Multiple sequence alignment - TraesCS5A01G049000

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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 TraesCS5A01G049000 chr5A 100.000 3591 0 0 1 3591 44979187 44982777 0.000000e+00 6632.0
1 TraesCS5A01G049000 chr5B 91.492 2868 172 33 423 3266 59160666 59163485 0.000000e+00 3879.0
2 TraesCS5A01G049000 chr5B 89.362 235 13 10 1 228 59160270 59160499 5.870000e-73 285.0
3 TraesCS5A01G049000 chr5B 96.552 58 1 1 3535 3591 59163982 59164039 1.060000e-15 95.3
4 TraesCS5A01G049000 chr5B 81.633 98 12 5 1966 2058 59161762 59161858 3.840000e-10 76.8
5 TraesCS5A01G049000 chr5D 94.195 1757 81 11 1849 3591 56451744 56453493 0.000000e+00 2660.0
6 TraesCS5A01G049000 chr5D 90.479 1544 97 28 335 1851 56450064 56451584 0.000000e+00 1991.0
7 TraesCS5A01G049000 chr5D 92.609 230 10 5 2 228 56449677 56449902 1.240000e-84 324.0
8 TraesCS5A01G049000 chr5D 83.283 329 39 7 1648 1972 56451967 56452283 4.540000e-74 289.0
9 TraesCS5A01G049000 chr2A 97.087 103 1 2 426 528 115710048 115710148 4.770000e-39 172.0
10 TraesCS5A01G049000 chr2A 97.030 101 3 0 432 532 42792391 42792491 1.710000e-38 171.0
11 TraesCS5A01G049000 chr1A 92.373 118 5 4 414 530 554280644 554280530 7.980000e-37 165.0
12 TraesCS5A01G049000 chr1A 92.373 118 5 4 414 530 554293049 554293163 7.980000e-37 165.0
13 TraesCS5A01G049000 chr1A 92.982 114 5 3 408 521 554275632 554275522 2.870000e-36 163.0
14 TraesCS5A01G049000 chr1B 90.323 124 7 5 434 555 456184612 456184492 1.330000e-34 158.0
15 TraesCS5A01G049000 chr6B 89.600 125 9 4 416 539 693317642 693317521 4.800000e-34 156.0


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 TraesCS5A01G049000 chr5A 44979187 44982777 3590 False 6632.000 6632 100.00000 1 3591 1 chr5A.!!$F1 3590
1 TraesCS5A01G049000 chr5B 59160270 59164039 3769 False 1084.025 3879 89.75975 1 3591 4 chr5B.!!$F1 3590
2 TraesCS5A01G049000 chr5D 56449677 56453493 3816 False 1316.000 2660 90.14150 2 3591 4 chr5D.!!$F1 3589

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
702 781 0.616395 TTCACGCTCCCCCTGTCATA 60.616 55.0 0.0 0.0 0.0 2.15 F
2159 2429 0.251916 TTGGAGCCTTATGACGGTGG 59.748 55.0 0.0 0.0 0.0 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2494 2764 0.168348 CGACGAATGAGGACACGAGT 59.832 55.000 0.0 0.0 0.0 4.18 R
