Multiple sequence alignment - TraesCS6D01G208100

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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 TraesCS6D01G208100 chr6D 100.000 2445 0 0 1 2445 293493076 293495520 0.000000e+00 4516.0
1 TraesCS6D01G208100 chr6A 89.104 2010 102 50 501 2445 427195060 427193103 0.000000e+00 2390.0
2 TraesCS6D01G208100 chr6A 84.483 522 55 16 1 508 427195979 427195470 2.180000e-135 492.0
3 TraesCS6D01G208100 chr6B 91.696 1433 71 19 1050 2445 458007243 458008664 0.000000e+00 1943.0
4 TraesCS6D01G208100 chr6B 88.720 461 37 7 480 934 458006478 458006929 1.280000e-152 549.0
5 TraesCS6D01G208100 chr1D 93.023 43 2 1 1896 1937 45492349 45492307 7.300000e-06 62.1


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 TraesCS6D01G208100 chr6D 293493076 293495520 2444 False 4516 4516 100.0000 1 2445 1 chr6D.!!$F1 2444
1 TraesCS6D01G208100 chr6A 427193103 427195979 2876 True 1441 2390 86.7935 1 2445 2 chr6A.!!$R1 2444
2 TraesCS6D01G208100 chr6B 458006478 458008664 2186 False 1246 1943 90.2080 480 2445 2 chr6B.!!$F1 1965

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
952 1423 0.035152 CTACCACCAGCTGCATCCAA 60.035 55.0 8.66 0.0 0.0 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1785 2496 2.553904 GGCCCTGTAATGCTGCTCATAT 60.554 50.0 0.0 0.0 34.33 1.78 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
62 64 6.258230 TCATTTGCACCAATAGTCTCTTTG 57.742 37.500 0.00 0.00 0.00 2.77
79 81 6.035112 GTCTCTTTGTTCCAAACTATAGAGCG 59.965 42.308 6.78 0.00 30.24 5.03
91 93 8.244802 CCAAACTATAGAGCGCATAAGTATAGT 58.755 37.037 11.47 14.31 38.14 2.12
96 99 9.658475 CTATAGAGCGCATAAGTATAGTTGATC 57.342 37.037 11.47 0.00 0.00 2.92
100 103 6.467677 AGCGCATAAGTATAGTTGATCCAAT 58.532 36.000 11.47 0.00 0.00 3.16
166 170 1.132453 GTAGGCTTAAAAGGGCGCAAG 59.868 52.381 10.83 3.84 43.44 4.01
167 171 1.215382 GGCTTAAAAGGGCGCAAGG 59.785 57.895 10.83 0.00 38.28 3.61
168 172 1.532604 GGCTTAAAAGGGCGCAAGGT 61.533 55.000 10.83 0.00 38.28 3.50
169 173 0.388520 GCTTAAAAGGGCGCAAGGTG 60.389 55.000 10.83 0.00 38.28 4.00
170 174 0.388520 CTTAAAAGGGCGCAAGGTGC 60.389 55.000 10.83 0.00 40.69 5.01
171 175 0.825840 TTAAAAGGGCGCAAGGTGCT 60.826 50.000 10.83 0.00 42.25 4.40
172 176 0.037017 TAAAAGGGCGCAAGGTGCTA 59.963 50.000 10.83 0.00 42.25 3.49
