Multiple sequence alignment - TraesCS4A01G038600

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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 TraesCS4A01G038600 chr4A 100.000 2387 0 0 1 2387 30556198 30558584 0 4409
1 TraesCS4A01G038600 chr4B 92.041 1470 83 14 6 1472 539965543 539966981 0 2036
2 TraesCS4A01G038600 chr4B 92.794 902 28 7 1509 2387 539966984 539967871 0 1271
3 TraesCS4A01G038600 chr4D 93.289 1356 72 9 118 1472 437514791 437516128 0 1982
4 TraesCS4A01G038600 chr4D 93.466 903 29 10 1509 2387 437516131 437517027 0 1314


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 TraesCS4A01G038600 chr4A 30556198 30558584 2386 False 4409.0 4409 100.0000 1 2387 1 chr4A.!!$F1 2386
1 TraesCS4A01G038600 chr4B 539965543 539967871 2328 False 1653.5 2036 92.4175 6 2387 2 chr4B.!!$F1 2381
2 TraesCS4A01G038600 chr4D 437514791 437517027 2236 False 1648.0 1982 93.3775 118 2387 2 chr4D.!!$F1 2269

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
65 67 0.404040 AGTTTTCCGGATCCCAAGCA 59.596 50.0 4.15 0.0 0.00 3.91 F
1041 1044 0.606401 AATCCTCGCAGGTGTTGTGG 60.606 55.0 2.68 0.0 37.88 4.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1062 1065 0.034616 CCTCGGAGATCTTCATGGGC 59.965 60.0 6.58 0.0 33.89 5.36 R
2245 2272 0.790814 GTACTCTGAGTTTGGTGCGC 59.209 55.0 16.53 0.0 0.00 6.09 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
58 60 4.182339 GAGAAGTGGTAGTTTTCCGGATC 58.818 47.826 4.15 0.00 0.00 3.36
62 64 1.986631 TGGTAGTTTTCCGGATCCCAA 59.013 47.619 4.15 0.00 0.00 4.12
65 67 0.404040 AGTTTTCCGGATCCCAAGCA 59.596 50.000 4.15 0.00 0.00 3.91
89 91 8.971321 GCATGAATTGTGGTAATTTTATGCTAG 58.029 33.333 18.07 0.00 37.43 3.42
148 150 4.754667 GCCGTCCCTGAACGACCC 62.755 72.222 0.00 0.00 45.37 4.46
255 257 8.614346 ACTAATTAGCTTACAAAACACGAACAA 58.386 29.630 12.54 0.00 0.00 2.83
256 258 7.908193 AATTAGCTTACAAAACACGAACAAG 57.092 32.000 0.00 0.00 0.00 3.16
346 348 2.428890 AGAATCTACCAAGTCGCAGAGG 59.571 50.000 0.00 0.00 36.95 3.69
391 393 0.657840 GCAAGGACACACACACACTC 59.342 55.000 0.00 0.00 0.00 3.51
394 396 0.901827 AGGACACACACACACTCACA 59.098 50.000 0.00 0.00 0.00 3.58
395 397 1.006832 GGACACACACACACTCACAC 58.993 55.000 0.00 0.00 0.00 3.82
413 415 3.818773 CACACCAGGGTAAACTTAACCAG 59.181 47.826 6.33 0.00 43.14 4.00
416 418 2.645797 CCAGGGTAAACTTAACCAGGGA 59.354 50.000 7.02 0.00 41.93 4.20
