 96.422 531 13 3 2314 2843 678018704 678019229 0.000000e+00 870.0
9 TraesCS6A01G150800 chr7B 94.194 155 4 1 2156 2305 678018039 678018193 6.130000e-57 231.0
10 TraesCS6A01G150800 chr7B 80.071 281 40 6 1167 1433 672779891 672779613 8.040000e-46 195.0
11 TraesCS6A01G150800 chr7B 79.791 287 38 12 1163 1433 672775982 672775700 1.040000e-44 191.0
12 TraesCS6A01G150800 chr7B 78.873 284 40 12 1167 1434 672860793 672860514 1.050000e-39 174.0
13 TraesCS6A01G150800 chr7B 77.899 276 42 13 1173 1434 673221428 673221158 1.360000e-33 154.0
14 TraesCS6A01G150800 chr7A 94.925 532 19 4 2314 2843 169315404 169314879 0.000000e+00 826.0
15 TraesCS6A01G150800 chr7A 94.737 532 21 4 2314 2843 511039680 511039154 0.000000e+00 821.0
16 TraesCS6A01G150800 chr7A 95.425 153 7 0 2154 2306 169315636 169315484 7.870000e-61 244.0
17 TraesCS6A01G150800 chr7A 93.421 152 8 2 2157 2306 511039911 511039760 1.020000e-54 224.0
18 TraesCS6A01G150800 chr7A 79.505 283 46 6 1163 1433 688356417 688356135 1.040000e-44 191.0
19 TraesCS6A01G150800 chr7A 79.505 283 40 11 1167 1434 688462610 688462331 4.840000e-43 185.0
20 TraesCS6A01G150800 chr7A 77.256 277 48 9 1170 1434 688665819 688665546 6.350000e-32 148.0
21 TraesCS6A01G150800 chr7A 76.344 279 52 7 1169 1434 688652380 688652103 1.370000e-28 137.0
22 TraesCS6A01G150800 chr7A 77.622 143 24 4 2156 2296 97270461 97270597 2.350000e-11 80.5
23 TraesCS6A01G150800 chr3B 93.084 535 25 9 2314 2843 388146450 388146977 0.000000e+00 773.0
24 TraesCS6A01G150800 chr3B 92.216 167 13 0 2150 2316 388145948 388146114 1.320000e-58 237.0
25 TraesCS6A01G150800 chr7D 78.397 287 43 13 1167 1437 595586964 595586681 4.870000e-38 169.0
26 TraesCS6A01G150800 chr7D 79.310 145 22 5 2155 2297 536298633 536298771 8.380000e-16 95.3
27 TraesCS6A01G150800 chr2B 77.931 145 19 6 2157 2297 685998088 685997953 8.440000e-11 78.7
28 TraesCS6A01G150800 chr5D 75.694 144 27 4 2156 2297 289927910 289928047 6.570000e-07 65.8


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 TraesCS6A01G150800 chr6A 134933956 134936798 2842 False 5251.000000 5251 100.000000 1 2843 1 chr6A.!!$F1 2842
1 TraesCS6A01G150800 chr6B 198974537 198978461 3924 False 741.666667 1552 87.038000 1 1958 3 chr6B.!!$F2 1957
2 TraesCS6A01G150800 chr6D 110330644 110332958 2314 False 804.666667 1447 88.067333 1 2154 3 chr6D.!!$F1 2153
3 TraesCS6A01G150800 chr7B 678018039 678019229 1190 False 550.500000 870 95.308000 2156 2843 2 chr7B.!!$F1 687
4 TraesCS6A01G150800 chr7A 169314879 169315636 757 True 535.000000 826 95.175000 2154 2843 2 chr7A.!!$R5 689