173 177 0.825840 AAAAGGGCGCAAGGTGCTAA 60.826 50.000 10.83 0.00 42.25 3.09
174 178 0.611896 AAAGGGCGCAAGGTGCTAAT 60.612 50.000 10.83 0.00 42.25 1.73
175 179 0.611896 AAGGGCGCAAGGTGCTAATT 60.612 50.000 10.83 0.00 42.25 1.40
176 180 0.611896 AGGGCGCAAGGTGCTAATTT 60.612 50.000 10.83 0.00 42.25 1.82
177 181 0.246360 GGGCGCAAGGTGCTAATTTT 59.754 50.000 10.83 0.00 42.25 1.82
178 182 1.349234 GGCGCAAGGTGCTAATTTTG 58.651 50.000 10.83 0.00 42.25 2.44
179 183 1.349234 GCGCAAGGTGCTAATTTTGG 58.651 50.000 0.30 0.00 42.25 3.28
180 184 1.336795 GCGCAAGGTGCTAATTTTGGT 60.337 47.619 0.30 0.00 42.25 3.67
181 185 2.866065 GCGCAAGGTGCTAATTTTGGTT 60.866 45.455 0.30 0.00 42.25 3.67
182 186 3.389221 CGCAAGGTGCTAATTTTGGTTT 58.611 40.909 0.00 0.00 42.25 3.27
183 187 3.184178 CGCAAGGTGCTAATTTTGGTTTG 59.816 43.478 0.00 0.00 42.25 2.93
184 188 4.126437 GCAAGGTGCTAATTTTGGTTTGT 58.874 39.130 0.00 0.00 40.96 2.83
185 189 4.574421 GCAAGGTGCTAATTTTGGTTTGTT 59.426 37.500 0.00 0.00 40.96 2.83
186 190 5.065859 GCAAGGTGCTAATTTTGGTTTGTTT 59.934 36.000 0.00 0.00 40.96 2.83
187 191 6.714492 CAAGGTGCTAATTTTGGTTTGTTTC 58.286 36.000 0.00 0.00 0.00 2.78
188 192 6.233905 AGGTGCTAATTTTGGTTTGTTTCT 57.766 33.333 0.00 0.00 0.00 2.52
189 193 6.649155 AGGTGCTAATTTTGGTTTGTTTCTT 58.351 32.000 0.00 0.00 0.00 2.52
190 194 6.761242 AGGTGCTAATTTTGGTTTGTTTCTTC 59.239 34.615 0.00 0.00 0.00 2.87
191 195 6.018262 GGTGCTAATTTTGGTTTGTTTCTTCC 60.018 38.462 0.00 0.00 0.00 3.46
231 252 2.007547 GCCCCTCTTCGTGCTTTAGTC 61.008 57.143 0.00 0.00 0.00 2.59
235 256 3.619038 CCCTCTTCGTGCTTTAGTCATTC 59.381 47.826 0.00 0.00 0.00 2.67
241 262 7.103641 TCTTCGTGCTTTAGTCATTCCTAATT 58.896 34.615 0.00 0.00 0.00 1.40
245 266 6.036470 GTGCTTTAGTCATTCCTAATTTGGC 58.964 40.000 0.45 0.00 0.00 4.52
246 267 5.714333 TGCTTTAGTCATTCCTAATTTGGCA 59.286 36.000 0.45 0.00 0.00 4.92
256 277 5.136068 TCCTAATTTGGCATATGGTTCCA 57.864 39.130 4.56 0.37 0.00 3.53
257 278 5.714863 TCCTAATTTGGCATATGGTTCCAT 58.285 37.500 9.37 9.37 0.00 3.41
310 332 2.267426 CGATGACGTGCACATAGGAAA 58.733 47.619 18.64 0.00 34.56 3.13
344 366 6.514063 CCTACGTTTCCCTCCTTAATCTAAG 58.486 44.000 0.00 0.00 35.56 2.18
348 370 3.431411 TCCCTCCTTAATCTAAGCCCA 57.569 47.619 0.00 0.00 34.46 5.36
359 381 9.300681 CCTTAATCTAAGCCCAATGAATGATAA 57.699 33.333 0.00 0.00 34.46 1.75