419 421 4.765339 CAGGGTAAACTTAACCAGGGAAAG 59.235 45.833 6.33 0.00 43.14 2.62
420 422 4.666431 AGGGTAAACTTAACCAGGGAAAGA 59.334 41.667 6.33 0.00 43.14 2.52
421 423 5.134850 AGGGTAAACTTAACCAGGGAAAGAA 59.865 40.000 6.33 0.00 43.14 2.52
439 441 4.505313 AGAAAGAATCGCAAAGGAAACC 57.495 40.909 0.00 0.00 0.00 3.27
440 442 2.989422 AAGAATCGCAAAGGAAACCG 57.011 45.000 0.00 0.00 0.00 4.44
542 544 1.446099 TACGTACGGTCGCTCTCGT 60.446 57.895 21.06 0.00 42.55 4.18
703 705 5.167303 AGGAACCTGTTAACAGAGGAATC 57.833 43.478 32.50 21.18 46.59 2.52
723 726 2.066262 CCGTTGCACGTCAGTTAATCT 58.934 47.619 7.68 0.00 40.58 2.40
724 727 2.159841 CCGTTGCACGTCAGTTAATCTG 60.160 50.000 7.68 0.00 40.58 2.90
733 736 6.249260 GCACGTCAGTTAATCTGCTTTATTTG 59.751 38.462 0.00 0.00 43.32 2.32
735 738 7.803189 CACGTCAGTTAATCTGCTTTATTTGTT 59.197 33.333 0.00 0.00 43.32 2.83
737 740 8.840867 CGTCAGTTAATCTGCTTTATTTGTTTC 58.159 33.333 0.00 0.00 43.32 2.78
762 765 4.641094 AGGTTAATCAGAGTAGACAGTCGG 59.359 45.833 0.00 0.00 0.00 4.79
763 766 4.352887 GTTAATCAGAGTAGACAGTCGGC 58.647 47.826 0.00 0.00 0.00 5.54
765 768 1.454201 TCAGAGTAGACAGTCGGCAG 58.546 55.000 0.00 0.00 0.00 4.85
777 780 2.869801 CAGTCGGCAGTTGTTTCTTACA 59.130 45.455 0.00 0.00 34.12 2.41
866 869 6.446781 CACAGATGCAAGTGGAATAAAGAT 57.553 37.500 8.85 0.00 32.24 2.40
867 870 6.263344 CACAGATGCAAGTGGAATAAAGATG 58.737 40.000 8.85 0.00 32.24 2.90
897 900 4.706842 TTGGCTCCCAAAGTATATCTCC 57.293 45.455 0.00 0.00 40.92 3.71
925 928 6.148948 GCAGAGTAGACTAGCAACATATCTG 58.851 44.000 0.00 0.00 34.88 2.90
1041 1044 0.606401 AATCCTCGCAGGTGTTGTGG 60.606 55.000 2.68 0.00 37.88 4.17
1062 1065 2.434884 ACGATGGTGCTCTTGCCG 60.435 61.111 0.00 0.00 38.71 5.69
1165 1168 7.116948 CGGTGAAGCTTCAGTATATAATTCCAG 59.883 40.741 29.13 13.80 37.98 3.86
1204 1207 3.251571 GAATGTGTCCGTAGAAGGTGAC 58.748 50.000 0.00 0.00 0.00 3.67
1214 1217 3.440522 CGTAGAAGGTGACAGACAGATCA 59.559 47.826 0.00 0.00 0.00 2.92
1215 1218 4.082733 CGTAGAAGGTGACAGACAGATCAA 60.083 45.833 0.00 0.00 0.00 2.57
1250 1253 1.585006 GACGACGTGGTCAGGATGT 59.415 57.895 23.70 0.00 36.91 3.06
1304 1307 1.626321 ACCATGTCATCCACCACGTTA 59.374 47.619 0.00 0.00 0.00 3.18
1340 1343 2.750888 GGAACGGAATGTCTGCGGC 61.751 63.158 0.00 0.00 44.35 6.53
1358 1361 0.106708 GCGCAGATAGGTTCATCCCA 59.893 55.000 0.30 0.00 36.75 4.37
