Multiple sequence alignment - TraesCS1A01G037600

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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 TraesCS1A01G037600 chr1A 100.000 3467 0 0 1 3467 20920533 20917067 0.000000e+00 6403.0
1 TraesCS1A01G037600 chr1D 91.786 3153 201 30 1 3128 18996453 18993334 0.000000e+00 4335.0
2 TraesCS1A01G037600 chr1D 86.799 303 26 9 3165 3466 18993319 18993030 3.340000e-85 326.0
3 TraesCS1A01G037600 chr1B 87.415 3083 309 42 426 3466 28163842 28160797 0.000000e+00 3470.0
4 TraesCS1A01G037600 chr1B 90.473 2582 213 20 518 3088 28166723 28164164 0.000000e+00 3374.0
5 TraesCS1A01G037600 chr7D 87.268 1453 170 9 998 2444 167058361 167056918 0.000000e+00 1644.0
6 TraesCS1A01G037600 chr7D 84.091 1320 195 12 1006 2316 166928013 166926700 0.000000e+00 1260.0
7 TraesCS1A01G037600 chr7D 84.662 1167 165 13 1278 2437 166887093 166885934 0.000000e+00 1151.0
8 TraesCS1A01G037600 chr7D 84.133 271 38 3 1006 1272 166887823 166887554 1.230000e-64 257.0
9 TraesCS1A01G037600 chr7D 80.311 193 23 10 1 191 262364873 262365052 7.810000e-27 132.0
10 TraesCS1A01G037600 chr7D 76.639 244 37 15 1 236 153131870 153132101 2.190000e-22 117.0
11 TraesCS1A01G037600 chr7D 84.884 86 8 5 6 90 591202006 591201925 7.980000e-12 82.4
12 TraesCS1A01G037600 chr7D 80.531 113 15 6 1 110 582057967 582057859 2.870000e-11 80.5
13 TraesCS1A01G037600 chr7A 84.247 1441 210 15 1006 2436 167987329 167985896 0.000000e+00 1387.0
14 TraesCS1A01G037600 chr6A 83.934 1444 212 14 1031 2469 12433892 12432464 0.000000e+00 1363.0
15 TraesCS1A01G037600 chr6A 76.543 243 37 15 149 380 46695429 46695662 7.860000e-22 115.0
16 TraesCS1A01G037600 chr7B 83.634 1442 219 13 1006 2437 130898354 130896920 0.000000e+00 1339.0
17 TraesCS1A01G037600 chr4D 78.118 425 56 21 6 416 108053122 108053523 5.780000e-58 235.0
18 TraesCS1A01G037600 chr3B 82.353 221 25 8 165 381 716299019 716298809 2.750000e-41 180.0
19 TraesCS1A01G037600 chr2D 77.673 318 53 12 103 411 54868552 54868244 9.890000e-41 178.0
20 TraesCS1A01G037600 chr3A 76.506 332 53 19 1 324 532848978 532849292 1.290000e-34 158.0
21 TraesCS1A01G037600 chr5B 75.529 331 56 19 1 324 461582964 461582652 4.670000e-29 139.0
22 TraesCS1A01G037600 chrUn 76.471 255 37 18 156 399 27476983 27476741 2.190000e-22 117.0


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 TraesCS1A01G037600 chr1A 20917067 20920533 3466 True 6403.0 6403 100.0000 1 3467 1 chr1A.!!$R1 3466