3105 3380 1.001974 CATCAACCGACCAACTCCTGA 59.998 52.381 0.0 0.0 0.0 3.86 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 65 1.516423 GCCAAGGGACCGTAGAGAC 59.484 63.158 0.00 0.00 0.00 3.36
105 108 4.756642 TCAAGTCCATGTTTGCTCTGTAAG 59.243 41.667 0.00 0.00 0.00 2.34
135 140 3.957497 AGGCTGTGGTGTTGAAATGTTAA 59.043 39.130 0.00 0.00 0.00 2.01
163 168 9.567776 TTTCTGAATAATGTTCCTCTTACACAA 57.432 29.630 0.00 0.00 0.00 3.33
164 169 8.547967 TCTGAATAATGTTCCTCTTACACAAC 57.452 34.615 0.00 0.00 0.00 3.32
188 193 5.177511 CGCCATATATGTTGTGGTCAGTTAG 59.822 44.000 11.73 0.00 35.44 2.34
207 215 9.710900 TCAGTTAGTAAGGAATGTATATGCATG 57.289 33.333 10.16 0.00 0.00 4.06
224 232 6.961359 ATGCATGATCACAAAAGTGAAATG 57.039 33.333 0.00 14.98 36.88 2.32
228 236 8.089597 TGCATGATCACAAAAGTGAAATGTTAT 58.910 29.630 18.01 0.00 36.88 1.89
229 237 8.377681 GCATGATCACAAAAGTGAAATGTTATG 58.622 33.333 18.01 9.93 36.88 1.90
230 238 9.414295 CATGATCACAAAAGTGAAATGTTATGT 57.586 29.630 0.00 0.00 36.88 2.29
232 240 9.814899 TGATCACAAAAGTGAAATGTTATGTTT 57.185 25.926 2.13 0.00 36.88 2.83
264 295 9.944663 TCAAACTTATTATTATCGCAAATGGTC 57.055 29.630 0.00 0.00 0.00 4.02
274 305 4.377839 TCGCAAATGGTCAACTGAAAAA 57.622 36.364 0.00 0.00 0.00 1.94
276 307 4.981674 TCGCAAATGGTCAACTGAAAAATC 59.018 37.500 0.00 0.00 0.00 2.17
278 309 4.981674 GCAAATGGTCAACTGAAAAATCGA 59.018 37.500 0.00 0.00 0.00 3.59
279 310 5.107875 GCAAATGGTCAACTGAAAAATCGAC 60.108 40.000 0.00 0.00 0.00 4.20
280 311 4.766404 ATGGTCAACTGAAAAATCGACC 57.234 40.909 0.00 0.00 42.64 4.79
281 312 3.815809 TGGTCAACTGAAAAATCGACCT 58.184 40.909 7.79 0.00 42.74 3.85
282 313 3.813166 TGGTCAACTGAAAAATCGACCTC 59.187 43.478 7.79 0.00 42.74 3.85
283 314 3.813166 GGTCAACTGAAAAATCGACCTCA 59.187 43.478 0.00 0.00 39.84 3.86
299 330 4.320202 CGACCTCAATGTTTGGGTACTTTG 60.320 45.833 0.00 0.00 35.34 2.77
350 420 8.680863 TAGGAACTCAGACGAAATGGAACACC 62.681 46.154 0.00 0.00 41.20 4.16
410 485 7.178274 ACATATTTTGATGTTAGCACCAAGGAA 59.822 33.333 0.00 0.00 36.64 3.36
413 488 7.531857 TTTTGATGTTAGCACCAAGGAAATA 57.468 32.000 0.00 0.00 0.00 1.40
414 489 7.531857 TTTGATGTTAGCACCAAGGAAATAA 57.468 32.000 0.00 0.00 0.00 1.40
535 610 3.976704 CCCCATTGGTGTTCTGCTA 57.023 52.632 1.20 0.00 0.00 3.49
536 611 1.463674 CCCCATTGGTGTTCTGCTAC 58.536 55.000 1.20 0.00 0.00 3.58
546 621 5.133941 TGGTGTTCTGCTACCAATGTAAAA 58.866 37.500 0.00 0.00 43.60 1.52