1415 1418 3.074538 AGGTGGGCTACAAGAACAGAAAT 59.925 43.478 2.66 0.00 0.00 2.17
1418 1421 4.518970 GTGGGCTACAAGAACAGAAATCAA 59.481 41.667 0.00 0.00 0.00 2.57
1419 1422 5.009610 GTGGGCTACAAGAACAGAAATCAAA 59.990 40.000 0.00 0.00 0.00 2.69
1420 1423 5.009610 TGGGCTACAAGAACAGAAATCAAAC 59.990 40.000 0.00 0.00 0.00 2.93
1421 1424 5.009610 GGGCTACAAGAACAGAAATCAAACA 59.990 40.000 0.00 0.00 0.00 2.83
1422 1425 6.460953 GGGCTACAAGAACAGAAATCAAACAA 60.461 38.462 0.00 0.00 0.00 2.83
1423 1426 6.417930 GGCTACAAGAACAGAAATCAAACAAC 59.582 38.462 0.00 0.00 0.00 3.32
1424 1427 7.196331 GCTACAAGAACAGAAATCAAACAACT 58.804 34.615 0.00 0.00 0.00 3.16
1425 1428 7.702348 GCTACAAGAACAGAAATCAAACAACTT 59.298 33.333 0.00 0.00 0.00 2.66
1426 1429 7.816945 ACAAGAACAGAAATCAAACAACTTG 57.183 32.000 0.00 0.00 37.56 3.16
1427 1430 7.378181 ACAAGAACAGAAATCAAACAACTTGT 58.622 30.769 0.00 0.00 39.10 3.16
1428 1431 7.329226 ACAAGAACAGAAATCAAACAACTTGTG 59.671 33.333 0.00 0.00 41.21 3.33
1444 1447 6.151144 ACAACTTGTGATATGTTTAGGCTTCC 59.849 38.462 0.00 0.00 0.00 3.46
1445 1448 5.815581 ACTTGTGATATGTTTAGGCTTCCA 58.184 37.500 0.00 0.00 0.00 3.53
1502 1505 7.768807 AAGTACATGAAGAGTAGTCAAGACT 57.231 36.000 7.96 7.96 45.02 3.24
1503 1506 7.385778 AGTACATGAAGAGTAGTCAAGACTC 57.614 40.000 5.91 0.00 43.12 3.36
1504 1507 6.943146 AGTACATGAAGAGTAGTCAAGACTCA 59.057 38.462 5.91 0.00 44.86 3.41
1505 1508 6.656632 ACATGAAGAGTAGTCAAGACTCAA 57.343 37.500 5.91 0.00 44.86 3.02
1506 1509 6.686630 ACATGAAGAGTAGTCAAGACTCAAG 58.313 40.000 5.91 0.00 44.86 3.02
1507 1510 5.713792 TGAAGAGTAGTCAAGACTCAAGG 57.286 43.478 5.91 0.00 44.86 3.61
1528 1531 3.882888 GGGTTCAGTTGACAGTTGATTGA 59.117 43.478 0.00 0.00 0.00 2.57
1665 1668 2.887152 AGCCCTGCACAAAAGAAACTAG 59.113 45.455 0.00 0.00 0.00 2.57
1695 1698 6.610020 AGCCTGTAACCAGACACTATATACAA 59.390 38.462 0.00 0.00 41.50 2.41
1760 1763 0.181350 GAGGGCTCCCGTTGATGAAT 59.819 55.000 0.00 0.00 41.95 2.57
1802 1805 1.062587 GCGATGGCATACAGTGTTGAC 59.937 52.381 0.00 2.59 39.62 3.18
1969 1972 9.959721 GAACTCCCTATTTCATTAAGCCATATA 57.040 33.333 0.00 0.00 0.00 0.86
2014 2017 5.125100 TGAAGTTTTCAGCATGGAATGTC 57.875 39.130 0.00 0.00 39.91 3.06
2032 2035 4.395959 TGTCGAAACTAACAAGGACTGT 57.604 40.909 0.00 0.00 41.27 3.55
2047 2050 7.630513 AACAAGGACTGTTGGAGTAACATTTTG 60.631 37.037 0.00 0.00 46.80 2.44
