Multiple sequence alignment - TraesCS2B01G234800

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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 TraesCS2B01G234800 chr2B 100.000 4119 0 0 1 4119 234083957 234088075 0.000000e+00 7607
1 TraesCS2B01G234800 chr2D 93.607 2456 67 32 623 3043 177093035 177095435 0.000000e+00 3583
2 TraesCS2B01G234800 chr2D 90.679 1148 38 24 3029 4119 177095455 177096590 0.000000e+00 1463
3 TraesCS2B01G234800 chr2D 92.320 638 47 2 2 637 177092363 177093000 0.000000e+00 905
4 TraesCS2B01G234800 chr2A 93.320 2410 57 37 673 3043 189600712 189603056 0.000000e+00 3463
5 TraesCS2B01G234800 chr2A 86.442 981 54 36 3029 3949 189603076 189604037 0.000000e+00 1002
6 TraesCS2B01G234800 chr2A 91.254 606 52 1 1 605 189599792 189600397 0.000000e+00 824
7 TraesCS2B01G234800 chr2A 97.500 160 3 1 3961 4119 189604194 189604353 5.250000e-69 272


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 TraesCS2B01G234800 chr2B 234083957 234088075 4118 False 7607.000000 7607 100.000 1 4119 1 chr2B.!!$F1 4118
1 TraesCS2B01G234800 chr2D 177092363 177096590 4227 False 1983.666667 3583 92.202 2 4119 3 chr2D.!!$F1 4117
2 TraesCS2B01G234800 chr2A 189599792 189604353 4561 False 1390.250000 3463 92.129 1 4119 4 chr2A.!!$F1 4118

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
268 270 0.526310 CTCGCGCATTGCAGACTCTA 60.526 55.0 8.75 0.00 46.97 2.43 F
619 622 0.537828 TTTTTAGGGGGAAACGCGCT 60.538 50.0 5.73 9.78 45.87 5.92 F
1334 1598 0.043310 GTGCTGTTCGTGTTCGTCAC 60.043 55.0 4.07 4.07 43.03 3.67 F
1502 1766 0.179137 GCCAATTGCCGGTAAGAAGC 60.179 55.0 11.60 9.12 0.00 3.86 F
2385 2662 0.111639 GACCTTGGCCACCCTGTTTA 59.888 55.0 3.88 0.00 0.00 2.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1315 1579 0.043310 GTGACGAACACGAACAGCAC 60.043 55.0 0.00 0.0 39.78 4.40 R
2300 2577 0.110486 CAGCTGGTGGTTACTTGGGT 59.890 55.0 5.57 0.0 0.00 4.51 R
2385 2662 0.182775 AAAGGCGAACAGTTGGGAGT 59.817 50.0 0.00 0.0 0.00 3.85 R
3027 3320 0.763652 ATCCACCAGCCTAGCATCTG 59.236 55.0 0.00 0.0 0.00 2.90 R
3874 4265 0.039527 GCAACCGTCGGAGCATTTTT 60.040 50.0 20.51 0.0 0.00 1.94 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
59 60 3.393800 CGAGTGTCAGGTCACTTGATTT 58.606 45.455 7.81 0.00 46.84 2.17
90 92 0.958822 GGCACGAAACATTTGACCCT 59.041 50.000 0.00 0.00 0.00 4.34
