Multiple sequence alignment - TraesCS6A01G096600

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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 TraesCS6A01G096600 chr6A 100.000 2516 0 0 933 3448 63786515 63784000 0.000000e+00 4647
1 TraesCS6A01G096600 chr6A 100.000 2149 0 0 3867 6015 63783581 63781433 0.000000e+00 3969
2 TraesCS6A01G096600 chr6A 100.000 651 0 0 1 651 63787447 63786797 0.000000e+00 1203
3 TraesCS6A01G096600 chr6B 96.388 2547 56 15 933 3448 120013223 120010682 0.000000e+00 4161
4 TraesCS6A01G096600 chr6B 93.011 2175 90 27 3867 6015 120009699 120007561 0.000000e+00 3118
5 TraesCS6A01G096600 chr6B 86.224 392 15 12 263 651 120013647 120013292 7.310000e-104 388
6 TraesCS6A01G096600 chr6B 88.182 220 23 1 3906 4122 120009702 120009483 5.980000e-65 259
7 TraesCS6A01G096600 chr6B 88.073 218 21 3 1 215 120013934 120013719 2.780000e-63 254
8 TraesCS6A01G096600 chr6B 87.097 217 25 1 3867 4080 120009657 120009441 6.020000e-60 243
9 TraesCS6A01G096600 chr6B 87.640 178 19 1 3948 4122 120009702 120009525 2.840000e-48 204
10 TraesCS6A01G096600 chr6B 91.270 126 11 0 3999 4124 120009690 120009565 8.010000e-39 172
11 TraesCS6A01G096600 chr6B 88.298 94 11 0 4029 4122 120009702 120009609 4.930000e-21 113
12 TraesCS6A01G096600 chr6D 96.222 2541 50 12 933 3448 52871896 52869377 0.000000e+00 4119
13 TraesCS6A01G096600 chr6D 97.030 1616 41 5 3874 5484 52868895 52867282 0.000000e+00 2712
14 TraesCS6A01G096600 chr6D 88.455 563 33 16 5461 6015 52867253 52866715 0.000000e+00 651
15 TraesCS6A01G096600 chr6D 90.750 400 13 9 263 651 52872360 52871974 4.160000e-141 512
16 TraesCS6A01G096600 chr6D 87.854 247 24 5 20 266 52872629 52872389 9.870000e-73 285
17 TraesCS6A01G096600 chr6D 84.016 244 36 1 3885 4125 52869455 52869212 1.300000e-56 231
18 TraesCS6A01G096600 chr6D 86.777 121 16 0 3999 4119 52868893 52868773 1.050000e-27 135


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 TraesCS6A01G096600 chr6A 63781433 63787447 6014 True 3273.000000 4647 100.000000 1 6015 3 chr6A.!!$R1 6014
1 TraesCS6A01G096600 chr6B 120007561 120013934 6373 True 990.222222 4161 89.575889 1 6015 9 chr6B.!!$R1 6014
2 TraesCS6A01G096600 chr6D 52866715 52872629 5914 True 1235.000000 4119 90.157714 20 6015 7 chr6D.!!$R1 5995

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
490 536 0.029433 CCTCGCGATCTGATCACGAA 59.971 55.0 25.21 13.28 42.41 3.85 F
1505 1577 0.179043 TGACTAACCAGTTTGGCGCA 60.179 50.0 10.83 0.00 42.67 6.09 F
2521 2598 0.606401 GCTGGCAGCTGTCCTGTTTA 60.606 55.0 31.37 0.00 43.71 2.01 F
