Multiple sequence alignment - TraesCS5A01G519400

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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 TraesCS5A01G519400 chr5A 100.000 4389 0 0 1 4389 680865656 680870044 0.000000e+00 8106
1 TraesCS5A01G519400 chr5A 90.026 3399 312 14 1 3382 680921438 680924826 0.000000e+00 4373
2 TraesCS5A01G519400 chr5A 87.911 3532 380 22 1 3516 680981347 680984847 0.000000e+00 4113
3 TraesCS5A01G519400 chr5A 80.707 622 73 24 3553 4137 680985074 680985685 1.450000e-119 440
4 TraesCS5A01G519400 chr4D 90.270 4255 314 55 1 4204 500197352 500201557 0.000000e+00 5472
5 TraesCS5A01G519400 chr4D 86.342 4188 476 51 1 4137 500301113 500305255 0.000000e+00 4477
6 TraesCS5A01G519400 chr4D 90.385 1508 131 10 1 1505 500152101 500153597 0.000000e+00 1969
7 TraesCS5A01G519400 chr4D 90.186 1508 134 10 1 1505 500193686 500195182 0.000000e+00 1953
8 TraesCS5A01G519400 chr4D 83.041 513 50 17 3706 4205 500155409 500155897 8.720000e-117 431
9 TraesCS5A01G519400 chr4D 85.185 189 27 1 4201 4388 500155955 500156143 4.480000e-45 193
10 TraesCS5A01G519400 chrUn 89.613 4236 361 42 1 4204 60417056 60412868 0.000000e+00 5312
11 TraesCS5A01G519400 chrUn 91.478 3438 187 58 815 4204 60473878 60470499 0.000000e+00 4628
12 TraesCS5A01G519400 chrUn 88.222 3846 377 41 1 3817 16761028 16757230 0.000000e+00 4523
13 TraesCS5A01G519400 chrUn 91.397 2162 138 11 1 2161 60491490 60489376 0.000000e+00 2918
14 TraesCS5A01G519400 chrUn 93.893 1359 76 3 4 1362 60475227 60473876 0.000000e+00 2043
15 TraesCS5A01G519400 chrUn 92.538 1367 86 7 2154 3519 60486656 60485305 0.000000e+00 1945
16 TraesCS5A01G519400 chrUn 89.892 465 43 3 3744 4204 285025598 285026062 2.920000e-166 595
17 TraesCS5A01G519400 chrUn 89.892 465 43 3 3744 4204 293569100 293568636 2.920000e-166 595
18 TraesCS5A01G519400 chrUn 92.000 225 15 1 3518 3742 285025330 285025551 3.300000e-81 313
19 TraesCS5A01G519400 chrUn 92.000 225 15 1 3518 3742 293569368 293569147 3.300000e-81 313
20 TraesCS5A01G519400 chrUn 90.426 188 12 4 4201 4388 60412810 60412629 4.390000e-60 243
21 TraesCS5A01G519400 chrUn 86.458 192 25 1 4197 4388 285026116 285026306 4.450000e-50 209
22 TraesCS5A01G519400 chrUn 86.458 192 25 1 4197 4388 293568582 293568392 4.450000e-50 209
23 TraesCS5A01G519400 chrUn 82.192 219 21 7 3999 4207 16757221 16757011 5.840000e-39 172
24 TraesCS5A01G519400 chr4B 89.487 4233 380 39 1 4204 643528339 643532535 0.000000e+00 5291
25 TraesCS5A01G519400 chr4B 89.367 4251 320 69 1 4204 643482012 643486177 0.000000e+00 5225
26 TraesCS5A01G519400 chr4B 86.519 4191 460 56 1 4137 643629275 643633414 0.000000e+00 4512
