Multiple sequence alignment - TraesCS6B01G421300

Loading Multiple Alignment...

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 TraesCS6B01G421300 chr6B 100.000 2668 0 0 1 2668 692095717 692093050 0.000000e+00 4927
1 TraesCS6B01G421300 chr6B 91.945 1167 77 12 713 1874 691944716 691945870 0.000000e+00 1618
2 TraesCS6B01G421300 chr6B 92.025 790 61 2 1879 2668 532268259 532267472 0.000000e+00 1109
3 TraesCS6B01G421300 chr6B 90.204 786 66 9 1879 2662 696016689 696017465 0.000000e+00 1014
4 TraesCS6B01G421300 chr6B 81.883 1126 160 34 692 1795 692574232 692575335 0.000000e+00 909
5 TraesCS6B01G421300 chr6B 80.245 1225 163 52 667 1846 692570467 692571657 0.000000e+00 848
6 TraesCS6B01G421300 chr6B 84.416 231 11 8 487 717 691944330 691944535 1.250000e-48 204
7 TraesCS6B01G421300 chr6D 93.709 1526 84 8 359 1879 454997077 454995559 0.000000e+00 2276
8 TraesCS6B01G421300 chr6D 81.181 1270 165 45 627 1846 455421595 455422840 0.000000e+00 953
9 TraesCS6B01G421300 chr6D 81.416 1130 156 34 692 1795 455425079 455426180 0.000000e+00 874
10 TraesCS6B01G421300 chr6D 81.331 1082 150 29 815 1879 454962833 454961787 0.000000e+00 832
11 TraesCS6B01G421300 chr6D 90.223 358 35 0 3 360 454997379 454997022 4.020000e-128 468
12 TraesCS6B01G421300 chr6A 90.200 1398 101 12 497 1879 601265081 601263705 0.000000e+00 1790
13 TraesCS6B01G421300 chr6A 82.328 1160 150 37 692 1825 602131267 602132397 0.000000e+00 955
14 TraesCS6B01G421300 chr6A 86.192 717 74 17 1178 1879 601241447 601240741 0.000000e+00 752
15 TraesCS6B01G421300 chr5B 93.655 788 49 1 1881 2668 469486902 469486116 0.000000e+00 1177
16 TraesCS6B01G421300 chr5B 91.729 798 57 7 1873 2668 112556620 112557410 0.000000e+00 1099
17 TraesCS6B01G421300 chr3B 93.121 785 52 1 1882 2666 693472514 693473296 0.000000e+00 1149
18 TraesCS6B01G421300 chr3B 89.141 792 75 9 1881 2668 228734273 228733489 0.000000e+00 976
19 TraesCS6B01G421300 chr3B 86.658 802 83 19 1880 2666 71157403 71156611 0.000000e+00 867
20 TraesCS6B01G421300 chr1B 92.838 754 47 4 1881 2629 26882117 26882868 0.000000e+00 1086
21 TraesCS6B01G421300 chr1A 90.152 792 71 5 1879 2668 280616272 280615486 0.000000e+00 1024
22 TraesCS6B01G421300 chrUn 91.754 667 52 3 1216 1879 79450177 79449511 0.000000e+00 924


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 TraesCS6B01G421300 chr6B 692093050 692095717 2667 True 4927.0 4927 100.0000 1 2668 1 chr6B.!!$R2 2667
1 TraesCS6B01G421300 chr6B 532267472 532268259 787 True 1109.0 1109 92.0250 1879 2668 1 chr6B.!!$R1 789
2 TraesCS6B01G421300 chr6B 696016689 696017465 776 False 1014.0 1014 90.2040 1879 2662 1 chr6B.!!$F1 783
3 TraesCS6B01G421300 chr6B 691944330 691945870 1540 False 911.0 1618 88.1805 487 1874 2 chr6B.!!$F2 1387
4 TraesCS6B01G421300 chr6B 692570467 692575335 4868 False 878.5 909 81.0640 667 1846 2 chr6B.!!$F3 1179
