Multiple sequence alignment - TraesCS6A01G256600

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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 TraesCS6A01G256600 chr6A 100.000 2783 0 0 1 2783 477518014 477515232 0.000000e+00 5140
1 TraesCS6A01G256600 chr6B 91.254 2527 112 44 277 2783 483331757 483334194 0.000000e+00 3341
2 TraesCS6A01G256600 chr6B 90.578 329 9 3 1 315 483331213 483331533 1.540000e-112 416
3 TraesCS6A01G256600 chr6D 93.383 1738 60 26 987 2707 337079419 337077720 0.000000e+00 2521
4 TraesCS6A01G256600 chr6D 93.313 972 32 12 1 956 337080372 337079418 0.000000e+00 1404
5 TraesCS6A01G256600 chr6D 92.784 97 7 0 2687 2783 337077714 337077618 1.040000e-29 141


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 TraesCS6A01G256600 chr6A 477515232 477518014 2782 True 5140.000000 5140 100.000 1 2783 1 chr6A.!!$R1 2782
1 TraesCS6A01G256600 chr6B 483331213 483334194 2981 False 1878.500000 3341 90.916 1 2783 2 chr6B.!!$F1 2782
2 TraesCS6A01G256600 chr6D 337077618 337080372 2754 True 1355.333333 2521 93.160 1 2783 3 chr6D.!!$R1 2782

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
770 1055 0.170561 TTCTAGTTCTCCTCGTGCGC 59.829 55.0 0.0 0.0 0.0 6.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2760 3110 0.108138 ATGGACCAGCGCTCTTGTAC 60.108 55.0 7.13 6.75 0.0 2.9 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
77 86 1.885871 GGTCTGAAATGGCCACAGC 59.114 57.895 8.16 7.60 38.76 4.40
456 741 4.796495 GCACCGGCAAGGGGGTAG 62.796 72.222 0.00 0.00 46.01 3.18
457 742 3.327404 CACCGGCAAGGGGGTAGT 61.327 66.667 0.00 0.00 46.96 2.73
458 743 1.991167 CACCGGCAAGGGGGTAGTA 60.991 63.158 0.00 0.00 46.96 1.82
459 744 1.229593 ACCGGCAAGGGGGTAGTAA 60.230 57.895 0.00 0.00 46.96 2.24
496 781 2.398498 CTGCTACTAATACTGGCAGCG 58.602 52.381 15.89 0.58 42.63 5.18
721 1006 4.237148 ACCAACCCATATATACCTCCCA 57.763 45.455 0.00 0.00 0.00 4.37
722 1007 4.175962 ACCAACCCATATATACCTCCCAG 58.824 47.826 0.00 0.00 0.00 4.45
756 1041 0.318275 GCCGGATCTCACGCTTCTAG 60.318 60.000 5.05 0.00 0.00 2.43
770 1055 0.170561 TTCTAGTTCTCCTCGTGCGC 59.829 55.000 0.00 0.00 0.00 6.09
790 1083 3.427773 CGCTTCTTGACACCTCTACCTAC 60.428 52.174 0.00 0.00 0.00 3.18
792 1085 4.345854 CTTCTTGACACCTCTACCTACCT 58.654 47.826 0.00 0.00 0.00 3.08
806 1099 4.340328 ACCTACCTTAGCTCTCCTCTTT 57.660 45.455 0.00 0.00 0.00 2.52
813 1106 4.142182 CCTTAGCTCTCCTCTTTCAGACTG 60.142 50.000 0.00 0.00 0.00 3.51
