Multiple sequence alignment - TraesCS2D01G214500

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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 TraesCS2D01G214500 chr2D 100.000 4222 0 0 1 4222 176100684 176104905 0.000000e+00 7797
1 TraesCS2D01G214500 chr2D 84.874 238 31 1 3895 4127 177795583 177795820 7.700000e-58 235
2 TraesCS2D01G214500 chr2D 100.000 120 0 0 4483 4602 176105166 176105285 5.990000e-54 222
3 TraesCS2D01G214500 chr2B 94.690 4181 125 39 1 4147 233164902 233169019 0.000000e+00 6401
4 TraesCS2D01G214500 chr2B 91.870 123 6 2 4483 4602 233169609 233169730 7.920000e-38 169
5 TraesCS2D01G214500 chr2A 96.340 1885 50 6 2036 3903 187480890 187482772 0.000000e+00 3081
6 TraesCS2D01G214500 chr2A 91.413 2073 97 29 1 2054 187478837 187480847 0.000000e+00 2767
7 TraesCS2D01G214500 chr4D 94.712 208 9 1 3904 4111 441648040 441647835 5.740000e-84 322
8 TraesCS2D01G214500 chr4B 91.176 238 14 2 3904 4136 548114330 548114095 2.670000e-82 316
9 TraesCS2D01G214500 chr4A 91.228 228 13 2 3906 4128 25792416 25792641 2.080000e-78 303
10 TraesCS2D01G214500 chr5A 90.686 204 19 0 3904 4107 681864565 681864362 5.870000e-69 272
11 TraesCS2D01G214500 chr5A 90.338 207 20 0 3901 4107 683664787 683664993 5.870000e-69 272
12 TraesCS2D01G214500 chr7B 86.243 189 23 1 3906 4091 639270535 639270723 7.810000e-48 202
13 TraesCS2D01G214500 chr6A 92.437 119 8 1 3943 4061 477945871 477945988 7.920000e-38 169


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 TraesCS2D01G214500 chr2D 176100684 176105285 4601 False 4009.5 7797 100.0000 1 4602 2 chr2D.!!$F2 4601
1 TraesCS2D01G214500 chr2B 233164902 233169730 4828 False 3285.0 6401 93.2800 1 4602 2 chr2B.!!$F1 4601
2 TraesCS2D01G214500 chr2A 187478837 187482772 3935 False 2924.0 3081 93.8765 1 3903 2 chr2A.!!$F1 3902

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
491 495 0.522626 TCGTTCGATCGTGTAAGGCA 59.477 50.0 15.94 0.00 0.00 4.75 F
1127 1139 0.382873 TTTTGTGCTGACTGCTGCTG 59.617 50.0 4.89 4.89 43.37 4.41 F
1440 1462 0.984230 TCCTTCTGGATTCGCTTGGT 59.016 50.0 0.00 0.00 37.46 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1302 1323 0.850856 AGAAACGAAACGAGACGCAC 59.149 50.000 0.00 0.0 0.00 5.34 R
2426 2513 7.059202 AGCAAGTTCTGAAATGGATTTCTTT 57.941 32.000 12.22 0.0 44.85 2.52 R