383 406 8.774890 AATGCACATATGAAACAAAAATAGCA 57.225 26.923 10.38 0.00 0.00 3.49
384 407 7.579589 TGCACATATGAAACAAAAATAGCAC 57.420 32.000 10.38 0.00 0.00 4.40
385 408 6.307558 TGCACATATGAAACAAAAATAGCACG 59.692 34.615 10.38 0.00 0.00 5.34
386 409 6.685767 CACATATGAAACAAAAATAGCACGC 58.314 36.000 10.38 0.00 0.00 5.34
387 410 6.527722 CACATATGAAACAAAAATAGCACGCT 59.472 34.615 10.38 0.00 0.00 5.07
403 426 3.427638 GCACGCTTTTTCCTCCTTAATCC 60.428 47.826 0.00 0.00 0.00 3.01
406 429 3.181510 CGCTTTTTCCTCCTTAATCCACG 60.182 47.826 0.00 0.00 0.00 4.94
472 495 7.896811 ACTTCCATGTTTTTCCTCCTTAATTC 58.103 34.615 0.00 0.00 0.00 2.17
606 1055 4.927267 TGATTTGACTATCTTGTGGGGT 57.073 40.909 0.00 0.00 0.00 4.95
611 1060 6.877668 TTTGACTATCTTGTGGGGTATACA 57.122 37.500 5.01 0.00 0.00 2.29
612 1061 7.446106 TTTGACTATCTTGTGGGGTATACAT 57.554 36.000 5.01 0.00 0.00 2.29
613 1062 8.555896 TTTGACTATCTTGTGGGGTATACATA 57.444 34.615 5.01 0.00 0.00 2.29
615 1064 8.736097 TGACTATCTTGTGGGGTATACATAAT 57.264 34.615 5.01 0.00 0.00 1.28
617 1066 8.736097 ACTATCTTGTGGGGTATACATAATGA 57.264 34.615 5.01 0.00 0.00 2.57
672 1122 8.753497 ATATTTTAGTGGGAAAGAGACCAATC 57.247 34.615 0.00 0.00 38.73 2.67
687 1137 7.220030 AGAGACCAATCGCATATTTTCATAGT 58.780 34.615 0.00 0.00 0.00 2.12
697 1152 8.122330 TCGCATATTTTCATAGTAAAAGCACTG 58.878 33.333 0.00 0.00 32.20 3.66
713 1168 5.881777 AGCACTGTACGTCGATATATCAT 57.118 39.130 13.11 0.00 0.00 2.45
716 1171 6.094186 AGCACTGTACGTCGATATATCATGAT 59.906 38.462 13.81 13.81 0.00 2.45
905 1369 2.840102 CCTAGACTCCCAGCCCCG 60.840 72.222 0.00 0.00 0.00 5.73
934 1398 4.220724 TCAACACCTACCAGACTAACACT 58.779 43.478 0.00 0.00 0.00 3.55
936 1400 5.242393 TCAACACCTACCAGACTAACACTAC 59.758 44.000 0.00 0.00 0.00 2.73
950 1421 0.745845 CACTACCACCAGCTGCATCC 60.746 60.000 8.66 0.00 0.00 3.51
951 1422 1.200760 ACTACCACCAGCTGCATCCA 61.201 55.000 8.66 0.00 0.00 3.41
952 1423 0.035152 CTACCACCAGCTGCATCCAA 60.035 55.000 8.66 0.00 0.00 3.53
953 1424 0.035152 TACCACCAGCTGCATCCAAG 60.035 55.000 8.66 0.00 0.00 3.61
954 1425 2.707849 CCACCAGCTGCATCCAAGC 61.708 63.158 8.66 0.00 0.00 4.01
955 1426 2.362120 ACCAGCTGCATCCAAGCC 60.362 61.111 8.66 0.00 0.00 4.35
956 1427 2.044252 CCAGCTGCATCCAAGCCT 60.044 61.111 8.66 0.00 0.00 4.58