814 1107 1.550072 AGCTCTCCTCTTTCAGACTGC 59.450 52.381 0.00 0.00 0.00 4.40
815 1108 1.405391 GCTCTCCTCTTTCAGACTGCC 60.405 57.143 0.00 0.00 0.00 4.85
823 1116 2.563179 TCTTTCAGACTGCCAGTACTCC 59.437 50.000 0.00 0.00 0.00 3.85
824 1117 2.009681 TTCAGACTGCCAGTACTCCA 57.990 50.000 0.00 0.00 0.00 3.86
825 1118 1.257743 TCAGACTGCCAGTACTCCAC 58.742 55.000 0.00 0.00 0.00 4.02
833 1126 3.393360 AGTACTCCACTGCTGCCC 58.607 61.111 0.00 0.00 35.62 5.36
834 1127 1.536418 AGTACTCCACTGCTGCCCA 60.536 57.895 0.00 0.00 35.62 5.36
835 1128 1.376037 GTACTCCACTGCTGCCCAC 60.376 63.158 0.00 0.00 0.00 4.61
836 1129 1.841103 TACTCCACTGCTGCCCACA 60.841 57.895 0.00 0.00 0.00 4.17
861 1154 2.530497 GCGCACACACACCTCGAAA 61.530 57.895 0.30 0.00 0.00 3.46
867 1160 0.593008 CACACACCTCGAAACGACGA 60.593 55.000 0.00 0.00 40.00 4.20
877 1170 3.469629 TCGAAACGACGAGTACTTAACG 58.530 45.455 0.00 5.95 37.37 3.18
886 1179 2.164219 CGAGTACTTAACGGCTTACCCA 59.836 50.000 0.00 0.00 0.00 4.51
917 1213 1.439353 CCTGCGCGCACCATAGATTT 61.439 55.000 33.09 0.00 0.00 2.17
923 1219 1.532868 GCGCACCATAGATTTGCTAGG 59.467 52.381 0.30 0.00 33.90 3.02
955 1251 1.923227 CTGCAGCTCTGGCATGTGTG 61.923 60.000 0.00 0.00 41.06 3.82
956 1252 1.970114 GCAGCTCTGGCATGTGTGT 60.970 57.895 0.00 0.00 41.70 3.72
957 1253 1.873863 CAGCTCTGGCATGTGTGTG 59.126 57.895 0.00 0.00 41.70 3.82
958 1254 0.887836 CAGCTCTGGCATGTGTGTGT 60.888 55.000 0.00 0.00 41.70 3.72
959 1255 0.686789 AGCTCTGGCATGTGTGTGTA 59.313 50.000 0.00 0.00 41.70 2.90
960 1256 1.081892 GCTCTGGCATGTGTGTGTAG 58.918 55.000 0.00 0.00 38.54 2.74
961 1257 1.730501 CTCTGGCATGTGTGTGTAGG 58.269 55.000 0.00 0.00 0.00 3.18
962 1258 1.002430 CTCTGGCATGTGTGTGTAGGT 59.998 52.381 0.00 0.00 0.00 3.08
963 1259 1.159285 CTGGCATGTGTGTGTAGGTG 58.841 55.000 0.00 0.00 0.00 4.00
964 1260 0.472044 TGGCATGTGTGTGTAGGTGT 59.528 50.000 0.00 0.00 0.00 4.16
965 1261 0.874390 GGCATGTGTGTGTAGGTGTG 59.126 55.000 0.00 0.00 0.00 3.82
966 1262 1.593196 GCATGTGTGTGTAGGTGTGT 58.407 50.000 0.00 0.00 0.00 3.72
967 1263 1.264020 GCATGTGTGTGTAGGTGTGTG 59.736 52.381 0.00 0.00 0.00 3.82
968 1264 2.560504 CATGTGTGTGTAGGTGTGTGT 58.439 47.619 0.00 0.00 0.00 3.72
969 1265 2.017138 TGTGTGTGTAGGTGTGTGTG 57.983 50.000 0.00 0.00 0.00 3.82
970 1266 1.550976 TGTGTGTGTAGGTGTGTGTGA 59.449 47.619 0.00 0.00 0.00 3.58
971 1267 2.028020 TGTGTGTGTAGGTGTGTGTGAA 60.028 45.455 0.00 0.00 0.00 3.18
972 1268 3.202906 GTGTGTGTAGGTGTGTGTGAAT 58.797 45.455 0.00 0.00 0.00 2.57