3962 4928 0.538057 CCTGAAGCCTGCTTTGGTGA 60.538 55.0 5.76 0.00 36.26 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1567 1643 0.174389 CATGGACAGACCCTGACGAG 59.826 60.0 0.45 0.00 36.59 4.18 R
2972 3049 0.593128 CACTGTACCTTGCAACTGCC 59.407 55.0 0.00 0.00 41.18 4.85 R
3997 4963 0.320247 CTGTCTGCTGTTTCTCCGCT 60.320 55.0 0.00 0.00 0.00 5.52 R
5138 6190 0.907486 CTCCCTGGAGCTCACAATCA 59.093 55.0 17.19 2.54 35.31 2.57 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
35 36 6.312918 GGCTGATTGTGATTTACTTTCGACTA 59.687 38.462 0.00 0.00 0.00 2.59
45 46 6.363167 TTTACTTTCGACTAAGGAATCCCA 57.637 37.500 0.00 0.00 28.42 4.37
117 121 0.034059 CCTCAGCAAACACGAGACCT 59.966 55.000 0.00 0.00 0.00 3.85
118 122 1.143305 CTCAGCAAACACGAGACCTG 58.857 55.000 0.00 0.00 0.00 4.00
170 174 2.892373 AAAGAAAATCGCGCGATTCA 57.108 40.000 46.19 24.10 43.26 2.57
171 175 3.405170 AAAGAAAATCGCGCGATTCAT 57.595 38.095 46.19 38.28 43.26 2.57
210 214 2.036217 TGCAATTCCCTCTTGTTGCTTG 59.964 45.455 9.87 0.00 45.28 4.01
254 258 6.467677 TCTGATTTGTTTTAGAGGAGTGAGG 58.532 40.000 0.00 0.00 0.00 3.86
261 265 5.365605 TGTTTTAGAGGAGTGAGGACTGAAA 59.634 40.000 0.00 0.00 30.16 2.69
265 300 5.159273 AGAGGAGTGAGGACTGAAATTTC 57.841 43.478 11.41 11.41 30.16 2.17
285 320 4.675063 TCCAGGGCTAAAAGAGGAAATT 57.325 40.909 0.00 0.00 0.00 1.82
286 321 5.010708 TCCAGGGCTAAAAGAGGAAATTT 57.989 39.130 0.00 0.00 0.00 1.82
287 322 5.016831 TCCAGGGCTAAAAGAGGAAATTTC 58.983 41.667 9.83 9.83 0.00 2.17
288 323 5.019470 CCAGGGCTAAAAGAGGAAATTTCT 58.981 41.667 17.42 4.20 0.00 2.52
289 324 5.481824 CCAGGGCTAAAAGAGGAAATTTCTT 59.518 40.000 17.42 10.45 36.49 2.52
290 325 6.350528 CCAGGGCTAAAAGAGGAAATTTCTTC 60.351 42.308 19.69 19.69 33.92 2.87
322 357 1.668151 AGAAGGAAACGCAGTCGGC 60.668 57.895 0.00 0.00 45.00 5.54
326 361 2.746277 GAAACGCAGTCGGCCCAT 60.746 61.111 0.00 0.00 45.00 4.00
327 362 2.746277 AAACGCAGTCGGCCCATC 60.746 61.111 0.00 0.00 45.00 3.51
366 401 0.103208 CCCATCTATATCGAGCCCGC 59.897 60.000 0.00 0.00 35.37 6.13
367 402 0.103208 CCATCTATATCGAGCCCGCC 59.897 60.000 0.00 0.00 35.37 6.13
368 403 0.248661 CATCTATATCGAGCCCGCCG 60.249 60.000 0.00 0.00 35.37 6.46
369 404 0.680280 ATCTATATCGAGCCCGCCGT 60.680 55.000 0.00 0.00 35.37 5.68
413 448 4.626081 CCCGTCCATCGCATCCCC 62.626 72.222 0.00 0.00 38.35 4.81
490 536 0.029433 CCTCGCGATCTGATCACGAA 59.971 55.000 25.21 13.28 42.41 3.85
492 538 0.029433 TCGCGATCTGATCACGAAGG 59.971 55.000 23.73 6.06 40.42 3.46
627 673 2.341176 CGTCCCGTTCCGTTTCCT 59.659 61.111 0.00 0.00 0.00 3.36
1062 1112 0.469144 AGGAGGAGATCGAGGAAGGC 60.469 60.000 0.00 0.00 0.00 4.35
1245 1301 2.838225 CCCGATCCGTGCCCTAGT 60.838 66.667 0.00 0.00 0.00 2.57