5 TraesCS6A01G150800 chr7A 511039154 511039911 757 True 522.500000 821 94.079000 2157 2843 2 chr7A.!!$R6 686
6 TraesCS6A01G150800 chr3B 388145948 388146977 1029 False 505.000000 773 92.650000 2150 2843 2 chr3B.!!$F1 693

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
42 43 0.035439 GGAAACGCCCTTCCATCTCA 60.035 55.0 6.59 0.0 43.84 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2005 4104 0.108898 CACCGAGAGCCTGTCTTCTG 60.109 60.0 0.0 0.0 34.71 3.02 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
28 29 3.153919 TGTTAGATGGCCTTGTGGAAAC 58.846 45.455 3.32 0.00 34.57 2.78
42 43 0.035439 GGAAACGCCCTTCCATCTCA 60.035 55.000 6.59 0.00 43.84 3.27
52 53 4.202503 GCCCTTCCATCTCATTTCCATCTA 60.203 45.833 0.00 0.00 0.00 1.98
54 55 5.514484 CCCTTCCATCTCATTTCCATCTAGG 60.514 48.000 0.00 0.00 39.47 3.02
70 71 0.739462 TAGGCAGCATCGTTTGACCG 60.739 55.000 0.00 0.00 0.00 4.79
233 2109 2.496111 GGTGAAAACCCACGATGTACA 58.504 47.619 0.00 0.00 37.91 2.90
244 2120 3.938334 CCACGATGTACATCAATGGTTGA 59.062 43.478 30.90 0.00 45.01 3.18
253 2129 0.770499 TCAATGGTTGAGGTCCAGCA 59.230 50.000 0.00 0.00 38.42 4.41
256 2132 0.606401 ATGGTTGAGGTCCAGCAACG 60.606 55.000 16.71 0.00 43.94 4.10
282 2158 0.375454 TTGGCGTGTCGTTCACTTTG 59.625 50.000 10.48 0.00 44.16 2.77
290 2166 3.001330 GTGTCGTTCACTTTGAAGAGGTG 59.999 47.826 0.00 0.00 43.13 4.00
300 2176 2.051334 TGAAGAGGTGTGGTTGTTGG 57.949 50.000 0.00 0.00 0.00 3.77
313 2189 4.078537 TGGTTGTTGGAACACCTATCATG 58.921 43.478 10.50 0.00 39.29 3.07
322 2198 4.340617 GAACACCTATCATGTTTCCCCAA 58.659 43.478 0.00 0.00 40.36 4.12
327 2203 3.701040 CCTATCATGTTTCCCCAAGGTTG 59.299 47.826 0.00 0.00 0.00 3.77
364 2240 2.495409 TGCGGATATTTGCTGCAATG 57.505 45.000 16.77 3.76 44.07 2.82
371 2247 5.356190 CGGATATTTGCTGCAATGGATCTAT 59.644 40.000 16.77 7.27 0.00 1.98
396 2272 3.753815 TCATTTTCTGTGTGCATCCTCA 58.246 40.909 0.00 0.00 0.00 3.86
442 2318 5.550290 TCATGTGCAAAGATCAGAGTGTAA 58.450 37.500 0.00 0.00 0.00 2.41
626 2533 5.163395 GGTTAGACTTGAAGTATGAGGAGGG 60.163 48.000 2.21 0.00 0.00 4.30
685 2625 1.205893 CAGTGAACCTGGTAGGCTCTC 59.794 57.143 0.00 0.00 39.63 3.20
715 2734 9.776158 GATATGTATGGATTTAGTACACGAGAG 57.224 37.037 0.00 0.00 31.79 3.20
719 2738 4.597004 TGGATTTAGTACACGAGAGGAGT 58.403 43.478 0.00 0.00 0.00 3.85
734 2753 5.381757 GAGAGGAGTGTCCATAGTCATACT 58.618 45.833 0.00 0.00 39.61 2.12
736 2755 4.138290 AGGAGTGTCCATAGTCATACTCG 58.862 47.826 0.00 0.00 39.61 4.18
738 2757 4.135306 GAGTGTCCATAGTCATACTCGGA 58.865 47.826 0.00 0.00 30.19 4.55
739 2758 4.138290 AGTGTCCATAGTCATACTCGGAG 58.862 47.826 2.83 2.83 32.52 4.63
743 2762 5.013808 TGTCCATAGTCATACTCGGAGGATA 59.986 44.000 10.23 0.00 32.52 2.59
