Multiple sequence alignment - TraesCS3D01G246500

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 TraesCS3D01G246500 chr3D 100.000 5375 0 0 1 5375 344337513 344342887 0.000000e+00 9926
1 TraesCS3D01G246500 chr3B 96.541 5031 82 29 371 5375 443803307 443808271 0.000000e+00 8242
2 TraesCS3D01G246500 chr3B 88.953 172 11 3 45 208 443802657 443802828 7.060000e-49 206
3 TraesCS3D01G246500 chr3A 94.280 5367 131 74 75 5375 458683395 458678139 0.000000e+00 8048
4 TraesCS3D01G246500 chr1B 83.275 861 89 34 965 1810 534298215 534299035 0.000000e+00 741
5 TraesCS3D01G246500 chr7A 85.955 534 60 11 996 1529 33657522 33658040 1.690000e-154 556
6 TraesCS3D01G246500 chr7A 90.129 233 22 1 1575 1806 33658041 33658273 8.750000e-78 302
7 TraesCS3D01G246500 chr7B 85.609 542 57 9 989 1529 622301295 622300774 2.830000e-152 549
8 TraesCS3D01G246500 chr7B 92.574 202 14 1 1575 1775 622300773 622300572 6.810000e-74 289
9 TraesCS3D01G246500 chr4B 82.418 546 54 24 989 1529 613388100 613388608 6.390000e-119 438
10 TraesCS3D01G246500 chr4B 90.833 240 20 2 1575 1812 613388609 613388848 2.420000e-83 320
11 TraesCS3D01G246500 chr4A 82.234 546 57 17 989 1529 716835122 716834612 8.270000e-118 435
12 TraesCS3D01G246500 chr4A 88.618 246 19 3 1575 1811 716834611 716834366 1.890000e-74 291
13 TraesCS3D01G246500 chr6B 84.165 461 53 9 1070 1529 693888546 693888105 3.850000e-116 429
14 TraesCS3D01G246500 chr6B 82.051 546 57 18 989 1529 244561784 244562293 1.380000e-115 427
15 TraesCS3D01G246500 chr6B 91.597 238 19 1 1575 1811 244562294 244562531 1.440000e-85 327
16 TraesCS3D01G246500 chr6B 88.679 106 11 1 1575 1679 693888104 693887999 1.570000e-25 128


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 TraesCS3D01G246500 chr3D 344337513 344342887 5374 False 9926.0 9926 100.0000 1 5375 1 chr3D.!!$F1 5374
1 TraesCS3D01G246500 chr3B 443802657 443808271 5614 False 4224.0 8242 92.7470 45 5375 2 chr3B.!!$F1 5330
2 TraesCS3D01G246500 chr3A 458678139 458683395 5256 True 8048.0 8048 94.2800 75 5375 1 chr3A.!!$R1 5300
3 TraesCS3D01G246500 chr1B 534298215 534299035 820 False 741.0 741 83.2750 965 1810 1 chr1B.!!$F1 845
4 TraesCS3D01G246500 chr7A 33657522 33658273 751 False 429.0 556 88.0420 996 1806 2 chr7A.!!$F1 810
5 TraesCS3D01G246500 chr7B 622300572 622301295 723 True 419.0 549 89.0915 989 1775 2 chr7B.!!$R1 786
6 TraesCS3D01G246500 chr4B 613388100 613388848 748 False 379.0 438 86.6255 989 1812 2 chr4B.!!$F1 823