957 1428 1.225426 CCAGCTGCATCCAAGCCTA 59.775 57.895 8.66 0.00 0.00 3.93
958 1429 0.818445 CCAGCTGCATCCAAGCCTAG 60.818 60.000 8.66 0.00 0.00 3.02
959 1430 1.153005 AGCTGCATCCAAGCCTAGC 60.153 57.895 1.02 0.00 34.72 3.42
960 1431 1.153005 GCTGCATCCAAGCCTAGCT 60.153 57.895 0.00 0.00 42.56 3.32
961 1432 0.107456 GCTGCATCCAAGCCTAGCTA 59.893 55.000 0.00 0.00 38.25 3.32
962 1433 1.876322 CTGCATCCAAGCCTAGCTAC 58.124 55.000 0.00 0.00 38.25 3.58
963 1434 0.469917 TGCATCCAAGCCTAGCTACC 59.530 55.000 0.00 0.00 38.25 3.18
964 1435 0.469917 GCATCCAAGCCTAGCTACCA 59.530 55.000 0.00 0.00 38.25 3.25
965 1436 1.811941 GCATCCAAGCCTAGCTACCAC 60.812 57.143 0.00 0.00 38.25 4.16
972 1443 1.133606 AGCCTAGCTACCACTCTCCTC 60.134 57.143 0.00 0.00 36.99 3.71
983 1454 2.018086 CTCTCCTCCCTCCCCCTCT 61.018 68.421 0.00 0.00 0.00 3.69
1130 1792 0.907704 TGGCCCAAGTGAGTACCGAT 60.908 55.000 0.00 0.00 0.00 4.18
1154 1816 1.065709 TCACCGGTTCCAGCTATTTCC 60.066 52.381 2.97 0.00 0.00 3.13
1156 1818 1.633945 ACCGGTTCCAGCTATTTCCTT 59.366 47.619 0.00 0.00 0.00 3.36
1161 1823 4.515567 CGGTTCCAGCTATTTCCTTATTCC 59.484 45.833 0.00 0.00 0.00 3.01
1163 1825 6.129874 GGTTCCAGCTATTTCCTTATTCCTT 58.870 40.000 0.00 0.00 0.00 3.36
1171 1833 7.841222 AGCTATTTCCTTATTCCTTGTTCCATT 59.159 33.333 0.00 0.00 0.00 3.16
1188 1855 1.178534 ATTATTTCCATGGCGGGCGG 61.179 55.000 6.96 0.00 34.36 6.13
1206 1873 2.234613 GCTAAGTGAGCGTGTGCAA 58.765 52.632 0.00 0.00 46.23 4.08
1212 1879 0.385974 GTGAGCGTGTGCAATGGTTC 60.386 55.000 0.00 0.00 46.23 3.62
1213 1880 0.534877 TGAGCGTGTGCAATGGTTCT 60.535 50.000 0.00 0.00 46.23 3.01
1214 1881 0.593128 GAGCGTGTGCAATGGTTCTT 59.407 50.000 0.00 0.00 46.23 2.52
1215 1882 0.311790 AGCGTGTGCAATGGTTCTTG 59.688 50.000 0.00 0.00 46.23 3.02
1216 1883 0.030638 GCGTGTGCAATGGTTCTTGT 59.969 50.000 0.00 0.00 42.15 3.16
1217 1884 1.757574 CGTGTGCAATGGTTCTTGTG 58.242 50.000 0.00 0.00 0.00 3.33
1552 2230 4.499183 CATATCCGTCTCTATTGGCTTCC 58.501 47.826 0.00 0.00 0.00 3.46
1640 2351 4.536489 AGGTTCCTAGTTATTCAGTTGCCT 59.464 41.667 0.00 0.00 0.00 4.75
1642 2353 4.386867 TCCTAGTTATTCAGTTGCCTCG 57.613 45.455 0.00 0.00 0.00 4.63
1784 2495 5.984695 GGCACCTTCCTTTTCTTCTTTAT 57.015 39.130 0.00 0.00 0.00 1.40
1857 2574 6.426937 CCACAGCACTTACTAAGCTTTAAGAA 59.573 38.462 19.97 4.36 36.26 2.52