973 1269 4.141914 TGTGTGTGTAGGTGTGTGTGAATA 60.142 41.667 0.00 0.00 0.00 1.75
974 1270 4.994852 GTGTGTGTAGGTGTGTGTGAATAT 59.005 41.667 0.00 0.00 0.00 1.28
975 1271 6.160684 GTGTGTGTAGGTGTGTGTGAATATA 58.839 40.000 0.00 0.00 0.00 0.86
976 1272 6.816640 GTGTGTGTAGGTGTGTGTGAATATAT 59.183 38.462 0.00 0.00 0.00 0.86
977 1273 7.977293 GTGTGTGTAGGTGTGTGTGAATATATA 59.023 37.037 0.00 0.00 0.00 0.86
1021 1317 4.937193 CTGAGCAGCCTTCTGGAG 57.063 61.111 0.00 0.00 40.65 3.86
1036 1332 2.493973 GAGCCTCCTCGTCTGCTG 59.506 66.667 0.00 0.00 33.41 4.41
1037 1333 3.714871 GAGCCTCCTCGTCTGCTGC 62.715 68.421 0.00 0.00 33.41 5.25
1038 1334 4.828925 GCCTCCTCGTCTGCTGCC 62.829 72.222 0.00 0.00 0.00 4.85
1039 1335 4.504916 CCTCCTCGTCTGCTGCCG 62.505 72.222 0.00 0.00 0.00 5.69
1040 1336 4.504916 CTCCTCGTCTGCTGCCGG 62.505 72.222 0.00 0.00 0.00 6.13
1146 1442 2.494918 CCGGTTCACCTAGGCGAG 59.505 66.667 9.30 0.00 0.00 5.03
1392 1694 2.885113 GCCGTGCTCAATTTCCCC 59.115 61.111 0.00 0.00 0.00 4.81
1574 1876 0.454285 CACGGCACAATAACAAGCGG 60.454 55.000 0.00 0.00 0.00 5.52
1701 2003 1.016130 GTATGATGATGAGCCCGCCG 61.016 60.000 0.00 0.00 0.00 6.46
1790 2095 3.912248 ACCACGATCCCTAGTGAGTATT 58.088 45.455 0.00 0.00 40.56 1.89
1891 2196 1.226974 CGGAGTACGGCAGTGGATG 60.227 63.158 0.00 0.00 39.42 3.51
1892 2197 1.898154 GGAGTACGGCAGTGGATGT 59.102 57.895 0.00 0.00 0.00 3.06
1893 2198 0.460284 GGAGTACGGCAGTGGATGTG 60.460 60.000 0.00 0.00 0.00 3.21
1894 2199 0.460284 GAGTACGGCAGTGGATGTGG 60.460 60.000 0.00 0.00 0.00 4.17
1895 2200 0.902984 AGTACGGCAGTGGATGTGGA 60.903 55.000 0.00 0.00 0.00 4.02
1896 2201 0.178068 GTACGGCAGTGGATGTGGAT 59.822 55.000 0.00 0.00 0.00 3.41
1937 2250 5.299531 TCCTCTATCTGGTATATATGCGTGC 59.700 44.000 0.00 0.00 0.00 5.34
1967 2280 2.731571 GGTATCACTGGGCGCTGGA 61.732 63.158 7.64 6.90 0.00 3.86
1983 2296 4.116747 GCTGGACTGCGATATTATAGCT 57.883 45.455 9.70 0.00 0.00 3.32
1997 2310 9.496873 CGATATTATAGCTGCTACCTAGATAGT 57.503 37.037 12.26 0.16 0.00 2.12
2114 2430 7.171678 GGCTTATTGCTCGTTTTACTATGAGAT 59.828 37.037 0.00 0.00 42.39 2.75
2115 2431 9.193133 GCTTATTGCTCGTTTTACTATGAGATA 57.807 33.333 0.00 0.00 38.95 1.98
2119 2435 9.764363 ATTGCTCGTTTTACTATGAGATAATGA 57.236 29.630 0.00 0.00 33.82 2.57
2120 2436 8.803201 TGCTCGTTTTACTATGAGATAATGAG 57.197 34.615 0.00 0.00 33.82 2.90
2121 2437 8.630037 TGCTCGTTTTACTATGAGATAATGAGA 58.370 33.333 0.00 0.00 33.82 3.27