7 TraesCS3D01G246500 chr4A 716834366 716835122 756 True 363.0 435 85.4260 989 1811 2 chr4A.!!$R1 822
8 TraesCS3D01G246500 chr6B 244561784 244562531 747 False 377.0 427 86.8240 989 1811 2 chr6B.!!$F1 822
9 TraesCS3D01G246500 chr6B 693887999 693888546 547 True 278.5 429 86.4220 1070 1679 2 chr6B.!!$R1 609

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
63 64 0.179166 CGGTAATTGCATGCGCTTGT 60.179 50.000 22.50 7.18 39.64 3.16 F
927 1307 0.336737 TCCCACTCTCTCCCTTCTCC 59.663 60.000 0.00 0.00 0.00 3.71 F
1761 2175 1.220206 CAGTCTGAGGGCGCTCAAT 59.780 57.895 30.43 18.26 32.43 2.57 F
2706 3121 0.940126 AGAAGCTGTGCAACTTCACG 59.060 50.000 21.02 0.00 43.84 4.35 F
3609 4024 1.172812 GCAACCTTGTTCCGCTCCTT 61.173 55.000 0.00 0.00 0.00 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1761 2175 0.820226 CGAGATGGTTGCTGGAGAGA 59.180 55.000 0.00 0.0 0.00 3.10 R
1929 2344 1.072159 GGAATCAGGGATGGAGCCG 59.928 63.158 0.00 0.0 0.00 5.52 R
3760 4175 0.251297 TTGTGGTGGAGGAATGCCAG 60.251 55.000 0.00 0.0 35.77 4.85 R
3984 4399 1.443194 AACGCCGTAGCTGTACACG 60.443 57.895 0.00 0.0 36.60 4.49 R
5112 5565 0.375106 GAGTGCGCCTTCTTGTATGC 59.625 55.000 4.18 0.0 0.00 3.14 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 6.854496 ATTTGCAAGTTTACGAGTAAGACA 57.146 33.333 0.00 0.00 0.00 3.41
24 25 6.665474 TTTGCAAGTTTACGAGTAAGACAA 57.335 33.333 0.00 0.00 0.00 3.18
25 26 6.854496 TTGCAAGTTTACGAGTAAGACAAT 57.146 33.333 0.00 0.00 0.00 2.71
26 27 6.854496 TGCAAGTTTACGAGTAAGACAATT 57.146 33.333 0.00 0.00 0.00 2.32
27 28 6.884187 TGCAAGTTTACGAGTAAGACAATTC 58.116 36.000 0.00 0.00 0.00 2.17
28 29 6.704493 TGCAAGTTTACGAGTAAGACAATTCT 59.296 34.615 0.00 0.00 0.00 2.40
29 30 7.095774 TGCAAGTTTACGAGTAAGACAATTCTC 60.096 37.037 0.00 0.00 0.00 2.87
36 37 3.834610 AGTAAGACAATTCTCGACGTGG 58.165 45.455 0.00 0.00 0.00 4.94
37 38 3.504906 AGTAAGACAATTCTCGACGTGGA 59.495 43.478 0.00 0.00 0.00 4.02
38 39 2.638556 AGACAATTCTCGACGTGGAG 57.361 50.000 20.34 20.34 35.32 3.86
39 40 1.202582 AGACAATTCTCGACGTGGAGG 59.797 52.381 24.82 12.74 34.74 4.30
40 41 1.201647 GACAATTCTCGACGTGGAGGA 59.798 52.381 24.82 18.76 34.74 3.71
41 42 1.616865 ACAATTCTCGACGTGGAGGAA 59.383 47.619 24.82 17.78 34.74 3.36
42 43 2.263077 CAATTCTCGACGTGGAGGAAG 58.737 52.381 24.82 11.63 34.74 3.46
43 44 1.546961 ATTCTCGACGTGGAGGAAGT 58.453 50.000 24.82 1.96 34.74 3.01