27 TraesCS5A01G519400 chr7D 82.730 3399 537 27 1 3389 459746526 459743168 0.000000e+00 2979
28 TraesCS5A01G519400 chr7A 82.762 3382 540 25 1 3374 539853160 539856506 0.000000e+00 2976


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 TraesCS5A01G519400 chr5A 680865656 680870044 4388 False 8106.000000 8106 100.000000 1 4389 1 chr5A.!!$F1 4388
1 TraesCS5A01G519400 chr5A 680921438 680924826 3388 False 4373.000000 4373 90.026000 1 3382 1 chr5A.!!$F2 3381
2 TraesCS5A01G519400 chr5A 680981347 680985685 4338 False 2276.500000 4113 84.309000 1 4137 2 chr5A.!!$F3 4136
3 TraesCS5A01G519400 chr4D 500301113 500305255 4142 False 4477.000000 4477 86.342000 1 4137 1 chr4D.!!$F1 4136
4 TraesCS5A01G519400 chr4D 500193686 500201557 7871 False 3712.500000 5472 90.228000 1 4204 2 chr4D.!!$F3 4203
5 TraesCS5A01G519400 chr4D 500152101 500156143 4042 False 864.333333 1969 86.203667 1 4388 3 chr4D.!!$F2 4387
6 TraesCS5A01G519400 chrUn 60470499 60475227 4728 True 3335.500000 4628 92.685500 4 4204 2 chrUn.!!$R3 4200
7 TraesCS5A01G519400 chrUn 60412629 60417056 4427 True 2777.500000 5312 90.019500 1 4388 2 chrUn.!!$R2 4387
8 TraesCS5A01G519400 chrUn 60485305 60491490 6185 True 2431.500000 2918 91.967500 1 3519 2 chrUn.!!$R4 3518
9 TraesCS5A01G519400 chrUn 16757011 16761028 4017 True 2347.500000 4523 85.207000 1 4207 2 chrUn.!!$R1 4206
10 TraesCS5A01G519400 chrUn 285025330 285026306 976 False 372.333333 595 89.450000 3518 4388 3 chrUn.!!$F1 870
11 TraesCS5A01G519400 chrUn 293568392 293569368 976 True 372.333333 595 89.450000 3518 4388 3 chrUn.!!$R5 870
12 TraesCS5A01G519400 chr4B 643528339 643532535 4196 False 5291.000000 5291 89.487000 1 4204 1 chr4B.!!$F2 4203
13 TraesCS5A01G519400 chr4B 643482012 643486177 4165 False 5225.000000 5225 89.367000 1 4204 1 chr4B.!!$F1 4203
14 TraesCS5A01G519400 chr4B 643629275 643633414 4139 False 4512.000000 4512 86.519000 1 4137 1 chr4B.!!$F3 4136
15 TraesCS5A01G519400 chr7D 459743168 459746526 3358 True 2979.000000 2979 82.730000 1 3389 1 chr7D.!!$R1 3388
16 TraesCS5A01G519400 chr7A 539853160 539856506 3346 False 2976.000000 2976 82.762000 1 3374 1 chr7A.!!$F1 3373

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
162 163 0.036732 TAACCTCACTTGGCTGGCAG 59.963 55.000 10.94 10.94 0.00 4.85 F
295 296 1.915141 CCCCAACTCTCTGCATGTTT 58.085 50.000 0.00 0.00 0.00 2.83 F
1008 5213 2.799126 ATTACCCTTTGATGTCGGCA 57.201 45.000 0.00 0.00 0.00 5.69 F
2165 9174 1.202475 GCAGAGGCTACTGGTTCTAGC 60.202 57.143 13.40 0.00 38.22 3.42 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1179 5384 0.378257 CGTTGGATGCCAAATCGAGG 59.622 55.000 0.0 0.0 45.73 4.63 R