1 TraesCS1A01G037600 chr1D 18993030 18996453 3423 True 2330.5 4335 89.2925 1 3466 2 chr1D.!!$R1 3465
2 TraesCS1A01G037600 chr1B 28160797 28166723 5926 True 3422.0 3470 88.9440 426 3466 2 chr1B.!!$R1 3040
3 TraesCS1A01G037600 chr7D 167056918 167058361 1443 True 1644.0 1644 87.2680 998 2444 1 chr7D.!!$R2 1446
4 TraesCS1A01G037600 chr7D 166926700 166928013 1313 True 1260.0 1260 84.0910 1006 2316 1 chr7D.!!$R1 1310
5 TraesCS1A01G037600 chr7D 166885934 166887823 1889 True 704.0 1151 84.3975 1006 2437 2 chr7D.!!$R5 1431
6 TraesCS1A01G037600 chr7A 167985896 167987329 1433 True 1387.0 1387 84.2470 1006 2436 1 chr7A.!!$R1 1430
7 TraesCS1A01G037600 chr6A 12432464 12433892 1428 True 1363.0 1363 83.9340 1031 2469 1 chr6A.!!$R1 1438
8 TraesCS1A01G037600 chr7B 130896920 130898354 1434 True 1339.0 1339 83.6340 1006 2437 1 chr7B.!!$R1 1431

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
135 139 1.003118 ACATGGAGGCACAATGTACGT 59.997 47.619 2.86 0.0 0.0 3.57 F
1451 4931 0.027716 CGATGCTGCTTGAGTGATGC 59.972 55.000 0.00 0.0 0.0 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1893 5379 0.038251 TGCACAGGTAAGCTCTGTCG 60.038 55.0 3.66 2.45 42.87 4.35 R
3215 6733 0.669318 CACGAAAACCTGGCGCTCTA 60.669 55.0 7.64 0.00 0.00 2.43 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
26 27 4.247380 GGAGGCCGAGCTCCATGG 62.247 72.222 4.97 4.97 39.45 3.66
46 47 5.065613 TGGAGGCCTCTATTTGCAATTAT 57.934 39.130 31.36 0.00 0.00 1.28
134 138 1.737838 ACATGGAGGCACAATGTACG 58.262 50.000 2.86 0.00 0.00 3.67
135 139 1.003118 ACATGGAGGCACAATGTACGT 59.997 47.619 2.86 0.00 0.00 3.57
146 150 4.757502 CACAATGTACGTGTGTGTGTTAG 58.242 43.478 17.26 0.00 41.22 2.34
177 181 3.631250 TGGAATAGGTTGAAATGAGGGC 58.369 45.455 0.00 0.00 0.00 5.19
179 183 3.633986 GGAATAGGTTGAAATGAGGGCTG 59.366 47.826 0.00 0.00 0.00 4.85
236 243 5.824624 GCTATTCATCCTCAAAGTCCATGAA 59.175 40.000 0.00 0.00 37.75 2.57
237 244 6.489361 GCTATTCATCCTCAAAGTCCATGAAT 59.511 38.462 9.68 9.68 43.42 2.57
238 245 7.663081 GCTATTCATCCTCAAAGTCCATGAATA 59.337 37.037 10.65 10.65 41.93 1.75
239 246 9.736414 CTATTCATCCTCAAAGTCCATGAATAT 57.264 33.333 11.27 0.00 41.90 1.28
241 248 8.827832 TTCATCCTCAAAGTCCATGAATATTT 57.172 30.769 0.00 0.00 30.30 1.40
242 249 8.455903 TCATCCTCAAAGTCCATGAATATTTC 57.544 34.615 0.00 0.00 0.00 2.17
243 250 8.277197 TCATCCTCAAAGTCCATGAATATTTCT 58.723 33.333 0.00 0.00 0.00 2.52
244 251 8.910944 CATCCTCAAAGTCCATGAATATTTCTT 58.089 33.333 0.00 0.00 0.00 2.52