643 721 7.675195 TGTTAGATGTACCTAACCAGGAAACTA 59.325 37.037 15.32 0.00 45.91 2.24
655 734 3.565890 CCAGGAAACTAGTACCTCTCCCA 60.566 52.174 15.77 0.00 40.21 4.37
693 772 2.266055 CCCTCACTTCACGCTCCC 59.734 66.667 0.00 0.00 0.00 4.30
702 781 0.616395 TTCACGCTCCCCCTGTCATA 60.616 55.000 0.00 0.00 0.00 2.15
706 785 1.043116 CGCTCCCCCTGTCATACTCA 61.043 60.000 0.00 0.00 0.00 3.41
756 836 1.967319 TCTGTGGCACTTCACTTTCC 58.033 50.000 19.83 0.00 38.40 3.13
826 915 3.688185 TGACGAGCTTACTCACGAAGTAT 59.312 43.478 0.00 0.00 41.61 2.12
827 916 4.872124 TGACGAGCTTACTCACGAAGTATA 59.128 41.667 0.00 0.00 41.61 1.47
835 924 8.086522 AGCTTACTCACGAAGTATAGAAACAAA 58.913 33.333 0.00 0.00 41.61 2.83
968 1058 1.221840 CCAACTCCGATCACCCCAG 59.778 63.158 0.00 0.00 0.00 4.45
975 1065 1.381872 CGATCACCCCAGACCTCCT 60.382 63.158 0.00 0.00 0.00 3.69
1035 1125 1.305549 CAAGAAGCCCCCTGCCATT 60.306 57.895 0.00 0.00 42.71 3.16
1249 1339 1.373435 CCTGCGTTTGTGTAGGGGA 59.627 57.895 0.00 0.00 38.01 4.81
1288 1380 0.453390 GCTTGCTGCCATTACCTGTC 59.547 55.000 0.00 0.00 35.15 3.51
1304 1396 3.684788 ACCTGTCGAATTTACTGACATGC 59.315 43.478 0.00 0.00 41.39 4.06
1340 1432 0.591170 AACCGTCAATTTCGCAGGTG 59.409 50.000 0.00 0.00 31.63 4.00
1394 1486 1.103398 AACTTGGTGGTGCTGCTCAC 61.103 55.000 14.91 14.91 44.90 3.51
1465 1557 7.797121 AGGATGGACATGGTAATTTCTTTTT 57.203 32.000 0.00 0.00 0.00 1.94
1553 1646 2.294512 CTCAAAGAAAACCTCACCCAGC 59.705 50.000 0.00 0.00 0.00 4.85
1558 1651 2.152016 GAAAACCTCACCCAGCAGTAC 58.848 52.381 0.00 0.00 0.00 2.73
1584 1677 8.818141 TTTCACACTTTCATCAGAGTAAGTAG 57.182 34.615 0.00 0.00 30.19 2.57
1586 1679 7.594714 TCACACTTTCATCAGAGTAAGTAGAC 58.405 38.462 0.00 0.00 30.19 2.59
1589 1682 8.643324 ACACTTTCATCAGAGTAAGTAGACTTT 58.357 33.333 0.00 0.00 37.40 2.66
1595 1688 8.244802 TCATCAGAGTAAGTAGACTTTAACTGC 58.755 37.037 0.00 0.00 37.40 4.40
1600 1693 8.108364 AGAGTAAGTAGACTTTAACTGCTCCTA 58.892 37.037 0.00 0.00 37.40 2.94
1665 1758 5.486526 AGAGAAGCAACCAACTCAATCTAG 58.513 41.667 0.00 0.00 32.59 2.43
1895 2158 2.622942 TGGCAAATCTCAAACCAGTGTC 59.377 45.455 0.00 0.00 0.00 3.67
1927 2191 6.373779 GGCAACACATGATATATTTTCCTCG 58.626 40.000 0.00 0.00 0.00 4.63
1928 2192 6.373779 GCAACACATGATATATTTTCCTCGG 58.626 40.000 0.00 0.00 0.00 4.63