1890 2607 1.207811 TGGCTGCGAGATGAGAATTGA 59.792 47.619 0.00 0.00 0.00 2.57
1893 2610 2.539274 GCTGCGAGATGAGAATTGACTC 59.461 50.000 0.00 0.00 37.42 3.36
1979 2698 9.646427 GTTTCTATCATCTTATCTCCCATACAC 57.354 37.037 0.00 0.00 0.00 2.90
2027 2752 7.758980 CAGCATATCCTACTCAGCTACAATTAG 59.241 40.741 0.00 0.00 0.00 1.73
2204 2929 6.982852 GCATGAGCTGGTTAACTATCTAGTA 58.017 40.000 5.42 0.00 34.80 1.82
2265 2993 3.942439 GCCACCCTAGATCCGCCC 61.942 72.222 0.00 0.00 0.00 6.13
2319 3056 1.067212 GAATGACCGTCCGCTGATAGT 59.933 52.381 0.00 0.00 0.00 2.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 31 0.986992 GTGCAAATGATTGAGCACGC 59.013 50.000 16.57 0.67 46.35 5.34
41 43 6.294731 GGAACAAAGAGACTATTGGTGCAAAT 60.295 38.462 0.00 0.00 35.03 2.32
62 64 5.753921 ACTTATGCGCTCTATAGTTTGGAAC 59.246 40.000 9.73 0.00 0.00 3.62
96 99 9.467258 AGCATGATCAAAATTACGAAATATTGG 57.533 29.630 0.00 0.00 0.00 3.16
100 103 7.284261 TGGGAGCATGATCAAAATTACGAAATA 59.716 33.333 13.85 0.00 0.00 1.40
106 109 6.395426 TGATGGGAGCATGATCAAAATTAC 57.605 37.500 13.85 0.00 0.00 1.89
114 117 4.017177 TGAGAATGATGGGAGCATGATC 57.983 45.455 1.26 1.26 0.00 2.92
149 153 1.215382 CCTTGCGCCCTTTTAAGCC 59.785 57.895 4.18 0.00 0.00 4.35
166 170 6.018262 GGAAGAAACAAACCAAAATTAGCACC 60.018 38.462 0.00 0.00 0.00 5.01
167 171 6.292114 CGGAAGAAACAAACCAAAATTAGCAC 60.292 38.462 0.00 0.00 0.00 4.40
168 172 5.751028 CGGAAGAAACAAACCAAAATTAGCA 59.249 36.000 0.00 0.00 0.00 3.49
169 173 5.980715 TCGGAAGAAACAAACCAAAATTAGC 59.019 36.000 0.00 0.00 37.03 3.09
170 174 7.378728 GTCTCGGAAGAAACAAACCAAAATTAG 59.621 37.037 0.00 0.00 41.32 1.73
171 175 7.067737 AGTCTCGGAAGAAACAAACCAAAATTA 59.932 33.333 0.00 0.00 41.32 1.40
172 176 6.040247 GTCTCGGAAGAAACAAACCAAAATT 58.960 36.000 0.00 0.00 41.32 1.82
173 177 5.359860 AGTCTCGGAAGAAACAAACCAAAAT 59.640 36.000 0.00 0.00 41.32 1.82
174 178 4.703093 AGTCTCGGAAGAAACAAACCAAAA 59.297 37.500 0.00 0.00 41.32 2.44
175 179 4.266714 AGTCTCGGAAGAAACAAACCAAA 58.733 39.130 0.00 0.00 41.32 3.28
176 180 3.881220 AGTCTCGGAAGAAACAAACCAA 58.119 40.909 0.00 0.00 41.32 3.67
177 181 3.553828 AGTCTCGGAAGAAACAAACCA 57.446 42.857 0.00 0.00 41.32 3.67
178 182 3.744942 GGTAGTCTCGGAAGAAACAAACC 59.255 47.826 0.00 0.00 41.32 3.27
179 183 4.629092 AGGTAGTCTCGGAAGAAACAAAC 58.371 43.478 0.00 0.00 41.32 2.93