245 252 8.511604 TCCTCAAAGTCCATGAATATTTCTTC 57.488 34.615 0.00 0.00 0.00 2.87
368 377 8.773404 TGAAACCGGAAAGTTTGAATTTTAAA 57.227 26.923 9.46 0.00 40.01 1.52
372 381 8.373048 ACCGGAAAGTTTGAATTTTAAATTCC 57.627 30.769 22.71 11.06 0.00 3.01
424 434 1.202758 TCACCAAAACGCTCCAGTCAT 60.203 47.619 0.00 0.00 0.00 3.06
439 449 6.096282 GCTCCAGTCATCTAGGGAGTATAATC 59.904 46.154 10.89 0.00 46.84 1.75
495 505 9.583765 GGAGTACTATTTTCAACGAGTAATTCT 57.416 33.333 0.00 0.00 0.00 2.40
511 521 6.153067 AGTAATTCTCATCTATTTCGAGGCG 58.847 40.000 0.00 0.00 0.00 5.52
516 526 2.030185 TCATCTATTTCGAGGCGCCTAC 60.030 50.000 32.97 21.51 0.00 3.18
584 594 2.136196 TTGTCAAAATGGGCGGTCGC 62.136 55.000 6.83 6.83 41.06 5.19
595 606 2.622085 CGGTCGCGTTGTTTCGTT 59.378 55.556 5.77 0.00 0.00 3.85
704 721 7.087409 TGGACAAAGAAATGCATAGTGTATG 57.913 36.000 0.00 0.00 39.18 2.39
774 791 5.467735 ACAATAACGTGGTTTGTTAGGAGAC 59.532 40.000 5.48 0.00 35.45 3.36
781 798 5.568023 CGTGGTTTGTTAGGAGACAGGAATA 60.568 44.000 0.00 0.00 0.00 1.75
785 802 7.610305 TGGTTTGTTAGGAGACAGGAATAAATC 59.390 37.037 0.00 0.00 0.00 2.17
914 931 5.277538 CGAGTCGAGAAGATGACATGATGTA 60.278 44.000 6.73 0.00 37.58 2.29
1102 1123 2.048222 CGGTGACAGCCATCGTGT 60.048 61.111 0.00 0.00 44.01 4.49
1169 1190 4.440127 CCATGGTTTGCGGCAGGC 62.440 66.667 2.57 0.00 43.96 4.85
1275 4755 4.073200 GCTTGCTGCCGGCCAAAT 62.073 61.111 26.77 0.00 40.92 2.32
1451 4931 0.027716 CGATGCTGCTTGAGTGATGC 59.972 55.000 0.00 0.00 0.00 3.91
1851 5337 2.933287 TCCAAGTCCATGGCCCGT 60.933 61.111 6.96 0.00 40.46 5.28
1950 5436 1.153745 CGAGGGAGAAACAGGAGCG 60.154 63.158 0.00 0.00 0.00 5.03
2061 5547 0.248565 AGCTGCTCTTTGCGATCTCA 59.751 50.000 0.00 0.00 46.63 3.27
2080 5566 0.676466 ATTCATTGCGCGGAAGGTGA 60.676 50.000 23.70 17.66 0.00 4.02
2088 5574 1.424493 CGCGGAAGGTGATGAGAAGC 61.424 60.000 0.00 0.00 0.00 3.86
2190 5676 2.095213 CGCGGTGCAAAATAGCTTAAGA 59.905 45.455 6.67 0.00 34.99 2.10
2302 5794 1.667154 CGAGGCCAAGAGACGGATGA 61.667 60.000 5.01 0.00 0.00 2.92
2303 5795 0.537188 GAGGCCAAGAGACGGATGAA 59.463 55.000 5.01 0.00 0.00 2.57
2396 5888 3.302344 GCCGGCCAACAACACCAT 61.302 61.111 18.11 0.00 0.00 3.55
2400 5892 0.318614 CGGCCAACAACACCATTGTC 60.319 55.000 2.24 0.00 33.55 3.18
2477 5969 3.876309 AGTGGGCTAAAAACTTCCTGA 57.124 42.857 0.00 0.00 0.00 3.86
2479 5971 4.740902 AGTGGGCTAAAAACTTCCTGAAT 58.259 39.130 0.00 0.00 0.00 2.57
2484 5976 4.522789 GGCTAAAAACTTCCTGAATGGACA 59.477 41.667 0.00 0.00 46.14 4.02
2498 5990 7.451255 TCCTGAATGGACAAGTACAATTCAATT 59.549 33.333 0.00 0.00 40.56 2.32
