Multiple sequence alignment - TraesCS6B01G209400

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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 TraesCS6B01G209400 chr6B 100.000 5468 0 0 1 5468 276217538 276223005 0.000000e+00 10098.0
1 TraesCS6B01G209400 chr6B 83.654 520 69 13 4960 5468 661061102 661060588 4.960000e-130 475.0
2 TraesCS6B01G209400 chr6A 95.628 4918 166 22 1 4883 192208679 192203776 0.000000e+00 7845.0
3 TraesCS6B01G209400 chr6D 96.628 2669 69 10 2244 4906 151597454 151600107 0.000000e+00 4410.0
4 TraesCS6B01G209400 chr6D 93.519 2330 96 17 3 2287 151595129 151597448 0.000000e+00 3415.0
5 TraesCS6B01G209400 chr5A 98.401 563 9 0 4906 5468 67342807 67342245 0.000000e+00 990.0
6 TraesCS6B01G209400 chr1B 97.687 562 13 0 4907 5468 9745992 9746553 0.000000e+00 966.0
7 TraesCS6B01G209400 chr4B 95.915 563 23 0 4906 5468 28943431 28942869 0.000000e+00 913.0
8 TraesCS6B01G209400 chr3B 97.368 456 12 0 4906 5361 104330016 104329561 0.000000e+00 776.0
9 TraesCS6B01G209400 chr3B 84.720 517 65 12 4960 5468 728260670 728261180 6.320000e-139 505.0
10 TraesCS6B01G209400 chr2B 93.839 422 12 2 4907 5328 566631145 566630738 1.670000e-174 623.0
11 TraesCS6B01G209400 chr2B 82.540 252 31 10 4960 5202 483125222 483125469 5.550000e-50 209.0
12 TraesCS6B01G209400 chr7D 84.720 517 68 7 4961 5468 620140383 620140897 1.760000e-139 507.0
13 TraesCS6B01G209400 chr7B 84.261 521 63 15 4960 5468 616285693 616286206 1.770000e-134 490.0
14 TraesCS6B01G209400 chr7A 82.967 182 18 6 4903 5083 424535418 424535587 9.490000e-33 152.0
15 TraesCS6B01G209400 chr1A 100.000 28 0 0 4879 4906 582705201 582705174 1.000000e-02 52.8


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 TraesCS6B01G209400 chr6B 276217538 276223005 5467 False 10098.0 10098 100.0000 1 5468 1 chr6B.!!$F1 5467
1 TraesCS6B01G209400 chr6B 661060588 661061102 514 True 475.0 475 83.6540 4960 5468 1 chr6B.!!$R1 508
2 TraesCS6B01G209400 chr6A 192203776 192208679 4903 True 7845.0 7845 95.6280 1 4883 1 chr6A.!!$R1 4882
3 TraesCS6B01G209400 chr6D 151595129 151600107 4978 False 3912.5 4410 95.0735 3 4906 2 chr6D.!!$F1 4903
4 TraesCS6B01G209400 chr5A 67342245 67342807 562 True 990.0 990 98.4010 4906 5468 1 chr5A.!!$R1 562
5 TraesCS6B01G209400 chr1B 9745992 9746553 561 False 966.0 966 97.6870 4907 5468 1 chr1B.!!$F1 561
6 TraesCS6B01G209400 chr4B 28942869 28943431 562 True 913.0 913 95.9150 4906 5468 1 chr4B.!!$R1 562
7 TraesCS6B01G209400 chr3B 728260670 728261180 510 False 505.0 505 84.7200 4960 5468 1 chr3B.!!$F1 508
8 TraesCS6B01G209400 chr7D 620140383 620140897 514 False 507.0 507 84.7200 4961 5468 1 chr7D.!!$F1 507