180 184 4.342951 TGAGGTAGTCTCGGAAGAAACAAA 59.657 41.667 0.00 0.00 45.32 2.83
181 185 3.893200 TGAGGTAGTCTCGGAAGAAACAA 59.107 43.478 0.00 0.00 45.32 2.83
182 186 3.255149 GTGAGGTAGTCTCGGAAGAAACA 59.745 47.826 0.00 0.00 45.32 2.83
183 187 3.367190 GGTGAGGTAGTCTCGGAAGAAAC 60.367 52.174 0.00 0.00 45.32 2.78
184 188 2.824341 GGTGAGGTAGTCTCGGAAGAAA 59.176 50.000 0.00 0.00 45.32 2.52
185 189 2.444421 GGTGAGGTAGTCTCGGAAGAA 58.556 52.381 0.00 0.00 45.32 2.52
186 190 1.340795 GGGTGAGGTAGTCTCGGAAGA 60.341 57.143 0.00 0.00 45.32 2.87
187 191 1.104630 GGGTGAGGTAGTCTCGGAAG 58.895 60.000 0.00 0.00 45.32 3.46
188 192 0.324091 GGGGTGAGGTAGTCTCGGAA 60.324 60.000 0.00 0.00 45.32 4.30
189 193 1.305623 GGGGTGAGGTAGTCTCGGA 59.694 63.158 0.00 0.00 45.32 4.55
190 194 2.119655 CGGGGTGAGGTAGTCTCGG 61.120 68.421 0.00 0.00 45.32 4.63
191 195 1.375098 GACGGGGTGAGGTAGTCTCG 61.375 65.000 0.00 0.00 45.32 4.04
231 252 6.041865 TGGAACCATATGCCAAATTAGGAATG 59.958 38.462 0.00 0.00 0.00 2.67
235 256 5.305128 ACATGGAACCATATGCCAAATTAGG 59.695 40.000 6.00 0.00 34.95 2.69
241 262 3.098774 ACACATGGAACCATATGCCAA 57.901 42.857 11.40 0.00 34.48 4.52
245 266 4.711355 AGGGAAAACACATGGAACCATATG 59.289 41.667 10.11 10.11 36.94 1.78
246 267 4.946646 AGGGAAAACACATGGAACCATAT 58.053 39.130 6.00 0.00 34.91 1.78
256 277 5.337330 CGTAGACTAAGGAGGGAAAACACAT 60.337 44.000 0.00 0.00 0.00 3.21
257 278 4.021719 CGTAGACTAAGGAGGGAAAACACA 60.022 45.833 0.00 0.00 0.00 3.72
302 324 3.824414 AGGCGTTTTTCGTTTCCTATG 57.176 42.857 0.00 0.00 42.13 2.23
344 366 4.325028 TGTGCATTATCATTCATTGGGC 57.675 40.909 0.00 0.00 0.00 5.36
359 381 7.009448 CGTGCTATTTTTGTTTCATATGTGCAT 59.991 33.333 1.90 0.00 0.00 3.96
360 382 6.307558 CGTGCTATTTTTGTTTCATATGTGCA 59.692 34.615 1.90 0.00 0.00 4.57
379 402 2.561478 AAGGAGGAAAAAGCGTGCTA 57.439 45.000 0.00 0.00 0.00 3.49
380 403 2.561478 TAAGGAGGAAAAAGCGTGCT 57.439 45.000 0.00 0.00 0.00 4.40
381 404 3.427638 GGATTAAGGAGGAAAAAGCGTGC 60.428 47.826 0.00 0.00 0.00 5.34
382 405 3.756434 TGGATTAAGGAGGAAAAAGCGTG 59.244 43.478 0.00 0.00 0.00 5.34
383 406 3.756963 GTGGATTAAGGAGGAAAAAGCGT 59.243 43.478 0.00 0.00 0.00 5.07
384 407 3.181510 CGTGGATTAAGGAGGAAAAAGCG 60.182 47.826 0.00 0.00 0.00 4.68
385 408 3.427638 GCGTGGATTAAGGAGGAAAAAGC 60.428 47.826 0.00 0.00 0.00 3.51
