Multiple sequence alignment - TraesCS3B01G089100

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 TraesCS3B01G089100 chr3B 100.000 2435 0 0 1 2435 59045236 59047670 0.000000e+00 4497.0
1 TraesCS3B01G089100 chr3A 88.576 1987 131 27 475 2435 46843672 46845588 0.000000e+00 2324.0
2 TraesCS3B01G089100 chr3A 89.986 709 44 10 884 1586 46841281 46841968 0.000000e+00 891.0
3 TraesCS3B01G089100 chr3A 92.816 348 18 3 472 816 46840916 46841259 4.680000e-137 497.0
4 TraesCS3B01G089100 chr3A 89.500 200 17 3 1 196 46840560 46840759 1.450000e-62 250.0
5 TraesCS3B01G089100 chr3D 88.094 1999 138 43 472 2435 36237829 36239762 0.000000e+00 2281.0
6 TraesCS3B01G089100 chr3D 93.425 1019 44 13 472 1473 36179648 36180660 0.000000e+00 1489.0
7 TraesCS3B01G089100 chr3D 85.205 365 29 9 1 353 36179192 36179543 3.850000e-93 351.0
8 TraesCS3B01G089100 chr3D 79.911 224 29 7 1959 2166 36180739 36180962 1.510000e-32 150.0
9 TraesCS3B01G089100 chr1A 87.776 769 78 12 717 1473 300927905 300927141 0.000000e+00 885.0
10 TraesCS3B01G089100 chr1A 81.644 937 131 27 647 1555 428210886 428209963 0.000000e+00 739.0
11 TraesCS3B01G089100 chr1A 82.202 899 121 28 668 1555 428236355 428235485 0.000000e+00 737.0
12 TraesCS3B01G089100 chr1A 88.034 117 13 1 646 762 428237224 428237109 1.170000e-28 137.0
13 TraesCS3B01G089100 chr1A 95.000 60 3 0 653 712 300931896 300931837 7.170000e-16 95.3
14 TraesCS3B01G089100 chr1D 82.101 933 131 25 647 1555 331198110 331197190 0.000000e+00 765.0
15 TraesCS3B01G089100 chr1D 82.874 870 114 23 668 1526 331283529 331282684 0.000000e+00 749.0
16 TraesCS3B01G089100 chr1D 86.325 117 15 1 646 762 331284376 331284261 2.540000e-25 126.0
17 TraesCS3B01G089100 chr7D 80.628 382 43 23 1586 1958 105226412 105226053 1.440000e-67 267.0
18 TraesCS3B01G089100 chr5A 82.209 326 41 11 1582 1905 362786094 362786404 5.160000e-67 265.0
19 TraesCS3B01G089100 chr5A 96.970 33 1 0 203 235 542252562 542252594 3.380000e-04 56.5
20 TraesCS3B01G089100 chr7B 82.704 318 33 16 1600 1906 111326408 111326102 1.860000e-66 263.0
21 TraesCS3B01G089100 chr5D 79.795 391 55 17 1586 1958 354499522 354499138 1.860000e-66 263.0
22 TraesCS3B01G089100 chr5D 78.144 334 53 14 1585 1906 422769658 422769983 6.870000e-46 195.0
23 TraesCS3B01G089100 chr6D 80.882 340 45 14 1586 1911 10777653 10777986 1.450000e-62 250.0
24 TraesCS3B01G089100 chr2D 80.769 338 43 17 1586 1911 48606397 48606070 6.730000e-61 244.0
25 TraesCS3B01G089100 chr6A 80.588 340 39 22 1588 1912 609739916 609739589 1.130000e-58 237.0