2092 2095 8.631480 ATTTAATTTCAGTAGAACGACCCTTT 57.369 30.769 0.00 0.00 32.39 3.11
2100 2103 1.070289 AGAACGACCCTTTGTGGAGTC 59.930 52.381 0.00 0.00 38.35 3.36
2101 2104 0.108019 AACGACCCTTTGTGGAGTCC 59.892 55.000 0.73 0.73 38.35 3.85
2102 2105 1.052124 ACGACCCTTTGTGGAGTCCA 61.052 55.000 8.12 8.12 38.35 4.02
2120 2123 3.509575 GTCCACCAATCATACAAAAGCCA 59.490 43.478 0.00 0.00 0.00 4.75
2245 2272 4.512571 TCCATATTCAATCATGTGTGCTCG 59.487 41.667 0.00 0.00 0.00 5.03
2262 2289 1.956170 CGCGCACCAAACTCAGAGT 60.956 57.895 8.75 0.00 0.00 3.24
2263 2290 0.666274 CGCGCACCAAACTCAGAGTA 60.666 55.000 8.75 0.00 0.00 2.59
2264 2291 0.790814 GCGCACCAAACTCAGAGTAC 59.209 55.000 2.64 0.00 0.00 2.73
2265 2292 1.605712 GCGCACCAAACTCAGAGTACT 60.606 52.381 2.64 0.00 0.00 2.73
2266 2293 2.329379 CGCACCAAACTCAGAGTACTC 58.671 52.381 15.41 15.41 0.00 2.59
2267 2294 2.029828 CGCACCAAACTCAGAGTACTCT 60.030 50.000 20.00 20.00 41.37 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.009723 ACCATCACAAATTAGTCGGCTG 58.990 45.455 0.00 0.00 0.00 4.85
2 3 3.689649 AGAACCATCACAAATTAGTCGGC 59.310 43.478 0.00 0.00 0.00 5.54
3 4 7.926555 ACTATAGAACCATCACAAATTAGTCGG 59.073 37.037 6.78 0.00 0.00 4.79
4 5 8.873215 ACTATAGAACCATCACAAATTAGTCG 57.127 34.615 6.78 0.00 0.00 4.18
58 60 4.741321 ATTACCACAATTCATGCTTGGG 57.259 40.909 11.14 7.64 31.08 4.12
62 64 7.558604 AGCATAAAATTACCACAATTCATGCT 58.441 30.769 17.42 17.42 40.10 3.79
89 91 3.896122 TGCAAGCGGAAAATCAAGTAAC 58.104 40.909 0.00 0.00 0.00 2.50
148 150 3.270027 TGCTTTTATCATGTCACCTCCG 58.730 45.455 0.00 0.00 0.00 4.63
237 239 3.368495 CCCTTGTTCGTGTTTTGTAAGC 58.632 45.455 0.00 0.00 0.00 3.09
255 257 2.044630 AGCTAAGTTAGTCCACTCCCCT 59.955 50.000 11.51 0.00 0.00 4.79
256 258 2.468915 AGCTAAGTTAGTCCACTCCCC 58.531 52.381 11.51 0.00 0.00 4.81
329 331 1.605058 GGCCTCTGCGACTTGGTAGA 61.605 60.000 0.00 0.00 38.85 2.59
346 348 0.107945 ATTTCGGCTCTCTGTCTGGC 60.108 55.000 0.00 0.00 0.00 4.85
391 393 3.818773 CTGGTTAAGTTTACCCTGGTGTG 59.181 47.826 8.53 0.00 34.66 3.82
394 396 2.377531 CCCTGGTTAAGTTTACCCTGGT 59.622 50.000 8.53 0.00 34.66 4.00
395 397 2.645797 TCCCTGGTTAAGTTTACCCTGG 59.354 50.000 8.53 10.07 34.66 4.45
413 415 3.506067 TCCTTTGCGATTCTTTCTTTCCC 59.494 43.478 0.00 0.00 0.00 3.97
416 418 5.289595 GGTTTCCTTTGCGATTCTTTCTTT 58.710 37.500 0.00 0.00 0.00 2.52