779 2798 1.143969 GGCGATGGACCTCGTTAACG 61.144 60.000 21.85 21.85 40.73 3.18
836 2856 4.819769 ACTAATCACGCGTAAACCCTAAA 58.180 39.130 13.44 0.00 0.00 1.85
863 2883 4.150098 AGTTCTTATGACACGTCGAAAAGC 59.850 41.667 0.00 0.00 0.00 3.51
911 2931 5.028549 TGCTCCTAGAAATCAAGACCATC 57.971 43.478 0.00 0.00 0.00 3.51
919 2939 6.119240 AGAAATCAAGACCATCTTCTCACA 57.881 37.500 0.00 0.00 33.78 3.58
922 2942 2.972021 TCAAGACCATCTTCTCACACCA 59.028 45.455 0.00 0.00 33.78 4.17
925 2945 0.693049 ACCATCTTCTCACACCACCC 59.307 55.000 0.00 0.00 0.00 4.61
926 2946 0.692476 CCATCTTCTCACACCACCCA 59.308 55.000 0.00 0.00 0.00 4.51
927 2947 1.611673 CCATCTTCTCACACCACCCAC 60.612 57.143 0.00 0.00 0.00 4.61
928 2948 0.321671 ATCTTCTCACACCACCCACG 59.678 55.000 0.00 0.00 0.00 4.94
929 2949 1.961277 CTTCTCACACCACCCACGC 60.961 63.158 0.00 0.00 0.00 5.34
931 2951 2.203139 CTCACACCACCCACGCAA 60.203 61.111 0.00 0.00 0.00 4.85
932 2952 2.515057 TCACACCACCCACGCAAC 60.515 61.111 0.00 0.00 0.00 4.17
933 2953 2.826287 CACACCACCCACGCAACA 60.826 61.111 0.00 0.00 0.00 3.33
953 2973 3.069586 ACAGTACTGTTAGTGCAGCTTCA 59.930 43.478 22.95 0.00 41.83 3.02
954 2974 3.677121 CAGTACTGTTAGTGCAGCTTCAG 59.323 47.826 15.06 3.59 39.96 3.02
966 2986 2.355108 GCAGCTTCAGTAATGGACCTCA 60.355 50.000 0.00 0.00 0.00 3.86
985 3010 6.019748 ACCTCAATATATAGGTGACCAGAGG 58.980 44.000 3.63 9.18 44.53 3.69
986 3011 5.105146 CCTCAATATATAGGTGACCAGAGGC 60.105 48.000 3.63 0.00 33.38 4.70
998 3023 1.683917 ACCAGAGGCATTAGCGAGTAG 59.316 52.381 0.00 0.00 43.41 2.57
1614 3654 3.488384 GCAGTAGCACTAGTAGCTCTGTG 60.488 52.174 25.15 19.81 42.32 3.66
1784 3839 7.378728 TCGTTTAGACATATTGATCGCTTGTAG 59.621 37.037 0.00 0.00 0.00 2.74
1787 3842 6.398234 AGACATATTGATCGCTTGTAGAGT 57.602 37.500 0.00 0.00 0.00 3.24
1788 3843 7.511959 AGACATATTGATCGCTTGTAGAGTA 57.488 36.000 0.00 0.00 0.00 2.59
1820 3875 4.041723 CCGCACAAGAAAAACTTTACAGG 58.958 43.478 0.00 0.00 36.61 4.00
1874 3930 7.579105 TGGGTAGCCAATATGTAGTTACAAAT 58.421 34.615 12.23 0.00 39.99 2.32
1965 4033 0.458669 GGAAGCAACATGATGGCAGG 59.541 55.000 0.00 0.00 0.00 4.85
1977 4076 1.559682 GATGGCAGGGTAGACTTGGAA 59.440 52.381 0.00 0.00 0.00 3.53
2000 4099 0.109342 GCCTATGGATGAGTGGGGTG 59.891 60.000 0.00 0.00 0.00 4.61
2001 4100 0.767375 CCTATGGATGAGTGGGGTGG 59.233 60.000 0.00 0.00 0.00 4.61
2002 4101 0.767375 CTATGGATGAGTGGGGTGGG 59.233 60.000 0.00 0.00 0.00 4.61
2003 4102 0.697511 TATGGATGAGTGGGGTGGGG 60.698 60.000 0.00 0.00 0.00 4.96
2004 4103 2.614013 GGATGAGTGGGGTGGGGT 60.614 66.667 0.00 0.00 0.00 4.95
2005 4104 2.680370 GGATGAGTGGGGTGGGGTC 61.680 68.421 0.00 0.00 0.00 4.46