2151 2467 2.140717 CGCCACGTACCTTTTTCTTCT 58.859 47.619 0.00 0.00 0.00 2.85
2211 2533 3.181465 ACCGGGAGACTAATGCATTGTAG 60.181 47.826 22.27 14.37 0.00 2.74
2264 2586 3.808174 GCGGTGGATAAACTAAGATGGAC 59.192 47.826 0.00 0.00 0.00 4.02
2333 2655 8.827677 GTCTTTTGGCTGTAGTTTATATGTAGG 58.172 37.037 0.00 0.00 0.00 3.18
2335 2657 8.958119 TTTTGGCTGTAGTTTATATGTAGGAG 57.042 34.615 0.00 0.00 0.00 3.69
2336 2658 7.670605 TTGGCTGTAGTTTATATGTAGGAGT 57.329 36.000 0.00 0.00 0.00 3.85
2337 2659 8.771521 TTGGCTGTAGTTTATATGTAGGAGTA 57.228 34.615 0.00 0.00 0.00 2.59
2338 2660 8.405418 TGGCTGTAGTTTATATGTAGGAGTAG 57.595 38.462 0.00 0.00 0.00 2.57
2339 2661 8.003044 TGGCTGTAGTTTATATGTAGGAGTAGT 58.997 37.037 0.00 0.00 0.00 2.73
2340 2662 9.512588 GGCTGTAGTTTATATGTAGGAGTAGTA 57.487 37.037 0.00 0.00 0.00 1.82
2479 2801 5.771153 TTGACAACAAATCAGATCAGCAA 57.229 34.783 0.00 0.00 32.73 3.91
2490 2812 2.030579 CAGATCAGCAAGATTCAGCACG 59.969 50.000 0.00 0.00 37.00 5.34
2493 2815 2.493035 TCAGCAAGATTCAGCACGAAA 58.507 42.857 0.00 0.00 37.12 3.46
2548 2870 6.054295 AGAATAGGATTTGCTCTGCTTGTAG 58.946 40.000 0.00 0.00 0.00 2.74
2551 2873 5.165961 AGGATTTGCTCTGCTTGTAGTAA 57.834 39.130 0.00 0.00 0.00 2.24
2552 2874 5.749462 AGGATTTGCTCTGCTTGTAGTAAT 58.251 37.500 0.00 0.00 0.00 1.89
2553 2875 6.889198 AGGATTTGCTCTGCTTGTAGTAATA 58.111 36.000 0.00 0.00 0.00 0.98
2554 2876 7.512992 AGGATTTGCTCTGCTTGTAGTAATAT 58.487 34.615 0.00 0.00 0.00 1.28
2555 2877 8.651389 AGGATTTGCTCTGCTTGTAGTAATATA 58.349 33.333 0.00 0.00 0.00 0.86
2556 2878 8.713271 GGATTTGCTCTGCTTGTAGTAATATAC 58.287 37.037 0.00 0.00 0.00 1.47
2557 2879 9.482627 GATTTGCTCTGCTTGTAGTAATATACT 57.517 33.333 0.00 0.00 42.68 2.12
2558 2880 8.873215 TTTGCTCTGCTTGTAGTAATATACTC 57.127 34.615 0.00 0.00 40.14 2.59
2559 2881 6.982852 TGCTCTGCTTGTAGTAATATACTCC 58.017 40.000 0.00 0.00 40.14 3.85
2588 2910 4.149922 CACACATGAGTCATAAAACGTCGT 59.850 41.667 5.03 0.00 0.00 4.34
2685 3009 4.589216 TTCTCCAACCAAAATGCTCTTG 57.411 40.909 0.00 0.00 0.00 3.02
2714 3064 7.060600 CTCATAATTGAGCTGTTAAACGACA 57.939 36.000 0.00 0.00 42.79 4.35
2719 3069 5.900339 TTGAGCTGTTAAACGACAGTAAG 57.100 39.130 0.00 0.00 46.81 2.34
2723 3073 3.185797 GCTGTTAAACGACAGTAAGTGGG 59.814 47.826 6.85 0.00 46.81 4.61
2772 3122 3.936372 TCAAAGTAGTACAAGAGCGCT 57.064 42.857 11.27 11.27 0.00 5.92
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
78 87 0.740868 CATATATCGGCGCCCTGTGG 60.741 60.000 23.46 6.36 0.00 4.17