2111 6394 2.025981 TCAGCCAGTGCCATACAAAGAT 60.026 45.455 0.0 0.0 38.69 2.40 R
2323 9347 1.134788 AGAAAACCTATCAGTCGCCCG 60.135 52.381 0.0 0.0 0.00 6.13 R
3611 11535 0.614415 CACTCACTCCTCTCAGCCCT 60.614 60.000 0.0 0.0 0.00 5.19 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
23 24 5.189180 GGAGTTCTAACTTCATGGAGCAAT 58.811 41.667 0.00 0.00 39.88 3.56
91 92 2.573869 CCCTCAGCGTGTCATCGT 59.426 61.111 0.00 0.00 0.00 3.73
130 131 1.417288 GGCATCTCAGGCTCCATCCT 61.417 60.000 0.00 0.00 36.78 3.24
131 132 0.473326 GCATCTCAGGCTCCATCCTT 59.527 55.000 0.00 0.00 33.25 3.36
162 163 0.036732 TAACCTCACTTGGCTGGCAG 59.963 55.000 10.94 10.94 0.00 4.85
225 226 3.914579 GAGCTTGGCCTGCTGAGCA 62.915 63.158 24.49 7.05 41.30 4.26
295 296 1.915141 CCCCAACTCTCTGCATGTTT 58.085 50.000 0.00 0.00 0.00 2.83
302 303 3.825328 ACTCTCTGCATGTTTCCAACTT 58.175 40.909 0.00 0.00 0.00 2.66
754 4421 6.296145 CCTCTTAAGCATCTCTATTTAGGGGG 60.296 46.154 0.00 0.00 0.00 5.40
873 5078 5.336849 CCGGAGAGCTTAGGTTATATTCCAG 60.337 48.000 0.00 0.00 0.00 3.86
906 5111 5.767816 ATTGACCTTGAGTACAAACAACC 57.232 39.130 0.00 0.00 35.49 3.77
1001 5206 7.893302 TCACTTGTTGGAATATTACCCTTTGAT 59.107 33.333 0.00 0.00 0.00 2.57
1002 5207 7.975616 CACTTGTTGGAATATTACCCTTTGATG 59.024 37.037 0.00 0.00 0.00 3.07
1003 5208 7.673926 ACTTGTTGGAATATTACCCTTTGATGT 59.326 33.333 0.00 0.00 0.00 3.06
1004 5209 7.639113 TGTTGGAATATTACCCTTTGATGTC 57.361 36.000 0.00 0.00 0.00 3.06
1005 5210 6.317642 TGTTGGAATATTACCCTTTGATGTCG 59.682 38.462 0.00 0.00 0.00 4.35
1006 5211 5.373222 TGGAATATTACCCTTTGATGTCGG 58.627 41.667 0.00 0.00 0.00 4.79
1007 5212 4.215613 GGAATATTACCCTTTGATGTCGGC 59.784 45.833 0.00 0.00 0.00 5.54
1008 5213 2.799126 ATTACCCTTTGATGTCGGCA 57.201 45.000 0.00 0.00 0.00 5.69
1104 5309 4.021016 TCTCTTCTCAAAGCTTACCACCTC 60.021 45.833 0.00 0.00 32.18 3.85
1179 5384 3.568538 CTCACTGCCAAATTTAGTGCAC 58.431 45.455 9.40 9.40 41.12 4.57
1735 6018 4.348168 ACAACTACTTGTCTGGAGGAATGT 59.652 41.667 0.00 0.00 35.57 2.71
1868 6151 8.412456 TCTTGAGATGCAAAACAACTTATTTGA 58.588 29.630 0.00 0.00 38.50 2.69
1947 6230 5.147032 TCTGGGAACAATTTGTCTGGAAAT 58.853 37.500 1.83 0.00 42.06 2.17
2111 6394 3.905968 TCATCCCAACGAGAGGTATGTA 58.094 45.455 0.00 0.00 0.00 2.29
2133 6416 2.025981 TCTTTGTATGGCACTGGCTGAT 60.026 45.455 3.97 0.00 40.87 2.90
2150 6433 4.438472 GGCTGATAGCAAAAGAAAGCAGAG 60.438 45.833 2.99 0.00 44.75 3.35
2165 9174 1.202475 GCAGAGGCTACTGGTTCTAGC 60.202 57.143 13.40 0.00 38.22 3.42
2403 9427 6.412214 GGTTTATAAGGGAAGTCTGCAGTTA 58.588 40.000 14.67 3.33 0.00 2.24
2407 9431 4.373156 AAGGGAAGTCTGCAGTTACAAT 57.627 40.909 14.67 0.00 0.00 2.71