386 409 3.128764 GGCGTGGATTAAGGAGGAAAAAG 59.871 47.826 0.00 0.00 0.00 2.27
387 410 3.086282 GGCGTGGATTAAGGAGGAAAAA 58.914 45.455 0.00 0.00 0.00 1.94
403 426 1.739466 ACTGCACTTTCATATGGCGTG 59.261 47.619 2.13 8.85 0.00 5.34
406 429 4.644103 ATTCACTGCACTTTCATATGGC 57.356 40.909 2.13 0.00 0.00 4.40
577 1026 7.765819 CCACAAGATAGTCAAATCATACTCACA 59.234 37.037 0.00 0.00 0.00 3.58
656 1106 0.690192 TGCGATTGGTCTCTTTCCCA 59.310 50.000 0.00 0.00 0.00 4.37
658 1108 5.757850 AAATATGCGATTGGTCTCTTTCC 57.242 39.130 0.00 0.00 0.00 3.13
672 1122 7.910162 ACAGTGCTTTTACTATGAAAATATGCG 59.090 33.333 0.00 0.00 0.00 4.73
687 1137 7.641760 TGATATATCGACGTACAGTGCTTTTA 58.358 34.615 8.19 0.00 0.00 1.52
713 1168 6.424812 CAGTTGATTCTGTTGGCGATATATCA 59.575 38.462 13.11 0.00 0.00 2.15
716 1171 5.670485 ACAGTTGATTCTGTTGGCGATATA 58.330 37.500 0.00 0.00 44.92 0.86
905 1369 1.198759 TGGTAGGTGTTGAGGCCTCC 61.199 60.000 29.95 15.01 36.38 4.30
934 1398 0.035152 CTTGGATGCAGCTGGTGGTA 60.035 55.000 17.12 0.00 0.00 3.25
936 1400 2.707849 GCTTGGATGCAGCTGGTGG 61.708 63.158 17.12 0.00 34.15 4.61
950 1421 1.410882 GGAGAGTGGTAGCTAGGCTTG 59.589 57.143 0.00 0.00 40.44 4.01
951 1422 1.289530 AGGAGAGTGGTAGCTAGGCTT 59.710 52.381 0.00 0.00 40.44 4.35
952 1423 0.930726 AGGAGAGTGGTAGCTAGGCT 59.069 55.000 0.00 0.00 43.41 4.58
953 1424 1.324383 GAGGAGAGTGGTAGCTAGGC 58.676 60.000 0.00 0.00 0.00 3.93
954 1425 1.479757 GGGAGGAGAGTGGTAGCTAGG 60.480 61.905 0.00 0.00 0.00 3.02
955 1426 1.497286 AGGGAGGAGAGTGGTAGCTAG 59.503 57.143 0.00 0.00 0.00 3.42
956 1427 1.495574 GAGGGAGGAGAGTGGTAGCTA 59.504 57.143 0.00 0.00 0.00 3.32
957 1428 0.260523 GAGGGAGGAGAGTGGTAGCT 59.739 60.000 0.00 0.00 0.00 3.32
958 1429 0.757561 GGAGGGAGGAGAGTGGTAGC 60.758 65.000 0.00 0.00 0.00 3.58
959 1430 0.105913 GGGAGGGAGGAGAGTGGTAG 60.106 65.000 0.00 0.00 0.00 3.18
960 1431 1.591280 GGGGAGGGAGGAGAGTGGTA 61.591 65.000 0.00 0.00 0.00 3.25
961 1432 2.781406 GGGAGGGAGGAGAGTGGT 59.219 66.667 0.00 0.00 0.00 4.16
962 1433 2.041405 GGGGAGGGAGGAGAGTGG 60.041 72.222 0.00 0.00 0.00 4.00
963 1434 2.041405 GGGGGAGGGAGGAGAGTG 60.041 72.222 0.00 0.00 0.00 3.51
964 1435 2.204705 AGGGGGAGGGAGGAGAGT 60.205 66.667 0.00 0.00 0.00 3.24
965 1436 2.018086 AGAGGGGGAGGGAGGAGAG 61.018 68.421 0.00 0.00 0.00 3.20
972 1443 2.041405 GGAGACAGAGGGGGAGGG 60.041 72.222 0.00 0.00 0.00 4.30