26 TraesCS3B01G089100 chr1B 87.574 169 17 3 646 811 445671291 445671124 2.470000e-45 193.0


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 TraesCS3B01G089100 chr3B 59045236 59047670 2434 False 4497.000000 4497 100.000000 1 2435 1 chr3B.!!$F1 2434
1 TraesCS3B01G089100 chr3A 46840560 46845588 5028 False 990.500000 2324 90.219500 1 2435 4 chr3A.!!$F1 2434
2 TraesCS3B01G089100 chr3D 36237829 36239762 1933 False 2281.000000 2281 88.094000 472 2435 1 chr3D.!!$F1 1963
3 TraesCS3B01G089100 chr3D 36179192 36180962 1770 False 663.333333 1489 86.180333 1 2166 3 chr3D.!!$F2 2165
4 TraesCS3B01G089100 chr1A 428209963 428210886 923 True 739.000000 739 81.644000 647 1555 1 chr1A.!!$R1 908
5 TraesCS3B01G089100 chr1A 300927141 300931896 4755 True 490.150000 885 91.388000 653 1473 2 chr1A.!!$R2 820
6 TraesCS3B01G089100 chr1A 428235485 428237224 1739 True 437.000000 737 85.118000 646 1555 2 chr1A.!!$R3 909
7 TraesCS3B01G089100 chr1D 331197190 331198110 920 True 765.000000 765 82.101000 647 1555 1 chr1D.!!$R1 908
8 TraesCS3B01G089100 chr1D 331282684 331284376 1692 True 437.500000 749 84.599500 646 1526 2 chr1D.!!$R2 880

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
935 7887 0.394216 ATCCAACGCCATAAGCAGCA 60.394 50.0 0.0 0.0 44.04 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2361 9357 0.174162 GACACCATGGAAGCATTGCC 59.826 55.0 21.47 0.0 34.47 4.52 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
39 41 5.357878 AGTTCATTCAGCAAAGTTCAACTCA 59.642 36.000 0.00 0.00 0.00 3.41
89 91 9.219603 CAAATAACCAAGAAGATCTCAGTAACA 57.780 33.333 0.00 0.00 0.00 2.41
209 214 8.188531 ACATGTGATGTGCTTTTTAATATTGC 57.811 30.769 0.00 0.00 43.01 3.56
211 216 9.518906 CATGTGATGTGCTTTTTAATATTGCTA 57.481 29.630 0.00 0.00 0.00 3.49
212 217 9.740239 ATGTGATGTGCTTTTTAATATTGCTAG 57.260 29.630 0.00 0.00 0.00 3.42
213 218 7.701924 TGTGATGTGCTTTTTAATATTGCTAGC 59.298 33.333 8.10 8.10 0.00 3.42
214 219 7.168135 GTGATGTGCTTTTTAATATTGCTAGCC 59.832 37.037 13.29 0.00 0.00 3.93
215 220 5.901552 TGTGCTTTTTAATATTGCTAGCCC 58.098 37.500 13.29 0.00 0.00 5.19
216 221 4.976116 GTGCTTTTTAATATTGCTAGCCCG 59.024 41.667 13.29 0.00 0.00 6.13
218 223 4.976116 GCTTTTTAATATTGCTAGCCCGTG 59.024 41.667 13.29 0.00 0.00 4.94
219 224 4.561735 TTTTAATATTGCTAGCCCGTGC 57.438 40.909 13.29 0.00 37.95 5.34
221 226 1.597742 AATATTGCTAGCCCGTGCAG 58.402 50.000 13.29 0.00 40.46 4.41
222 227 0.469917 ATATTGCTAGCCCGTGCAGT 59.530 50.000 13.29 0.00 40.46 4.40
235 240 4.901627 GCAGTTGCACGAGTTGAC 57.098 55.556 0.00 0.00 41.59 3.18
257 262 6.588756 TGACGACCAGTTAAATTAGTTAGCTG 59.411 38.462 8.84 8.84 45.70 4.24