2550 6046 3.691049 TTGCTTTATTCATAGCACGCC 57.309 42.857 0.00 0.00 46.28 5.68
2564 6060 1.660333 GCACGCCGAGACAAAGAAAAG 60.660 52.381 0.00 0.00 0.00 2.27
2575 6071 8.338259 CCGAGACAAAGAAAAGATATGTAATGG 58.662 37.037 0.00 0.00 0.00 3.16
2778 6288 4.074970 TCTTCTCAGTCCCAATCAAAAGC 58.925 43.478 0.00 0.00 0.00 3.51
2800 6310 3.941483 CAGGTGGTGGAGTGTAAATCATC 59.059 47.826 0.00 0.00 28.43 2.92
2819 6329 5.121105 TCATCATGAGCCTAACAACATCAG 58.879 41.667 0.09 0.00 0.00 2.90
2825 6335 3.012518 AGCCTAACAACATCAGCATGTC 58.987 45.455 0.00 0.00 42.89 3.06
2840 6350 5.011635 TCAGCATGTCCTAACACAGACTTAA 59.988 40.000 0.00 0.00 38.48 1.85
2883 6393 2.039746 TCACGTGGAAAATGGAGGATGT 59.960 45.455 17.00 0.00 0.00 3.06
2887 6397 4.080582 ACGTGGAAAATGGAGGATGTCATA 60.081 41.667 0.00 0.00 0.00 2.15
2917 6428 5.278758 CCTCCATTTTTCGTGAGCCTTTTTA 60.279 40.000 0.00 0.00 0.00 1.52
3005 6523 3.511540 AGCTGGGTTGCTAAGAAAATTCC 59.488 43.478 0.00 0.00 42.10 3.01
3007 6525 3.831911 CTGGGTTGCTAAGAAAATTCCCA 59.168 43.478 0.00 0.00 40.90 4.37
3033 6551 5.526506 AAAAAGAACAATTCTGCTGAGCT 57.473 34.783 5.83 0.00 40.59 4.09
3106 6624 4.762289 ATGCCCACTTTAAACAAAACCA 57.238 36.364 0.00 0.00 0.00 3.67
3129 6647 6.201044 CCAATTAGTAGTAGAACGGCTCATTG 59.799 42.308 0.00 0.00 0.00 2.82
3130 6648 3.802948 AGTAGTAGAACGGCTCATTGG 57.197 47.619 0.00 0.00 0.00 3.16
3131 6649 3.097614 AGTAGTAGAACGGCTCATTGGT 58.902 45.455 0.00 0.00 0.00 3.67
3132 6650 3.514309 AGTAGTAGAACGGCTCATTGGTT 59.486 43.478 0.00 0.00 0.00 3.67
3133 6651 2.973945 AGTAGAACGGCTCATTGGTTC 58.026 47.619 0.00 0.00 40.17 3.62
3135 6653 3.767673 AGTAGAACGGCTCATTGGTTCTA 59.232 43.478 8.36 8.36 46.15 2.10
3136 6654 3.695830 AGAACGGCTCATTGGTTCTAA 57.304 42.857 4.01 0.00 46.15 2.10
3137 6655 4.015872 AGAACGGCTCATTGGTTCTAAA 57.984 40.909 4.01 0.00 46.15 1.85
3138 6656 4.394729 AGAACGGCTCATTGGTTCTAAAA 58.605 39.130 4.01 0.00 46.15 1.52
3139 6657 4.825085 AGAACGGCTCATTGGTTCTAAAAA 59.175 37.500 4.01 0.00 46.15 1.94
3159 6677 3.994931 AAAACCCGGCTCATTAGTAGT 57.005 42.857 0.00 0.00 0.00 2.73
3160 6678 5.425196 AAAAACCCGGCTCATTAGTAGTA 57.575 39.130 0.00 0.00 0.00 1.82
3161 6679 4.667519 AAACCCGGCTCATTAGTAGTAG 57.332 45.455 0.00 0.00 0.00 2.57
3162 6680 3.309600 ACCCGGCTCATTAGTAGTAGT 57.690 47.619 0.00 0.00 0.00 2.73
3180 6698 1.094073 GTAGCCTCGCTCGTGGACTA 61.094 60.000 13.73 10.95 40.44 2.59
3191 6709 1.406539 TCGTGGACTAGGCCGATTAAC 59.593 52.381 10.91 0.33 0.00 2.01