1998 2268 0.443869 CACAAAACCTCGCTCATCCG 59.556 55.000 0.00 0.00 0.00 4.18
2082 2352 6.034161 TGGAGTAACCAACTTAGTCTAAGC 57.966 41.667 17.90 2.05 46.75 3.09
2086 2356 5.932883 AGTAACCAACTTAGTCTAAGCAAGC 59.067 40.000 17.90 4.41 39.39 4.01
2159 2429 0.251916 TTGGAGCCTTATGACGGTGG 59.748 55.000 0.00 0.00 0.00 4.61
2317 2587 1.942657 CCAGTATCAATGGACGGCAAG 59.057 52.381 0.00 0.00 40.51 4.01
2494 2764 1.216977 CAACCGTGGAGGCGTATCA 59.783 57.895 0.00 0.00 46.52 2.15
2506 2776 0.450583 GCGTATCACTCGTGTCCTCA 59.549 55.000 0.00 0.00 0.00 3.86
2615 2885 2.595750 AGTACCTCAGCTCAGACAGT 57.404 50.000 0.00 0.00 0.00 3.55
2616 2886 2.442413 AGTACCTCAGCTCAGACAGTC 58.558 52.381 0.00 0.00 0.00 3.51
2672 2947 2.158769 TGTGAAGTGATGTGAGCCAGTT 60.159 45.455 0.00 0.00 0.00 3.16
2825 3100 3.495276 GGGGCTTTAACTAGATCAGCTCC 60.495 52.174 7.13 7.13 43.85 4.70
2828 3103 5.070580 GGGCTTTAACTAGATCAGCTCCTAA 59.929 44.000 0.00 0.00 0.00 2.69
2842 3117 9.988815 GATCAGCTCCTAAATTAGATCAAGTTA 57.011 33.333 0.83 0.00 32.74 2.24
2935 3210 6.704493 GCATTTGCTCAATTGGATGATACATT 59.296 34.615 5.42 0.00 38.21 2.71
2947 3222 4.376413 GGATGATACATTGCATCGTTCGAC 60.376 45.833 0.00 0.00 41.32 4.20
3028 3303 8.161699 TGGAACTCTTGTTTTATTACCTGAAC 57.838 34.615 0.00 0.00 36.39 3.18
3082 3357 0.036732 TCCAGCACCAGCCTTAGTTG 59.963 55.000 0.00 0.00 43.56 3.16
3094 3369 5.245531 CAGCCTTAGTTGTGGACTTAATGA 58.754 41.667 0.00 0.00 39.86 2.57
3105 3380 6.825610 TGTGGACTTAATGAGGCAAAAATTT 58.174 32.000 0.00 0.00 33.80 1.82
3118 3393 3.735746 GCAAAAATTTCAGGAGTTGGTCG 59.264 43.478 0.00 0.00 0.00 4.79
3156 3431 1.022735 GAGAAGGAGCACATGCATGG 58.977 55.000 29.41 19.00 45.16 3.66
3157 3432 0.330604 AGAAGGAGCACATGCATGGT 59.669 50.000 29.41 11.89 45.16 3.55
3253 3528 7.941238 AGCACATCAGCCTAACAATCTATTATT 59.059 33.333 0.00 0.00 34.23 1.40
3280 3555 5.003804 ACAACCTAGATGTGTTCATTGTCC 58.996 41.667 0.00 0.00 34.06 4.02
3286 3561 2.900716 TGTGTTCATTGTCCGACTGA 57.099 45.000 0.00 0.00 0.00 3.41
3288 3563 1.798813 GTGTTCATTGTCCGACTGACC 59.201 52.381 0.00 0.00 43.78 4.02
3296 3571 1.144276 TCCGACTGACCGTTTTGCA 59.856 52.632 0.00 0.00 0.00 4.08
3355 3726 3.430333 AAAAACTTGTGCTTGGGTACG 57.570 42.857 0.00 0.00 0.00 3.67
3358 3729 2.561478 ACTTGTGCTTGGGTACGATT 57.439 45.000 0.00 0.00 0.00 3.34
3529 3907 3.379372 GCTGCTGCCTAGATTCATTCAAA 59.621 43.478 3.85 0.00 0.00 2.69