5 TraesCS6B01G421300 chr6D 454995559 454997379 1820 True 1372.0 2276 91.9660 3 1879 2 chr6D.!!$R2 1876
6 TraesCS6B01G421300 chr6D 455421595 455426180 4585 False 913.5 953 81.2985 627 1846 2 chr6D.!!$F1 1219
7 TraesCS6B01G421300 chr6D 454961787 454962833 1046 True 832.0 832 81.3310 815 1879 1 chr6D.!!$R1 1064
8 TraesCS6B01G421300 chr6A 601263705 601265081 1376 True 1790.0 1790 90.2000 497 1879 1 chr6A.!!$R2 1382
9 TraesCS6B01G421300 chr6A 602131267 602132397 1130 False 955.0 955 82.3280 692 1825 1 chr6A.!!$F1 1133
10 TraesCS6B01G421300 chr6A 601240741 601241447 706 True 752.0 752 86.1920 1178 1879 1 chr6A.!!$R1 701
11 TraesCS6B01G421300 chr5B 469486116 469486902 786 True 1177.0 1177 93.6550 1881 2668 1 chr5B.!!$R1 787
12 TraesCS6B01G421300 chr5B 112556620 112557410 790 False 1099.0 1099 91.7290 1873 2668 1 chr5B.!!$F1 795
13 TraesCS6B01G421300 chr3B 693472514 693473296 782 False 1149.0 1149 93.1210 1882 2666 1 chr3B.!!$F1 784
14 TraesCS6B01G421300 chr3B 228733489 228734273 784 True 976.0 976 89.1410 1881 2668 1 chr3B.!!$R2 787
15 TraesCS6B01G421300 chr3B 71156611 71157403 792 True 867.0 867 86.6580 1880 2666 1 chr3B.!!$R1 786
16 TraesCS6B01G421300 chr1B 26882117 26882868 751 False 1086.0 1086 92.8380 1881 2629 1 chr1B.!!$F1 748
17 TraesCS6B01G421300 chr1A 280615486 280616272 786 True 1024.0 1024 90.1520 1879 2668 1 chr1A.!!$R1 789
18 TraesCS6B01G421300 chrUn 79449511 79450177 666 True 924.0 924 91.7540 1216 1879 1 chrUn.!!$R1 663

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
616 624 0.323629 GGTCCATTGTCTCCACCGAA 59.676 55.0 0.0 0.0 0.0 4.3 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2110 9577 0.033601 TGGCACCACCACTCAAGTTT 60.034 50.0 0.0 0.0 46.36 2.66 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
48 49 1.447314 GGTGTTTCTAGCGTCGGGG 60.447 63.158 0.00 0.00 0.00 5.73
86 87 3.147595 CCGATCTCGTGGGAGCCA 61.148 66.667 0.00 0.00 40.26 4.75
102 103 1.860078 CCAGTCGGCGTTTGTCTTC 59.140 57.895 6.85 0.00 0.00 2.87
139 140 1.511850 TCGGTCTTCGTTCGTCTACA 58.488 50.000 0.00 0.00 40.32 2.74
142 143 2.790468 CGGTCTTCGTTCGTCTACATCC 60.790 54.545 0.00 0.00 0.00 3.51
143 144 2.438583 GTCTTCGTTCGTCTACATCCG 58.561 52.381 0.00 0.00 0.00 4.18
162 163 1.160137 GTGTGTCTGCAGGTTGGATC 58.840 55.000 15.13 0.00 0.00 3.36
167 168 2.642311 TGTCTGCAGGTTGGATCCTTTA 59.358 45.455 15.13 0.00 35.37 1.85
187 188 6.989169 CCTTTAGATCTACACCTCTTCATTGG 59.011 42.308 0.67 0.00 0.00 3.16
188 189 4.414337 AGATCTACACCTCTTCATTGGC 57.586 45.455 0.00 0.00 0.00 4.52
191 192 0.981183 TACACCTCTTCATTGGCGGT 59.019 50.000 0.00 0.00 0.00 5.68
196 197 1.140852 CCTCTTCATTGGCGGTGGATA 59.859 52.381 0.00 0.00 0.00 2.59
213 214 2.279741 GATATTGTTCTGGTGCGCTGA 58.720 47.619 9.73 0.00 0.00 4.26