419 421 3.058501 TCGGTTTCCTTTGCGATTCTTTC 60.059 43.478 0.00 0.00 0.00 2.62
420 422 2.882137 TCGGTTTCCTTTGCGATTCTTT 59.118 40.909 0.00 0.00 0.00 2.52
421 423 2.500229 TCGGTTTCCTTTGCGATTCTT 58.500 42.857 0.00 0.00 0.00 2.52
439 441 1.083489 TATTTGGCGGCTTGTCTTCG 58.917 50.000 11.43 0.00 0.00 3.79
440 442 3.782889 ATTATTTGGCGGCTTGTCTTC 57.217 42.857 11.43 0.00 0.00 2.87
560 562 1.895798 TGGAGTACAAGTGAGGAGCAG 59.104 52.381 0.00 0.00 0.00 4.24
733 736 8.741841 ACTGTCTACTCTGATTAACCTAGAAAC 58.258 37.037 0.00 0.00 0.00 2.78
735 738 7.280428 CGACTGTCTACTCTGATTAACCTAGAA 59.720 40.741 6.21 0.00 0.00 2.10
737 740 6.017770 CCGACTGTCTACTCTGATTAACCTAG 60.018 46.154 6.21 0.00 0.00 3.02
745 748 2.020720 CTGCCGACTGTCTACTCTGAT 58.979 52.381 6.21 0.00 0.00 2.90
747 750 1.169577 ACTGCCGACTGTCTACTCTG 58.830 55.000 6.21 0.00 0.00 3.35
752 755 2.364324 AGAAACAACTGCCGACTGTCTA 59.636 45.455 6.21 0.00 0.00 2.59
754 757 1.583054 AGAAACAACTGCCGACTGTC 58.417 50.000 0.00 0.00 0.00 3.51
762 765 2.956333 ACCCCTTGTAAGAAACAACTGC 59.044 45.455 0.00 0.00 43.22 4.40
763 766 3.243401 GCACCCCTTGTAAGAAACAACTG 60.243 47.826 0.00 0.00 43.22 3.16
765 768 2.035449 GGCACCCCTTGTAAGAAACAAC 59.965 50.000 0.00 0.00 43.22 3.32
860 863 3.758554 GAGCCAAACTGAAGCCATCTTTA 59.241 43.478 0.00 0.00 31.48 1.85
863 866 1.615384 GGAGCCAAACTGAAGCCATCT 60.615 52.381 0.00 0.00 0.00 2.90
866 869 1.228552 GGGAGCCAAACTGAAGCCA 60.229 57.895 0.00 0.00 0.00 4.75
867 870 0.827507 TTGGGAGCCAAACTGAAGCC 60.828 55.000 0.00 0.00 40.92 4.35
897 900 3.057245 TGTTGCTAGTCTACTCTGCAGTG 60.057 47.826 14.67 14.35 37.07 3.66
925 928 2.024751 AGGGAGAGGTAAGAGTCTGACC 60.025 54.545 18.23 18.23 0.00 4.02
1023 1026 1.003355 CCACAACACCTGCGAGGAT 60.003 57.895 8.91 0.00 37.67 3.24
1062 1065 0.034616 CCTCGGAGATCTTCATGGGC 59.965 60.000 6.58 0.00 33.89 5.36
1165 1168 2.663826 TCACTGTTGGTGCAAAAACC 57.336 45.000 9.59 0.00 44.98 3.27
1184 1187 2.631062 TGTCACCTTCTACGGACACATT 59.369 45.455 0.00 0.00 35.51 2.71
1204 1207 4.021632 TCAAGGTCTGTCTTGATCTGTCTG 60.022 45.833 10.43 0.00 45.53 3.51
1214 1217 2.351835 CGTCGTGATCAAGGTCTGTCTT 60.352 50.000 8.84 0.00 0.00 3.01
1215 1218 1.200252 CGTCGTGATCAAGGTCTGTCT 59.800 52.381 8.84 0.00 0.00 3.41
1250 1253 2.441532 CTCTACGAGCCCGGGGAA 60.442 66.667 25.28 0.00 40.78 3.97