44 45 0.879765 TTCTCGACGTGGAGGAAGTC 59.120 55.000 24.82 0.00 34.74 3.01
47 48 3.363351 GACGTGGAGGAAGTCGGT 58.637 61.111 0.00 0.00 0.00 4.69
48 49 2.559785 GACGTGGAGGAAGTCGGTA 58.440 57.895 0.00 0.00 0.00 4.02
49 50 0.883833 GACGTGGAGGAAGTCGGTAA 59.116 55.000 0.00 0.00 0.00 2.85
63 64 0.179166 CGGTAATTGCATGCGCTTGT 60.179 50.000 22.50 7.18 39.64 3.16
64 65 1.732077 CGGTAATTGCATGCGCTTGTT 60.732 47.619 22.50 12.67 39.64 2.83
66 67 2.327568 GTAATTGCATGCGCTTGTTGT 58.672 42.857 22.50 9.80 39.64 3.32
96 97 1.875364 CGTACGGTTAGCGAAGGCC 60.875 63.158 11.70 0.00 41.24 5.19
192 205 1.413767 ATGACTTCATCACGTCGCGC 61.414 55.000 0.00 0.00 41.24 6.86
262 284 1.152839 GGACGAGAGAGGGAGGAGG 60.153 68.421 0.00 0.00 0.00 4.30
294 316 0.900182 GGGAGGCTGGAAAAAGGTGG 60.900 60.000 0.00 0.00 0.00 4.61
295 317 1.536073 GGAGGCTGGAAAAAGGTGGC 61.536 60.000 0.00 0.00 0.00 5.01
296 318 0.827507 GAGGCTGGAAAAAGGTGGCA 60.828 55.000 0.00 0.00 0.00 4.92
297 319 1.115326 AGGCTGGAAAAAGGTGGCAC 61.115 55.000 9.70 9.70 0.00 5.01
298 320 1.007387 GCTGGAAAAAGGTGGCACG 60.007 57.895 12.17 0.00 0.00 5.34
299 321 1.007387 CTGGAAAAAGGTGGCACGC 60.007 57.895 12.17 4.74 38.67 5.34
476 812 3.456365 GCTGAGCTCGCTCCTCCA 61.456 66.667 19.01 0.00 42.09 3.86
477 813 2.493973 CTGAGCTCGCTCCTCCAC 59.506 66.667 15.65 0.00 42.09 4.02
478 814 3.408501 CTGAGCTCGCTCCTCCACG 62.409 68.421 15.65 0.00 42.09 4.94
479 815 4.200283 GAGCTCGCTCCTCCACGG 62.200 72.222 7.68 0.00 37.11 4.94
678 1031 1.072648 ACCGTGCTTAGCTTTGGGTTA 59.927 47.619 5.60 0.00 0.00 2.85
679 1032 2.290705 ACCGTGCTTAGCTTTGGGTTAT 60.291 45.455 5.60 0.00 0.00 1.89
692 1050 7.410991 AGCTTTGGGTTATGTTAGGTTAATCT 58.589 34.615 0.00 0.00 0.00 2.40
731 1095 2.019610 GATTCGTTCGTTCGCGGC 59.980 61.111 6.13 0.00 41.70 6.53
814 1178 4.150454 CCCCGCCTCCTCTCTCCT 62.150 72.222 0.00 0.00 0.00 3.69
815 1179 2.520741 CCCGCCTCCTCTCTCCTC 60.521 72.222 0.00 0.00 0.00 3.71
816 1180 2.600731 CCGCCTCCTCTCTCCTCT 59.399 66.667 0.00 0.00 0.00 3.69
842 1222 1.283613 TCTCTCTCGCTTCTTCTCCCT 59.716 52.381 0.00 0.00 0.00 4.20
846 1226 2.096248 TCTCGCTTCTTCTCCCTTCTC 58.904 52.381 0.00 0.00 0.00 2.87
847 1227 2.099405 CTCGCTTCTTCTCCCTTCTCT 58.901 52.381 0.00 0.00 0.00 3.10
848 1228 2.096248 TCGCTTCTTCTCCCTTCTCTC 58.904 52.381 0.00 0.00 0.00 3.20
849 1229 2.099405 CGCTTCTTCTCCCTTCTCTCT 58.901 52.381 0.00 0.00 0.00 3.10
850 1230 2.099098 CGCTTCTTCTCCCTTCTCTCTC 59.901 54.545 0.00 0.00 0.00 3.20