3621 3720 2.048597 AACGAATCGCGCAGACCA 60.049 55.556 8.75 0.0 46.04 4.02 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
27 28 2.447250 CACTATATATACACGGCCGCG 58.553 52.381 28.58 20.53 0.00 6.46
119 120 3.786101 CGTGCCGGAGATTGTCTG 58.214 61.111 5.05 0.00 0.00 3.51
290 291 4.145052 GACTGTCTTGGATTGGGTTTCTT 58.855 43.478 0.00 0.00 0.00 2.52
468 472 2.280552 GCTGTCCGTAGTCCACCCA 61.281 63.158 0.00 0.00 0.00 4.51
485 489 1.536072 CCCATCATCGTTCGATCGTGT 60.536 52.381 15.94 3.68 0.00 4.49
486 490 2.287368 CCCATCATCGTTCGATCGTGTA 60.287 50.000 15.94 0.00 0.00 2.90
487 491 3.368495 CCATCATCGTTCGATCGTGTAA 58.632 45.455 15.94 0.00 0.00 2.41
489 493 3.060978 TCATCGTTCGATCGTGTAAGG 57.939 47.619 15.94 8.10 0.00 2.69
490 494 1.517276 CATCGTTCGATCGTGTAAGGC 59.483 52.381 15.94 0.00 0.00 4.35
491 495 0.522626 TCGTTCGATCGTGTAAGGCA 59.477 50.000 15.94 0.00 0.00 4.75
492 496 0.638746 CGTTCGATCGTGTAAGGCAC 59.361 55.000 15.94 0.10 44.36 5.01
563 567 1.071542 TGAGACAAAGATGGAACGGCA 59.928 47.619 0.00 0.00 0.00 5.69
567 571 0.523072 CAAAGATGGAACGGCACCAG 59.477 55.000 0.00 0.00 40.89 4.00
644 648 1.202615 GGCCCGGATTCCTACTACAAC 60.203 57.143 0.73 0.00 0.00 3.32
721 725 8.038944 TGCGGATTTAGACACTTCTATAAAGTT 58.961 33.333 0.00 0.00 34.15 2.66
729 733 8.582657 AGACACTTCTATAAAGTTAGAGAGCA 57.417 34.615 0.00 0.00 33.11 4.26
822 826 1.569493 CAACGAACTCTGTTGCCGG 59.431 57.895 0.00 0.00 40.11 6.13
825 829 2.281484 GAACTCTGTTGCCGGGCA 60.281 61.111 19.77 19.77 36.47 5.36
833 837 4.844420 TTGCCGGGCAAAGTTTTG 57.156 50.000 31.03 0.28 45.96 2.44
843 848 1.280066 CAAAGTTTTGCTTGCGCTGT 58.720 45.000 9.73 0.00 37.52 4.40
977 982 2.320215 CAGTGCTGCCGTCTTTGAA 58.680 52.632 0.00 0.00 0.00 2.69
1045 1050 2.092375 GGGGAAGCTGCAGTTAAGGTAT 60.092 50.000 16.64 0.00 0.00 2.73
1050 1055 5.393135 GGAAGCTGCAGTTAAGGTATTTTCC 60.393 44.000 16.64 5.99 0.00 3.13
1061 1066 4.015872 AGGTATTTTCCTTCGTTCTGCA 57.984 40.909 0.00 0.00 33.52 4.41
1062 1067 4.003648 AGGTATTTTCCTTCGTTCTGCAG 58.996 43.478 7.63 7.63 33.52 4.41
1078 1083 3.519107 TCTGCAGGTTCATCTGATGGTTA 59.481 43.478 15.13 1.46 36.93 2.85
1084 1089 4.641989 AGGTTCATCTGATGGTTATTGCAC 59.358 41.667 17.06 2.81 0.00 4.57
1086 1091 5.449588 GGTTCATCTGATGGTTATTGCACTG 60.450 44.000 17.06 0.00 0.00 3.66