2006 4105 1.923395 GATGAGTGGGGTGGGGTCA 60.923 63.158 0.00 0.00 0.00 4.02
2014 4113 1.679898 GGGTGGGGTCAGAAGACAG 59.320 63.158 0.00 0.00 46.80 3.51
2056 4155 3.420904 GTCGTTTTTCTTTTGTCCGCATC 59.579 43.478 0.00 0.00 0.00 3.91
2057 4156 2.724174 CGTTTTTCTTTTGTCCGCATCC 59.276 45.455 0.00 0.00 0.00 3.51
2087 4186 0.798159 GCATGCACGTGAGAATGTCA 59.202 50.000 22.23 5.93 0.00 3.58
2088 4187 1.399440 GCATGCACGTGAGAATGTCAT 59.601 47.619 22.23 8.28 37.56 3.06
2089 4188 2.609002 GCATGCACGTGAGAATGTCATA 59.391 45.455 22.23 0.00 37.56 2.15
2090 4189 3.544834 GCATGCACGTGAGAATGTCATAC 60.545 47.826 22.23 2.10 37.56 2.39
2106 4205 4.157105 TGTCATACATACATATCCGGTCCG 59.843 45.833 3.60 3.60 0.00 4.79
2131 4230 0.999406 CCGAGCATGTTGGAGTTACG 59.001 55.000 0.00 0.00 0.00 3.18
2138 4237 1.868469 TGTTGGAGTTACGAAACCGG 58.132 50.000 0.00 0.00 36.15 5.28
2140 4239 2.212652 GTTGGAGTTACGAAACCGGTT 58.787 47.619 15.86 15.86 36.15 4.44
2171 4270 5.251700 ACTGACAAAACTAGATGATTCCCCT 59.748 40.000 0.00 0.00 0.00 4.79
2178 4277 1.410004 AGATGATTCCCCTCGCGTTA 58.590 50.000 5.77 0.00 0.00 3.18
2183 4284 1.895020 ATTCCCCTCGCGTTACTGCA 61.895 55.000 5.77 0.00 34.15 4.41
2306 4412 4.517832 AGAATGATACATGATGCGCAATGT 59.482 37.500 26.02 26.02 0.00 2.71
2429 5376 3.297134 AAACTTGTGACACCATGGACT 57.703 42.857 21.47 1.44 0.00 3.85
2435 5382 1.625818 GTGACACCATGGACTTCTCCT 59.374 52.381 21.47 0.00 37.48 3.69
2562 5510 3.688185 TCTCAGTTTCATTGATCTGCAGC 59.312 43.478 9.47 0.00 0.00 5.25
2657 5605 3.056607 ACATGGAATACTTGCACAAAGGC 60.057 43.478 0.00 0.00 40.51 4.35
2778 5727 2.352421 GCGTGTGCAGGAAGTAGACTTA 60.352 50.000 0.00 0.00 42.15 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 1.312815 GGAAATGAGATGGAAGGGCG 58.687 55.000 0.00 0.00 0.00 6.13
42 43 2.105477 ACGATGCTGCCTAGATGGAAAT 59.895 45.455 0.00 0.00 38.35 2.17
52 53 2.034879 CGGTCAAACGATGCTGCCT 61.035 57.895 0.00 0.00 35.47 4.75
54 55 1.358725 TAGCGGTCAAACGATGCTGC 61.359 55.000 0.00 0.00 37.57 5.25
176 177 2.159085 ACTAAACTCCAGGCTATGTCGC 60.159 50.000 0.00 0.00 0.00 5.19
223 236 4.034394 CCTCAACCATTGATGTACATCGTG 59.966 45.833 26.56 25.00 40.63 4.35
224 237 4.191544 CCTCAACCATTGATGTACATCGT 58.808 43.478 26.56 17.16 40.63 3.73
227 240 4.018506 TGGACCTCAACCATTGATGTACAT 60.019 41.667 8.43 8.43 42.01 2.29
228 241 3.329225 TGGACCTCAACCATTGATGTACA 59.671 43.478 7.55 7.55 43.80 2.90
229 242 3.941483 CTGGACCTCAACCATTGATGTAC 59.059 47.826 3.09 3.09 38.40 2.90
230 243 3.622206 GCTGGACCTCAACCATTGATGTA 60.622 47.826 0.00 0.00 38.40 2.29
233 2109 1.355381 TGCTGGACCTCAACCATTGAT 59.645 47.619 0.00 0.00 39.30 2.57