3556 4120 3.429410 GCTTGTCCTTTGTTTCTGCACTT 60.429 43.478 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 5.068987 TCAGGTACGGTGTATAAATACCCAC 59.931 44.000 0.00 0.00 36.71 4.61
62 65 5.164606 TGATCATGAATGATTGCACTTCG 57.835 39.130 0.00 0.00 46.84 3.79
63 66 6.561614 ACTTGATCATGAATGATTGCACTTC 58.438 36.000 15.03 0.00 46.84 3.01
105 108 0.179018 ACACCACAGCCTGTCCTTTC 60.179 55.000 0.00 0.00 0.00 2.62
163 168 3.118408 ACTGACCACAACATATATGGCGT 60.118 43.478 16.96 10.07 36.96 5.68
164 169 3.466836 ACTGACCACAACATATATGGCG 58.533 45.455 16.96 9.46 36.96 5.69
188 193 8.552083 TGTGATCATGCATATACATTCCTTAC 57.448 34.615 0.00 0.00 0.00 2.34
239 247 9.729023 TGACCATTTGCGATAATAATAAGTTTG 57.271 29.630 0.00 0.00 0.00 2.93
241 249 9.730420 GTTGACCATTTGCGATAATAATAAGTT 57.270 29.630 0.00 0.00 0.00 2.66
242 250 9.120538 AGTTGACCATTTGCGATAATAATAAGT 57.879 29.630 0.00 0.00 0.00 2.24
243 251 9.385902 CAGTTGACCATTTGCGATAATAATAAG 57.614 33.333 0.00 0.00 0.00 1.73
246 277 7.566760 TCAGTTGACCATTTGCGATAATAAT 57.433 32.000 0.00 0.00 0.00 1.28
260 291 3.813166 GAGGTCGATTTTTCAGTTGACCA 59.187 43.478 11.36 0.00 46.86 4.02
261 292 3.813166 TGAGGTCGATTTTTCAGTTGACC 59.187 43.478 1.03 1.03 45.46 4.02
264 295 5.762045 ACATTGAGGTCGATTTTTCAGTTG 58.238 37.500 0.00 0.00 0.00 3.16
274 305 2.879103 ACCCAAACATTGAGGTCGAT 57.121 45.000 0.00 0.00 31.35 3.59
276 307 3.053831 AGTACCCAAACATTGAGGTCG 57.946 47.619 6.54 0.00 36.23 4.79
278 309 3.895041 CCAAAGTACCCAAACATTGAGGT 59.105 43.478 7.89 7.89 37.74 3.85
279 310 4.022329 GTCCAAAGTACCCAAACATTGAGG 60.022 45.833 0.00 0.00 31.39 3.86
280 311 4.022329 GGTCCAAAGTACCCAAACATTGAG 60.022 45.833 0.00 0.00 31.39 3.02
281 312 3.892588 GGTCCAAAGTACCCAAACATTGA 59.107 43.478 0.00 0.00 31.39 2.57
282 313 3.639094 TGGTCCAAAGTACCCAAACATTG 59.361 43.478 0.00 0.00 36.06 2.82
283 314 3.917300 TGGTCCAAAGTACCCAAACATT 58.083 40.909 0.00 0.00 36.06 2.71
381 451 9.206870 CTTGGTGCTAACATCAAAATATGTTTT 57.793 29.630 7.46 0.00 46.07 2.43
383 453 7.178274 TCCTTGGTGCTAACATCAAAATATGTT 59.822 33.333 7.32 7.32 46.07 2.71
384 454 6.663093 TCCTTGGTGCTAACATCAAAATATGT 59.337 34.615 0.00 0.00 46.07 2.29
385 455 7.099266 TCCTTGGTGCTAACATCAAAATATG 57.901 36.000 0.00 0.00 46.07 1.78
386 456 7.716799 TTCCTTGGTGCTAACATCAAAATAT 57.283 32.000 0.00 0.00 46.07 1.28
387 457 7.531857 TTTCCTTGGTGCTAACATCAAAATA 57.468 32.000 0.00 0.00 46.07 1.40