1088 1093 5.255687 TCATCTGATGGTTATTGCACTGTT 58.744 37.500 17.06 0.00 0.00 3.16
1089 1094 6.413892 TCATCTGATGGTTATTGCACTGTTA 58.586 36.000 17.06 0.00 0.00 2.41
1090 1095 7.056006 TCATCTGATGGTTATTGCACTGTTAT 58.944 34.615 17.06 0.00 0.00 1.89
1105 1117 7.140705 TGCACTGTTATCAACTTTGATTTGAG 58.859 34.615 9.68 6.15 45.13 3.02
1107 1119 7.086376 CACTGTTATCAACTTTGATTTGAGGG 58.914 38.462 9.68 1.79 45.13 4.30
1114 1126 6.105333 TCAACTTTGATTTGAGGGTTTTGTG 58.895 36.000 0.00 0.00 31.01 3.33
1127 1139 0.382873 TTTTGTGCTGACTGCTGCTG 59.617 50.000 4.89 4.89 43.37 4.41
1130 1142 2.358369 TGCTGACTGCTGCTGCTC 60.358 61.111 17.00 7.46 43.37 4.26
1254 1272 1.825474 CTCTCTGTTCCCGGTATGTGT 59.175 52.381 0.00 0.00 0.00 3.72
1258 1276 1.199097 CTGTTCCCGGTATGTGTTTGC 59.801 52.381 0.00 0.00 0.00 3.68
1275 1293 2.849880 TGCTTGTGAAACTCAGTTGC 57.150 45.000 0.00 0.00 38.04 4.17
1277 1295 2.754552 TGCTTGTGAAACTCAGTTGCTT 59.245 40.909 0.00 0.00 38.04 3.91
1281 1299 5.445010 GCTTGTGAAACTCAGTTGCTTTTTG 60.445 40.000 0.00 0.00 38.04 2.44
1285 1306 7.542890 TGTGAAACTCAGTTGCTTTTTGATTA 58.457 30.769 0.00 0.00 38.04 1.75
1314 1335 3.526825 GCAAAAGTGCGTCTCGTTT 57.473 47.368 0.00 0.00 41.93 3.60
1316 1337 1.647748 CAAAAGTGCGTCTCGTTTCG 58.352 50.000 0.00 0.00 0.00 3.46
1322 1343 1.257155 GTGCGTCTCGTTTCGTTTCTT 59.743 47.619 0.00 0.00 0.00 2.52
1323 1344 1.928503 TGCGTCTCGTTTCGTTTCTTT 59.071 42.857 0.00 0.00 0.00 2.52
1354 1375 8.791675 TGTTGCAGTAGATTGTTTAATTGATGA 58.208 29.630 0.00 0.00 0.00 2.92
1368 1389 3.333029 TTGATGATCTGAACGAAGCCA 57.667 42.857 0.00 0.00 0.00 4.75
1369 1390 2.897436 TGATGATCTGAACGAAGCCAG 58.103 47.619 0.00 0.00 33.73 4.85
1370 1391 2.234661 TGATGATCTGAACGAAGCCAGT 59.765 45.455 0.00 0.00 34.04 4.00
1384 1405 4.623002 GAAGCCAGTAGTATTCAGTAGCC 58.377 47.826 0.00 0.00 0.00 3.93
1386 1407 3.639094 AGCCAGTAGTATTCAGTAGCCTG 59.361 47.826 0.00 0.00 40.25 4.85
1440 1462 0.984230 TCCTTCTGGATTCGCTTGGT 59.016 50.000 0.00 0.00 37.46 3.67
1508 1530 4.331717 ACGCGGTTTATCATTTCTACCTTG 59.668 41.667 12.47 0.00 0.00 3.61
1539 1561 3.213206 ACTTGTTGAACTGAGATGCCA 57.787 42.857 0.00 0.00 0.00 4.92
1777 1801 3.678056 TTCTTCCTTAGCTCTTTCGCA 57.322 42.857 0.00 0.00 0.00 5.10
3359 3446 1.777272 ACAAGGCAAGTCTCCTTCCTT 59.223 47.619 0.00 0.00 41.73 3.36
3621 3720 1.373497 CGAGCACTCTCCGCTGTTT 60.373 57.895 0.00 0.00 40.63 2.83