222 223 0.829990 TGGTGCGCTGATCCTATTGA 59.170 50.000 9.73 0.00 0.00 2.57
240 241 1.890489 TGAGCCTTAGCACAACGACTA 59.110 47.619 0.00 0.00 43.56 2.59
244 245 1.274167 CCTTAGCACAACGACTACCCA 59.726 52.381 0.00 0.00 0.00 4.51
287 288 1.139058 GCCCGATACCAATGAGTGAGT 59.861 52.381 0.00 0.00 0.00 3.41
304 305 4.752879 TAGCAAGGACGGCGGTGC 62.753 66.667 13.24 14.98 37.26 5.01
308 309 4.922026 AAGGACGGCGGTGCGTTT 62.922 61.111 13.24 0.00 39.82 3.60
309 310 4.922026 AGGACGGCGGTGCGTTTT 62.922 61.111 13.24 0.00 39.82 2.43
310 311 3.956317 GGACGGCGGTGCGTTTTT 61.956 61.111 13.24 0.00 0.00 1.94
311 312 2.724358 GACGGCGGTGCGTTTTTG 60.724 61.111 13.24 0.00 0.00 2.44
312 313 3.170810 GACGGCGGTGCGTTTTTGA 62.171 57.895 13.24 0.00 0.00 2.69
313 314 2.724358 CGGCGGTGCGTTTTTGAC 60.724 61.111 0.00 0.00 0.00 3.18
314 315 2.719354 GGCGGTGCGTTTTTGACT 59.281 55.556 0.00 0.00 0.00 3.41
315 316 1.370051 GGCGGTGCGTTTTTGACTC 60.370 57.895 0.00 0.00 0.00 3.36
316 317 1.353804 GCGGTGCGTTTTTGACTCA 59.646 52.632 0.00 0.00 0.00 3.41
317 318 0.928451 GCGGTGCGTTTTTGACTCAC 60.928 55.000 0.00 0.00 42.01 3.51
318 319 0.655733 CGGTGCGTTTTTGACTCACT 59.344 50.000 0.20 0.00 42.30 3.41
319 320 1.332904 CGGTGCGTTTTTGACTCACTC 60.333 52.381 0.20 0.00 42.30 3.51
320 321 1.002792 GGTGCGTTTTTGACTCACTCC 60.003 52.381 0.20 0.00 42.30 3.85
321 322 1.668751 GTGCGTTTTTGACTCACTCCA 59.331 47.619 0.00 0.00 40.11 3.86
322 323 2.096819 GTGCGTTTTTGACTCACTCCAA 59.903 45.455 0.00 0.00 40.11 3.53
323 324 2.948979 TGCGTTTTTGACTCACTCCAAT 59.051 40.909 0.00 0.00 0.00 3.16
324 325 3.243035 TGCGTTTTTGACTCACTCCAATG 60.243 43.478 0.00 0.00 0.00 2.82
325 326 3.243068 GCGTTTTTGACTCACTCCAATGT 60.243 43.478 0.00 0.00 0.00 2.71
326 327 4.733523 GCGTTTTTGACTCACTCCAATGTT 60.734 41.667 0.00 0.00 0.00 2.71
327 328 5.339990 CGTTTTTGACTCACTCCAATGTTT 58.660 37.500 0.00 0.00 0.00 2.83
328 329 5.229887 CGTTTTTGACTCACTCCAATGTTTG 59.770 40.000 0.00 0.00 0.00 2.93
329 330 5.913137 TTTTGACTCACTCCAATGTTTGT 57.087 34.783 0.00 0.00 0.00 2.83
330 331 7.254852 GTTTTTGACTCACTCCAATGTTTGTA 58.745 34.615 0.00 0.00 0.00 2.41
331 332 6.618287 TTTGACTCACTCCAATGTTTGTAG 57.382 37.500 0.00 0.00 0.00 2.74
332 333 5.545063 TGACTCACTCCAATGTTTGTAGA 57.455 39.130 0.00 0.00 0.00 2.59
333 334 5.297547 TGACTCACTCCAATGTTTGTAGAC 58.702 41.667 0.00 0.00 0.00 2.59
334 335 4.307432 ACTCACTCCAATGTTTGTAGACG 58.693 43.478 0.00 0.00 0.00 4.18
335 336 4.202223 ACTCACTCCAATGTTTGTAGACGT 60.202 41.667 0.00 0.00 0.00 4.34
336 337 4.699637 TCACTCCAATGTTTGTAGACGTT 58.300 39.130 0.00 0.00 0.00 3.99
337 338 4.509970 TCACTCCAATGTTTGTAGACGTTG 59.490 41.667 0.00 3.60 43.09 4.10
338 339 3.250040 ACTCCAATGTTTGTAGACGTTGC 59.750 43.478 0.00 0.00 42.46 4.17
339 340 3.472652 TCCAATGTTTGTAGACGTTGCT 58.527 40.909 0.00 0.00 42.46 3.91
340 341 4.633175 TCCAATGTTTGTAGACGTTGCTA 58.367 39.130 0.00 0.00 42.46 3.49