851 1231 2.430694 GCTTCTTCTCCCTTCTCTCTCC 59.569 54.545 0.00 0.00 0.00 3.71
852 1232 2.838637 TCTTCTCCCTTCTCTCTCCC 57.161 55.000 0.00 0.00 0.00 4.30
853 1233 1.289530 TCTTCTCCCTTCTCTCTCCCC 59.710 57.143 0.00 0.00 0.00 4.81
885 1265 4.060667 CCCCCACCACCACCATCC 62.061 72.222 0.00 0.00 0.00 3.51
886 1266 4.424711 CCCCACCACCACCATCCG 62.425 72.222 0.00 0.00 0.00 4.18
923 1303 1.150135 TCACTTCCCACTCTCTCCCTT 59.850 52.381 0.00 0.00 0.00 3.95
927 1307 0.336737 TCCCACTCTCTCCCTTCTCC 59.663 60.000 0.00 0.00 0.00 3.71
1474 1878 2.233605 CTCCGGTGATGCGGTTGGTA 62.234 60.000 0.00 0.00 0.00 3.25
1761 2175 1.220206 CAGTCTGAGGGCGCTCAAT 59.780 57.895 30.43 18.26 32.43 2.57
1860 2275 1.871080 ACAACAACTTCTCTGGCGAG 58.129 50.000 0.00 0.00 38.67 5.03
1863 2278 1.629043 ACAACTTCTCTGGCGAGGTA 58.371 50.000 0.00 0.00 37.86 3.08
1929 2344 2.810852 CCTCTCTTTCAACCACTTCAGC 59.189 50.000 0.00 0.00 0.00 4.26
2706 3121 0.940126 AGAAGCTGTGCAACTTCACG 59.060 50.000 21.02 0.00 43.84 4.35
2793 3208 4.744570 TGTCGTTTAATCAGCTCGATTCT 58.255 39.130 12.69 0.00 43.52 2.40
3228 3643 2.244510 TGGGTTGGTCATCATAGCCATT 59.755 45.455 0.00 0.00 32.92 3.16
3555 3970 2.048503 GGTGACCGGGAGTTCACG 60.049 66.667 14.65 0.00 43.52 4.35
3609 4024 1.172812 GCAACCTTGTTCCGCTCCTT 61.173 55.000 0.00 0.00 0.00 3.36
3760 4175 2.543067 AATCGGGGCAGCAAGAGGAC 62.543 60.000 0.00 0.00 0.00 3.85
3918 4333 2.262915 CTGAGCGTGTCCACCCTC 59.737 66.667 5.36 5.36 36.91 4.30
3966 4381 2.026075 AGAGTACTACCAGAGCTTCCGT 60.026 50.000 0.00 0.00 0.00 4.69
3984 4399 4.947147 TGCACCACCAAGGGCGAC 62.947 66.667 0.00 0.00 43.89 5.19
4029 4444 2.347490 GAGCTGCTCACCGGGAAA 59.653 61.111 24.02 0.00 0.00 3.13
4471 4892 0.651031 GCGAAGTGCCCGTAGAAATC 59.349 55.000 0.00 0.00 37.76 2.17
4472 4893 2.004583 CGAAGTGCCCGTAGAAATCA 57.995 50.000 0.00 0.00 0.00 2.57
4556 4982 6.602009 TCTTCTGATGGTACACGATAAGAAGA 59.398 38.462 21.42 21.42 47.00 2.87
4736 5164 2.044123 AATGGTGGAATCTCTTCGGC 57.956 50.000 0.00 0.00 31.75 5.54
4741 5169 0.740868 TGGAATCTCTTCGGCGCAAG 60.741 55.000 10.83 5.27 34.09 4.01
4745 5178 2.579684 ATCTCTTCGGCGCAAGTCCC 62.580 60.000 10.83 0.00 40.39 4.46
4917 5360 7.454553 AGTAGTAGTAAATCTGAGAGGAGGA 57.545 40.000 0.00 0.00 0.00 3.71
4918 5361 7.514721 AGTAGTAGTAAATCTGAGAGGAGGAG 58.485 42.308 0.00 0.00 0.00 3.69
4919 5362 5.701224 AGTAGTAAATCTGAGAGGAGGAGG 58.299 45.833 0.00 0.00 0.00 4.30
4936 5379 3.297620 GGGTTGGGCAGTGCAGTG 61.298 66.667 18.61 17.56 0.00 3.66