3752 3857 2.740447 GGTGTATTCCGAGTGGTTGTTC 59.260 50.000 0.00 0.00 36.30 3.18
3753 3858 3.395639 GTGTATTCCGAGTGGTTGTTCA 58.604 45.455 0.00 0.00 36.30 3.18
4108 4216 5.841957 ACAACTCATTATCCAAGGCAATC 57.158 39.130 0.00 0.00 0.00 2.67
4111 4219 7.293073 ACAACTCATTATCCAAGGCAATCTAT 58.707 34.615 0.00 0.00 0.00 1.98
4115 4228 9.866655 ACTCATTATCCAAGGCAATCTATAAAA 57.133 29.630 0.00 0.00 0.00 1.52
4130 4243 8.950210 CAATCTATAAAAGAGTTCTTTCTGCCA 58.050 33.333 7.52 0.00 44.69 4.92
4147 4260 3.604582 TGCCAAAGAACCAACCTTTTTG 58.395 40.909 0.00 0.00 32.04 2.44
4149 4262 4.006989 GCCAAAGAACCAACCTTTTTGTT 58.993 39.130 0.00 0.00 32.04 2.83
4150 4263 4.457603 GCCAAAGAACCAACCTTTTTGTTT 59.542 37.500 0.00 0.00 32.04 2.83
4151 4264 5.618863 GCCAAAGAACCAACCTTTTTGTTTG 60.619 40.000 0.00 0.00 34.75 2.93
4152 4265 5.703130 CCAAAGAACCAACCTTTTTGTTTGA 59.297 36.000 5.11 0.00 36.22 2.69
4154 4267 4.490743 AGAACCAACCTTTTTGTTTGACG 58.509 39.130 0.00 0.00 0.00 4.35
4155 4268 2.612604 ACCAACCTTTTTGTTTGACGC 58.387 42.857 0.00 0.00 0.00 5.19
4156 4269 2.028930 ACCAACCTTTTTGTTTGACGCA 60.029 40.909 0.00 0.00 0.00 5.24
4157 4270 2.347150 CCAACCTTTTTGTTTGACGCAC 59.653 45.455 0.00 0.00 0.00 5.34
4159 4272 3.518634 ACCTTTTTGTTTGACGCACAT 57.481 38.095 0.00 0.00 0.00 3.21
4160 4273 4.640789 ACCTTTTTGTTTGACGCACATA 57.359 36.364 0.00 0.00 0.00 2.29
4161 4274 5.000012 ACCTTTTTGTTTGACGCACATAA 58.000 34.783 0.00 0.00 0.00 1.90
4162 4275 5.411781 ACCTTTTTGTTTGACGCACATAAA 58.588 33.333 0.00 0.00 0.00 1.40
4163 4276 5.518487 ACCTTTTTGTTTGACGCACATAAAG 59.482 36.000 8.92 8.92 40.27 1.85
4164 4277 5.957910 TTTTTGTTTGACGCACATAAAGG 57.042 34.783 0.00 0.00 0.00 3.11
4167 4280 2.550606 TGTTTGACGCACATAAAGGGAC 59.449 45.455 0.00 0.00 0.00 4.46
4169 4282 0.035820 TGACGCACATAAAGGGACCC 60.036 55.000 0.59 0.59 0.00 4.46
4171 4284 1.453197 CGCACATAAAGGGACCCCC 60.453 63.158 7.00 0.00 45.90 5.40
4194 4307 1.670059 CCCCCTCCCTGAAACTTACT 58.330 55.000 0.00 0.00 0.00 2.24
4195 4308 2.841795 CCCCCTCCCTGAAACTTACTA 58.158 52.381 0.00 0.00 0.00 1.82
4196 4309 3.187112 CCCCCTCCCTGAAACTTACTAA 58.813 50.000 0.00 0.00 0.00 2.24
4197 4310 3.786450 CCCCCTCCCTGAAACTTACTAAT 59.214 47.826 0.00 0.00 0.00 1.73
4544 5174 0.111253 AGAGAAGGGGGCACACAAAG 59.889 55.000 0.00 0.00 0.00 2.77