341 342 4.688879 TCCAATGTTTGTAGACGTTGCTAG 59.311 41.667 0.00 0.00 42.46 3.42
342 343 4.142902 CCAATGTTTGTAGACGTTGCTAGG 60.143 45.833 0.00 0.00 42.46 3.02
343 344 3.738830 TGTTTGTAGACGTTGCTAGGT 57.261 42.857 0.00 0.00 0.00 3.08
344 345 3.386486 TGTTTGTAGACGTTGCTAGGTG 58.614 45.455 0.00 0.00 0.00 4.00
345 346 2.735134 GTTTGTAGACGTTGCTAGGTGG 59.265 50.000 0.00 0.00 0.00 4.61
346 347 1.624336 TGTAGACGTTGCTAGGTGGT 58.376 50.000 0.00 0.00 0.00 4.16
347 348 1.542915 TGTAGACGTTGCTAGGTGGTC 59.457 52.381 0.00 0.00 0.00 4.02
348 349 1.817447 GTAGACGTTGCTAGGTGGTCT 59.183 52.381 0.00 0.00 40.72 3.85
349 350 0.889306 AGACGTTGCTAGGTGGTCTC 59.111 55.000 0.00 0.00 32.86 3.36
350 351 0.601558 GACGTTGCTAGGTGGTCTCA 59.398 55.000 0.00 0.00 0.00 3.27
351 352 1.000506 GACGTTGCTAGGTGGTCTCAA 59.999 52.381 0.00 0.00 0.00 3.02
352 353 1.000955 ACGTTGCTAGGTGGTCTCAAG 59.999 52.381 0.00 0.00 0.00 3.02
353 354 1.443802 GTTGCTAGGTGGTCTCAAGC 58.556 55.000 0.00 0.00 0.00 4.01
354 355 1.002544 GTTGCTAGGTGGTCTCAAGCT 59.997 52.381 0.00 0.00 34.28 3.74
355 356 2.231716 TGCTAGGTGGTCTCAAGCTA 57.768 50.000 0.00 0.00 34.28 3.32
356 357 2.103373 TGCTAGGTGGTCTCAAGCTAG 58.897 52.381 6.14 6.14 44.75 3.42
357 358 2.291605 TGCTAGGTGGTCTCAAGCTAGA 60.292 50.000 12.69 0.00 44.75 2.43
387 388 5.798132 TGACTCACTTCAATGCTTGTAGAT 58.202 37.500 8.67 0.00 33.00 1.98
392 393 3.372206 ACTTCAATGCTTGTAGATGTCGC 59.628 43.478 8.67 0.00 33.00 5.19
403 404 1.394618 AGATGTCGCTAGGTGGTCTC 58.605 55.000 0.00 0.00 0.00 3.36
404 405 1.103803 GATGTCGCTAGGTGGTCTCA 58.896 55.000 0.00 0.00 0.00 3.27
420 421 5.183904 GTGGTCTCAAGCTGGATGTAAATTT 59.816 40.000 0.00 0.00 0.00 1.82
423 424 7.121168 TGGTCTCAAGCTGGATGTAAATTTTAG 59.879 37.037 0.00 0.00 0.00 1.85
532 536 1.813859 CTCGATAAGCCACCCGTCA 59.186 57.895 0.00 0.00 0.00 4.35
535 539 1.153229 GATAAGCCACCCGTCACCC 60.153 63.158 0.00 0.00 0.00 4.61
616 624 0.323629 GGTCCATTGTCTCCACCGAA 59.676 55.000 0.00 0.00 0.00 4.30
618 626 2.618045 GGTCCATTGTCTCCACCGAATT 60.618 50.000 0.00 0.00 0.00 2.17
629 637 4.139786 CTCCACCGAATTGATGGATCATT 58.860 43.478 0.00 0.00 40.53 2.57
744 4696 1.481901 TTCGTTCCCCATCCGAACCA 61.482 55.000 0.00 0.00 37.00 3.67
759 4711 2.202851 CCAGTCGCAGCTAGCCTG 60.203 66.667 12.13 10.89 44.67 4.85
808 4769 6.288294 TGCTATCCATAGTTCCATACACAAC 58.712 40.000 0.00 0.00 32.96 3.32
811 4772 5.006153 TCCATAGTTCCATACACAACTCG 57.994 43.478 0.00 0.00 34.60 4.18
830 4791 1.623811 CGCCCTGCCTATAAGTACCAT 59.376 52.381 0.00 0.00 0.00 3.55
838 4800 7.015682 CCCTGCCTATAAGTACCATATCCTATG 59.984 44.444 0.00 0.00 0.00 2.23
855 4818 4.012374 CCTATGTTTGCTCAATCCACACT 58.988 43.478 0.00 0.00 0.00 3.55
863 4826 2.289945 GCTCAATCCACACTCAGGAAGT 60.290 50.000 0.00 0.00 38.93 3.01
886 4856 1.486310 TCCACAGCTATAGCACCAAGG 59.514 52.381 26.07 18.36 45.16 3.61