244 2120 1.069765 CACTGTCGTTGCTGGACCT 59.930 57.895 0.00 0.00 33.46 3.85
253 2129 1.426041 GACACGCCAACACTGTCGTT 61.426 55.000 0.00 0.00 32.38 3.85
256 2132 1.426041 AACGACACGCCAACACTGTC 61.426 55.000 0.00 0.00 0.00 3.51
282 2158 2.341846 TCCAACAACCACACCTCTTC 57.658 50.000 0.00 0.00 0.00 2.87
300 2176 3.963129 TGGGGAAACATGATAGGTGTTC 58.037 45.455 0.00 0.00 38.76 3.18
313 2189 0.608130 GATGGCAACCTTGGGGAAAC 59.392 55.000 0.00 0.00 36.25 2.78
348 2224 6.770746 ATAGATCCATTGCAGCAAATATCC 57.229 37.500 12.97 2.14 0.00 2.59
364 2240 8.623903 TGCACACAGAAAATGATTAATAGATCC 58.376 33.333 0.00 0.00 0.00 3.36
371 2247 6.433716 TGAGGATGCACACAGAAAATGATTAA 59.566 34.615 0.00 0.00 0.00 1.40
396 2272 2.378634 AAGAGCTAGCCGGGGCATT 61.379 57.895 12.13 0.00 44.88 3.56
403 2279 3.002042 CACATGATTTCAAGAGCTAGCCG 59.998 47.826 12.13 0.00 0.00 5.52
405 2281 3.376234 TGCACATGATTTCAAGAGCTAGC 59.624 43.478 6.62 6.62 33.52 3.42
626 2533 4.320494 CCCTGCTTCAACTCAAACACATAC 60.320 45.833 0.00 0.00 0.00 2.39
685 2625 8.635983 CGTGTACTAAATCCATACATATCAACG 58.364 37.037 0.00 0.00 31.79 4.10
715 2734 3.253677 CCGAGTATGACTATGGACACTCC 59.746 52.174 0.00 0.00 36.96 3.85
719 2738 3.137728 TCCTCCGAGTATGACTATGGACA 59.862 47.826 0.00 0.00 31.79 4.02
734 2753 6.724893 TCAAACATGAGTTATATCCTCCGA 57.275 37.500 0.00 0.00 36.84 4.55
736 2755 6.656693 CCCATCAAACATGAGTTATATCCTCC 59.343 42.308 0.00 0.00 36.84 4.30
738 2757 6.006449 GCCCATCAAACATGAGTTATATCCT 58.994 40.000 0.00 0.00 36.84 3.24
739 2758 5.106555 CGCCCATCAAACATGAGTTATATCC 60.107 44.000 0.00 0.00 36.84 2.59
743 2762 3.884895 TCGCCCATCAAACATGAGTTAT 58.115 40.909 0.00 0.00 36.84 1.89
809 2829 4.260091 GGGTTTACGCGTGATTAGTTCATC 60.260 45.833 24.59 0.00 36.54 2.92
836 2856 5.618056 TCGACGTGTCATAAGAACTAGTT 57.382 39.130 8.13 8.13 0.00 2.24
863 2883 0.381801 AAAAGCACAACGTCAGCTGG 59.618 50.000 15.13 0.36 38.86 4.85
911 2931 1.961277 GCGTGGGTGGTGTGAGAAG 60.961 63.158 0.00 0.00 0.00 2.85
919 2939 1.227734 GTACTGTTGCGTGGGTGGT 60.228 57.895 0.00 0.00 0.00 4.16
922 2942 1.827394 ACAGTACTGTTGCGTGGGT 59.173 52.632 22.95 0.00 41.83 4.51
932 2952 3.653344 TGAAGCTGCACTAACAGTACTG 58.347 45.455 21.44 21.44 39.96 2.74
933 2953 3.322254 ACTGAAGCTGCACTAACAGTACT 59.678 43.478 17.84 0.00 41.32 2.73
941 2961 3.369471 GGTCCATTACTGAAGCTGCACTA 60.369 47.826 1.02 0.00 0.00 2.74
944 2964 1.630369 AGGTCCATTACTGAAGCTGCA 59.370 47.619 1.02 0.00 0.00 4.41
953 2973 9.036980 GTCACCTATATATTGAGGTCCATTACT 57.963 37.037 4.44 0.00 44.54 2.24
954 2974 8.258708 GGTCACCTATATATTGAGGTCCATTAC 58.741 40.741 4.44 0.50 44.54 1.89
966 2986 6.959606 AATGCCTCTGGTCACCTATATATT 57.040 37.500 0.00 0.00 0.00 1.28