2574 9598 2.172717 GGCAGATTTCAAGGCCCTAGTA 59.827 50.000 0.00 0.00 40.55 1.82
2617 9641 6.828273 TGGGAATCTAGAAATGTGGTTACATG 59.172 38.462 0.00 0.00 46.54 3.21
2672 9696 5.548406 TCTGAGTTTAAGCCAAAGGACTAC 58.452 41.667 0.00 0.00 0.00 2.73
2683 9707 3.054361 CCAAAGGACTACCATAGCCTTGT 60.054 47.826 10.41 0.00 40.07 3.16
3054 10084 3.643792 ACCAAGGGTGATGTCTATAGCTC 59.356 47.826 0.00 0.00 32.98 4.09
3267 10955 1.885049 ATAGGCCTCTCTTGCTCCAA 58.115 50.000 9.68 0.00 0.00 3.53
3408 11097 6.656693 AGCTAGCAACAGAAGTTCATGTAAAT 59.343 34.615 18.83 0.28 35.28 1.40
3483 11189 4.347876 TCCACTTTGAGTCATTTCAGAGGA 59.652 41.667 0.00 0.00 34.53 3.71
3548 11451 8.731275 ATGTGCTAGTGCTAATGTATGTTTTA 57.269 30.769 0.00 0.00 40.48 1.52
3550 11453 7.822334 TGTGCTAGTGCTAATGTATGTTTTACT 59.178 33.333 0.00 0.00 40.48 2.24
3551 11454 8.328864 GTGCTAGTGCTAATGTATGTTTTACTC 58.671 37.037 0.00 0.00 40.48 2.59
3577 11485 7.260558 TCTATACAAAGTAGGAGACATGTCG 57.739 40.000 19.85 5.22 33.75 4.35
3588 11510 6.037786 AGGAGACATGTCGTTCTGATTTAA 57.962 37.500 19.85 0.00 34.09 1.52
3602 11525 8.607459 CGTTCTGATTTAAAGCAAGTCATCTAT 58.393 33.333 7.66 0.00 32.96 1.98
3615 11539 6.314896 GCAAGTCATCTATTCATACATAGGGC 59.685 42.308 0.00 0.00 0.00 5.19
3636 11560 1.429299 TGAGAGGAGTGAGTGAAGGGA 59.571 52.381 0.00 0.00 0.00 4.20
3648 11573 2.243736 AGTGAAGGGAAAAACTGGGACA 59.756 45.455 0.00 0.00 0.00 4.02
3649 11574 3.117131 AGTGAAGGGAAAAACTGGGACAT 60.117 43.478 0.00 0.00 38.20 3.06
3650 11575 4.105697 AGTGAAGGGAAAAACTGGGACATA 59.894 41.667 0.00 0.00 38.20 2.29
3693 11622 6.543831 ACAAGCAAGTTTCACTTAGATGACTT 59.456 34.615 0.00 0.00 36.03 3.01
3757 11736 5.011943 TCCCAATGAATTTCTGAAACAAGGG 59.988 40.000 18.53 18.53 32.55 3.95
3807 11786 3.896888 TCCCATCTTGTGCAAATCTTTGT 59.103 39.130 4.71 0.00 40.24 2.83
3815 11795 5.581126 TGTGCAAATCTTTGTGAACTCTT 57.419 34.783 4.71 0.00 40.24 2.85
3819 11799 6.140737 GTGCAAATCTTTGTGAACTCTTAACG 59.859 38.462 4.71 0.00 40.24 3.18
3836 11816 6.034591 TCTTAACGTAAGCAGAATAGTCAGC 58.965 40.000 0.00 0.00 45.62 4.26
4069 12076 0.955428 GAACATCTGCCGTCTTGCCA 60.955 55.000 0.00 0.00 0.00 4.92
4113 12128 0.891373 CGTGGTGTGTGAGGATCTCT 59.109 55.000 0.00 0.00 34.92 3.10
4157 12179 4.021544 GTCATCAGGTTCAGACTTCAGACT 60.022 45.833 0.00 0.00 0.00 3.24
4158 12180 4.590647 TCATCAGGTTCAGACTTCAGACTT 59.409 41.667 0.00 0.00 0.00 3.01
4159 12181 4.592485 TCAGGTTCAGACTTCAGACTTC 57.408 45.455 0.00 0.00 0.00 3.01
4160 12182 3.960755 TCAGGTTCAGACTTCAGACTTCA 59.039 43.478 0.00 0.00 0.00 3.02
4161 12183 4.038522 TCAGGTTCAGACTTCAGACTTCAG 59.961 45.833 0.00 0.00 0.00 3.02