1008 4979 1.303236 CAACCCCGACATGCTCCAA 60.303 57.895 0.00 0.00 0.00 3.53
1038 5009 0.036388 TCACCGACCTGAAATCCTGC 60.036 55.000 0.00 0.00 0.00 4.85
1046 5017 2.026822 ACCTGAAATCCTGCGAGTCATT 60.027 45.455 0.00 0.00 0.00 2.57
1051 5026 1.098050 ATCCTGCGAGTCATTTTGCC 58.902 50.000 0.00 0.00 0.00 4.52
1059 5038 3.181510 GCGAGTCATTTTGCCGAACTATT 60.182 43.478 0.00 0.00 0.00 1.73
1068 5047 5.499139 TTTGCCGAACTATTCATTCATCC 57.501 39.130 0.00 0.00 0.00 3.51
1118 5139 0.817229 TTGCTGACACGGTGCATTCA 60.817 50.000 8.30 3.93 36.55 2.57
1126 5147 1.024579 ACGGTGCATTCATCCGAACC 61.025 55.000 18.43 0.00 46.05 3.62
1139 5160 2.281484 GAACCAACCGGAGCAGCA 60.281 61.111 9.46 0.00 35.59 4.41
1250 8681 4.309950 GCGGGGTCCAACGTCACT 62.310 66.667 7.00 0.00 0.00 3.41
1796 9247 9.206870 GATTTGTTGATGTGTATGTTCCATTTT 57.793 29.630 0.00 0.00 0.00 1.82
1906 9362 0.325272 GAAGAACGGGAAGGCCTCTT 59.675 55.000 5.23 2.65 31.11 2.85
1986 9445 2.103432 TCAGCGGTCCAGACTTAAACAA 59.897 45.455 0.00 0.00 0.00 2.83
2001 9460 7.888546 AGACTTAAACAATTATTACAGCCCTGT 59.111 33.333 6.17 6.17 46.87 4.00
2059 9520 5.048364 ACAATGAAGGCTAAAAACATACGCA 60.048 36.000 0.00 0.00 0.00 5.24
2110 9577 1.824329 CTCGCTCGCTTCCCTCCTA 60.824 63.158 0.00 0.00 0.00 2.94
2170 9637 2.224426 ACAAATTGCGAGGGTAGACACA 60.224 45.455 0.00 0.00 0.00 3.72
2172 9639 1.557099 ATTGCGAGGGTAGACACAGA 58.443 50.000 0.00 0.00 0.00 3.41
2173 9640 1.557099 TTGCGAGGGTAGACACAGAT 58.443 50.000 0.00 0.00 0.00 2.90
2444 9918 4.051922 CTCCACACCTGATTAATAGACGC 58.948 47.826 0.00 0.00 0.00 5.19
2445 9919 3.704566 TCCACACCTGATTAATAGACGCT 59.295 43.478 0.00 0.00 0.00 5.07
2577 10051 2.929398 GGCCACAGTTTCAAAGTTTGTG 59.071 45.455 15.08 8.66 38.99 3.33
2592 10067 5.096443 AGTTTGTGCCCAAATTCTTTTGA 57.904 34.783 0.00 0.00 44.11 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 2.675371 GGCTAGGCGGGGAAAACT 59.325 61.111 0.00 0.00 0.00 2.66
28 29 1.080974 CCGACGCTAGAAACACCGT 60.081 57.895 0.00 0.00 36.53 4.83
70 71 2.343163 GACTGGCTCCCACGAGATCG 62.343 65.000 0.00 0.00 46.33 3.69
86 87 0.104304 ACTGAAGACAAACGCCGACT 59.896 50.000 0.00 0.00 0.00 4.18
139 140 0.603707 CAACCTGCAGACACACGGAT 60.604 55.000 17.39 0.00 0.00 4.18
142 143 0.603707 ATCCAACCTGCAGACACACG 60.604 55.000 17.39 0.00 0.00 4.49
143 144 1.160137 GATCCAACCTGCAGACACAC 58.840 55.000 17.39 0.00 0.00 3.82
162 163 6.989169 CCAATGAAGAGGTGTAGATCTAAAGG 59.011 42.308 3.40 0.00 0.00 3.11
167 168 3.181471 CGCCAATGAAGAGGTGTAGATCT 60.181 47.826 0.00 0.00 0.00 2.75
175 176 1.002134 CCACCGCCAATGAAGAGGT 60.002 57.895 0.00 0.00 35.24 3.85
187 188 1.670811 CACCAGAACAATATCCACCGC 59.329 52.381 0.00 0.00 0.00 5.68
188 189 1.670811 GCACCAGAACAATATCCACCG 59.329 52.381 0.00 0.00 0.00 4.94
191 192 1.065491 AGCGCACCAGAACAATATCCA 60.065 47.619 11.47 0.00 0.00 3.41