312 324 4.606210 TCTACTGGTTGAGCCACATACTA 58.394 43.478 0.00 0.00 43.61 1.82
313 325 3.895232 ACTGGTTGAGCCACATACTAG 57.105 47.619 0.00 0.00 43.61 2.57
396 409 1.064825 ACCTGACAAAGTAGGTGGGG 58.935 55.000 0.00 0.00 45.30 4.96
434 497 2.955614 TCGACAACAAAGTAGCTAGCC 58.044 47.619 12.13 0.00 0.00 3.93
446 509 3.637297 GCTAGCCAGCTTGAAATGC 57.363 52.632 2.29 0.00 44.93 3.56
448 511 1.475682 GCTAGCCAGCTTGAAATGCTT 59.524 47.619 2.29 0.00 46.12 3.91
449 512 2.094338 GCTAGCCAGCTTGAAATGCTTT 60.094 45.455 2.29 0.00 46.12 3.51
450 513 2.738013 AGCCAGCTTGAAATGCTTTC 57.262 45.000 0.00 2.75 46.12 2.62
451 514 1.274447 AGCCAGCTTGAAATGCTTTCC 59.726 47.619 6.29 0.00 46.12 3.13
452 515 1.673923 GCCAGCTTGAAATGCTTTCCC 60.674 52.381 6.29 0.00 46.12 3.97
453 516 1.066645 CCAGCTTGAAATGCTTTCCCC 60.067 52.381 6.29 0.00 46.12 4.81
454 517 1.066645 CAGCTTGAAATGCTTTCCCCC 60.067 52.381 6.29 0.00 46.12 5.40
469 532 4.511838 CCCCCGCAAGAAAAGGAA 57.488 55.556 0.00 0.00 43.02 3.36
470 533 2.740121 CCCCCGCAAGAAAAGGAAA 58.260 52.632 0.00 0.00 43.02 3.13
471 534 1.044611 CCCCCGCAAGAAAAGGAAAA 58.955 50.000 0.00 0.00 43.02 2.29
472 535 1.000843 CCCCCGCAAGAAAAGGAAAAG 59.999 52.381 0.00 0.00 43.02 2.27
473 536 1.686587 CCCCGCAAGAAAAGGAAAAGT 59.313 47.619 0.00 0.00 43.02 2.66
703 3689 2.033448 TTGCCATTCGCTCGGGTT 59.967 55.556 0.00 0.00 38.78 4.11
782 7698 2.757868 CACAAGTGACCCCAAAACAAGA 59.242 45.455 0.00 0.00 0.00 3.02
933 7885 1.334869 GGAATCCAACGCCATAAGCAG 59.665 52.381 0.00 0.00 44.04 4.24
935 7887 0.394216 ATCCAACGCCATAAGCAGCA 60.394 50.000 0.00 0.00 44.04 4.41
1440 8408 0.037975 GGTCCGACGCCTGAGTTAAA 60.038 55.000 0.00 0.00 0.00 1.52
1481 8449 0.376852 GAATAATTGGCTGCGCGTGA 59.623 50.000 8.43 0.00 0.00 4.35
1507 8479 4.764771 GGCAGCTGGGGGCATTCA 62.765 66.667 17.12 0.00 44.79 2.57
1508 8480 2.681064 GCAGCTGGGGGCATTCAA 60.681 61.111 17.12 0.00 44.79 2.69
1513 8485 1.279846 AGCTGGGGGCATTCAAAAATG 59.720 47.619 0.00 0.00 44.31 2.32
1593 8565 3.336468 TGCGTAATAAAACGGACATGGT 58.664 40.909 0.00 0.00 43.06 3.55
1596 8568 4.643953 CGTAATAAAACGGACATGGTGTG 58.356 43.478 0.00 0.00 39.19 3.82
1605 8577 0.598065 GACATGGTGTGTTTGCTCCC 59.402 55.000 0.00 0.00 42.36 4.30
1625 8597 1.396301 CGAGCTCAAATGCTTCCTGAC 59.604 52.381 15.40 0.00 44.17 3.51
1627 8599 2.419324 GAGCTCAAATGCTTCCTGACAG 59.581 50.000 9.40 0.00 44.17 3.51
1628 8600 2.157738 GCTCAAATGCTTCCTGACAGT 58.842 47.619 0.93 0.00 0.00 3.55
1629 8601 3.008375 AGCTCAAATGCTTCCTGACAGTA 59.992 43.478 0.93 0.00 40.93 2.74