4949 5392 0.178932 TGCAGTGGGAGTACTGGAGT 60.179 55.000 0.00 0.00 46.32 3.85
5076 5519 4.892965 TGGCCTGTGTGTGGGTGC 62.893 66.667 3.32 0.00 0.00 5.01
5307 5767 2.180276 CTCGCCCTATTATACTGCCCT 58.820 52.381 0.00 0.00 0.00 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.854496 TGTCTTACTCGTAAACTTGCAAAT 57.146 33.333 0.00 0.00 0.00 2.32
3 4 6.704493 AGAATTGTCTTACTCGTAAACTTGCA 59.296 34.615 0.00 0.00 0.00 4.08
4 5 7.118422 AGAATTGTCTTACTCGTAAACTTGC 57.882 36.000 0.00 0.00 0.00 4.01
5 6 7.437912 CGAGAATTGTCTTACTCGTAAACTTG 58.562 38.462 0.00 0.00 44.37 3.16
6 7 7.564044 CGAGAATTGTCTTACTCGTAAACTT 57.436 36.000 0.00 0.00 44.37 2.66
14 15 3.852536 CCACGTCGAGAATTGTCTTACTC 59.147 47.826 0.00 0.00 32.80 2.59
15 16 3.504906 TCCACGTCGAGAATTGTCTTACT 59.495 43.478 0.00 0.00 32.80 2.24
16 17 3.829948 TCCACGTCGAGAATTGTCTTAC 58.170 45.455 0.00 0.00 32.80 2.34
17 18 3.119602 CCTCCACGTCGAGAATTGTCTTA 60.120 47.826 12.11 0.00 32.80 2.10
18 19 2.352814 CCTCCACGTCGAGAATTGTCTT 60.353 50.000 12.11 0.00 32.80 3.01
19 20 1.202582 CCTCCACGTCGAGAATTGTCT 59.797 52.381 12.11 0.00 36.55 3.41
20 21 1.201647 TCCTCCACGTCGAGAATTGTC 59.798 52.381 12.11 0.00 30.97 3.18
21 22 1.254026 TCCTCCACGTCGAGAATTGT 58.746 50.000 12.11 0.00 30.97 2.71
22 23 2.263077 CTTCCTCCACGTCGAGAATTG 58.737 52.381 12.11 0.00 30.97 2.32
23 24 1.893801 ACTTCCTCCACGTCGAGAATT 59.106 47.619 12.11 0.00 30.97 2.17
24 25 1.473278 GACTTCCTCCACGTCGAGAAT 59.527 52.381 12.11 0.00 30.97 2.40
25 26 0.879765 GACTTCCTCCACGTCGAGAA 59.120 55.000 12.11 3.73 30.97 2.87
26 27 2.552802 GACTTCCTCCACGTCGAGA 58.447 57.895 12.11 0.00 30.97 4.04
30 31 0.883833 TTACCGACTTCCTCCACGTC 59.116 55.000 0.00 0.00 0.00 4.34
31 32 1.553706 ATTACCGACTTCCTCCACGT 58.446 50.000 0.00 0.00 0.00 4.49
32 33 2.268298 CAATTACCGACTTCCTCCACG 58.732 52.381 0.00 0.00 0.00 4.94
33 34 2.007608 GCAATTACCGACTTCCTCCAC 58.992 52.381 0.00 0.00 0.00 4.02
34 35 1.626321 TGCAATTACCGACTTCCTCCA 59.374 47.619 0.00 0.00 0.00 3.86
35 36 2.396590 TGCAATTACCGACTTCCTCC 57.603 50.000 0.00 0.00 0.00 4.30
36 37 2.032178 GCATGCAATTACCGACTTCCTC 59.968 50.000 14.21 0.00 0.00 3.71
37 38 2.017049 GCATGCAATTACCGACTTCCT 58.983 47.619 14.21 0.00 0.00 3.36
38 39 1.268032 CGCATGCAATTACCGACTTCC 60.268 52.381 19.57 0.00 0.00 3.46
39 40 1.856014 GCGCATGCAATTACCGACTTC 60.856 52.381 19.57 0.00 42.15 3.01
40 41 0.098728 GCGCATGCAATTACCGACTT 59.901 50.000 19.57 0.00 42.15 3.01