9 TraesCS6B01G209400 chr7B 616285693 616286206 513 False 490.0 490 84.2610 4960 5468 1 chr7B.!!$F1 508

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
268 271 0.179145 GCCGACTCAGTTAGCGCTTA 60.179 55.000 18.68 2.28 0.00 3.09 F
481 502 0.391661 GCGTTGGCATCTTCCTCAGA 60.392 55.000 0.00 0.00 39.62 3.27 F
2154 2217 0.038166 TGCCCACTTCCCTTCATGAC 59.962 55.000 0.00 0.00 0.00 3.06 F
2862 2979 2.167281 TGCTGCTCATACTCTTCTGACC 59.833 50.000 0.00 0.00 0.00 4.02 F
3076 3193 1.270252 GCAGGCTTGGCTTTAGCAAAA 60.270 47.619 3.88 0.00 44.36 2.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2137 2197 0.324943 ACGTCATGAAGGGAAGTGGG 59.675 55.000 13.36 0.0 0.00 4.61 R
2386 2503 0.882042 AGCAAGTCGTCTGCAACAGG 60.882 55.000 8.42 0.0 31.51 4.00 R
3076 3193 1.539065 CGCTATTCGAGGTCCAAGCAT 60.539 52.381 0.00 0.0 41.67 3.79 R
4173 4294 1.228154 GCAGGGTTTGGTTCCGACT 60.228 57.895 0.00 0.0 0.00 4.18 R
4902 5025 1.456331 CCATTGGGGCCAGCCTTAG 60.456 63.158 4.39 0.0 36.10 2.18 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
156 158 1.151679 TCAAACACGAATGGGGCCA 59.848 52.632 4.39 0.00 0.00 5.36
170 172 4.146640 GCCAACGCCATCGAAAAC 57.853 55.556 0.00 0.00 39.41 2.43
171 173 1.284408 GCCAACGCCATCGAAAACA 59.716 52.632 0.00 0.00 39.41 2.83
221 223 7.916552 ACAAAACATACCTCTATTTACATCGC 58.083 34.615 0.00 0.00 0.00 4.58
234 236 2.358247 ATCGCCGCGTTGGAGTTT 60.358 55.556 13.39 0.00 42.00 2.66
261 264 4.728409 TCGGAGCCGACTCAGTTA 57.272 55.556 7.66 0.00 45.42 2.24
268 271 0.179145 GCCGACTCAGTTAGCGCTTA 60.179 55.000 18.68 2.28 0.00 3.09
389 394 6.231951 GGTTAGTATTTATCTGCTCCCTTCC 58.768 44.000 0.00 0.00 0.00 3.46
390 395 6.183361 GGTTAGTATTTATCTGCTCCCTTCCA 60.183 42.308 0.00 0.00 0.00 3.53
479 500 1.374568 TGCGTTGGCATCTTCCTCA 59.625 52.632 0.00 0.00 46.21 3.86
480 501 0.674581 TGCGTTGGCATCTTCCTCAG 60.675 55.000 0.00 0.00 46.21 3.35
481 502 0.391661 GCGTTGGCATCTTCCTCAGA 60.392 55.000 0.00 0.00 39.62 3.27
754 813 1.001158 TGCGGTTTTGGAAATTCGGAC 60.001 47.619 0.00 0.00 0.00 4.79
758 817 3.608474 CGGTTTTGGAAATTCGGACTGAC 60.608 47.826 0.00 0.00 0.00 3.51
760 819 2.823924 TTGGAAATTCGGACTGACGA 57.176 45.000 0.00 0.00 41.76 4.20
775 834 0.966179 GACGATTGGGGTTTGGCTTT 59.034 50.000 0.00 0.00 0.00 3.51
782 841 1.529713 GGGTTTGGCTTTGGACGGA 60.530 57.895 0.00 0.00 0.00 4.69
985 1044 4.072131 TCTATCAGGAGTTGTTTTGGTGC 58.928 43.478 0.00 0.00 0.00 5.01
1413 1472 3.067601 TGCAGAAGTTGACAGAGAACGTA 59.932 43.478 0.00 0.00 0.00 3.57
1446 1505 0.525668 CGTCTACTGCTAAGGCCACG 60.526 60.000 5.01 0.00 37.74 4.94
1642 1701 1.226773 GTGGATGGCGCAATTGAGC 60.227 57.895 24.06 24.06 40.21 4.26