79 88 1.361668 GCATATATCGGCGCCCTGTG 61.362 60.000 23.46 12.59 0.00 3.66
80 89 1.079127 GCATATATCGGCGCCCTGT 60.079 57.895 23.46 9.61 0.00 4.00
81 90 1.815421 GGCATATATCGGCGCCCTG 60.815 63.158 23.46 8.15 38.67 4.45
82 91 2.584608 GGCATATATCGGCGCCCT 59.415 61.111 23.46 11.53 38.67 5.19
83 92 2.890474 CGGCATATATCGGCGCCC 60.890 66.667 23.46 3.23 45.66 6.13
496 781 6.641474 AGACTCCACCTAACTAATTAAGCAC 58.359 40.000 0.00 0.00 0.00 4.40
756 1041 0.667792 AAGAAGCGCACGAGGAGAAC 60.668 55.000 11.47 0.00 0.00 3.01
770 1055 4.345854 AGGTAGGTAGAGGTGTCAAGAAG 58.654 47.826 0.00 0.00 0.00 2.85
806 1099 1.203063 AGTGGAGTACTGGCAGTCTGA 60.203 52.381 25.80 3.46 38.49 3.27
856 1149 3.469629 CGTTAAGTACTCGTCGTTTCGA 58.530 45.455 0.00 0.00 38.19 3.71
861 1154 1.160137 AGCCGTTAAGTACTCGTCGT 58.840 50.000 0.00 0.00 0.00 4.34
867 1160 2.234661 GGTGGGTAAGCCGTTAAGTACT 59.765 50.000 0.00 0.00 34.97 2.73
877 1170 2.748513 TATGCCGGGTGGGTAAGCC 61.749 63.158 2.18 0.00 43.54 4.35
886 1179 4.467084 CGCAGGTGTATGCCGGGT 62.467 66.667 2.18 0.00 43.49 5.28
904 1198 2.838736 ACCTAGCAAATCTATGGTGCG 58.161 47.619 0.00 0.00 43.16 5.34
917 1213 0.179084 GTGCGCCTATGAACCTAGCA 60.179 55.000 4.18 0.00 0.00 3.49
923 1219 1.717937 CTGCAGTGCGCCTATGAAC 59.282 57.895 11.20 0.00 41.33 3.18
955 1251 8.082852 CCTCTATATATTCACACACACCTACAC 58.917 40.741 0.00 0.00 0.00 2.90
956 1252 7.232737 CCCTCTATATATTCACACACACCTACA 59.767 40.741 0.00 0.00 0.00 2.74
957 1253 7.309867 CCCCTCTATATATTCACACACACCTAC 60.310 44.444 0.00 0.00 0.00 3.18
958 1254 6.724441 CCCCTCTATATATTCACACACACCTA 59.276 42.308 0.00 0.00 0.00 3.08
959 1255 5.544176 CCCCTCTATATATTCACACACACCT 59.456 44.000 0.00 0.00 0.00 4.00
960 1256 5.794894 CCCCTCTATATATTCACACACACC 58.205 45.833 0.00 0.00 0.00 4.16
961 1257 5.238583 GCCCCTCTATATATTCACACACAC 58.761 45.833 0.00 0.00 0.00 3.82
962 1258 4.021456 CGCCCCTCTATATATTCACACACA 60.021 45.833 0.00 0.00 0.00 3.72
963 1259 4.021368 ACGCCCCTCTATATATTCACACAC 60.021 45.833 0.00 0.00 0.00 3.82
964 1260 4.021456 CACGCCCCTCTATATATTCACACA 60.021 45.833 0.00 0.00 0.00 3.72
965 1261 4.495422 CACGCCCCTCTATATATTCACAC 58.505 47.826 0.00 0.00 0.00 3.82
966 1262 3.056107 GCACGCCCCTCTATATATTCACA 60.056 47.826 0.00 0.00 0.00 3.58
967 1263 3.522553 GCACGCCCCTCTATATATTCAC 58.477 50.000 0.00 0.00 0.00 3.18
968 1264 2.500098 GGCACGCCCCTCTATATATTCA 59.500 50.000 0.00 0.00 0.00 2.57
969 1265 3.180891 GGCACGCCCCTCTATATATTC 57.819 52.381 0.00 0.00 0.00 1.75