196 197 1.089920 GATCAGCGCACCAGAACAAT 58.910 50.000 11.47 0.00 0.00 2.71
213 214 4.778213 TTGTGCTAAGGCTCAATAGGAT 57.222 40.909 0.00 0.00 43.85 3.24
222 223 1.067071 GGTAGTCGTTGTGCTAAGGCT 60.067 52.381 0.00 0.00 39.59 4.58
240 241 8.715190 AATATTTTTGTAGTTGGTAGTTGGGT 57.285 30.769 0.00 0.00 0.00 4.51
244 245 8.092068 GGGCAAATATTTTTGTAGTTGGTAGTT 58.908 33.333 9.87 0.00 43.43 2.24
271 272 5.053145 CCTTGCTACTCACTCATTGGTATC 58.947 45.833 0.00 0.00 0.00 2.24
273 274 4.081642 GTCCTTGCTACTCACTCATTGGTA 60.082 45.833 0.00 0.00 0.00 3.25
277 278 2.093973 CCGTCCTTGCTACTCACTCATT 60.094 50.000 0.00 0.00 0.00 2.57
287 288 4.752879 GCACCGCCGTCCTTGCTA 62.753 66.667 0.00 0.00 32.00 3.49
304 305 4.552166 ACATTGGAGTGAGTCAAAAACG 57.448 40.909 0.00 0.00 0.00 3.60
305 306 6.099341 ACAAACATTGGAGTGAGTCAAAAAC 58.901 36.000 0.00 0.00 34.12 2.43
306 307 6.279513 ACAAACATTGGAGTGAGTCAAAAA 57.720 33.333 0.00 0.00 34.12 1.94
307 308 5.913137 ACAAACATTGGAGTGAGTCAAAA 57.087 34.783 0.00 0.00 34.12 2.44
308 309 6.260050 GTCTACAAACATTGGAGTGAGTCAAA 59.740 38.462 0.00 0.00 42.45 2.69
309 310 5.758296 GTCTACAAACATTGGAGTGAGTCAA 59.242 40.000 0.00 0.00 42.45 3.18
310 311 5.297547 GTCTACAAACATTGGAGTGAGTCA 58.702 41.667 2.45 0.00 42.45 3.41
311 312 4.386049 CGTCTACAAACATTGGAGTGAGTC 59.614 45.833 2.45 0.00 42.45 3.36
312 313 4.202223 ACGTCTACAAACATTGGAGTGAGT 60.202 41.667 2.45 0.00 42.45 3.41
313 314 4.307432 ACGTCTACAAACATTGGAGTGAG 58.693 43.478 2.45 0.00 42.45 3.51
314 315 4.330944 ACGTCTACAAACATTGGAGTGA 57.669 40.909 2.45 0.00 42.45 3.41
315 316 4.772434 CAACGTCTACAAACATTGGAGTG 58.228 43.478 2.45 0.30 42.45 3.51
316 317 3.250040 GCAACGTCTACAAACATTGGAGT 59.750 43.478 2.45 0.00 42.45 3.85
317 318 3.498397 AGCAACGTCTACAAACATTGGAG 59.502 43.478 0.00 0.00 43.24 3.86
318 319 3.472652 AGCAACGTCTACAAACATTGGA 58.527 40.909 0.00 0.00 34.12 3.53
319 320 3.896648 AGCAACGTCTACAAACATTGG 57.103 42.857 0.00 0.00 34.12 3.16
320 321 4.451096 ACCTAGCAACGTCTACAAACATTG 59.549 41.667 0.00 0.00 0.00 2.82
321 322 4.451096 CACCTAGCAACGTCTACAAACATT 59.549 41.667 0.00 0.00 0.00 2.71
322 323 3.994392 CACCTAGCAACGTCTACAAACAT 59.006 43.478 0.00 0.00 0.00 2.71
323 324 3.386486 CACCTAGCAACGTCTACAAACA 58.614 45.455 0.00 0.00 0.00 2.83
324 325 2.735134 CCACCTAGCAACGTCTACAAAC 59.265 50.000 0.00 0.00 0.00 2.93
325 326 2.366266 ACCACCTAGCAACGTCTACAAA 59.634 45.455 0.00 0.00 0.00 2.83
326 327 1.965643 ACCACCTAGCAACGTCTACAA 59.034 47.619 0.00 0.00 0.00 2.41
327 328 1.542915 GACCACCTAGCAACGTCTACA 59.457 52.381 0.00 0.00 0.00 2.74
328 329 1.817447 AGACCACCTAGCAACGTCTAC 59.183 52.381 0.00 0.00 32.15 2.59
329 330 2.089980 GAGACCACCTAGCAACGTCTA 58.910 52.381 0.00 0.00 34.03 2.59
330 331 0.889306 GAGACCACCTAGCAACGTCT 59.111 55.000 0.00 0.00 36.53 4.18
331 332 0.601558 TGAGACCACCTAGCAACGTC 59.398 55.000 0.00 0.00 0.00 4.34