143 145 4.020485 CCGACTAAGGGGAAATCCGATTAT 60.020 45.833 0.00 0.00 36.71 1.28
146 148 5.070685 ACTAAGGGGAAATCCGATTATTGC 58.929 41.667 0.00 0.00 36.71 3.56
174 176 6.704050 TGAGTGACGACATGACAAATCTTTTA 59.296 34.615 0.00 0.00 0.00 1.52
268 270 0.526310 CTCGCGCATTGCAGACTCTA 60.526 55.000 8.75 0.00 46.97 2.43
272 274 1.464608 GCGCATTGCAGACTCTAACAA 59.535 47.619 9.69 0.00 45.45 2.83
279 281 4.098914 TGCAGACTCTAACAAATGGGTT 57.901 40.909 0.00 0.00 34.81 4.11
281 283 4.072131 GCAGACTCTAACAAATGGGTTCA 58.928 43.478 0.00 0.00 32.29 3.18
306 308 2.584791 CGTGTGCTGGAAAATTGCTAC 58.415 47.619 0.00 0.00 0.00 3.58
313 315 2.734606 CTGGAAAATTGCTACGACGACA 59.265 45.455 0.00 0.00 0.00 4.35
365 368 1.677820 CCGTTACGGCTCCTGGATTTT 60.678 52.381 11.93 0.00 41.17 1.82
400 403 4.806247 GGATGGATCTTGACTACGAACAAG 59.194 45.833 0.00 0.00 43.03 3.16
425 428 4.870426 GGATTAAGTTGACGATTGAGCTCA 59.130 41.667 13.74 13.74 0.00 4.26
496 499 2.642183 AATCTCGCCGCCTCCCTCTA 62.642 60.000 0.00 0.00 0.00 2.43
508 511 1.128809 TCCCTCTAAAACCGCCACCA 61.129 55.000 0.00 0.00 0.00 4.17
530 533 4.824166 CAGTTGCTGCATCCGCGC 62.824 66.667 1.84 0.00 42.97 6.86
559 562 9.082313 TCTCCTTCTTTTAAGATTGAAATGCTT 57.918 29.630 0.00 0.00 34.49 3.91
619 622 0.537828 TTTTTAGGGGGAAACGCGCT 60.538 50.000 5.73 9.78 45.87 5.92
647 699 7.932335 AGTTACAAGGATCTCTACTTATGTCG 58.068 38.462 0.00 0.00 0.00 4.35
655 707 7.070074 AGGATCTCTACTTATGTCGACCAAAAT 59.930 37.037 14.12 1.92 0.00 1.82
763 1013 4.433877 CAAAACGCATGGGGCCGG 62.434 66.667 14.94 0.00 40.31 6.13
787 1037 2.527100 GGAGTAAATCGTGTGGTCTCG 58.473 52.381 0.00 0.00 0.00 4.04
861 1111 3.149981 CCACCAGAAACTTTCTTCCTCC 58.850 50.000 0.92 0.00 38.11 4.30
864 1114 4.217118 CACCAGAAACTTTCTTCCTCCATG 59.783 45.833 0.92 0.00 38.11 3.66
1184 1448 1.134438 ACCTGGAGAACCCCTTCACC 61.134 60.000 0.00 0.00 37.59 4.02
1311 1575 1.076677 TCTCCAAGGTACGGGTCTTCT 59.923 52.381 0.00 0.00 0.00 2.85
1313 1577 3.094572 CTCCAAGGTACGGGTCTTCTTA 58.905 50.000 0.00 0.00 0.00 2.10
1314 1578 3.705072 CTCCAAGGTACGGGTCTTCTTAT 59.295 47.826 0.00 0.00 0.00 1.73
1315 1579 3.449737 TCCAAGGTACGGGTCTTCTTATG 59.550 47.826 0.00 0.00 0.00 1.90
1317 1581 4.181578 CAAGGTACGGGTCTTCTTATGTG 58.818 47.826 0.00 0.00 0.00 3.21
1318 1582 2.167900 AGGTACGGGTCTTCTTATGTGC 59.832 50.000 0.00 0.00 0.00 4.57
1319 1583 2.167900 GGTACGGGTCTTCTTATGTGCT 59.832 50.000 0.00 0.00 0.00 4.40