1017 1313 3.071206 GCAGACGAGGAGGCTCCA 61.071 66.667 33.86 0.00 39.61 3.86
1019 1315 2.493973 CAGCAGACGAGGAGGCTC 59.506 66.667 5.78 5.78 34.57 4.70
1021 1317 4.828925 GGCAGCAGACGAGGAGGC 62.829 72.222 0.00 0.00 0.00 4.70
1036 1332 3.724914 GAGGAGTAGCAGCACCGGC 62.725 68.421 0.00 0.00 41.61 6.13
1037 1333 2.290122 CTGAGGAGTAGCAGCACCGG 62.290 65.000 0.00 0.00 0.00 5.28
1038 1334 1.140589 CTGAGGAGTAGCAGCACCG 59.859 63.158 0.00 0.00 0.00 4.94
1048 1344 1.302351 GCACTTGCAGCTGAGGAGT 60.302 57.895 20.43 14.18 41.59 3.85
1146 1442 2.356673 GTCGTTGTCCCCACCGTC 60.357 66.667 0.00 0.00 0.00 4.79
1431 1733 2.585247 GCACGTATGTCCTCCGGC 60.585 66.667 0.00 0.00 0.00 6.13
1683 1985 1.184970 TCGGCGGGCTCATCATCATA 61.185 55.000 7.21 0.00 0.00 2.15
1749 2051 3.465403 CTCCACAGGCTCTCCCCG 61.465 72.222 0.00 0.00 0.00 5.73
1790 2095 5.185442 TCATCATGTCTTAAGCCAATGCAAA 59.815 36.000 0.00 0.00 41.13 3.68
1891 2196 2.594592 GCCCCGCCATGTATCCAC 60.595 66.667 0.00 0.00 0.00 4.02
1892 2197 2.410322 GATGCCCCGCCATGTATCCA 62.410 60.000 0.00 0.00 0.00 3.41
1893 2198 1.675641 GATGCCCCGCCATGTATCC 60.676 63.158 0.00 0.00 0.00 2.59
1894 2199 2.034879 CGATGCCCCGCCATGTATC 61.035 63.158 0.00 0.00 0.00 2.24
1895 2200 2.032528 CGATGCCCCGCCATGTAT 59.967 61.111 0.00 0.00 0.00 2.29
1896 2201 3.454587 GACGATGCCCCGCCATGTA 62.455 63.158 0.00 0.00 0.00 2.29
1967 2280 4.707448 AGGTAGCAGCTATAATATCGCAGT 59.293 41.667 5.14 0.00 0.00 4.40
1983 2296 5.046087 TGGCGAGTATACTATCTAGGTAGCA 60.046 44.000 10.09 0.00 0.00 3.49
1997 2310 3.534554 TCTGACGTAACTGGCGAGTATA 58.465 45.455 0.30 0.00 0.00 1.47
1998 2311 2.362736 TCTGACGTAACTGGCGAGTAT 58.637 47.619 0.30 0.00 0.00 2.12
2114 2430 1.091771 GCGCCTGCTTGCTCTCATTA 61.092 55.000 0.00 0.00 38.39 1.90
2115 2431 2.404995 GCGCCTGCTTGCTCTCATT 61.405 57.895 0.00 0.00 38.39 2.57
2116 2432 2.823147 GCGCCTGCTTGCTCTCAT 60.823 61.111 0.00 0.00 38.39 2.90
2159 2475 2.546778 TCCACTCGGCGCTTTTTATAG 58.453 47.619 7.64 0.00 0.00 1.31
2161 2477 1.940613 GATCCACTCGGCGCTTTTTAT 59.059 47.619 7.64 0.00 0.00 1.40
2163 2479 1.635663 CGATCCACTCGGCGCTTTTT 61.636 55.000 7.64 0.00 43.82 1.94
2164 2480 2.100631 CGATCCACTCGGCGCTTTT 61.101 57.895 7.64 0.00 43.82 2.27
2264 2586 2.725641 TCCATATGGACGTCCGCG 59.274 61.111 28.70 16.30 39.78 6.46
2337 2659 9.740710 GCTAACTTCCCCAATTCATAATATACT 57.259 33.333 0.00 0.00 0.00 2.12
2338 2660 8.957466 GGCTAACTTCCCCAATTCATAATATAC 58.043 37.037 0.00 0.00 0.00 1.47
2339 2661 7.827236 CGGCTAACTTCCCCAATTCATAATATA 59.173 37.037 0.00 0.00 0.00 0.86