1340 1343 2.847327 ATGGGATGAACCTATCTGCG 57.153 50.000 0.00 0.00 34.73 5.18
1358 1361 0.991920 ACCATCTGGGGAACAACGAT 59.008 50.000 0.54 0.00 42.91 3.73
1415 1418 7.230510 AGCCTAAACATATCACAAGTTGTTTGA 59.769 33.333 5.57 1.91 41.13 2.69
1418 1421 7.309194 GGAAGCCTAAACATATCACAAGTTGTT 60.309 37.037 5.57 0.00 33.93 2.83
1419 1422 6.151144 GGAAGCCTAAACATATCACAAGTTGT 59.849 38.462 1.64 1.64 0.00 3.32
1420 1423 6.150976 TGGAAGCCTAAACATATCACAAGTTG 59.849 38.462 0.00 0.00 0.00 3.16
1421 1424 6.245408 TGGAAGCCTAAACATATCACAAGTT 58.755 36.000 0.00 0.00 0.00 2.66
1422 1425 5.815581 TGGAAGCCTAAACATATCACAAGT 58.184 37.500 0.00 0.00 0.00 3.16
1423 1426 6.949352 ATGGAAGCCTAAACATATCACAAG 57.051 37.500 0.00 0.00 0.00 3.16
1424 1427 7.831690 TGTTATGGAAGCCTAAACATATCACAA 59.168 33.333 0.00 0.00 29.07 3.33
1425 1428 7.342581 TGTTATGGAAGCCTAAACATATCACA 58.657 34.615 0.00 0.00 29.07 3.58
1426 1429 7.715249 TCTGTTATGGAAGCCTAAACATATCAC 59.285 37.037 0.00 0.00 31.98 3.06
1427 1430 7.801104 TCTGTTATGGAAGCCTAAACATATCA 58.199 34.615 0.00 0.00 31.98 2.15
1428 1431 8.150945 TCTCTGTTATGGAAGCCTAAACATATC 58.849 37.037 0.00 0.00 31.98 1.63
1476 1479 9.298250 AGTCTTGACTACTCTTCATGTACTTTA 57.702 33.333 0.89 0.00 0.00 1.85
1477 1480 8.184304 AGTCTTGACTACTCTTCATGTACTTT 57.816 34.615 0.89 0.00 0.00 2.66
1478 1481 7.448777 TGAGTCTTGACTACTCTTCATGTACTT 59.551 37.037 3.00 0.00 43.13 2.24
1479 1482 6.943146 TGAGTCTTGACTACTCTTCATGTACT 59.057 38.462 3.00 0.00 43.13 2.73
1480 1483 7.147143 TGAGTCTTGACTACTCTTCATGTAC 57.853 40.000 3.00 0.00 43.13 2.90
1481 1484 7.094162 CCTTGAGTCTTGACTACTCTTCATGTA 60.094 40.741 3.00 0.00 43.13 2.29
1482 1485 6.295011 CCTTGAGTCTTGACTACTCTTCATGT 60.295 42.308 3.00 0.00 43.13 3.21
1483 1486 6.098679 CCTTGAGTCTTGACTACTCTTCATG 58.901 44.000 3.00 0.00 43.13 3.07
1484 1487 5.186797 CCCTTGAGTCTTGACTACTCTTCAT 59.813 44.000 3.00 0.00 43.13 2.57
1485 1488 4.524714 CCCTTGAGTCTTGACTACTCTTCA 59.475 45.833 3.00 0.00 43.13 3.02
1486 1489 4.525100 ACCCTTGAGTCTTGACTACTCTTC 59.475 45.833 3.00 0.00 43.13 2.87
1487 1490 4.484912 ACCCTTGAGTCTTGACTACTCTT 58.515 43.478 3.00 0.00 43.13 2.85
1488 1491 4.120946 ACCCTTGAGTCTTGACTACTCT 57.879 45.455 3.00 0.00 43.13 3.24
1489 1492 4.281182 TGAACCCTTGAGTCTTGACTACTC 59.719 45.833 3.00 0.00 43.04 2.59
1490 1493 4.223953 TGAACCCTTGAGTCTTGACTACT 58.776 43.478 3.00 0.00 0.00 2.57