1631 8603 4.216257 GCTCAAATGCTTCCTGACAGTAAA 59.784 41.667 0.93 0.00 0.00 2.01
1632 8604 5.618640 GCTCAAATGCTTCCTGACAGTAAAG 60.619 44.000 0.93 6.14 0.00 1.85
1637 8609 6.959639 ATGCTTCCTGACAGTAAAGAAAAA 57.040 33.333 15.47 0.00 0.00 1.94
1747 8719 0.934496 TTCGTGAAAGTCGTGGCAAG 59.066 50.000 0.00 0.00 0.00 4.01
1758 8730 3.192633 AGTCGTGGCAAGAAAACAAAGTT 59.807 39.130 4.28 0.00 0.00 2.66
1830 8802 9.581099 TTTGTTTTCTTTCACTCCTTAAATCAC 57.419 29.630 0.00 0.00 0.00 3.06
1831 8803 8.287439 TGTTTTCTTTCACTCCTTAAATCACA 57.713 30.769 0.00 0.00 0.00 3.58
1859 8831 3.631144 TCGTGCTGAAATTTTGCAAGAG 58.369 40.909 21.66 15.51 39.45 2.85
1926 8902 7.899648 TTTTATTTTACTGTTCACCAGGGAA 57.100 32.000 0.00 0.00 46.06 3.97
1944 8921 2.083774 GAACATTGATCTCGGGTGCAA 58.916 47.619 0.00 0.00 0.00 4.08
1961 8938 6.440436 GGGTGCAAAATAGTACTTTCGAAAA 58.560 36.000 12.41 0.00 0.00 2.29
2005 8982 4.161377 TCGATGGGTGAAGTGTGATCATAA 59.839 41.667 0.00 0.00 0.00 1.90
2012 8989 6.708054 GGGTGAAGTGTGATCATAATTCCTAG 59.292 42.308 23.94 0.00 0.00 3.02
2076 9062 5.468072 TCAAGAAGCTGAGCTGAGTAAAAAG 59.532 40.000 8.16 0.00 39.62 2.27
2078 9064 5.615289 AGAAGCTGAGCTGAGTAAAAAGAA 58.385 37.500 8.16 0.00 39.62 2.52
2085 9071 7.333174 GCTGAGCTGAGTAAAAAGAATCTAAGT 59.667 37.037 1.09 0.00 0.00 2.24
2099 9091 1.910671 TCTAAGTATTTGCGGGTGGGT 59.089 47.619 0.00 0.00 0.00 4.51
2166 9162 3.327757 CCTAGGAGGTTGGCAGCATATAA 59.672 47.826 1.05 0.00 0.00 0.98
2167 9163 3.498774 AGGAGGTTGGCAGCATATAAG 57.501 47.619 3.14 0.00 0.00 1.73
2181 9177 3.243569 GCATATAAGTGAGTCACCGAGCT 60.244 47.826 19.71 0.00 34.49 4.09
2204 9200 2.090524 GTAGGTTTGCGACGGTCGG 61.091 63.158 29.30 13.13 40.84 4.79
2252 9248 3.130280 CCATGATGGATGGTTCGATCA 57.870 47.619 5.27 3.65 46.77 2.92
2255 9251 5.247862 CCATGATGGATGGTTCGATCAATA 58.752 41.667 5.27 0.00 46.14 1.90
2266 9262 5.518847 TGGTTCGATCAATATTGTTCGTCTC 59.481 40.000 32.31 25.15 45.55 3.36
2281 9277 6.820335 TGTTCGTCTCAATGGATTCTCATAT 58.180 36.000 0.00 0.00 0.00 1.78
2282 9278 7.275183 TGTTCGTCTCAATGGATTCTCATATT 58.725 34.615 0.00 0.00 0.00 1.28
2283 9279 7.770433 TGTTCGTCTCAATGGATTCTCATATTT 59.230 33.333 0.00 0.00 0.00 1.40
2284 9280 7.719778 TCGTCTCAATGGATTCTCATATTTG 57.280 36.000 0.00 0.00 0.00 2.32
2285 9281 7.500141 TCGTCTCAATGGATTCTCATATTTGA 58.500 34.615 0.00 0.00 0.00 2.69
2286 9282 8.152898 TCGTCTCAATGGATTCTCATATTTGAT 58.847 33.333 0.00 0.00 0.00 2.57
2287 9283 9.428097 CGTCTCAATGGATTCTCATATTTGATA 57.572 33.333 0.00 0.00 0.00 2.15
2333 9329 1.026718 GGAAGGGAAGCATGGACACG 61.027 60.000 0.00 0.00 0.00 4.49