1320 1584 2.386661 ACGGGTCTTCTTATGTGCTG 57.613 50.000 0.00 0.00 0.00 4.41
1321 1585 1.623811 ACGGGTCTTCTTATGTGCTGT 59.376 47.619 0.00 0.00 0.00 4.40
1322 1586 2.038557 ACGGGTCTTCTTATGTGCTGTT 59.961 45.455 0.00 0.00 0.00 3.16
1323 1587 2.673368 CGGGTCTTCTTATGTGCTGTTC 59.327 50.000 0.00 0.00 0.00 3.18
1324 1588 2.673368 GGGTCTTCTTATGTGCTGTTCG 59.327 50.000 0.00 0.00 0.00 3.95
1325 1589 3.326747 GGTCTTCTTATGTGCTGTTCGT 58.673 45.455 0.00 0.00 0.00 3.85
1326 1590 3.123621 GGTCTTCTTATGTGCTGTTCGTG 59.876 47.826 0.00 0.00 0.00 4.35
1327 1591 3.741344 GTCTTCTTATGTGCTGTTCGTGT 59.259 43.478 0.00 0.00 0.00 4.49
1328 1592 4.211374 GTCTTCTTATGTGCTGTTCGTGTT 59.789 41.667 0.00 0.00 0.00 3.32
1329 1593 4.447724 TCTTCTTATGTGCTGTTCGTGTTC 59.552 41.667 0.00 0.00 0.00 3.18
1330 1594 2.729360 TCTTATGTGCTGTTCGTGTTCG 59.271 45.455 0.00 0.00 38.55 3.95
1331 1595 2.143008 TATGTGCTGTTCGTGTTCGT 57.857 45.000 0.00 0.00 38.33 3.85
1332 1596 0.859232 ATGTGCTGTTCGTGTTCGTC 59.141 50.000 0.00 0.00 38.33 4.20
1333 1597 0.458716 TGTGCTGTTCGTGTTCGTCA 60.459 50.000 0.00 0.00 38.33 4.35
1334 1598 0.043310 GTGCTGTTCGTGTTCGTCAC 60.043 55.000 4.07 4.07 43.03 3.67
1359 1623 2.431942 TTTCTCGCGAGCGGTTCC 60.432 61.111 30.97 0.00 40.25 3.62
1424 1688 4.790962 TACGACGGGGAGCTCGCT 62.791 66.667 27.60 11.35 32.98 4.93
1454 1718 4.874977 GTGGCCTACCTCGCGCTC 62.875 72.222 5.56 0.00 36.63 5.03
1502 1766 0.179137 GCCAATTGCCGGTAAGAAGC 60.179 55.000 11.60 9.12 0.00 3.86
1557 1821 5.812642 ACAATATTTCGGTCTGATCTGACAC 59.187 40.000 27.61 18.14 38.61 3.67
1700 1966 5.888161 CCAAGTAGGATGAGTATTGCCTTTT 59.112 40.000 0.00 0.00 41.22 2.27
2266 2542 2.152016 GTTCTCCACTGCCCACTAAAC 58.848 52.381 0.00 0.00 0.00 2.01
2267 2543 0.690762 TCTCCACTGCCCACTAAACC 59.309 55.000 0.00 0.00 0.00 3.27
2300 2577 9.967346 CTTAATTCTCCACTACTAATCGAATCA 57.033 33.333 0.00 0.00 0.00 2.57
2316 2593 2.879103 ATCACCCAAGTAACCACCAG 57.121 50.000 0.00 0.00 0.00 4.00
2378 2655 1.904990 GAGAGGAGACCTTGGCCACC 61.905 65.000 3.88 1.15 31.76 4.61
2379 2656 2.936032 AGGAGACCTTGGCCACCC 60.936 66.667 3.88 0.00 0.00 4.61
2380 2657 2.936032 GGAGACCTTGGCCACCCT 60.936 66.667 3.88 0.00 0.00 4.34
2381 2658 2.352805 GAGACCTTGGCCACCCTG 59.647 66.667 3.88 0.00 0.00 4.45
2382 2659 2.450502 AGACCTTGGCCACCCTGT 60.451 61.111 3.88 0.00 0.00 4.00
2383 2660 2.069165 GAGACCTTGGCCACCCTGTT 62.069 60.000 3.88 0.00 0.00 3.16