1491 1494 4.039366 ACTGAACCCTTGAGTCTTGACTAC 59.961 45.833 3.00 0.00 0.00 2.73
1492 1495 4.223953 ACTGAACCCTTGAGTCTTGACTA 58.776 43.478 3.00 0.00 0.00 2.59
1493 1496 3.041946 ACTGAACCCTTGAGTCTTGACT 58.958 45.455 2.59 2.59 0.00 3.41
1494 1497 3.477210 ACTGAACCCTTGAGTCTTGAC 57.523 47.619 0.00 0.00 0.00 3.18
1495 1498 3.454447 TCAACTGAACCCTTGAGTCTTGA 59.546 43.478 0.00 0.00 0.00 3.02
1496 1499 3.561725 GTCAACTGAACCCTTGAGTCTTG 59.438 47.826 0.00 0.00 0.00 3.02
1497 1500 3.199946 TGTCAACTGAACCCTTGAGTCTT 59.800 43.478 0.00 0.00 0.00 3.01
1498 1501 2.771943 TGTCAACTGAACCCTTGAGTCT 59.228 45.455 0.00 0.00 0.00 3.24
1499 1502 3.134458 CTGTCAACTGAACCCTTGAGTC 58.866 50.000 0.00 0.00 0.00 3.36
1500 1503 2.505819 ACTGTCAACTGAACCCTTGAGT 59.494 45.455 0.00 0.00 0.00 3.41
1501 1504 3.199880 ACTGTCAACTGAACCCTTGAG 57.800 47.619 0.00 0.00 0.00 3.02
1502 1505 3.054728 TCAACTGTCAACTGAACCCTTGA 60.055 43.478 0.00 0.00 0.00 3.02
1503 1506 3.278574 TCAACTGTCAACTGAACCCTTG 58.721 45.455 0.00 0.00 0.00 3.61
1504 1507 3.644966 TCAACTGTCAACTGAACCCTT 57.355 42.857 0.00 0.00 0.00 3.95
1505 1508 3.864789 ATCAACTGTCAACTGAACCCT 57.135 42.857 0.00 0.00 0.00 4.34
1506 1509 3.882888 TCAATCAACTGTCAACTGAACCC 59.117 43.478 0.00 0.00 0.00 4.11
1507 1510 5.695851 ATCAATCAACTGTCAACTGAACC 57.304 39.130 0.00 0.00 0.00 3.62
1528 1531 3.245229 TGTTGGTGCTGGAATCAAGGTAT 60.245 43.478 0.00 0.00 0.00 2.73
1695 1698 1.337635 GCTTGCTCTGCTGACTGTACT 60.338 52.381 0.00 0.00 0.00 2.73
1760 1763 2.756400 GTCATGGAGGGTGTGCCA 59.244 61.111 0.00 0.00 38.78 4.92
1784 1787 1.665679 CCGTCAACACTGTATGCCATC 59.334 52.381 0.00 0.00 0.00 3.51
1802 1805 1.529226 ACGAGGCAGAGATATCTCCG 58.471 55.000 25.88 22.63 43.88 4.63
1969 1972 4.698575 TCAACTTTTAAATTTGCGCCCTT 58.301 34.783 4.18 0.00 0.00 3.95
2032 2035 8.918202 AGTTACTCATCAAAATGTTACTCCAA 57.082 30.769 0.00 0.00 34.32 3.53
2100 2103 3.511146 ACTGGCTTTTGTATGATTGGTGG 59.489 43.478 0.00 0.00 0.00 4.61
2101 2104 4.487948 CACTGGCTTTTGTATGATTGGTG 58.512 43.478 0.00 0.00 0.00 4.17
2102 2105 3.511146 CCACTGGCTTTTGTATGATTGGT 59.489 43.478 0.00 0.00 0.00 3.67
2120 2123 5.957771 TGGACAAATTCTCTATAGCCACT 57.042 39.130 0.00 0.00 0.00 4.00
2245 2272 0.790814 GTACTCTGAGTTTGGTGCGC 59.209 55.000 16.53 0.00 0.00 6.09


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

AutoCloner maintained by Alex Coulton.