1644 1703 1.358046 GGATGGCGCAATTGAGCTC 59.642 57.895 29.23 20.78 40.76 4.09
1791 1850 4.391216 ACGAGCAAAGATCTTGAAGATGTG 59.609 41.667 13.18 8.78 34.53 3.21
1800 1859 6.233434 AGATCTTGAAGATGTGTGTTGCTTA 58.767 36.000 13.18 0.00 34.53 3.09
1808 1867 5.368145 AGATGTGTGTTGCTTACTTCAGAA 58.632 37.500 0.00 0.00 0.00 3.02
1811 1870 2.286833 TGTGTTGCTTACTTCAGAACGC 59.713 45.455 0.00 0.00 0.00 4.84
2096 2155 8.708742 TCTTTAGTGAATTTATCGATATTGCCG 58.291 33.333 5.84 0.00 0.00 5.69
2154 2217 0.038166 TGCCCACTTCCCTTCATGAC 59.962 55.000 0.00 0.00 0.00 3.06
2220 2283 4.978099 TCTTCTGAGTTTCAAGATTGGCT 58.022 39.130 0.00 0.00 0.00 4.75
2222 2285 5.471456 TCTTCTGAGTTTCAAGATTGGCTTC 59.529 40.000 0.00 0.00 33.60 3.86
2230 2293 7.899973 AGTTTCAAGATTGGCTTCATTGTATT 58.100 30.769 0.00 0.00 33.60 1.89
2234 2297 8.347004 TCAAGATTGGCTTCATTGTATTAACA 57.653 30.769 0.00 0.00 33.60 2.41
2235 2298 8.461222 TCAAGATTGGCTTCATTGTATTAACAG 58.539 33.333 0.00 0.00 33.67 3.16
2237 2300 5.973899 TTGGCTTCATTGTATTAACAGCA 57.026 34.783 0.00 0.00 36.83 4.41
2238 2301 6.528537 TTGGCTTCATTGTATTAACAGCAT 57.471 33.333 0.00 0.00 36.83 3.79
2279 2392 9.658799 TTATATCCATGCAAATCTACTTAGAGC 57.341 33.333 0.00 0.00 35.50 4.09
2280 2393 5.620738 TCCATGCAAATCTACTTAGAGCT 57.379 39.130 0.00 0.00 35.50 4.09
2303 2417 8.206189 AGCTATTAATTGTGCTTATTTTGCCAT 58.794 29.630 0.00 0.00 30.96 4.40
2358 2475 8.248945 GCTACAGACTACTTTTATGTGTTCCTA 58.751 37.037 0.00 0.00 0.00 2.94
2366 2483 9.449719 CTACTTTTATGTGTTCCTAGATGGTTT 57.550 33.333 0.00 0.00 37.07 3.27
2373 2490 6.607019 TGTGTTCCTAGATGGTTTACCTTTT 58.393 36.000 0.00 0.00 37.07 2.27
2375 2492 6.007703 TGTTCCTAGATGGTTTACCTTTTGG 58.992 40.000 0.00 0.00 40.57 3.28
2445 2562 3.244582 TCCCCTTACAGTTGCTGTCTTA 58.755 45.455 4.95 0.00 41.21 2.10
2736 2853 5.066505 GCAGGACAGTTTATTCCCTATTGTG 59.933 44.000 0.00 0.00 31.51 3.33
2763 2880 6.026947 TCAAAACTAGTAGAAGGCTCACTC 57.973 41.667 3.59 0.00 0.00 3.51
2813 2930 7.585579 TGTATCATATGCATGACATGGTTTT 57.414 32.000 17.03 0.00 43.89 2.43
2862 2979 2.167281 TGCTGCTCATACTCTTCTGACC 59.833 50.000 0.00 0.00 0.00 4.02
3040 3157 5.190992 TCTCATGGCATGCAAATCAATAC 57.809 39.130 22.56 0.00 0.00 1.89
3060 3177 2.295885 CCTGAATTTGAGGCTAGCAGG 58.704 52.381 18.24 7.31 35.93 4.85
3076 3193 1.270252 GCAGGCTTGGCTTTAGCAAAA 60.270 47.619 3.88 0.00 44.36 2.44
3115 3236 2.711542 CGGAGCTAATTTCTGTTGGGT 58.288 47.619 0.00 0.00 0.00 4.51
3129 3250 4.074970 CTGTTGGGTCACAAGCTCTTATT 58.925 43.478 0.00 0.00 40.38 1.40
3141 3262 4.013267 AGCTCTTATTGTTGCTGTCACT 57.987 40.909 0.00 0.00 34.19 3.41