2384 2661 1.152546 GACCTTGGCCACCCTGTTT 60.153 57.895 3.88 0.00 0.00 2.83
2385 2662 0.111639 GACCTTGGCCACCCTGTTTA 59.888 55.000 3.88 0.00 0.00 2.01
2386 2663 0.178973 ACCTTGGCCACCCTGTTTAC 60.179 55.000 3.88 0.00 0.00 2.01
2387 2664 0.112412 CCTTGGCCACCCTGTTTACT 59.888 55.000 3.88 0.00 0.00 2.24
2831 3114 3.826729 GGAATTTACTCTTGCCCTGTTGT 59.173 43.478 0.00 0.00 0.00 3.32
2832 3115 4.280929 GGAATTTACTCTTGCCCTGTTGTT 59.719 41.667 0.00 0.00 0.00 2.83
2833 3116 5.453567 AATTTACTCTTGCCCTGTTGTTC 57.546 39.130 0.00 0.00 0.00 3.18
2834 3117 3.857157 TTACTCTTGCCCTGTTGTTCT 57.143 42.857 0.00 0.00 0.00 3.01
2835 3118 2.736670 ACTCTTGCCCTGTTGTTCTT 57.263 45.000 0.00 0.00 0.00 2.52
2836 3119 2.576615 ACTCTTGCCCTGTTGTTCTTC 58.423 47.619 0.00 0.00 0.00 2.87
2837 3120 2.173569 ACTCTTGCCCTGTTGTTCTTCT 59.826 45.455 0.00 0.00 0.00 2.85
2841 3124 2.306847 TGCCCTGTTGTTCTTCTTTCC 58.693 47.619 0.00 0.00 0.00 3.13
2990 3277 4.469586 TCCCTTTGGCTTTTCTTTTGTTCT 59.530 37.500 0.00 0.00 0.00 3.01
2993 3280 6.183360 CCCTTTGGCTTTTCTTTTGTTCTCTA 60.183 38.462 0.00 0.00 0.00 2.43
3027 3320 1.268640 GGCAGTCGTAGTAGTAGCAGC 60.269 57.143 0.00 0.00 0.00 5.25
3050 3374 0.253044 TGCTAGGCTGGTGGATGAAC 59.747 55.000 0.00 0.00 0.00 3.18
3137 3461 5.016051 TGTGCTCATTACTGATCTTCTCC 57.984 43.478 0.00 0.00 0.00 3.71
3174 3498 9.787532 TTTCTGTTTTGAAAAGTCTTCATGTAG 57.212 29.630 0.00 0.00 33.59 2.74
3175 3499 8.506168 TCTGTTTTGAAAAGTCTTCATGTAGT 57.494 30.769 0.00 0.00 0.00 2.73
3176 3500 9.607988 TCTGTTTTGAAAAGTCTTCATGTAGTA 57.392 29.630 0.00 0.00 0.00 1.82
3184 3508 5.814764 AGTCTTCATGTAGTAGTACGTGG 57.185 43.478 23.64 12.70 43.73 4.94
3195 3519 8.518430 TGTAGTAGTACGTGGGATTTTGTATA 57.482 34.615 0.00 0.00 30.95 1.47
3230 3554 3.748568 GTGTTCTGGAAACATCTGAGGTC 59.251 47.826 0.00 0.00 41.51 3.85
3287 3643 7.982919 CCTAGCAGTACGTATGAGTAGATAGAT 59.017 40.741 0.00 0.00 0.00 1.98
3412 3768 1.228894 CCCTCCGCTAGATGGGCTA 60.229 63.158 0.00 0.00 32.49 3.93
3426 3782 2.342279 GCTACACGTGGCCACAGA 59.658 61.111 34.16 15.28 0.00 3.41
3427 3783 1.738099 GCTACACGTGGCCACAGAG 60.738 63.158 34.16 25.02 0.00 3.35
3507 3863 2.717519 CGTCCATGCGTACGTACTATTG 59.282 50.000 22.55 15.48 34.48 1.90
3622 3989 1.741401 TGGATGCAAACGGCTCTCG 60.741 57.895 0.00 0.00 45.15 4.04
3797 4188 2.879103 TTCCAGGGCGAAAAAGAGAT 57.121 45.000 0.00 0.00 0.00 2.75