2361 9357 2.489329 AGGATTTGTGAACGCATCTTGG 59.511 45.455 0.00 0.00 0.00 3.61
2383 9379 2.288948 GCAATGCTTCCATGGTGTCAAA 60.289 45.455 12.58 0.00 0.00 2.69
2409 9405 2.783135 TCTCTGCATGGTTGGAACTTC 58.217 47.619 0.00 0.00 0.00 3.01
2410 9406 1.466167 CTCTGCATGGTTGGAACTTCG 59.534 52.381 0.00 0.00 0.00 3.79
2416 9412 3.427503 GCATGGTTGGAACTTCGTAATGG 60.428 47.826 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
61 63 7.678947 ACTGAGATCTTCTTGGTTATTTGTG 57.321 36.000 0.00 0.00 0.00 3.33
62 64 9.220767 GTTACTGAGATCTTCTTGGTTATTTGT 57.779 33.333 0.00 0.00 0.00 2.83
118 120 9.672673 AAAACACATCTCTAGCATATTGTTACT 57.327 29.630 0.00 0.00 0.00 2.24
192 197 5.449862 CGGGCTAGCAATATTAAAAAGCACA 60.450 40.000 18.24 0.00 31.38 4.57
206 211 1.965930 CAACTGCACGGGCTAGCAA 60.966 57.895 18.24 0.00 40.73 3.91
207 212 2.358615 CAACTGCACGGGCTAGCA 60.359 61.111 18.24 0.00 41.91 3.49
208 213 3.804193 GCAACTGCACGGGCTAGC 61.804 66.667 12.74 6.04 41.91 3.42
218 223 1.083401 CGTCAACTCGTGCAACTGC 60.083 57.895 0.00 0.00 42.50 4.40
219 224 0.229753 GTCGTCAACTCGTGCAACTG 59.770 55.000 0.00 0.00 31.75 3.16
221 226 1.149361 TGGTCGTCAACTCGTGCAAC 61.149 55.000 0.00 0.00 0.00 4.17
222 227 0.874175 CTGGTCGTCAACTCGTGCAA 60.874 55.000 0.00 0.00 0.00 4.08
235 240 6.588756 TGTCAGCTAACTAATTTAACTGGTCG 59.411 38.462 0.00 0.00 35.41 4.79
257 262 1.376037 CCGGTCCCTTTCAGCTGTC 60.376 63.158 14.67 0.00 0.00 3.51
269 274 2.103736 GTAGCACTACGCCGGTCC 59.896 66.667 1.90 0.00 44.04 4.46
312 324 9.935241 CTTGGTTATAGAATGAGCATATGTACT 57.065 33.333 4.29 0.00 0.00 2.73
313 325 9.155975 CCTTGGTTATAGAATGAGCATATGTAC 57.844 37.037 4.29 0.00 0.00 2.90
360 373 9.856162 TTTGTCAGGTATCTAAAAACCTAACTT 57.144 29.630 0.00 0.00 44.43 2.66
361 374 9.503399 CTTTGTCAGGTATCTAAAAACCTAACT 57.497 33.333 0.00 0.00 44.43 2.24
362 375 9.281371 ACTTTGTCAGGTATCTAAAAACCTAAC 57.719 33.333 0.00 0.00 44.43 2.34
366 379 7.881751 ACCTACTTTGTCAGGTATCTAAAAACC 59.118 37.037 0.00 0.00 43.48 3.27
367 380 8.718734 CACCTACTTTGTCAGGTATCTAAAAAC 58.281 37.037 0.00 0.00 43.45 2.43
368 381 7.881232 CCACCTACTTTGTCAGGTATCTAAAAA 59.119 37.037 0.00 0.00 43.45 1.94
369 382 7.391620 CCACCTACTTTGTCAGGTATCTAAAA 58.608 38.462 0.00 0.00 43.45 1.52
370 383 6.070424 CCCACCTACTTTGTCAGGTATCTAAA 60.070 42.308 0.00 0.00 43.45 1.85
371 384 5.424252 CCCACCTACTTTGTCAGGTATCTAA 59.576 44.000 0.00 0.00 43.45 2.10
372 385 4.960469 CCCACCTACTTTGTCAGGTATCTA 59.040 45.833 0.00 0.00 43.45 1.98
373 386 3.775316 CCCACCTACTTTGTCAGGTATCT 59.225 47.826 0.00 0.00 43.45 1.98
374 387 3.118371 CCCCACCTACTTTGTCAGGTATC 60.118 52.174 0.00 0.00 43.45 2.24