3228 3349 9.461312 ACAGCAGGTTCTGTTGATAAATTAATA 57.539 29.630 16.45 0.00 43.65 0.98
3248 3369 2.831685 TGTGTTCTTCGTGGCTATGT 57.168 45.000 0.00 0.00 0.00 2.29
3384 3505 6.367422 CAGAACTACTGTCTCCAGAAAATGAC 59.633 42.308 0.00 0.00 41.50 3.06
3505 3626 3.818773 GCTCCTTGTACTTTTAGGTTGCA 59.181 43.478 0.00 0.00 33.39 4.08
4057 4178 2.945668 GTGTATGCAAAGGGAGGATCAC 59.054 50.000 0.00 0.00 40.51 3.06
4086 4207 5.298989 TGCAGAGGTTTTTACAACTAGGA 57.701 39.130 0.00 0.00 0.00 2.94
4140 4261 1.583054 AGTGCGTCAAGACAAAGGAC 58.417 50.000 0.72 0.00 0.00 3.85
4169 4290 1.956477 GCAACTTCTGGTGGACATTGT 59.044 47.619 0.00 0.00 0.00 2.71
4173 4294 0.184692 TTCTGGTGGACATTGTGGCA 59.815 50.000 0.00 0.00 0.00 4.92
4490 4611 4.795278 GCATTATGCTGCAAACTTCAGTAC 59.205 41.667 10.27 0.00 40.96 2.73
4552 4673 9.573166 AAACATATATAGGTTAAGATGCTGCAA 57.427 29.630 12.81 0.00 29.18 4.08
4553 4674 9.573166 AACATATATAGGTTAAGATGCTGCAAA 57.427 29.630 10.92 0.00 0.00 3.68
4722 4843 0.321919 CCATATCCACATCAGCCCCG 60.322 60.000 0.00 0.00 0.00 5.73
4902 5025 0.902516 AGCATCTCTAGCCGATCCCC 60.903 60.000 0.00 0.00 0.00 4.81
5057 5180 7.952671 TGCTTTTGTGGGATCTATAGTAGTAG 58.047 38.462 0.00 0.00 0.00 2.57
5451 5585 7.042797 TCTTGTTCATCATCGACTATCATGA 57.957 36.000 0.00 0.00 33.55 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 9.516314 GATATCTACATTGCCCAAAGTTTAAAC 57.484 33.333 10.47 10.47 0.00 2.01
107 109 2.706123 GCCAACGCGTCGCATTTTG 61.706 57.895 22.18 15.67 0.00 2.44
133 135 0.240945 CCCATTCGTGTTTGACTGGC 59.759 55.000 0.00 0.00 37.37 4.85
138 140 0.468214 TTGGCCCCATTCGTGTTTGA 60.468 50.000 0.00 0.00 0.00 2.69
156 158 0.881159 TCGGTGTTTTCGATGGCGTT 60.881 50.000 0.00 0.00 38.98 4.84
165 167 3.242804 TGTTCGTTTGGATCGGTGTTTTC 60.243 43.478 0.00 0.00 0.00 2.29
170 172 3.341857 TTTTGTTCGTTTGGATCGGTG 57.658 42.857 0.00 0.00 0.00 4.94
203 205 3.672511 CGCGGCGATGTAAATAGAGGTAT 60.673 47.826 19.16 0.00 0.00 2.73
205 207 1.602165 CGCGGCGATGTAAATAGAGGT 60.602 52.381 19.16 0.00 0.00 3.85
207 209 1.767289 ACGCGGCGATGTAAATAGAG 58.233 50.000 30.94 0.00 0.00 2.43
211 213 0.741574 TCCAACGCGGCGATGTAAAT 60.742 50.000 30.94 0.52 33.14 1.40
217 219 2.358247 AAACTCCAACGCGGCGAT 60.358 55.556 30.94 15.67 33.14 4.58
246 248 1.226717 CGCTAACTGAGTCGGCTCC 60.227 63.158 15.72 0.00 40.95 4.70
251 253 2.177977 CACTAAGCGCTAACTGAGTCG 58.822 52.381 12.05 0.00 27.93 4.18
268 271 6.143496 CGTCAAGATATATCAACGTAGCACT 58.857 40.000 15.08 0.00 0.00 4.40
365 370 6.183361 TGGAAGGGAGCAGATAAATACTAACC 60.183 42.308 0.00 0.00 0.00 2.85
368 373 7.446106 TTTGGAAGGGAGCAGATAAATACTA 57.554 36.000 0.00 0.00 0.00 1.82