388 458 6.418057 TTTCCTTGGTGCTAACATCAAAAT 57.582 33.333 0.00 0.00 46.07 1.82
419 494 3.388913 TCACCCCAAACCTTTTGGATTT 58.611 40.909 17.56 0.63 44.07 2.17
420 495 2.972021 CTCACCCCAAACCTTTTGGATT 59.028 45.455 17.56 2.86 44.07 3.01
422 497 1.571457 TCTCACCCCAAACCTTTTGGA 59.429 47.619 17.56 0.00 44.07 3.53
424 499 2.887152 CTCTCTCACCCCAAACCTTTTG 59.113 50.000 0.00 0.00 0.00 2.44
428 503 1.492993 GCCTCTCTCACCCCAAACCT 61.493 60.000 0.00 0.00 0.00 3.50
429 504 1.002011 GCCTCTCTCACCCCAAACC 60.002 63.158 0.00 0.00 0.00 3.27
430 505 0.035915 GAGCCTCTCTCACCCCAAAC 60.036 60.000 0.00 0.00 41.51 2.93
568 643 6.482973 TGCTTTTTGGGCAAGATTTCTTTAAG 59.517 34.615 0.00 0.00 36.71 1.85
583 658 4.070630 TGATTTGACCTTGCTTTTTGGG 57.929 40.909 0.00 0.00 0.00 4.12
693 772 3.548745 TGCATCTTGAGTATGACAGGG 57.451 47.619 0.00 0.00 0.00 4.45
702 781 5.809001 TGTAGAGGAATTTGCATCTTGAGT 58.191 37.500 0.00 0.00 30.69 3.41
740 820 0.668535 GGTGGAAAGTGAAGTGCCAC 59.331 55.000 0.00 0.00 46.28 5.01
756 836 3.313012 TTGAGACTTGTGATACGGGTG 57.687 47.619 0.00 0.00 0.00 4.61
826 915 8.885722 CGTAAATTATGGGCTACTTTGTTTCTA 58.114 33.333 0.00 0.00 0.00 2.10
827 916 7.148137 CCGTAAATTATGGGCTACTTTGTTTCT 60.148 37.037 3.33 0.00 0.00 2.52
835 924 6.181908 TCAAAACCGTAAATTATGGGCTACT 58.818 36.000 15.07 0.00 39.22 2.57
975 1065 4.442706 GTTGACTGTGAAGAAGAACCTCA 58.557 43.478 0.00 0.00 0.00 3.86
1249 1339 1.068127 CAAGCAAGCAAAGCAAGGAGT 59.932 47.619 0.00 0.00 0.00 3.85
1340 1432 2.214387 GCCATTGGCTATGACAAAGC 57.786 50.000 20.66 1.28 46.69 3.51
1394 1486 3.359002 GCACAAGGCACCTTCTGG 58.641 61.111 6.79 0.00 43.97 3.86
1521 1613 9.362151 TGAGGTTTTCTTTGAGTAAATAATGGT 57.638 29.630 0.00 0.00 0.00 3.55
1553 1646 6.703607 ACTCTGATGAAAGTGTGAAAGTACTG 59.296 38.462 0.00 0.00 0.00 2.74
1558 1651 7.721286 ACTTACTCTGATGAAAGTGTGAAAG 57.279 36.000 0.00 0.00 31.20 2.62
1620 1713 7.758528 TCTCTCGTAGATGTATTCGATATTCGA 59.241 37.037 0.00 0.00 41.72 3.71
1665 1758 3.658757 TTTAAGACCAATGCACTTGCC 57.341 42.857 0.00 0.00 41.18 4.52
1895 2158 1.075979 TCATGTGTTGCCGTCGATCG 61.076 55.000 9.36 9.36 39.52 3.69
1998 2268 7.152645 TCTGATGAAAGTGTGAAACTACTACC 58.847 38.462 0.00 0.00 38.56 3.18
2058 2328 6.212791 TGCTTAGACTAAGTTGGTTACTCCAT 59.787 38.462 20.71 0.00 39.88 3.41
2105 2375 3.202818 TCCCTGGATTGTGTATGAGCATT 59.797 43.478 0.00 0.00 0.00 3.56