3851 4242 2.432456 TTGCTGCGACGCTGGTAG 60.432 61.111 25.17 13.81 0.00 3.18
3852 4243 3.220999 TTGCTGCGACGCTGGTAGT 62.221 57.895 25.17 0.00 0.00 2.73
3853 4244 1.868987 TTGCTGCGACGCTGGTAGTA 61.869 55.000 25.17 9.90 0.00 1.82
3854 4245 1.153901 GCTGCGACGCTGGTAGTAA 60.154 57.895 25.17 0.50 0.00 2.24
3855 4246 1.411493 GCTGCGACGCTGGTAGTAAC 61.411 60.000 25.17 5.79 0.00 2.50
3895 4286 0.036765 AAATGCTCCGACGGTTGCTA 60.037 50.000 25.64 16.75 0.00 3.49
3956 4361 1.077501 CATGGCCGGGTCAGTCAAT 60.078 57.895 7.67 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 4.890088 ACACTCGGCACAAATAAGTTCTA 58.110 39.130 0.00 0.00 0.00 2.10
32 33 1.069090 GACCTGACACTCGGCACAA 59.931 57.895 0.00 0.00 0.00 3.33
59 60 4.245660 TGTTTCGTGCCAATTCACAAAAA 58.754 34.783 0.00 0.00 36.80 1.94
268 270 1.691434 ACGCCAATGAACCCATTTGTT 59.309 42.857 0.00 0.00 40.81 2.83
272 274 0.602562 CACACGCCAATGAACCCATT 59.397 50.000 0.00 0.00 43.37 3.16
279 281 0.821301 TTTCCAGCACACGCCAATGA 60.821 50.000 0.00 0.00 39.83 2.57
281 283 0.968405 ATTTTCCAGCACACGCCAAT 59.032 45.000 0.00 0.00 39.83 3.16
306 308 1.138047 GCGATAACCCAGTGTCGTCG 61.138 60.000 2.58 0.00 37.03 5.12
313 315 0.896923 TAACCACGCGATAACCCAGT 59.103 50.000 15.93 0.00 0.00 4.00
359 362 4.202182 CCATCCATCCATGTGTCAAAATCC 60.202 45.833 0.00 0.00 0.00 3.01
365 368 3.050835 AGATCCATCCATCCATGTGTCA 58.949 45.455 0.00 0.00 0.00 3.58
400 403 4.631813 AGCTCAATCGTCAACTTAATCCAC 59.368 41.667 0.00 0.00 0.00 4.02
496 499 1.526575 CTGCTCATGGTGGCGGTTTT 61.527 55.000 0.00 0.00 0.00 2.43
530 533 9.713740 CATTTCAATCTTAAAAGAAGGAGATCG 57.286 33.333 0.00 0.00 38.77 3.69
559 562 7.830739 TCTATTGCGAGATGATGCTAATTCTA 58.169 34.615 0.00 0.00 0.00 2.10
614 617 4.083217 AGAGATCCTTGTAACTATAGCGCG 60.083 45.833 0.00 0.00 0.00 6.86
655 707 4.739587 TGTACAACACTAGTCACCACAA 57.260 40.909 0.00 0.00 0.00 3.33
664 716 3.322369 TGACGCCATTGTACAACACTAG 58.678 45.455 11.22 4.56 0.00 2.57
779 1029 2.048127 GTGACCCTGCGAGACCAC 60.048 66.667 0.00 0.00 0.00 4.16
787 1037 4.030452 GCTTGTGCGTGACCCTGC 62.030 66.667 0.00 0.00 0.00 4.85
822 1072 2.436646 CGACCCACCTGTCATGGC 60.437 66.667 0.00 0.00 35.74 4.40
861 1111 4.928140 GGGGGAGGGCATGGCATG 62.928 72.222 22.99 22.99 0.00 4.06
916 1180 3.141272 AGGTGTGGATTTGGGGTTCTTTA 59.859 43.478 0.00 0.00 0.00 1.85
1311 1575 2.473609 GACGAACACGAACAGCACATAA 59.526 45.455 0.00 0.00 0.00 1.90