4162 12184 4.038522 CAGGTTCAGACTTCAGACTTCAGA 59.961 45.833 0.00 0.00 0.00 3.27
4163 12185 4.038642 AGGTTCAGACTTCAGACTTCAGAC 59.961 45.833 0.00 0.00 0.00 3.51
4183 12205 0.321564 CACTCCATGGCCTCAACGAA 60.322 55.000 6.96 0.00 0.00 3.85
4190 12212 2.383527 GGCCTCAACGAAGTCGCAG 61.384 63.158 0.00 0.00 45.00 5.18
4235 12320 3.000819 ATCGAACACCTGGCGGGA 61.001 61.111 21.81 0.00 38.76 5.14
4267 12352 3.077556 CGGCCTCACACCTAGCCT 61.078 66.667 0.00 0.00 43.48 4.58
4269 12354 1.687493 GGCCTCACACCTAGCCTCT 60.687 63.158 0.00 0.00 42.34 3.69
4296 12381 1.350019 ACGTTTTAGTAGCTGGCCCTT 59.650 47.619 0.00 0.00 0.00 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 0.764271 TGCAGAACTCCATGGACACA 59.236 50.000 11.44 1.49 0.00 3.72
91 92 0.776810 TTGGGATTCAAGGTCCAGCA 59.223 50.000 0.00 0.00 37.49 4.41
130 131 2.819608 GTGAGGTTAGCAATGCAAGGAA 59.180 45.455 8.35 0.00 0.00 3.36
131 132 2.040278 AGTGAGGTTAGCAATGCAAGGA 59.960 45.455 8.35 0.00 0.00 3.36
162 163 2.360475 GTTGGACAGCTGGAGCCC 60.360 66.667 19.93 13.48 43.38 5.19
225 226 1.694696 GAGGTTGAGGTTGGTGAGTCT 59.305 52.381 0.00 0.00 0.00 3.24
295 296 0.110486 GCCCAGGACTTGAAGTTGGA 59.890 55.000 15.77 0.00 29.56 3.53
639 4306 3.452627 AGTGACAAAGTGTTGAGGAGAGT 59.547 43.478 0.00 0.00 38.20 3.24
754 4421 6.887002 AGGTATTCTTCCTGAAAGATGGTTTC 59.113 38.462 0.00 0.00 43.50 2.78
873 5078 8.144478 TGTACTCAAGGTCAATATCTCTAATGC 58.856 37.037 0.00 0.00 0.00 3.56
1001 5206 2.986979 TGTAGCCGACTGCCGACA 60.987 61.111 0.00 0.00 42.71 4.35
1002 5207 2.506438 GTGTAGCCGACTGCCGAC 60.506 66.667 0.00 0.00 42.71 4.79
1003 5208 3.755628 GGTGTAGCCGACTGCCGA 61.756 66.667 0.00 0.00 42.71 5.54
1004 5209 4.814294 GGGTGTAGCCGACTGCCG 62.814 72.222 0.00 0.00 42.71 5.69
1005 5210 3.391382 AGGGTGTAGCCGACTGCC 61.391 66.667 0.00 0.00 42.71 4.85
1006 5211 2.125512 CAGGGTGTAGCCGACTGC 60.126 66.667 0.00 0.00 38.44 4.40
1007 5212 2.125512 GCAGGGTGTAGCCGACTG 60.126 66.667 0.00 0.00 38.44 3.51
1008 5213 0.686441 TATGCAGGGTGTAGCCGACT 60.686 55.000 0.00 0.00 38.44 4.18
1104 5309 1.165907 TGTTCAAGTCAAGCCAGCGG 61.166 55.000 0.00 0.00 0.00 5.52
1179 5384 0.378257 CGTTGGATGCCAAATCGAGG 59.622 55.000 0.00 0.00 45.73 4.63
1265 5470 4.387026 TTGAGATTGTTTCCATCCAGGT 57.613 40.909 0.00 0.00 39.02 4.00
1735 6018 4.163427 AGGAGACTTCCAACTTCATCAGA 58.837 43.478 0.00 0.00 46.64 3.27
1779 6062 3.019564 GCCAGTCAGCCTGTTATTTGAT 58.980 45.455 0.00 0.00 39.74 2.57
1895 6178 6.472016 TCCATGTGTTTTATGCTGACTAAGA 58.528 36.000 0.00 0.00 0.00 2.10
2111 6394 2.025981 TCAGCCAGTGCCATACAAAGAT 60.026 45.455 0.00 0.00 38.69 2.40
2165 9174 2.734755 TGGCAATAGAATCACCAGGG 57.265 50.000 0.00 0.00 0.00 4.45