1299 1368 2.972505 CCCCCGATGAAATCCGCG 60.973 66.667 0.00 0.00 41.39 6.46
1505 1577 0.179043 TGACTAACCAGTTTGGCGCA 60.179 50.000 10.83 0.00 42.67 6.09
1507 1579 1.170290 ACTAACCAGTTTGGCGCACC 61.170 55.000 10.83 0.00 42.67 5.01
1553 1629 6.899393 ATTGAGCAATTGTTCTCCTAACAA 57.101 33.333 21.00 8.03 43.33 2.83
1554 1630 5.947228 TGAGCAATTGTTCTCCTAACAAG 57.053 39.130 21.00 0.00 42.57 3.16
1555 1631 4.216257 TGAGCAATTGTTCTCCTAACAAGC 59.784 41.667 21.00 7.75 42.57 4.01
1556 1632 4.401925 AGCAATTGTTCTCCTAACAAGCT 58.598 39.130 7.40 9.55 42.57 3.74
1557 1633 4.829492 AGCAATTGTTCTCCTAACAAGCTT 59.171 37.500 7.40 0.00 42.57 3.74
1558 1634 5.302823 AGCAATTGTTCTCCTAACAAGCTTT 59.697 36.000 7.40 0.00 42.57 3.51
1636 1712 4.556699 GCCATTTTTACTGTCACTGTGTCC 60.557 45.833 7.79 0.72 0.00 4.02
1668 1744 6.206829 ACATTTTCTCTTACCTTTGTAGCACC 59.793 38.462 0.00 0.00 0.00 5.01
1967 2043 6.426646 AAGGTAGAGTTGAGATGTTTCACT 57.573 37.500 0.00 0.00 0.00 3.41
1972 2048 4.346418 AGAGTTGAGATGTTTCACTCTGGT 59.654 41.667 0.00 0.00 35.84 4.00
2320 2397 8.182227 GCCATTTAAAAGGTTAGCTACTAACTG 58.818 37.037 15.09 5.26 43.89 3.16
2485 2562 1.617357 AGAAGGTACCGCGAACTTCTT 59.383 47.619 19.25 11.09 45.24 2.52
2521 2598 0.606401 GCTGGCAGCTGTCCTGTTTA 60.606 55.000 31.37 0.00 43.71 2.01
2972 3049 4.348656 CATCAATTCGATGTTGCTCCAAG 58.651 43.478 6.26 0.00 45.61 3.61
3152 3229 1.995376 ATGAAAGAAACCAACGCCCT 58.005 45.000 0.00 0.00 0.00 5.19
3291 3374 2.336088 CGGTGGCAAAACAGCAGG 59.664 61.111 0.00 0.00 38.72 4.85
3904 4551 3.076092 CAGACAGCAAGCTCCCCT 58.924 61.111 0.00 0.00 0.00 4.79
3932 4579 1.078848 CCGGTGGAGAAAGAGCAGG 60.079 63.158 0.00 0.00 0.00 4.85
3945 4592 1.614824 AGCAGGCAGTAAGCTCCCT 60.615 57.895 0.00 0.00 44.79 4.20
3956 4603 1.787462 AAGCTCCCTGAAGCCTGCTT 61.787 55.000 3.62 3.62 43.56 3.91
3957 4604 1.303970 GCTCCCTGAAGCCTGCTTT 60.304 57.895 5.76 0.00 36.26 3.51
3960 4926 1.228675 CCCTGAAGCCTGCTTTGGT 60.229 57.895 17.51 0.00 36.26 3.67
3962 4928 0.538057 CCTGAAGCCTGCTTTGGTGA 60.538 55.000 5.76 0.00 36.26 4.02
3968 4934 1.959282 AGCCTGCTTTGGTGAAGAAAG 59.041 47.619 0.00 0.00 37.57 2.62
3987 4953 2.182732 GAGCAGACAGCAAGCTCCCT 62.183 60.000 0.00 0.00 46.82 4.20
3997 4963 2.532532 AAGCTCCCTGAAGCCTGCA 61.533 57.895 0.00 0.00 43.56 4.41
4160 5210 2.979240 GGAGAGGCCTAAGAAACACTG 58.021 52.381 4.42 0.00 0.00 3.66
4180 5230 1.270839 GCAGCTCCAACTGTAACTCCA 60.271 52.381 0.00 0.00 39.96 3.86
4303 5353 4.566907 GCTCCAACTATAACTCCAAACCCA 60.567 45.833 0.00 0.00 0.00 4.51
4309 5359 7.039363 CCAACTATAACTCCAAACCCAATGAAA 60.039 37.037 0.00 0.00 0.00 2.69
4406 5456 7.147312 CACTAGATCTCCAGCTCAAGATAAAG 58.853 42.308 0.00 9.55 32.43 1.85