1313 1577 0.859232 GACGAACACGAACAGCACAT 59.141 50.000 0.00 0.00 0.00 3.21
1314 1578 0.458716 TGACGAACACGAACAGCACA 60.459 50.000 0.00 0.00 0.00 4.57
1315 1579 0.043310 GTGACGAACACGAACAGCAC 60.043 55.000 0.00 0.00 39.78 4.40
1324 1588 0.531311 AAGAACCCCGTGACGAACAC 60.531 55.000 6.54 0.00 45.11 3.32
1325 1589 0.178533 AAAGAACCCCGTGACGAACA 59.821 50.000 6.54 0.00 0.00 3.18
1326 1590 0.863799 GAAAGAACCCCGTGACGAAC 59.136 55.000 6.54 0.00 0.00 3.95
1327 1591 0.754472 AGAAAGAACCCCGTGACGAA 59.246 50.000 6.54 0.00 0.00 3.85
1328 1592 0.316204 GAGAAAGAACCCCGTGACGA 59.684 55.000 6.54 0.00 0.00 4.20
1329 1593 1.007336 CGAGAAAGAACCCCGTGACG 61.007 60.000 0.00 0.00 0.00 4.35
1330 1594 1.289800 GCGAGAAAGAACCCCGTGAC 61.290 60.000 0.00 0.00 0.00 3.67
1331 1595 1.005394 GCGAGAAAGAACCCCGTGA 60.005 57.895 0.00 0.00 0.00 4.35
1332 1596 2.380410 CGCGAGAAAGAACCCCGTG 61.380 63.158 0.00 0.00 0.00 4.94
1333 1597 2.048503 CGCGAGAAAGAACCCCGT 60.049 61.111 0.00 0.00 0.00 5.28
1334 1598 1.805945 CTCGCGAGAAAGAACCCCG 60.806 63.158 32.06 0.00 41.32 5.73
1359 1623 1.492599 GGATCAGAAAGGGAAGGGGAG 59.507 57.143 0.00 0.00 0.00 4.30
1398 1662 3.133464 CCCGTCGTACCGCACCTA 61.133 66.667 0.00 0.00 0.00 3.08
1683 1947 6.030228 CGAAAAGAAAAGGCAATACTCATCC 58.970 40.000 0.00 0.00 0.00 3.51
1689 1953 4.149922 GCAACCGAAAAGAAAAGGCAATAC 59.850 41.667 0.00 0.00 0.00 1.89
1700 1966 1.497991 CGACAGAGCAACCGAAAAGA 58.502 50.000 0.00 0.00 0.00 2.52
1993 2269 3.836481 ATTGGCATGCCGGGGGAT 61.836 61.111 30.87 16.23 39.42 3.85
2300 2577 0.110486 CAGCTGGTGGTTACTTGGGT 59.890 55.000 5.57 0.00 0.00 4.51
2378 2655 2.806244 CGAACAGTTGGGAGTAAACAGG 59.194 50.000 0.00 0.00 0.00 4.00
2379 2656 2.223377 GCGAACAGTTGGGAGTAAACAG 59.777 50.000 0.00 0.00 0.00 3.16
2380 2657 2.215196 GCGAACAGTTGGGAGTAAACA 58.785 47.619 0.00 0.00 0.00 2.83
2381 2658 1.534163 GGCGAACAGTTGGGAGTAAAC 59.466 52.381 0.00 0.00 0.00 2.01
2382 2659 1.418637 AGGCGAACAGTTGGGAGTAAA 59.581 47.619 0.00 0.00 0.00 2.01
2383 2660 1.053424 AGGCGAACAGTTGGGAGTAA 58.947 50.000 0.00 0.00 0.00 2.24
2384 2661 1.053424 AAGGCGAACAGTTGGGAGTA 58.947 50.000 0.00 0.00 0.00 2.59
2385 2662 0.182775 AAAGGCGAACAGTTGGGAGT 59.817 50.000 0.00 0.00 0.00 3.85
2386 2663 1.266989 GAAAAGGCGAACAGTTGGGAG 59.733 52.381 0.00 0.00 0.00 4.30
2387 2664 1.314730 GAAAAGGCGAACAGTTGGGA 58.685 50.000 0.00 0.00 0.00 4.37