2323 9347 1.134788 AGAAAACCTATCAGTCGCCCG 60.135 52.381 0.00 0.00 0.00 6.13
2403 9427 4.338012 TGATGGCAACTTGATCTGATTGT 58.662 39.130 0.00 0.00 37.61 2.71
2407 9431 4.290711 TCTTGATGGCAACTTGATCTGA 57.709 40.909 0.00 0.00 37.61 3.27
2617 9641 7.687941 TTTCACCATCTTCAGGATCTTTTAC 57.312 36.000 0.00 0.00 31.27 2.01
2683 9707 2.284754 TCCAAAGCAACTGCCACATA 57.715 45.000 0.00 0.00 43.38 2.29
3007 10037 7.415592 TGATATCTCTTCGCTCATTCCATAT 57.584 36.000 3.98 0.00 0.00 1.78
3054 10084 1.798813 GTTGTAACAGAAGCACTCCGG 59.201 52.381 0.00 0.00 0.00 5.14
3267 10955 1.377725 CGCTCTTTGGGTGATGCCT 60.378 57.895 0.00 0.00 37.43 4.75
3306 10994 9.202273 CATGCTTTATTCTAAGGATCTCAGTAC 57.798 37.037 0.00 0.00 34.45 2.73
3483 11189 5.452776 CCATTTGACATGGATGCATTAGCTT 60.453 40.000 0.00 0.00 41.64 3.74
3548 11451 8.855110 CATGTCTCCTACTTTGTATAGATGAGT 58.145 37.037 0.00 0.00 0.00 3.41
3550 11453 8.768501 ACATGTCTCCTACTTTGTATAGATGA 57.231 34.615 0.00 0.00 0.00 2.92
3551 11454 7.805542 CGACATGTCTCCTACTTTGTATAGATG 59.194 40.741 22.95 0.00 0.00 2.90
3569 11477 5.927030 TGCTTTAAATCAGAACGACATGTC 58.073 37.500 16.21 16.21 0.00 3.06
3588 11510 8.099537 CCCTATGTATGAATAGATGACTTGCTT 58.900 37.037 0.00 0.00 32.74 3.91
3602 11525 4.155709 CTCCTCTCAGCCCTATGTATGAA 58.844 47.826 0.00 0.00 0.00 2.57
3611 11535 0.614415 CACTCACTCCTCTCAGCCCT 60.614 60.000 0.00 0.00 0.00 5.19
3615 11539 1.824230 CCCTTCACTCACTCCTCTCAG 59.176 57.143 0.00 0.00 0.00 3.35
3757 11736 4.947645 AGATCTGTCTGCTGAATAGAAGC 58.052 43.478 11.21 7.89 41.22 3.86
3807 11786 7.600065 ACTATTCTGCTTACGTTAAGAGTTCA 58.400 34.615 0.00 0.00 38.02 3.18
3815 11795 4.679662 GGCTGACTATTCTGCTTACGTTA 58.320 43.478 10.93 0.00 44.16 3.18
3819 11799 2.860735 CACGGCTGACTATTCTGCTTAC 59.139 50.000 0.00 0.00 44.16 2.34
3836 11816 3.406595 GATGGGAAGGGCCTCACGG 62.407 68.421 6.46 0.00 36.66 4.94
4069 12076 4.934356 TGTAAAGCAGGGAAGATGGATTT 58.066 39.130 0.00 0.00 0.00 2.17
4113 12128 5.147330 ACATCCAGAAATCACTGACGTAA 57.853 39.130 0.00 0.00 39.94 3.18
4183 12205 2.345244 CCACTGAAGCCTGCGACT 59.655 61.111 0.00 0.00 0.00 4.18
4190 12212 1.562672 TAAGGGGAGCCACTGAAGCC 61.563 60.000 0.00 0.00 0.00 4.35
4196 12218 1.972588 AATGAGTAAGGGGAGCCACT 58.027 50.000 0.00 0.00 0.00 4.00
4257 12342 2.427453 CGTCATGTTAGAGGCTAGGTGT 59.573 50.000 0.00 0.00 0.00 4.16
4267 12352 6.097356 CCAGCTACTAAAACGTCATGTTAGA 58.903 40.000 12.51 0.00 40.84 2.10
4269 12354 4.628333 GCCAGCTACTAAAACGTCATGTTA 59.372 41.667 0.00 0.00 40.84 2.41
4296 12381 1.591703 GCTGTGTGGGTGATCGAGA 59.408 57.895 0.00 0.00 0.00 4.04


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

AutoCloner maintained by Alex Coulton.