4531 5581 1.084289 GAACCCCGGTGAAGAAATCG 58.916 55.000 0.00 0.00 0.00 3.34
4543 5593 6.201044 CGGTGAAGAAATCGCAGATAATAAGT 59.799 38.462 0.00 0.00 45.12 2.24
4676 5726 1.729586 AAGCACCCCAGACTCTGTTA 58.270 50.000 5.32 0.00 0.00 2.41
4895 5945 3.012274 ACAGAAGAGAAGGATCCAGGAGA 59.988 47.826 15.82 0.00 0.00 3.71
5138 6190 1.405872 ATGGATGCCATGCGAATTGT 58.594 45.000 0.00 0.00 43.39 2.71
5275 6328 1.252904 AACCATGGTGGATGCTGTGC 61.253 55.000 20.60 0.00 40.96 4.57
5335 6388 1.270252 GCCTAGGAAGCTGAGAGATGC 60.270 57.143 14.75 0.00 0.00 3.91
5402 6457 8.708742 GCAAAATCTGTTTGTCTAATTTAACCC 58.291 33.333 1.21 0.00 0.00 4.11
5427 6483 3.459145 GGAAACCGAGAAGAATAGAGGC 58.541 50.000 0.00 0.00 0.00 4.70
5652 6782 7.432252 GGTTATGTTTGTCTGTTCTCAGTTTTG 59.568 37.037 0.00 0.00 41.91 2.44
5654 6784 4.458989 TGTTTGTCTGTTCTCAGTTTTGCT 59.541 37.500 0.00 0.00 41.91 3.91
5656 6786 4.621068 TGTCTGTTCTCAGTTTTGCTTG 57.379 40.909 0.00 0.00 41.91 4.01
5657 6787 4.009675 TGTCTGTTCTCAGTTTTGCTTGT 58.990 39.130 0.00 0.00 41.91 3.16
5658 6788 4.142622 TGTCTGTTCTCAGTTTTGCTTGTG 60.143 41.667 0.00 0.00 41.91 3.33
5659 6789 4.009675 TCTGTTCTCAGTTTTGCTTGTGT 58.990 39.130 0.00 0.00 41.91 3.72
5660 6790 4.095410 TGTTCTCAGTTTTGCTTGTGTG 57.905 40.909 0.00 0.00 0.00 3.82
5664 6794 5.888691 TCTCAGTTTTGCTTGTGTGTTTA 57.111 34.783 0.00 0.00 0.00 2.01
5673 6803 3.569277 TGCTTGTGTGTTTATCTGCACAT 59.431 39.130 0.68 0.00 45.65 3.21
5870 7007 9.669353 GCATAAATATAGATGTTGAGTTTGGTG 57.331 33.333 0.24 0.00 0.00 4.17
5898 7036 6.861065 AAAAATCATGTCAACGTGTAGTCT 57.139 33.333 0.00 0.00 34.59 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 5.122396 AGTCGAAAGTAAATCACAATCAGCC 59.878 40.000 0.00 0.00 0.00 4.85
13 14 8.092068 TCCTTAGTCGAAAGTAAATCACAATCA 58.908 33.333 0.00 0.00 0.00 2.57
15 16 8.842358 TTCCTTAGTCGAAAGTAAATCACAAT 57.158 30.769 0.00 0.00 0.00 2.71
97 101 0.951040 GGTCTCGTGTTTGCTGAGGG 60.951 60.000 0.00 0.00 0.00 4.30
98 102 0.034059 AGGTCTCGTGTTTGCTGAGG 59.966 55.000 0.00 0.00 0.00 3.86
117 121 2.354510 CGGTTCTTCTTGTTGTTGAGCA 59.645 45.455 0.00 0.00 0.00 4.26
118 122 2.854805 GCGGTTCTTCTTGTTGTTGAGC 60.855 50.000 0.00 0.00 0.00 4.26
170 174 6.370186 TTGCATGATCCTGCTAGAGAATAT 57.630 37.500 21.41 0.00 42.75 1.28
171 175 5.813513 TTGCATGATCCTGCTAGAGAATA 57.186 39.130 21.41 0.00 42.75 1.75
222 226 7.066525 TCCTCTAAAACAAATCAGAAAACACGT 59.933 33.333 0.00 0.00 0.00 4.49
254 258 5.476945 TCTTTTAGCCCTGGAAATTTCAGTC 59.523 40.000 19.49 3.46 0.00 3.51
261 265 4.675063 TTCCTCTTTTAGCCCTGGAAAT 57.325 40.909 0.00 0.00 31.61 2.17
265 300 5.019470 AGAAATTTCCTCTTTTAGCCCTGG 58.981 41.667 14.61 0.00 0.00 4.45