976 2996 0.461548 CTCGCTAATGCCTCTGGTCA 59.538 55.000 0.00 0.00 35.36 4.02
985 3010 0.931005 GTGGTGCTACTCGCTAATGC 59.069 55.000 0.00 0.00 40.11 3.56
986 3011 2.464865 GAGTGGTGCTACTCGCTAATG 58.535 52.381 0.12 0.00 37.88 1.90
998 3023 1.678970 GTGGGAATGGGAGTGGTGC 60.679 63.158 0.00 0.00 0.00 5.01
999 3024 1.377202 CGTGGGAATGGGAGTGGTG 60.377 63.158 0.00 0.00 0.00 4.17
1000 3025 2.602676 CCGTGGGAATGGGAGTGGT 61.603 63.158 0.00 0.00 0.00 4.16
1109 3134 2.124612 TCATGGCATGGGTCGCTG 60.125 61.111 26.15 0.49 0.00 5.18
1383 3408 2.896854 CCGGCCATGATGACCACG 60.897 66.667 2.24 0.00 0.00 4.94
1569 3609 2.036414 AGCTCACTCGGGCTCAGA 59.964 61.111 0.00 0.00 32.98 3.27
1571 3611 4.074526 GCAGCTCACTCGGGCTCA 62.075 66.667 0.00 0.00 36.59 4.26
1614 3654 4.411327 CACTATCTCGCTAGCTGCTAATC 58.589 47.826 13.93 4.86 40.11 1.75
1806 3861 8.942338 AAGTTGATTTCCCTGTAAAGTTTTTC 57.058 30.769 0.00 0.00 0.00 2.29
1866 3922 9.030301 ACTTGCAAATTAAGTGTGATTTGTAAC 57.970 29.630 0.00 0.00 39.05 2.50
1965 4033 0.984995 AGGCTGGTTCCAAGTCTACC 59.015 55.000 0.00 0.00 0.00 3.18
1977 4076 1.135094 CCACTCATCCATAGGCTGGT 58.865 55.000 0.00 0.00 46.08 4.00
2000 4099 0.907230 AGAGCCTGTCTTCTGACCCC 60.907 60.000 0.00 0.00 42.28 4.95
2001 4100 0.534873 GAGAGCCTGTCTTCTGACCC 59.465 60.000 0.00 0.00 42.28 4.46
2002 4101 0.172352 CGAGAGCCTGTCTTCTGACC 59.828 60.000 0.00 0.00 42.28 4.02
2003 4102 0.172352 CCGAGAGCCTGTCTTCTGAC 59.828 60.000 0.00 0.00 43.20 3.51
2004 4103 0.251386 ACCGAGAGCCTGTCTTCTGA 60.251 55.000 0.00 0.00 34.71 3.27
2005 4104 0.108898 CACCGAGAGCCTGTCTTCTG 60.109 60.000 0.00 0.00 34.71 3.02
2006 4105 0.251386 TCACCGAGAGCCTGTCTTCT 60.251 55.000 0.00 0.00 34.71 2.85
2056 4155 1.888638 TGCATGCGTCGATGGATGG 60.889 57.895 32.02 18.37 38.05 3.51
2057 4156 1.277739 GTGCATGCGTCGATGGATG 59.722 57.895 28.80 28.80 40.29 3.51
2081 4180 6.627287 CGGACCGGATATGTATGTATGACATT 60.627 42.308 9.46 0.00 39.88 2.71
2110 4209 2.000447 GTAACTCCAACATGCTCGGAC 59.000 52.381 0.00 0.00 0.00 4.79
2116 4215 2.412325 CGGTTTCGTAACTCCAACATGC 60.412 50.000 4.86 0.00 34.59 4.06
2131 4230 4.312443 TGTCAGTAATCTCAACCGGTTTC 58.688 43.478 19.55 2.55 0.00 2.78
2138 4237 9.424319 TCATCTAGTTTTGTCAGTAATCTCAAC 57.576 33.333 0.00 0.00 0.00 3.18
2171 4270 1.075542 CATTTCCTGCAGTAACGCGA 58.924 50.000 15.93 0.00 33.35 5.87
2178 4277 1.187567 GGGGCAACATTTCCTGCAGT 61.188 55.000 13.81 0.00 40.46 4.40
2183 4284 5.014018 ACAATAATTTGGGGCAACATTTCCT 59.986 36.000 0.00 0.00 37.15 3.36
2562 5510 4.181578 AGTTTCATCTTTCGTATGGTCCG 58.818 43.478 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.