2159 2429 6.939551 TCGAGTGCTGTGTTTTTATAGTAC 57.060 37.500 0.00 0.00 0.00 2.73
2494 2764 0.168348 CGACGAATGAGGACACGAGT 59.832 55.000 0.00 0.00 0.00 4.18
2571 2841 3.204827 ATTGGCCTGCGACGATGC 61.205 61.111 3.32 0.00 0.00 3.91
2573 2843 1.522355 CTCATTGGCCTGCGACGAT 60.522 57.895 3.32 0.00 0.00 3.73
2615 2885 2.500098 GCAGTGTACTCTTGGGTATGGA 59.500 50.000 0.00 0.00 0.00 3.41
2616 2886 2.501723 AGCAGTGTACTCTTGGGTATGG 59.498 50.000 0.00 0.00 0.00 2.74
2672 2947 1.153524 AGCTCCCACATGCAACCAA 59.846 52.632 0.00 0.00 0.00 3.67
2740 3015 5.755375 CAGGCAAGGTGATATACAGTTGTAG 59.245 44.000 0.00 0.00 33.52 2.74
2828 3103 8.970020 TGAATGGTGCAATAACTTGATCTAATT 58.030 29.630 0.00 0.00 34.04 1.40
2842 3117 7.944729 AAGTAGTAGAATTGAATGGTGCAAT 57.055 32.000 0.00 0.00 37.56 3.56
2935 3210 2.921121 GACATACTTGTCGAACGATGCA 59.079 45.455 0.00 0.00 42.66 3.96
2947 3222 3.753272 CCAAACCTCACCAGACATACTTG 59.247 47.826 0.00 0.00 0.00 3.16
3028 3303 3.129287 AGCAACTCCAAACAACTTCACTG 59.871 43.478 0.00 0.00 0.00 3.66
3082 3357 6.928492 TGAAATTTTTGCCTCATTAAGTCCAC 59.072 34.615 0.00 0.00 0.00 4.02
3094 3369 3.711190 ACCAACTCCTGAAATTTTTGCCT 59.289 39.130 0.00 0.00 0.00 4.75
3105 3380 1.001974 CATCAACCGACCAACTCCTGA 59.998 52.381 0.00 0.00 0.00 3.86
3118 3393 6.647067 CCTTCTCCGATAAATCTACATCAACC 59.353 42.308 0.00 0.00 0.00 3.77
3253 3528 7.394016 ACAATGAACACATCTAGGTTGTGATA 58.606 34.615 24.52 14.38 45.83 2.15
3280 3555 3.185594 TCTTTATGCAAAACGGTCAGTCG 59.814 43.478 0.00 0.00 0.00 4.18
3286 3561 6.018343 CCAACATTTTCTTTATGCAAAACGGT 60.018 34.615 0.00 0.00 0.00 4.83
3288 3563 7.171447 TCCAACATTTTCTTTATGCAAAACG 57.829 32.000 0.00 0.00 0.00 3.60
3296 3571 6.824704 CCCATGCAATCCAACATTTTCTTTAT 59.175 34.615 0.00 0.00 0.00 1.40
3328 3603 5.420739 ACCCAAGCACAAGTTTTTAAGAAGA 59.579 36.000 0.00 0.00 0.00 2.87
3339 3614 2.561478 AATCGTACCCAAGCACAAGT 57.439 45.000 0.00 0.00 0.00 3.16
3485 3863 4.802248 GCAGCTGCTAGGTAATGCTATCTT 60.802 45.833 31.33 0.00 38.21 2.40
3511 3889 6.485984 AGCTGTATTTGAATGAATCTAGGCAG 59.514 38.462 0.00 0.00 0.00 4.85
3529 3907 4.022849 GCAGAAACAAAGGACAAGCTGTAT 60.023 41.667 0.00 0.00 0.00 2.29
3556 4120 8.096621 TCCATACCAATAATGTGGAAGAGTAA 57.903 34.615 0.00 0.00 41.65 2.24


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

AutoCloner maintained by Alex Coulton.