285 320 7.226441 TCCTTCTGTTTGATGATGAAGAAGAA 58.774 34.615 10.91 0.00 41.95 2.52
286 321 6.772605 TCCTTCTGTTTGATGATGAAGAAGA 58.227 36.000 10.91 0.00 41.95 2.87
287 322 7.444629 TTCCTTCTGTTTGATGATGAAGAAG 57.555 36.000 0.00 0.00 40.07 2.85
288 323 7.520453 CGTTTCCTTCTGTTTGATGATGAAGAA 60.520 37.037 0.00 0.00 37.03 2.52
289 324 6.073058 CGTTTCCTTCTGTTTGATGATGAAGA 60.073 38.462 0.00 0.00 37.03 2.87
290 325 6.082338 CGTTTCCTTCTGTTTGATGATGAAG 58.918 40.000 0.00 0.00 35.31 3.02
297 332 3.214328 ACTGCGTTTCCTTCTGTTTGAT 58.786 40.909 0.00 0.00 0.00 2.57
318 353 1.264045 TGTGATGTGAGATGGGCCGA 61.264 55.000 0.00 0.00 0.00 5.54
322 357 3.832615 TGAGATGTGATGTGAGATGGG 57.167 47.619 0.00 0.00 0.00 4.00
325 360 5.366460 GGAACATGAGATGTGATGTGAGAT 58.634 41.667 0.00 0.00 44.07 2.75
326 361 4.383444 GGGAACATGAGATGTGATGTGAGA 60.383 45.833 0.00 0.00 44.07 3.27
327 362 3.875727 GGGAACATGAGATGTGATGTGAG 59.124 47.826 0.00 0.00 44.07 3.51
413 448 1.250328 GGGTTTAAAACGTGGGAGGG 58.750 55.000 0.00 0.00 0.00 4.30
416 451 1.171549 GCGGGGTTTAAAACGTGGGA 61.172 55.000 0.00 0.00 0.00 4.37
627 673 1.835531 GTGGGGATCGAGGAGGTAAAA 59.164 52.381 0.00 0.00 0.00 1.52
1026 1076 0.108615 CCTTGCTGAGGTACCACGAG 60.109 60.000 15.94 7.55 40.95 4.18
1062 1112 3.068691 TCCTTCCTGGACGGCGAG 61.069 66.667 16.62 0.00 40.56 5.03
1181 1231 1.681327 CGGAGGAAACGGAGGAGGA 60.681 63.158 0.00 0.00 0.00 3.71
1182 1232 2.893398 CGGAGGAAACGGAGGAGG 59.107 66.667 0.00 0.00 0.00 4.30
1299 1368 0.663153 AACAGCAGCGTCAAAAGACC 59.337 50.000 0.00 0.00 0.00 3.85
1505 1577 0.796312 GCATGAATTCGACACACGGT 59.204 50.000 0.00 0.00 42.82 4.83
1507 1579 0.853224 GCGCATGAATTCGACACACG 60.853 55.000 0.30 0.38 44.09 4.49
1558 1634 1.228429 CCCTGACGAGGCCCAAAAA 60.228 57.895 0.00 0.00 38.17 1.94
1567 1643 0.174389 CATGGACAGACCCTGACGAG 59.826 60.000 0.45 0.00 36.59 4.18
1568 1644 1.888436 GCATGGACAGACCCTGACGA 61.888 60.000 0.45 0.00 36.59 4.20
1636 1712 8.557029 ACAAAGGTAAGAGAAAATGTTAGTTCG 58.443 33.333 0.00 0.00 0.00 3.95
1668 1744 1.593006 GAAACAGTCAGTCCACACACG 59.407 52.381 0.00 0.00 0.00 4.49
1757 1833 0.604578 ACTTGCTACGCGGGTAAGAA 59.395 50.000 27.55 10.48 32.28 2.52
1835 1911 6.479006 ACTACCCCAAAATGTCTACTAAACC 58.521 40.000 0.00 0.00 0.00 3.27
1995 2071 9.726438 AATTACATAAAGCTATCATACCTCACC 57.274 33.333 0.00 0.00 0.00 4.02
2324 2401 0.836606 TGCAACAGTCTGGAAGGACA 59.163 50.000 4.53 0.00 38.57 4.02
2485 2562 3.938963 GCCAGCAATAGTAGTACAAAGCA 59.061 43.478 2.52 0.00 0.00 3.91
2521 2598 9.182214 AGCAATATAGAACAGAAACATCACAAT 57.818 29.630 0.00 0.00 0.00 2.71
2972 3049 0.593128 CACTGTACCTTGCAACTGCC 59.407 55.000 0.00 0.00 41.18 4.85