983 1454 0.900421 CATGAGCACCTCAGGAGACA 59.100 55.000 0.00 0.00 43.80 3.41
1048 1710 1.082627 GCTCGACGGCGATAGAGAC 60.083 63.158 16.81 16.46 46.80 3.36
1130 1792 0.681887 TAGCTGGAACCGGTGATCGA 60.682 55.000 8.52 0.00 42.43 3.59
1141 1803 6.731467 ACAAGGAATAAGGAAATAGCTGGAA 58.269 36.000 0.00 0.00 0.00 3.53
1142 1804 6.327386 ACAAGGAATAAGGAAATAGCTGGA 57.673 37.500 0.00 0.00 0.00 3.86
1156 1818 7.201992 GCCATGGAAATAATGGAACAAGGAATA 60.202 37.037 18.40 0.00 46.44 1.75
1161 1823 4.362279 CGCCATGGAAATAATGGAACAAG 58.638 43.478 18.40 0.00 46.44 3.16
1163 1825 2.692557 CCGCCATGGAAATAATGGAACA 59.307 45.455 18.40 0.00 46.44 3.18
1171 1833 2.203280 CCGCCCGCCATGGAAATA 60.203 61.111 18.40 0.00 42.00 1.40
1196 1863 0.311790 CAAGAACCATTGCACACGCT 59.688 50.000 0.00 0.00 39.64 5.07
1206 1873 1.795170 GCACGGCACACAAGAACCAT 61.795 55.000 0.00 0.00 0.00 3.55
1212 1879 2.967076 ACGAGCACGGCACACAAG 60.967 61.111 8.74 0.00 44.46 3.16
1213 1880 3.268603 CACGAGCACGGCACACAA 61.269 61.111 8.74 0.00 44.46 3.33
1258 1929 2.049802 GCGTCGAACTTCACCGGA 60.050 61.111 9.46 0.00 0.00 5.14
1291 1962 1.059584 TCACCTTGCCCTTCACCAGA 61.060 55.000 0.00 0.00 0.00 3.86
1611 2301 7.565323 ACTGAATAACTAGGAACCTACTACG 57.435 40.000 0.00 0.00 0.00 3.51
1640 2351 1.284408 GCATTGACCGGTTTTGCGA 59.716 52.632 9.42 0.00 0.00 5.10
1642 2353 0.031994 ACTGCATTGACCGGTTTTGC 59.968 50.000 22.97 22.97 0.00 3.68
1782 2493 5.396772 GGCCCTGTAATGCTGCTCATATATA 60.397 44.000 0.00 0.00 34.33 0.86
1783 2494 4.521146 GCCCTGTAATGCTGCTCATATAT 58.479 43.478 0.00 0.00 34.33 0.86
1784 2495 3.307691 GGCCCTGTAATGCTGCTCATATA 60.308 47.826 0.00 0.00 34.33 0.86
1785 2496 2.553904 GGCCCTGTAATGCTGCTCATAT 60.554 50.000 0.00 0.00 34.33 1.78
1972 2691 4.240888 CAAGAGAGAGTGTGTGTGTATGG 58.759 47.826 0.00 0.00 0.00 2.74
1979 2698 3.873805 TCGCAAGAGAGAGTGTGTG 57.126 52.632 0.00 0.00 45.01 3.82
2027 2752 7.482428 TGTTAAAAACAACGAAGAAAGTAGCAC 59.518 33.333 0.00 0.00 38.72 4.40
2265 2993 2.592308 GCAGGGGTTCTAGCAGGG 59.408 66.667 0.00 0.00 0.00 4.45
2319 3056 9.360093 CATTAGCCATTTTCGGTAAATTTGTAA 57.640 29.630 0.00 0.00 34.19 2.41
2364 3101 4.307443 TGTACGTTCTCTATGATGGCAG 57.693 45.455 0.00 0.00 0.00 4.85


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

AutoCloner maintained by Alex Coulton.