4567 5197 0.746204 TTGCCACAACAACGCTCAGA 60.746 50.000 0.00 0.00 0.00 3.27
4573 5203 1.202639 ACAACAACGCTCAGATGGACA 60.203 47.619 0.00 0.00 0.00 4.02
4578 5208 1.800805 ACGCTCAGATGGACAAACAG 58.199 50.000 0.00 0.00 0.00 3.16
4580 5210 0.807496 GCTCAGATGGACAAACAGGC 59.193 55.000 0.00 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
119 120 4.423209 AGGGAGGAGGGGCAGACC 62.423 72.222 0.00 0.00 39.11 3.85
298 299 2.025887 ACCACTAGGATTTCTTGCCAGG 60.026 50.000 0.00 0.00 38.69 4.45
307 311 6.314917 ACTCCAATCAAAACCACTAGGATTT 58.685 36.000 0.00 0.00 40.16 2.17
468 472 3.629058 CCTTACACGATCGAACGATGAT 58.371 45.455 24.34 6.28 34.60 2.45
485 489 1.813859 CAGATCGACCCGTGCCTTA 59.186 57.895 0.00 0.00 0.00 2.69
486 490 2.579201 CAGATCGACCCGTGCCTT 59.421 61.111 0.00 0.00 0.00 4.35
487 491 4.148825 GCAGATCGACCCGTGCCT 62.149 66.667 0.00 0.00 0.00 4.75
489 493 4.796231 ACGCAGATCGACCCGTGC 62.796 66.667 0.00 0.00 41.67 5.34
490 494 2.126071 AACGCAGATCGACCCGTG 60.126 61.111 0.00 0.00 41.67 4.94
491 495 1.945354 ATCAACGCAGATCGACCCGT 61.945 55.000 0.00 0.00 41.67 5.28
492 496 1.226974 ATCAACGCAGATCGACCCG 60.227 57.895 0.00 0.00 41.67 5.28
493 497 1.766143 GCATCAACGCAGATCGACCC 61.766 60.000 0.00 0.00 41.67 4.46
567 571 2.513897 ATTTAGCGCCGCCAGGAC 60.514 61.111 4.98 0.00 41.02 3.85
605 609 0.382515 CTCGGGACCTAAGAAGCGAG 59.617 60.000 0.00 0.00 0.00 5.03
644 648 2.046285 GCACCAATTCCCCGGTCAG 61.046 63.158 0.00 0.00 31.41 3.51
664 668 5.582689 AAACTGGAGTTTGAACCTTCAAG 57.417 39.130 3.95 0.00 46.68 3.02
666 670 6.419791 TCTAAAACTGGAGTTTGAACCTTCA 58.580 36.000 5.55 0.00 46.47 3.02
667 671 6.937436 TCTAAAACTGGAGTTTGAACCTTC 57.063 37.500 5.55 0.00 46.47 3.46
854 859 4.149747 CGTCAGAGTTTCAGAGAAAGAAGC 59.850 45.833 0.00 0.00 0.00 3.86
915 920 5.105675 GGTTCAGAGACGAGGACTAAAGAAT 60.106 44.000 0.00 0.00 0.00 2.40
918 923 3.506455 TGGTTCAGAGACGAGGACTAAAG 59.494 47.826 0.00 0.00 0.00 1.85
977 982 1.276622 AACCGAGTTCACCTGCCTAT 58.723 50.000 0.00 0.00 0.00 2.57
1045 1050 2.341846 ACCTGCAGAACGAAGGAAAA 57.658 45.000 17.39 0.00 34.97 2.29
1050 1055 2.414481 CAGATGAACCTGCAGAACGAAG 59.586 50.000 17.39 0.00 0.00 3.79
1061 1066 4.641989 GTGCAATAACCATCAGATGAACCT 59.358 41.667 12.41 0.00 0.00 3.50
1062 1067 4.641989 AGTGCAATAACCATCAGATGAACC 59.358 41.667 12.41 0.00 0.00 3.62