3152 3229 3.536917 CCGATAGCAGGACCCGCA 61.537 66.667 1.76 0.00 0.00 5.69
3880 4527 0.397941 AGCTTGCTGTCTGCTGGTTA 59.602 50.000 3.20 0.00 43.37 2.85
3883 4530 2.039405 GGAGCTTGCTGTCTGCTGG 61.039 63.158 0.00 0.00 43.37 4.85
3904 4551 2.284331 TCCACCGGAGCAGGCTTA 60.284 61.111 9.46 0.00 33.69 3.09
3932 4579 0.746204 GGCTTCAGGGAGCTTACTGC 60.746 60.000 12.32 3.18 42.32 4.40
3945 4592 1.133823 TCTTCACCAAAGCAGGCTTCA 60.134 47.619 7.03 0.00 34.84 3.02
3956 4603 3.470709 CTGTCTGCTCTTTCTTCACCAA 58.529 45.455 0.00 0.00 0.00 3.67
3957 4604 2.808202 GCTGTCTGCTCTTTCTTCACCA 60.808 50.000 0.00 0.00 38.95 4.17
3960 4926 2.916702 TGCTGTCTGCTCTTTCTTCA 57.083 45.000 3.20 0.00 43.37 3.02
3962 4928 1.878734 GCTTGCTGTCTGCTCTTTCTT 59.121 47.619 3.20 0.00 43.37 2.52
3987 4953 2.395988 TTTCTCCGCTGCAGGCTTCA 62.396 55.000 17.12 0.00 39.13 3.02
3997 4963 0.320247 CTGTCTGCTGTTTCTCCGCT 60.320 55.000 0.00 0.00 0.00 5.52
4160 5210 1.270839 TGGAGTTACAGTTGGAGCTGC 60.271 52.381 0.00 0.00 39.96 5.25
4309 5359 2.289010 GGTGCTTAATGCCTGCTGTTTT 60.289 45.455 0.00 0.00 42.00 2.43
4406 5456 1.882623 CTTCTGTTTCTTCACCAGGGC 59.117 52.381 0.00 0.00 0.00 5.19
4531 5581 4.455606 AGTCTTGGGCACTTATTATCTGC 58.544 43.478 0.00 0.00 0.00 4.26
4543 5593 1.118965 TCGGAACAGAGTCTTGGGCA 61.119 55.000 0.00 0.00 0.00 5.36
4676 5726 4.202440 CCTTGAAGGATCTGTATGCCTCAT 60.202 45.833 4.95 0.00 37.67 2.90
4829 5879 9.838339 CCTTGTCATATTTACATCTTTAGGTCT 57.162 33.333 0.00 0.00 0.00 3.85
5138 6190 0.907486 CTCCCTGGAGCTCACAATCA 59.093 55.000 17.19 2.54 35.31 2.57
5275 6328 7.701078 CAGATTTTTCAAGCCTACATCAATCTG 59.299 37.037 0.00 0.00 38.93 2.90
5360 6413 4.686191 TTTTGCCTCCATGAACAACATT 57.314 36.364 0.00 0.00 37.07 2.71
5402 6457 2.789409 ATTCTTCTCGGTTTCCCCTG 57.211 50.000 0.00 0.00 0.00 4.45
5468 6588 5.654209 TGCCTTCGCATATATCTGTCTCTAT 59.346 40.000 0.00 0.00 41.12 1.98
5469 6589 5.010282 TGCCTTCGCATATATCTGTCTCTA 58.990 41.667 0.00 0.00 41.12 2.43
5470 6590 3.829026 TGCCTTCGCATATATCTGTCTCT 59.171 43.478 0.00 0.00 41.12 3.10
5471 6591 4.179926 TGCCTTCGCATATATCTGTCTC 57.820 45.455 0.00 0.00 41.12 3.36
5575 6700 5.678616 GCACCACAACAAAAGATGTACACTT 60.679 40.000 0.00 1.09 42.99 3.16
5652 6782 3.624326 TGTGCAGATAAACACACAAGC 57.376 42.857 0.00 0.00 41.67 4.01
5840 6977 9.547753 AAACTCAACATCTATATTTATGCGAGT 57.452 29.630 12.34 12.34 39.21 4.18
5844 6981 9.669353 CACCAAACTCAACATCTATATTTATGC 57.331 33.333 0.00 0.00 0.00 3.14
5982 7120 7.894708 TGAATTGGTATTGTGAATGTTGACAT 58.105 30.769 0.00 0.00 38.41 3.06
5984 7122 8.761575 ATTGAATTGGTATTGTGAATGTTGAC 57.238 30.769 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.