2340 2662 6.659242 CGGCTAACTTCCCCAATTCATAATAT 59.341 38.462 0.00 0.00 0.00 1.28
2341 2663 6.001460 CGGCTAACTTCCCCAATTCATAATA 58.999 40.000 0.00 0.00 0.00 0.98
2342 2664 4.827284 CGGCTAACTTCCCCAATTCATAAT 59.173 41.667 0.00 0.00 0.00 1.28
2343 2665 4.204012 CGGCTAACTTCCCCAATTCATAA 58.796 43.478 0.00 0.00 0.00 1.90
2344 2666 3.201266 ACGGCTAACTTCCCCAATTCATA 59.799 43.478 0.00 0.00 0.00 2.15
2345 2667 2.025321 ACGGCTAACTTCCCCAATTCAT 60.025 45.455 0.00 0.00 0.00 2.57
2346 2668 1.353022 ACGGCTAACTTCCCCAATTCA 59.647 47.619 0.00 0.00 0.00 2.57
2479 2801 6.128715 CGCATAGATATTTTCGTGCTGAATCT 60.129 38.462 0.00 0.00 38.15 2.40
2529 2851 3.710209 ACTACAAGCAGAGCAAATCCT 57.290 42.857 0.00 0.00 0.00 3.24
2551 2873 9.147732 TGACTCATGTGTGAAATAGGAGTATAT 57.852 33.333 4.90 0.00 40.58 0.86
2552 2874 8.533569 TGACTCATGTGTGAAATAGGAGTATA 57.466 34.615 4.90 0.00 40.58 1.47
2553 2875 7.423844 TGACTCATGTGTGAAATAGGAGTAT 57.576 36.000 4.90 0.00 40.58 2.12
2554 2876 6.850752 TGACTCATGTGTGAAATAGGAGTA 57.149 37.500 4.90 0.00 40.58 2.59
2555 2877 5.745312 TGACTCATGTGTGAAATAGGAGT 57.255 39.130 4.90 0.00 42.80 3.85
2556 2878 8.722480 TTTATGACTCATGTGTGAAATAGGAG 57.278 34.615 4.90 0.00 34.34 3.69
2557 2879 8.946085 GTTTTATGACTCATGTGTGAAATAGGA 58.054 33.333 4.90 0.00 33.05 2.94
2558 2880 7.904977 CGTTTTATGACTCATGTGTGAAATAGG 59.095 37.037 4.90 0.00 33.05 2.57
2559 2881 8.443160 ACGTTTTATGACTCATGTGTGAAATAG 58.557 33.333 4.90 3.73 33.05 1.73
2572 2894 5.505165 TTTGCTACGACGTTTTATGACTC 57.495 39.130 5.50 0.00 0.00 3.36
2573 2895 5.234757 TGTTTTGCTACGACGTTTTATGACT 59.765 36.000 5.50 0.00 0.00 3.41
2574 2896 5.335171 GTGTTTTGCTACGACGTTTTATGAC 59.665 40.000 5.50 0.13 0.00 3.06
2575 2897 5.006455 TGTGTTTTGCTACGACGTTTTATGA 59.994 36.000 5.50 0.00 0.00 2.15
2588 2910 6.633500 ATTTCAGCTAACTGTGTTTTGCTA 57.367 33.333 9.11 0.00 44.77 3.49
2635 2959 2.778299 AGCAAATAAGCAACTGACCGA 58.222 42.857 0.00 0.00 36.85 4.69
2707 3057 3.832615 AGAACCCACTTACTGTCGTTT 57.167 42.857 0.00 0.00 0.00 3.60
2714 3064 5.063880 GTCAACATGAAGAACCCACTTACT 58.936 41.667 0.00 0.00 0.00 2.24
2719 3069 3.820467 TGATGTCAACATGAAGAACCCAC 59.180 43.478 0.00 0.00 36.57 4.61
2753 3103 2.668457 CCAGCGCTCTTGTACTACTTTG 59.332 50.000 7.13 0.00 0.00 2.77
2760 3110 0.108138 ATGGACCAGCGCTCTTGTAC 60.108 55.000 7.13 6.75 0.00 2.90


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

AutoCloner maintained by Alex Coulton.