375 388 2.844348 CCCCACCTACTTTGTCAGGTAT 59.156 50.000 0.00 0.00 43.45 2.73
376 389 2.262637 CCCCACCTACTTTGTCAGGTA 58.737 52.381 0.00 0.00 43.45 3.08
377 390 1.064825 CCCCACCTACTTTGTCAGGT 58.935 55.000 0.00 0.00 46.29 4.00
378 391 1.064825 ACCCCACCTACTTTGTCAGG 58.935 55.000 0.00 0.00 37.97 3.86
379 392 4.569719 AATACCCCACCTACTTTGTCAG 57.430 45.455 0.00 0.00 0.00 3.51
380 393 5.327737 AAAATACCCCACCTACTTTGTCA 57.672 39.130 0.00 0.00 0.00 3.58
452 515 1.000843 CTTTTCCTTTTCTTGCGGGGG 59.999 52.381 0.00 0.00 0.00 5.40
453 516 1.686587 ACTTTTCCTTTTCTTGCGGGG 59.313 47.619 0.00 0.00 0.00 5.73
454 517 3.452755 AACTTTTCCTTTTCTTGCGGG 57.547 42.857 0.00 0.00 0.00 6.13
455 518 4.429108 TCAAACTTTTCCTTTTCTTGCGG 58.571 39.130 0.00 0.00 0.00 5.69
456 519 6.401955 TTTCAAACTTTTCCTTTTCTTGCG 57.598 33.333 0.00 0.00 0.00 4.85
457 520 7.751732 ACATTTCAAACTTTTCCTTTTCTTGC 58.248 30.769 0.00 0.00 0.00 4.01
703 3689 1.876416 GCTGAGTGTTGGAGCGGTAAA 60.876 52.381 0.00 0.00 0.00 2.01
782 7698 6.367969 GTGCTCGATATGGGATTAATTAACGT 59.632 38.462 0.00 0.00 0.00 3.99
935 7887 2.125512 GATCGGCTTGCTCGTGGT 60.126 61.111 0.00 0.00 0.00 4.16
1507 8479 5.796424 ACAGAAGAGACATTGGCATTTTT 57.204 34.783 0.00 0.00 0.00 1.94
1508 8480 5.796424 AACAGAAGAGACATTGGCATTTT 57.204 34.783 0.00 0.00 0.00 1.82
1513 8485 4.276926 ACAGAAAACAGAAGAGACATTGGC 59.723 41.667 0.00 0.00 0.00 4.52
1514 8486 6.382869 AACAGAAAACAGAAGAGACATTGG 57.617 37.500 0.00 0.00 0.00 3.16
1605 8577 1.396301 GTCAGGAAGCATTTGAGCTCG 59.604 52.381 9.64 0.00 45.89 5.03
1700 8672 3.706802 TCGTGCTGAAATTTTGCAAGA 57.293 38.095 21.66 21.66 41.32 3.02
1747 8719 9.276397 CATTTTTGGAACATCAACTTTGTTTTC 57.724 29.630 0.00 0.00 39.30 2.29
1758 8730 7.495901 TCAAAACTAGCATTTTTGGAACATCA 58.504 30.769 13.90 0.00 42.03 3.07
1828 8800 3.607422 TTTCAGCACGAAATGACTGTG 57.393 42.857 0.00 0.00 38.72 3.66
1859 8831 9.141400 TGGTAAACTTTGACAAATGTTTTGTAC 57.859 29.630 22.17 17.17 41.39 2.90
1919 8895 1.475751 CCCGAGATCAATGTTCCCTGG 60.476 57.143 0.00 0.00 0.00 4.45
1926 8902 2.198827 TTTGCACCCGAGATCAATGT 57.801 45.000 0.00 0.00 0.00 2.71
1961 8938 4.686554 CGATCTTGAGAAAGAAAACCTCGT 59.313 41.667 0.00 0.00 31.77 4.18
1974 8951 3.099905 ACTTCACCCATCGATCTTGAGA 58.900 45.455 0.00 0.00 0.00 3.27
2005 8982 5.475909 CCTTGCATGCATACATTCTAGGAAT 59.524 40.000 23.37 0.00 42.14 3.01
2012 8989 6.263516 ACATATCCTTGCATGCATACATTC 57.736 37.500 23.37 0.00 32.87 2.67
2054 9031 5.615289 TCTTTTTACTCAGCTCAGCTTCTT 58.385 37.500 0.00 0.00 36.40 2.52
2056 9033 5.931441 TTCTTTTTACTCAGCTCAGCTTC 57.069 39.130 0.00 0.00 36.40 3.86