3193 6711 0.103572 TGGACTAGGCCGATTAACGC 59.896 55.000 10.91 0.00 41.07 4.84
3266 6784 3.260884 TGCATTTTCTACTCCCTTCGTCT 59.739 43.478 0.00 0.00 0.00 4.18
3373 6892 4.041740 AGAAAAGCTTTTTGGAACGGAC 57.958 40.909 24.58 9.27 0.00 4.79
3381 6900 8.570068 AAGCTTTTTGGAACGGACTTAATATA 57.430 30.769 0.00 0.00 0.00 0.86
3432 6951 6.836527 TCCATCTGGGTTTCTTTTCTGTTTTA 59.163 34.615 0.00 0.00 38.11 1.52
3433 6952 7.343316 TCCATCTGGGTTTCTTTTCTGTTTTAA 59.657 33.333 0.00 0.00 38.11 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
26 27 9.987272 ATTTTAATAATTGCAAATAGAGGCCTC 57.013 29.630 26.22 26.22 0.00 4.70
134 138 5.971202 CCATTCTGAAAACTAACACACACAC 59.029 40.000 0.00 0.00 0.00 3.82
135 139 5.883115 TCCATTCTGAAAACTAACACACACA 59.117 36.000 0.00 0.00 0.00 3.72
146 150 9.143631 CATTTCAACCTATTCCATTCTGAAAAC 57.856 33.333 0.00 0.00 35.59 2.43
190 194 5.258456 CATCATGTGCTAAAAAGCCTCAT 57.742 39.130 0.00 0.00 0.00 2.90
257 264 6.316890 GGTGAAATACCTTAAAATGCGACCTA 59.683 38.462 0.00 0.00 46.51 3.08
332 341 2.778299 TCCGGTTTCAACAGAATCTGG 58.222 47.619 15.38 7.51 38.22 3.86
341 350 6.656314 AAATTCAAACTTTCCGGTTTCAAC 57.344 33.333 0.00 0.00 37.32 3.18
392 401 1.619654 TTTGGTGACCAGGCTTCATG 58.380 50.000 3.77 0.00 33.81 3.07
396 405 1.734388 GCGTTTTGGTGACCAGGCTT 61.734 55.000 3.77 0.00 33.81 4.35
401 410 0.817634 CTGGAGCGTTTTGGTGACCA 60.818 55.000 0.00 0.00 0.00 4.02
424 434 6.996876 AGGATGAGGATTATACTCCCTAGA 57.003 41.667 1.48 0.00 35.79 2.43
495 505 1.040646 AGGCGCCTCGAAATAGATGA 58.959 50.000 27.08 0.00 0.00 2.92
499 509 2.223735 TGAAGTAGGCGCCTCGAAATAG 60.224 50.000 36.73 0.00 0.00 1.73
504 514 0.535335 AATTGAAGTAGGCGCCTCGA 59.465 50.000 36.73 19.56 0.00 4.04
505 515 1.369625 AAATTGAAGTAGGCGCCTCG 58.630 50.000 36.73 0.00 0.00 4.63
511 521 8.493547 GGACGTACATATAAAATTGAAGTAGGC 58.506 37.037 0.00 0.00 0.00 3.93
571 581 3.732892 CAACGCGACCGCCCATTT 61.733 61.111 15.93 0.00 38.22 2.32
704 721 6.204359 GTGGCAATATGAGTGACAATGATTC 58.796 40.000 0.00 0.00 35.24 2.52
774 791 4.049186 CGTGTACCGGAGATTTATTCCTG 58.951 47.826 9.46 0.00 32.34 3.86
781 798 2.036217 TGTTGACGTGTACCGGAGATTT 59.964 45.455 9.46 0.00 42.24 2.17
785 802 1.007336 GCTGTTGACGTGTACCGGAG 61.007 60.000 9.46 0.00 42.24 4.63
789 806 1.993370 GATGAGCTGTTGACGTGTACC 59.007 52.381 0.00 0.00 0.00 3.34
875 892 2.223829 CGACTCGTGCTTTGGAGGATAT 60.224 50.000 0.00 0.00 34.58 1.63
887 904 1.135660 TGTCATCTTCTCGACTCGTGC 60.136 52.381 0.00 0.00 33.18 5.34
914 931 4.456806 GCCTCGTTGGTGAGTGTT 57.543 55.556 0.00 0.00 38.35 3.32