1078 1083 8.143193 TCAAATCAAAGTTGATAACAGTGCAAT 58.857 29.630 6.95 0.00 46.60 3.56
1084 1089 7.219484 ACCCTCAAATCAAAGTTGATAACAG 57.781 36.000 6.95 3.77 46.60 3.16
1086 1091 8.764287 CAAAACCCTCAAATCAAAGTTGATAAC 58.236 33.333 6.95 0.00 46.60 1.89
1088 1093 7.925483 CACAAAACCCTCAAATCAAAGTTGATA 59.075 33.333 6.95 0.00 46.60 2.15
1090 1095 6.105333 CACAAAACCCTCAAATCAAAGTTGA 58.895 36.000 0.00 0.00 42.14 3.18
1114 1126 3.488978 CGAGCAGCAGCAGTCAGC 61.489 66.667 3.17 0.00 45.49 4.26
1127 1139 0.534203 TTCCCCTGTCAAACACGAGC 60.534 55.000 0.00 0.00 0.00 5.03
1130 1142 1.602377 GAACTTCCCCTGTCAAACACG 59.398 52.381 0.00 0.00 0.00 4.49
1213 1231 5.475220 AGAGACATAGTAATCCTCGATGGTG 59.525 44.000 0.00 0.00 37.07 4.17
1254 1272 3.193267 AGCAACTGAGTTTCACAAGCAAA 59.807 39.130 0.00 0.00 0.00 3.68
1258 1276 5.863397 TCAAAAAGCAACTGAGTTTCACAAG 59.137 36.000 0.00 0.00 0.00 3.16
1302 1323 0.850856 AGAAACGAAACGAGACGCAC 59.149 50.000 0.00 0.00 0.00 5.34
1305 1326 4.172796 TCAAAAGAAACGAAACGAGACG 57.827 40.909 0.00 0.00 0.00 4.18
1307 1328 6.114221 ACATTCAAAAGAAACGAAACGAGA 57.886 33.333 0.00 0.00 0.00 4.04
1314 1335 4.992688 ACTGCAACATTCAAAAGAAACGA 58.007 34.783 0.00 0.00 0.00 3.85
1316 1337 8.482429 CAATCTACTGCAACATTCAAAAGAAAC 58.518 33.333 0.00 0.00 0.00 2.78
1322 1343 9.979578 ATTAAACAATCTACTGCAACATTCAAA 57.020 25.926 0.00 0.00 0.00 2.69
1323 1344 9.979578 AATTAAACAATCTACTGCAACATTCAA 57.020 25.926 0.00 0.00 0.00 2.69
1354 1375 5.127194 TGAATACTACTGGCTTCGTTCAGAT 59.873 40.000 0.00 0.00 35.20 2.90
1361 1382 4.291783 GCTACTGAATACTACTGGCTTCG 58.708 47.826 0.00 0.00 0.00 3.79
1508 1530 5.064707 TCAGTTCAACAAGTTAAGACAGTGC 59.935 40.000 0.00 0.00 0.00 4.40
1539 1561 4.280677 TCTGCAAAACGAAGGGATCAAATT 59.719 37.500 0.00 0.00 0.00 1.82
2426 2513 7.059202 AGCAAGTTCTGAAATGGATTTCTTT 57.941 32.000 12.22 0.00 44.85 2.52
3621 3720 2.048597 AACGAATCGCGCAGACCA 60.049 55.556 8.75 0.00 46.04 4.02
3672 3771 7.180051 CCTATCTACCTATGGAGCAAGAAAGAT 59.820 40.741 0.00 0.00 0.00 2.40
4027 4135 9.364989 CTTCTTTTATCTCTCACTGGTTAGAAG 57.635 37.037 0.00 0.00 0.00 2.85
4108 4216 9.003658 TCTTTGGCAGAAAGAACTCTTTTATAG 57.996 33.333 6.18 0.00 45.37 1.31
4111 4219 7.639113 TTCTTTGGCAGAAAGAACTCTTTTA 57.361 32.000 15.38 0.00 45.37 1.52
4130 4243 5.407084 CGTCAAACAAAAAGGTTGGTTCTTT 59.593 36.000 0.00 0.00 45.22 2.52