369 374 5.975988 TTGGAAGGGAGCAGATAAATACT 57.024 39.130 0.00 0.00 0.00 2.12
370 375 7.404671 TTTTTGGAAGGGAGCAGATAAATAC 57.595 36.000 0.00 0.00 0.00 1.89
479 500 4.164988 CAGGTATGGATGGGTTCTTCTTCT 59.835 45.833 0.00 0.00 0.00 2.85
480 501 4.455606 CAGGTATGGATGGGTTCTTCTTC 58.544 47.826 0.00 0.00 0.00 2.87
481 502 3.372025 GCAGGTATGGATGGGTTCTTCTT 60.372 47.826 0.00 0.00 0.00 2.52
754 813 0.609131 AGCCAAACCCCAATCGTCAG 60.609 55.000 0.00 0.00 0.00 3.51
758 817 0.037419 CCAAAGCCAAACCCCAATCG 60.037 55.000 0.00 0.00 0.00 3.34
760 819 1.055849 GTCCAAAGCCAAACCCCAAT 58.944 50.000 0.00 0.00 0.00 3.16
775 834 1.285280 ACCCAGAAATCATCCGTCCA 58.715 50.000 0.00 0.00 0.00 4.02
782 841 2.094675 CCGCTTCAACCCAGAAATCAT 58.905 47.619 0.00 0.00 0.00 2.45
827 886 4.711846 AGCAAAATCCCCCTTTCTATCAAC 59.288 41.667 0.00 0.00 0.00 3.18
1104 1163 2.204059 AGCACCTGGAGCCTCCTT 60.204 61.111 12.94 0.00 37.46 3.36
1209 1268 1.805345 CTGCTCAAGCTCTGAAACTGG 59.195 52.381 3.32 0.00 42.66 4.00
1413 1472 2.959707 AGTAGACGCTATAGCTTTGCCT 59.040 45.455 21.98 12.95 39.32 4.75
1642 1701 1.528309 ACCACCGGCCAAAACTGAG 60.528 57.895 0.00 0.00 0.00 3.35
1644 1703 2.727544 CACCACCGGCCAAAACTG 59.272 61.111 0.00 0.00 0.00 3.16
1791 1850 2.659291 CGCGTTCTGAAGTAAGCAACAC 60.659 50.000 0.00 0.00 0.00 3.32
1800 1859 0.655733 CAACCAACGCGTTCTGAAGT 59.344 50.000 23.92 11.59 0.00 3.01
1808 1867 0.463116 ACTCTTTCCAACCAACGCGT 60.463 50.000 5.58 5.58 0.00 6.01
1811 1870 6.548441 TTAACATACTCTTTCCAACCAACG 57.452 37.500 0.00 0.00 0.00 4.10
1892 1951 3.064820 CACAAGATACCGGCAACCATTAC 59.935 47.826 0.00 0.00 0.00 1.89
1898 1957 1.803334 TGTCACAAGATACCGGCAAC 58.197 50.000 0.00 0.00 0.00 4.17
2137 2197 0.324943 ACGTCATGAAGGGAAGTGGG 59.675 55.000 13.36 0.00 0.00 4.61
2138 2198 3.458189 GATACGTCATGAAGGGAAGTGG 58.542 50.000 13.36 0.00 0.00 4.00
2154 2217 2.550606 GAGACCTAGACTGCAGGATACG 59.449 54.545 19.93 4.74 46.39 3.06
2220 2283 9.755804 TTTTTGACATGCTGTTAATACAATGAA 57.244 25.926 0.00 0.00 32.92 2.57
2279 2392 8.277713 GCATGGCAAAATAAGCACAATTAATAG 58.722 33.333 0.00 0.00 0.00 1.73
2280 2393 7.767659 TGCATGGCAAAATAAGCACAATTAATA 59.232 29.630 0.00 0.00 34.76 0.98
2338 2455 8.258708 ACCATCTAGGAACACATAAAAGTAGTC 58.741 37.037 0.00 0.00 41.22 2.59
2343 2460 8.674607 GGTAAACCATCTAGGAACACATAAAAG 58.325 37.037 0.00 0.00 41.22 2.27
2358 2475 6.239204 GCAAAGTACCAAAAGGTAAACCATCT 60.239 38.462 1.26 0.00 38.89 2.90
2366 2483 2.888414 GGCTGCAAAGTACCAAAAGGTA 59.112 45.455 0.50 0.00 0.00 3.08
2373 2490 1.317613 CAACAGGCTGCAAAGTACCA 58.682 50.000 15.89 0.00 0.00 3.25
2375 2492 3.479255 GCAACAGGCTGCAAAGTAC 57.521 52.632 15.89 0.00 42.17 2.73