41 42 0.744414 AGCGCATGCAATTACCGACT 60.744 50.000 19.57 0.00 46.23 4.18
42 43 0.098728 AAGCGCATGCAATTACCGAC 59.901 50.000 19.57 0.00 46.23 4.79
43 44 0.098552 CAAGCGCATGCAATTACCGA 59.901 50.000 19.57 0.00 46.23 4.69
44 45 0.179166 ACAAGCGCATGCAATTACCG 60.179 50.000 19.57 0.00 46.23 4.02
45 46 1.655099 CAACAAGCGCATGCAATTACC 59.345 47.619 19.57 0.00 46.23 2.85
46 47 2.327568 ACAACAAGCGCATGCAATTAC 58.672 42.857 19.57 0.88 46.23 1.89
47 48 2.721274 ACAACAAGCGCATGCAATTA 57.279 40.000 19.57 0.00 46.23 1.40
48 49 2.327568 GTACAACAAGCGCATGCAATT 58.672 42.857 19.57 8.59 46.23 2.32
49 50 1.402720 GGTACAACAAGCGCATGCAAT 60.403 47.619 19.57 1.49 46.23 3.56
63 64 0.454285 GTACGTACGCGCTGGTACAA 60.454 55.000 16.72 9.08 42.25 2.41
64 65 1.134487 GTACGTACGCGCTGGTACA 59.866 57.895 16.72 4.54 42.25 2.90
66 67 2.399217 CGTACGTACGCGCTGGTA 59.601 61.111 32.36 2.35 43.14 3.25
96 97 1.334329 GCCGTGGTTTAGTTTGTTCCG 60.334 52.381 0.00 0.00 0.00 4.30
192 205 1.079127 CAGACCACCCGCTAACCTG 60.079 63.158 0.00 0.00 0.00 4.00
462 798 4.200283 CCGTGGAGGAGCGAGCTC 62.200 72.222 16.14 16.14 45.00 4.09
463 799 4.742649 TCCGTGGAGGAGCGAGCT 62.743 66.667 0.00 0.00 45.98 4.09
476 812 1.218047 CATCATCACCGTGGTCCGT 59.782 57.895 0.00 0.00 33.66 4.69
477 813 0.104855 ATCATCATCACCGTGGTCCG 59.895 55.000 0.00 0.00 0.00 4.79
478 814 1.138859 TCATCATCATCACCGTGGTCC 59.861 52.381 0.00 0.00 0.00 4.46
479 815 2.101415 TCTCATCATCATCACCGTGGTC 59.899 50.000 0.00 0.00 0.00 4.02
486 822 3.314635 GCTTTGGGTCTCATCATCATCAC 59.685 47.826 0.00 0.00 0.00 3.06
678 1031 5.694910 CGGTGCGATTAGATTAACCTAACAT 59.305 40.000 0.00 0.00 32.11 2.71
679 1032 5.045215 CGGTGCGATTAGATTAACCTAACA 58.955 41.667 0.00 0.00 32.11 2.41
813 1177 2.898729 AGCGAGAGAGAGAGAGAGAG 57.101 55.000 0.00 0.00 0.00 3.20
814 1178 2.766263 AGAAGCGAGAGAGAGAGAGAGA 59.234 50.000 0.00 0.00 0.00 3.10
815 1179 3.185246 AGAAGCGAGAGAGAGAGAGAG 57.815 52.381 0.00 0.00 0.00 3.20
816 1180 3.197766 AGAAGAAGCGAGAGAGAGAGAGA 59.802 47.826 0.00 0.00 0.00 3.10
842 1222 4.757692 AGAAAGAAAGAGGGGAGAGAGAA 58.242 43.478 0.00 0.00 0.00 2.87
846 1226 3.450817 GGAGAGAAAGAAAGAGGGGAGAG 59.549 52.174 0.00 0.00 0.00 3.20
847 1227 3.445987 GGAGAGAAAGAAAGAGGGGAGA 58.554 50.000 0.00 0.00 0.00 3.71
848 1228 2.503765 GGGAGAGAAAGAAAGAGGGGAG 59.496 54.545 0.00 0.00 0.00 4.30
849 1229 2.552367 GGGAGAGAAAGAAAGAGGGGA 58.448 52.381 0.00 0.00 0.00 4.81