332 333 1.000955 CTTGAGACCACCTAGCAACGT 59.999 52.381 0.00 0.00 0.00 3.99
333 334 1.714794 CTTGAGACCACCTAGCAACG 58.285 55.000 0.00 0.00 0.00 4.10
334 335 1.002544 AGCTTGAGACCACCTAGCAAC 59.997 52.381 0.00 0.00 34.37 4.17
335 336 1.352083 AGCTTGAGACCACCTAGCAA 58.648 50.000 0.00 0.00 34.37 3.91
336 337 2.103373 CTAGCTTGAGACCACCTAGCA 58.897 52.381 0.00 0.00 34.37 3.49
337 338 2.379972 TCTAGCTTGAGACCACCTAGC 58.620 52.381 0.00 0.00 30.51 3.42
338 339 3.243704 GCATCTAGCTTGAGACCACCTAG 60.244 52.174 3.82 0.00 41.15 3.02
339 340 2.695666 GCATCTAGCTTGAGACCACCTA 59.304 50.000 3.82 0.00 41.15 3.08
340 341 1.484240 GCATCTAGCTTGAGACCACCT 59.516 52.381 3.82 0.00 41.15 4.00
341 342 1.474143 GGCATCTAGCTTGAGACCACC 60.474 57.143 12.40 2.80 44.79 4.61
342 343 1.484240 AGGCATCTAGCTTGAGACCAC 59.516 52.381 17.42 2.35 44.79 4.16
343 344 1.871418 AGGCATCTAGCTTGAGACCA 58.129 50.000 17.42 0.00 44.79 4.02
344 345 2.941720 CAAAGGCATCTAGCTTGAGACC 59.058 50.000 3.82 7.48 44.79 3.85
345 346 3.620821 GTCAAAGGCATCTAGCTTGAGAC 59.379 47.826 3.82 0.42 44.79 3.36
346 347 3.517100 AGTCAAAGGCATCTAGCTTGAGA 59.483 43.478 3.82 0.00 44.79 3.27
347 348 3.870419 GAGTCAAAGGCATCTAGCTTGAG 59.130 47.826 3.82 0.00 44.79 3.02
348 349 3.261643 TGAGTCAAAGGCATCTAGCTTGA 59.738 43.478 0.00 0.00 44.79 3.02
349 350 3.373439 GTGAGTCAAAGGCATCTAGCTTG 59.627 47.826 0.00 0.00 44.79 4.01
350 351 3.262915 AGTGAGTCAAAGGCATCTAGCTT 59.737 43.478 0.00 0.00 44.79 3.74
351 352 2.836981 AGTGAGTCAAAGGCATCTAGCT 59.163 45.455 0.00 0.00 44.79 3.32
352 353 3.258971 AGTGAGTCAAAGGCATCTAGC 57.741 47.619 0.00 0.00 44.65 3.42
353 354 4.825422 TGAAGTGAGTCAAAGGCATCTAG 58.175 43.478 0.00 0.00 0.00 2.43
354 355 4.890158 TGAAGTGAGTCAAAGGCATCTA 57.110 40.909 0.00 0.00 0.00 1.98
355 356 3.777106 TGAAGTGAGTCAAAGGCATCT 57.223 42.857 0.00 0.00 0.00 2.90
356 357 4.730657 CATTGAAGTGAGTCAAAGGCATC 58.269 43.478 0.00 0.00 40.76 3.91
357 358 3.057033 GCATTGAAGTGAGTCAAAGGCAT 60.057 43.478 6.97 0.00 40.76 4.40
387 388 0.888619 CTTGAGACCACCTAGCGACA 59.111 55.000 0.00 0.00 0.00 4.35
392 393 1.561643 TCCAGCTTGAGACCACCTAG 58.438 55.000 0.00 0.00 0.00 3.02
403 404 8.246180 ACATCACTAAAATTTACATCCAGCTTG 58.754 33.333 0.00 0.00 0.00 4.01
404 405 8.353423 ACATCACTAAAATTTACATCCAGCTT 57.647 30.769 0.00 0.00 0.00 3.74
420 421 8.644216 TGAAGGTAGTACAAAGAACATCACTAA 58.356 33.333 2.06 0.00 0.00 2.24
423 424 6.704493 TGTGAAGGTAGTACAAAGAACATCAC 59.296 38.462 2.06 3.55 33.96 3.06
485 488 5.829391 TGCACATGATAATGCTTGTATCCTT 59.171 36.000 0.00 0.00 42.55 3.36
486 489 5.379187 TGCACATGATAATGCTTGTATCCT 58.621 37.500 0.00 0.00 42.55 3.24
487 490 5.694231 TGCACATGATAATGCTTGTATCC 57.306 39.130 0.00 0.00 42.55 2.59
488 491 6.635641 CAGTTGCACATGATAATGCTTGTATC 59.364 38.462 0.00 0.00 42.55 2.24
489 492 6.500910 CAGTTGCACATGATAATGCTTGTAT 58.499 36.000 0.00 0.00 42.55 2.29