4147 4260 2.095415 GGTCCCTTTATGTGCGTCAAAC 60.095 50.000 0.00 0.00 0.00 2.93
4149 4262 1.612199 GGGTCCCTTTATGTGCGTCAA 60.612 52.381 0.00 0.00 0.00 3.18
4150 4263 0.035820 GGGTCCCTTTATGTGCGTCA 60.036 55.000 0.00 0.00 0.00 4.35
4151 4264 0.746923 GGGGTCCCTTTATGTGCGTC 60.747 60.000 8.15 0.00 0.00 5.19
4152 4265 1.301954 GGGGTCCCTTTATGTGCGT 59.698 57.895 8.15 0.00 0.00 5.24
4154 4267 4.678423 GGGGGTCCCTTTATGTGC 57.322 61.111 8.15 0.00 41.34 4.57
4176 4289 5.452341 AATTAGTAAGTTTCAGGGAGGGG 57.548 43.478 0.00 0.00 0.00 4.79
4177 4290 7.631007 ACTAAATTAGTAAGTTTCAGGGAGGG 58.369 38.462 3.48 0.00 37.23 4.30
4178 4291 8.947115 CAACTAAATTAGTAAGTTTCAGGGAGG 58.053 37.037 6.04 0.00 38.26 4.30
4179 4292 8.451748 GCAACTAAATTAGTAAGTTTCAGGGAG 58.548 37.037 6.04 0.00 38.26 4.30
4180 4293 8.161425 AGCAACTAAATTAGTAAGTTTCAGGGA 58.839 33.333 6.04 0.00 38.26 4.20
4181 4294 8.336801 AGCAACTAAATTAGTAAGTTTCAGGG 57.663 34.615 6.04 0.00 38.26 4.45
4183 4296 9.974750 GCTAGCAACTAAATTAGTAAGTTTCAG 57.025 33.333 10.63 0.00 38.26 3.02
4184 4297 9.496873 TGCTAGCAACTAAATTAGTAAGTTTCA 57.503 29.630 16.84 0.00 38.26 2.69
4188 4301 8.893727 CCATTGCTAGCAACTAAATTAGTAAGT 58.106 33.333 31.51 8.41 38.26 2.24
4191 4304 7.827236 ACACCATTGCTAGCAACTAAATTAGTA 59.173 33.333 31.51 6.01 38.26 1.82
4192 4305 6.659242 ACACCATTGCTAGCAACTAAATTAGT 59.341 34.615 31.51 17.86 41.73 2.24
4193 4306 7.088589 ACACCATTGCTAGCAACTAAATTAG 57.911 36.000 31.51 17.29 38.88 1.73
4194 4307 7.461182 AACACCATTGCTAGCAACTAAATTA 57.539 32.000 31.51 8.20 38.88 1.40
4195 4308 5.982890 ACACCATTGCTAGCAACTAAATT 57.017 34.783 31.51 12.69 38.88 1.82
4196 4309 5.982890 AACACCATTGCTAGCAACTAAAT 57.017 34.783 31.51 13.46 38.88 1.40
4197 4310 6.885952 TTAACACCATTGCTAGCAACTAAA 57.114 33.333 31.51 10.64 38.88 1.85
4514 5144 3.270877 CCCCCTTCTCTTACATGAAACG 58.729 50.000 0.00 0.00 0.00 3.60
4544 5174 1.786579 GAGCGTTGTTGTGGCAATTTC 59.213 47.619 0.00 0.00 0.00 2.17
4567 5197 2.564062 CAAATCTGGCCTGTTTGTCCAT 59.436 45.455 19.83 2.13 0.00 3.41
4573 5203 4.202253 GGAAAAGACAAATCTGGCCTGTTT 60.202 41.667 3.32 1.54 34.48 2.83
4578 5208 2.627699 TGTGGAAAAGACAAATCTGGCC 59.372 45.455 0.00 0.00 34.48 5.36


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

AutoCloner maintained by Alex Coulton.