2076 9062 3.564225 CCCACCCGCAAATACTTAGATTC 59.436 47.826 0.00 0.00 0.00 2.52
2078 9064 2.508300 ACCCACCCGCAAATACTTAGAT 59.492 45.455 0.00 0.00 0.00 1.98
2085 9071 0.969894 CCAAAACCCACCCGCAAATA 59.030 50.000 0.00 0.00 0.00 1.40
2166 9162 1.067283 CATTGAGCTCGGTGACTCACT 60.067 52.381 9.64 0.00 42.42 3.41
2167 9163 1.337260 ACATTGAGCTCGGTGACTCAC 60.337 52.381 20.92 0.00 42.42 3.51
2181 9177 1.270412 ACCGTCGCAAACCTACATTGA 60.270 47.619 0.00 0.00 0.00 2.57
2204 9200 4.451096 TGAGTTTCGCCTTTCAATCTACAC 59.549 41.667 0.00 0.00 0.00 2.90
2252 9248 7.770433 TGAGAATCCATTGAGACGAACAATATT 59.230 33.333 0.00 0.00 36.40 1.28
2255 9251 5.491070 TGAGAATCCATTGAGACGAACAAT 58.509 37.500 0.00 0.00 38.30 2.71
2283 9279 9.834628 GTTCAAATCAAGGTTTTCGTAATATCA 57.165 29.630 0.00 0.00 0.00 2.15
2284 9280 9.834628 TGTTCAAATCAAGGTTTTCGTAATATC 57.165 29.630 0.00 0.00 0.00 1.63
2285 9281 9.840427 CTGTTCAAATCAAGGTTTTCGTAATAT 57.160 29.630 0.00 0.00 0.00 1.28
2286 9282 8.293867 CCTGTTCAAATCAAGGTTTTCGTAATA 58.706 33.333 0.00 0.00 0.00 0.98
2287 9283 7.145323 CCTGTTCAAATCAAGGTTTTCGTAAT 58.855 34.615 0.00 0.00 0.00 1.89
2288 9284 6.095720 ACCTGTTCAAATCAAGGTTTTCGTAA 59.904 34.615 0.00 0.00 0.00 3.18
2289 9285 5.591067 ACCTGTTCAAATCAAGGTTTTCGTA 59.409 36.000 0.00 0.00 0.00 3.43
2290 9286 4.401202 ACCTGTTCAAATCAAGGTTTTCGT 59.599 37.500 0.00 0.00 0.00 3.85
2291 9287 4.739716 CACCTGTTCAAATCAAGGTTTTCG 59.260 41.667 0.00 0.00 0.00 3.46
2292 9288 5.049828 CCACCTGTTCAAATCAAGGTTTTC 58.950 41.667 0.00 0.00 0.00 2.29
2293 9289 4.714308 TCCACCTGTTCAAATCAAGGTTTT 59.286 37.500 0.00 0.00 0.00 2.43
2294 9290 4.285863 TCCACCTGTTCAAATCAAGGTTT 58.714 39.130 0.00 0.00 0.00 3.27
2295 9291 3.909732 TCCACCTGTTCAAATCAAGGTT 58.090 40.909 0.00 0.00 0.00 3.50
2296 9292 3.593442 TCCACCTGTTCAAATCAAGGT 57.407 42.857 0.00 0.00 0.00 3.50
2297 9293 3.256631 CCTTCCACCTGTTCAAATCAAGG 59.743 47.826 0.00 0.00 0.00 3.61
2298 9294 3.256631 CCCTTCCACCTGTTCAAATCAAG 59.743 47.826 0.00 0.00 0.00 3.02
2333 9329 3.004315 TGCGTTCACAAATCCTTTTCTCC 59.996 43.478 0.00 0.00 0.00 3.71
2361 9357 0.174162 GACACCATGGAAGCATTGCC 59.826 55.000 21.47 0.00 34.47 4.52
2383 9379 1.822990 CCAACCATGCAGAGATGCTTT 59.177 47.619 1.53 0.00 35.49 3.51
2409 9405 2.821546 TCTCGGCTTTCATCCATTACG 58.178 47.619 0.00 0.00 0.00 3.18
2410 9406 3.002759 GCTTCTCGGCTTTCATCCATTAC 59.997 47.826 0.00 0.00 0.00 1.89
2416 9412 2.398803 GGGCTTCTCGGCTTTCATC 58.601 57.895 0.00 0.00 38.46 2.92


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

AutoCloner maintained by Alex Coulton.