490 493 5.676837 GCAGTTGCACATGATAATGCTTGTA 60.677 40.000 0.00 0.00 42.55 2.41
491 494 4.740268 CAGTTGCACATGATAATGCTTGT 58.260 39.130 0.00 0.00 42.55 3.16
584 592 1.189524 ATGGACCCGAGTTTCGTGGA 61.190 55.000 11.24 0.00 38.40 4.02
616 624 8.164070 TCTGAATCAGATCAATGATCCATCAAT 58.836 33.333 18.69 4.10 39.00 2.57
618 626 7.016268 TCTCTGAATCAGATCAATGATCCATCA 59.984 37.037 18.69 15.50 39.92 3.07
629 637 3.131755 ACATGCGTCTCTGAATCAGATCA 59.868 43.478 13.93 9.68 39.92 2.92
753 4705 1.133809 AGGTCAAACAGGGCAGGCTA 61.134 55.000 0.00 0.00 0.00 3.93
759 4711 1.815003 CATCTCAAGGTCAAACAGGGC 59.185 52.381 0.00 0.00 0.00 5.19
808 4769 1.272769 GGTACTTATAGGCAGGGCGAG 59.727 57.143 0.00 0.00 0.00 5.03
811 4772 4.141688 GGATATGGTACTTATAGGCAGGGC 60.142 50.000 0.00 0.00 0.00 5.19
830 4791 5.822519 GTGTGGATTGAGCAAACATAGGATA 59.177 40.000 0.00 0.00 0.00 2.59
838 4800 2.227388 CCTGAGTGTGGATTGAGCAAAC 59.773 50.000 0.00 0.00 0.00 2.93
855 4818 2.310779 AGCTGTGGAGTACTTCCTGA 57.689 50.000 0.00 0.00 46.92 3.86
863 4826 3.026707 TGGTGCTATAGCTGTGGAGTA 57.973 47.619 24.61 0.00 42.66 2.59
886 4856 3.432782 GTCAATGCTTGCTTGCTATCAC 58.567 45.455 3.47 0.00 0.00 3.06
991 4962 1.002134 CTTGGAGCATGTCGGGGTT 60.002 57.895 0.00 0.00 0.00 4.11
1021 4992 1.079127 CGCAGGATTTCAGGTCGGT 60.079 57.895 0.00 0.00 0.00 4.69
1038 5009 4.092821 TGAATAGTTCGGCAAAATGACTCG 59.907 41.667 0.00 0.00 0.00 4.18
1046 5017 5.192927 AGGATGAATGAATAGTTCGGCAAA 58.807 37.500 0.00 0.00 0.00 3.68
1051 5026 9.869844 GACAAATTAGGATGAATGAATAGTTCG 57.130 33.333 0.00 0.00 0.00 3.95
1059 5038 6.037500 CGAAGCTGACAAATTAGGATGAATGA 59.962 38.462 0.00 0.00 0.00 2.57
1068 5047 4.905866 CACACAACGAAGCTGACAAATTAG 59.094 41.667 0.00 0.00 0.00 1.73
1122 5143 1.244019 ATTGCTGCTCCGGTTGGTTC 61.244 55.000 0.00 0.00 36.30 3.62
1126 5147 0.169672 CTTGATTGCTGCTCCGGTTG 59.830 55.000 0.00 0.00 0.00 3.77
1139 5160 1.534729 GGAACCCGTTCAGCTTGATT 58.465 50.000 9.65 0.00 41.20 2.57
1852 9308 4.062293 CAAGAAATGGAGGACACGTTACA 58.938 43.478 0.00 0.00 0.00 2.41
1897 9353 2.603652 GGAACCGGGAAGAGGCCTT 61.604 63.158 6.77 0.00 34.81 4.35
1986 9445 4.755266 AGTCGAACAGGGCTGTAATAAT 57.245 40.909 0.00 0.00 44.13 1.28
2001 9460 2.631062 TGTCCTTTGGCTCTTAGTCGAA 59.369 45.455 0.00 0.00 0.00 3.71
2059 9520 1.308128 TCACCCCCTGATCTGGCAT 60.308 57.895 13.02 0.00 0.00 4.40
2110 9577 0.033601 TGGCACCACCACTCAAGTTT 60.034 50.000 0.00 0.00 46.36 2.66
2170 9637 3.871463 GCAAGACCATGGTGAACAGATCT 60.871 47.826 25.52 7.45 0.00 2.75
2172 9639 2.440409 GCAAGACCATGGTGAACAGAT 58.560 47.619 25.52 0.00 0.00 2.90
2173 9640 1.545428 GGCAAGACCATGGTGAACAGA 60.545 52.381 25.52 0.00 38.86 3.41
2222 9689 0.038526 TCTGAAGACGGCGGTTTCTC 60.039 55.000 20.75 6.75 0.00 2.87


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

AutoCloner maintained by Alex Coulton.