850 1230 1.562008 GGGGAGAGAAAGAAAGAGGGG 59.438 57.143 0.00 0.00 0.00 4.79
851 1231 1.562008 GGGGGAGAGAAAGAAAGAGGG 59.438 57.143 0.00 0.00 0.00 4.30
923 1303 3.041211 CAGAGAGAGAGAGAGAGGGAGA 58.959 54.545 0.00 0.00 0.00 3.71
927 1307 2.486191 GGAGCAGAGAGAGAGAGAGAGG 60.486 59.091 0.00 0.00 0.00 3.69
1431 1835 3.936203 AACGTCTTGAGCCCGGCA 61.936 61.111 13.15 0.00 0.00 5.69
1650 2056 1.284982 CGGAGCAGTTGGTGAAGTCG 61.285 60.000 0.00 0.00 0.00 4.18
1761 2175 0.820226 CGAGATGGTTGCTGGAGAGA 59.180 55.000 0.00 0.00 0.00 3.10
1929 2344 1.072159 GGAATCAGGGATGGAGCCG 59.928 63.158 0.00 0.00 0.00 5.52
2100 2515 1.668151 GAGGTCGGTGCAGTTGGAC 60.668 63.158 0.00 0.00 35.50 4.02
2706 3121 1.131638 TGCTCCCCATGTACATCCTC 58.868 55.000 5.07 0.00 0.00 3.71
3228 3643 1.593787 CCTCCGCTTCTTGCTCTCA 59.406 57.895 0.00 0.00 40.11 3.27
3360 3775 1.171308 GCTTCTCAAATGCAGCCAGA 58.829 50.000 0.00 0.00 0.00 3.86
3555 3970 4.986467 ATGGTCTCCATTTCCGCC 57.014 55.556 0.00 0.00 42.23 6.13
3609 4024 1.350684 TCACCAATCTTGCAGTAGCCA 59.649 47.619 0.00 0.00 41.13 4.75
3760 4175 0.251297 TTGTGGTGGAGGAATGCCAG 60.251 55.000 0.00 0.00 35.77 4.85
3828 4243 2.419159 CGCCTCCAGATTCTCATCAACA 60.419 50.000 0.00 0.00 0.00 3.33
3966 4381 4.196778 TCGCCCTTGGTGGTGCAA 62.197 61.111 0.00 0.00 35.81 4.08
3984 4399 1.443194 AACGCCGTAGCTGTACACG 60.443 57.895 0.00 0.00 36.60 4.49
4230 4645 4.221924 TCCTTGAACATCGTCATCACCTTA 59.778 41.667 0.00 0.00 0.00 2.69
4471 4892 3.804786 ATCAGCATCTGAGAGACTGTG 57.195 47.619 12.49 0.00 44.08 3.66
4472 4893 3.636300 GGTATCAGCATCTGAGAGACTGT 59.364 47.826 12.49 5.22 44.08 3.55
4554 4980 4.044698 AGCTACAAGGGAGGGAAAATTTCT 59.955 41.667 5.65 0.00 0.00 2.52
4555 4981 4.344978 AGCTACAAGGGAGGGAAAATTTC 58.655 43.478 0.00 0.00 0.00 2.17
4556 4982 4.044698 AGAGCTACAAGGGAGGGAAAATTT 59.955 41.667 0.00 0.00 0.00 1.82
4726 5154 1.153549 GGACTTGCGCCGAAGAGAT 60.154 57.895 13.84 0.00 0.00 2.75
4736 5164 2.046892 CAGTGGAGGGGACTTGCG 60.047 66.667 0.00 0.00 44.43 4.85
4917 5360 4.290622 CTGCACTGCCCAACCCCT 62.291 66.667 0.00 0.00 0.00 4.79
4918 5361 4.603535 ACTGCACTGCCCAACCCC 62.604 66.667 0.00 0.00 0.00 4.95
4919 5362 3.297620 CACTGCACTGCCCAACCC 61.298 66.667 0.00 0.00 0.00 4.11
4936 5379 2.368011 GCCCCACTCCAGTACTCCC 61.368 68.421 0.00 0.00 0.00 4.30
5112 5565 0.375106 GAGTGCGCCTTCTTGTATGC 59.625 55.000 4.18 0.00 0.00 3.14


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

AutoCloner maintained by Alex Coulton.