2458 2735 6.310197 CGAGAAAACAAGAAAGCTTATCAGG 58.690 40.000 0.00 0.00 31.81 3.86
2964 3250 4.941263 ACAAAAGAAAAGCCAAAGGGAAAC 59.059 37.500 0.00 0.00 35.59 2.78
2968 3255 4.769688 AGAACAAAAGAAAAGCCAAAGGG 58.230 39.130 0.00 0.00 37.18 3.95
2971 3258 7.339466 ACTCTAGAGAACAAAAGAAAAGCCAAA 59.661 33.333 26.57 0.00 0.00 3.28
2990 3277 3.002791 CTGCCGCAAAAATCACTCTAGA 58.997 45.455 0.00 0.00 0.00 2.43
2993 3280 1.537202 GACTGCCGCAAAAATCACTCT 59.463 47.619 0.00 0.00 0.00 3.24
3027 3320 0.763652 ATCCACCAGCCTAGCATCTG 59.236 55.000 0.00 0.00 0.00 2.90
3050 3374 4.103153 ACCACTACTCCACATCCCAATATG 59.897 45.833 0.00 0.00 0.00 1.78
3089 3413 4.935352 TTTGGTCTTATTTTGCAGCACT 57.065 36.364 0.00 0.00 0.00 4.40
3137 3461 4.908736 TCAAAACAGAAACGAGCAGAAAG 58.091 39.130 0.00 0.00 0.00 2.62
3174 3498 8.876275 TCAATATACAAAATCCCACGTACTAC 57.124 34.615 0.00 0.00 0.00 2.73
3175 3499 9.537192 CTTCAATATACAAAATCCCACGTACTA 57.463 33.333 0.00 0.00 0.00 1.82
3176 3500 8.044908 ACTTCAATATACAAAATCCCACGTACT 58.955 33.333 0.00 0.00 0.00 2.73
3184 3508 7.489113 CACTGGCAACTTCAATATACAAAATCC 59.511 37.037 0.00 0.00 37.61 3.01
3195 3519 2.624838 CCAGAACACTGGCAACTTCAAT 59.375 45.455 3.31 0.00 43.51 2.57
3230 3554 2.534349 CGGTACACGGAGATGAATTTCG 59.466 50.000 0.00 0.00 39.42 3.46
3287 3643 7.728532 ACCCTTGGCTTATTTTCTTTCTTTCTA 59.271 33.333 0.00 0.00 0.00 2.10
3351 3707 3.715097 AGCTGCTGCCAGTCTCCC 61.715 66.667 12.44 0.00 41.26 4.30
3412 3768 3.941188 CCCTCTGTGGCCACGTGT 61.941 66.667 30.07 0.00 0.00 4.49
3507 3863 3.002553 GCACTCTTCGTAGTAGTAGGAGC 59.997 52.174 0.62 0.00 0.00 4.70
3622 3989 0.742281 ATGCTCGTGCCTGATGTCAC 60.742 55.000 7.05 0.00 38.71 3.67
3686 4060 4.029809 GGGCCCACACGTAAGCCT 62.030 66.667 19.95 0.00 45.07 4.58
3687 4061 3.853698 TTGGGCCCACACGTAAGCC 62.854 63.158 28.70 8.39 44.99 4.35
3694 4068 2.973082 GAGCAATTGGGCCCACAC 59.027 61.111 28.70 14.52 0.00 3.82
3722 4096 0.750546 GACCCGGCAATTACCTTCCC 60.751 60.000 0.00 0.00 0.00 3.97
3874 4265 0.039527 GCAACCGTCGGAGCATTTTT 60.040 50.000 20.51 0.00 0.00 1.94
3881 4272 0.319211 TGTTGTAGCAACCGTCGGAG 60.319 55.000 20.51 11.19 0.00 4.63
3895 4286 3.627577 GTCACCTGTGAGAAACATGTTGT 59.372 43.478 12.82 2.24 40.75 3.32
3937 4334 1.561769 ATTGACTGACCCGGCCATGA 61.562 55.000 2.24 0.00 0.00 3.07


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

AutoCloner maintained by Alex Coulton.