2382 2499 2.666190 TCGTCTGCAACAGGCTGC 60.666 61.111 15.89 1.63 45.15 5.25
2386 2503 0.882042 AGCAAGTCGTCTGCAACAGG 60.882 55.000 8.42 0.00 31.51 4.00
2430 2547 4.322499 GCCTTACCTAAGACAGCAACTGTA 60.322 45.833 0.00 0.00 45.44 2.74
2445 2562 1.368558 TCCTTCCTTAGGGCCTTACCT 59.631 52.381 13.45 0.00 44.86 3.08
2736 2853 5.995897 TGAGCCTTCTACTAGTTTTGAAACC 59.004 40.000 0.00 0.00 39.71 3.27
2763 2880 6.260714 TCGATTGGTATTCCAGTTTGATGATG 59.739 38.462 0.00 0.00 45.22 3.07
2862 2979 4.319333 GCAGCATACTCAGGAAATGAATCG 60.319 45.833 0.00 0.00 37.52 3.34
3040 3157 2.295885 CCTGCTAGCCTCAAATTCAGG 58.704 52.381 13.29 4.85 34.44 3.86
3076 3193 1.539065 CGCTATTCGAGGTCCAAGCAT 60.539 52.381 0.00 0.00 41.67 3.79
3112 3233 3.366374 GCAACAATAAGAGCTTGTGACCC 60.366 47.826 0.00 0.00 36.95 4.46
3113 3234 3.503748 AGCAACAATAAGAGCTTGTGACC 59.496 43.478 0.00 0.00 36.95 4.02
3114 3235 4.023707 ACAGCAACAATAAGAGCTTGTGAC 60.024 41.667 0.00 0.00 36.95 3.67
3115 3236 4.136796 ACAGCAACAATAAGAGCTTGTGA 58.863 39.130 0.00 0.00 36.95 3.58
3129 3250 6.227522 TGTAATAGCTTTAGTGACAGCAACA 58.772 36.000 0.00 0.00 38.61 3.33
3141 3262 7.874016 TGGAAAAAGACGACTGTAATAGCTTTA 59.126 33.333 0.00 0.00 0.00 1.85
3228 3349 3.002791 CACATAGCCACGAAGAACACAT 58.997 45.455 0.00 0.00 0.00 3.21
3248 3369 4.442052 CGTTGGCTAGAGATGAAGAATCCA 60.442 45.833 0.00 0.00 35.72 3.41
3384 3505 2.995466 ACACAATTTCATGCCACTCG 57.005 45.000 0.00 0.00 0.00 4.18
3443 3564 2.884639 TCGATCATTATCTCGACAGCCA 59.115 45.455 0.00 0.00 38.86 4.75
3505 3626 3.768215 TGATGCTGTGAGATCTCAGAACT 59.232 43.478 25.76 11.34 40.75 3.01
4032 4153 2.238646 TCCTCCCTTTGCATACACGATT 59.761 45.455 0.00 0.00 0.00 3.34
4057 4178 6.483640 AGTTGTAAAAACCTCTGCAAGACTAG 59.516 38.462 0.00 0.00 38.67 2.57
4086 4207 9.247861 AGCAGATTGACCAATTTTTCTATAGTT 57.752 29.630 0.00 0.00 0.00 2.24
4169 4290 1.527380 GGTTTGGTTCCGACTGCCA 60.527 57.895 0.00 0.00 0.00 4.92
4173 4294 1.228154 GCAGGGTTTGGTTCCGACT 60.228 57.895 0.00 0.00 0.00 4.18
4722 4843 7.125536 ACTTACTTCTGTTAATTTGTACGCC 57.874 36.000 0.00 0.00 0.00 5.68
4873 4996 3.766591 GGCTAGAGATGCTCTAATAGGCA 59.233 47.826 11.92 6.03 41.74 4.75
4875 4998 4.265893 TCGGCTAGAGATGCTCTAATAGG 58.734 47.826 5.75 0.00 41.74 2.57
4896 5019 2.835049 GGGCCAGCCTTAGGGGATC 61.835 68.421 4.39 0.00 37.23 3.36
4902 5025 1.456331 CCATTGGGGCCAGCCTTAG 60.456 63.158 4.39 0.00 36.10 2.18
5057 5180 7.148255 TGCCACATATAGATCACAAAGTTGAAC 60.148 37.037 0.00 0.00 0.00 3.18
5363 5496 0.676782 CGATTGCCCTTCCTTCGGTT 60.677 55.000 0.00 0.00 0.00 4.44


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

AutoCloner maintained by Alex Coulton.