973 990 4.507756 GCATGCTGTAGATTCGTACATGAA 59.492 41.667 11.37 0.00 36.41 2.57
1102 1123 1.375013 GTGCGGCTTTACGGAGGAA 60.375 57.895 0.00 0.00 34.05 3.36
1175 1196 2.125350 GGAAGACGGCCAGCAGAG 60.125 66.667 2.24 0.00 0.00 3.35
1275 4755 2.038269 GGAGACGCGGCAATTGGAA 61.038 57.895 17.71 0.00 0.00 3.53
1633 5113 2.397413 CTGCACCCCATCCCGGATAC 62.397 65.000 0.73 0.00 36.56 2.24
1722 5208 2.268920 CCCTCCGTGGACACCATG 59.731 66.667 0.00 0.00 40.02 3.66
1851 5337 1.368345 CGATGTGCATGAGCCGGAAA 61.368 55.000 5.05 0.00 41.13 3.13
1893 5379 0.038251 TGCACAGGTAAGCTCTGTCG 60.038 55.000 3.66 2.45 42.87 4.35
1950 5436 1.697982 ACAAGGTCCTTGGACAGGTAC 59.302 52.381 30.76 3.90 44.81 3.34
2034 5520 1.074752 CAAAGAGCAGCTTCTCCGAC 58.925 55.000 9.94 0.00 35.24 4.79
2061 5547 0.676466 TCACCTTCCGCGCAATGAAT 60.676 50.000 8.75 0.00 0.00 2.57
2080 5566 7.451732 ACATATAGCTTGATCTTGCTTCTCAT 58.548 34.615 15.85 8.00 40.35 2.90
2088 5574 6.106648 TCAGGGACATATAGCTTGATCTTG 57.893 41.667 0.00 0.00 0.00 3.02
2302 5794 4.016706 CACCCGGTCGCCCTTCTT 62.017 66.667 0.00 0.00 0.00 2.52
2422 5914 8.899427 ATGTTGTTGAGAGGATACATATGAAG 57.101 34.615 10.38 0.00 41.41 3.02
2479 5971 7.667635 TGGTATGAATTGAATTGTACTTGTCCA 59.332 33.333 0.00 0.00 0.00 4.02
2512 6004 6.588348 AAGCAAAGTTAAACAGACAAATGC 57.412 33.333 0.00 0.00 0.00 3.56
2550 6046 8.883731 ACCATTACATATCTTTTCTTTGTCTCG 58.116 33.333 0.00 0.00 0.00 4.04
2592 6089 7.345422 TCTCCACAAACATGATTTCTTTTCA 57.655 32.000 0.00 0.00 0.00 2.69
2598 6095 7.625185 GCTCTACTTCTCCACAAACATGATTTC 60.625 40.741 0.00 0.00 0.00 2.17
2644 6143 9.851686 AAAAAGGATTGCAGATAGATACATGTA 57.148 29.630 8.27 8.27 0.00 2.29
2697 6199 1.673665 GTGCACTCCTTGAGGCAGG 60.674 63.158 10.32 0.00 36.86 4.85
2778 6288 3.417069 TGATTTACACTCCACCACCTG 57.583 47.619 0.00 0.00 0.00 4.00
2800 6310 3.011818 TGCTGATGTTGTTAGGCTCATG 58.988 45.455 0.00 0.00 0.00 3.07
2819 6329 5.874810 TCATTAAGTCTGTGTTAGGACATGC 59.125 40.000 0.00 0.00 38.23 4.06
2825 6335 7.144722 TGCAAATCATTAAGTCTGTGTTAGG 57.855 36.000 0.00 0.00 0.00 2.69
2840 6350 7.276218 CGTGATCCTAACAAAAATGCAAATCAT 59.724 33.333 0.00 0.00 36.87 2.45
2945 6456 8.343168 ACGTTCTGTTCAAATTTTCCCATATA 57.657 30.769 0.00 0.00 0.00 0.86
2948 6459 5.529581 ACGTTCTGTTCAAATTTTCCCAT 57.470 34.783 0.00 0.00 0.00 4.00
2949 6460 4.993029 ACGTTCTGTTCAAATTTTCCCA 57.007 36.364 0.00 0.00 0.00 4.37
2950 6461 6.068473 AGTACGTTCTGTTCAAATTTTCCC 57.932 37.500 0.00 0.00 0.00 3.97
2952 6463 6.416750 CCCAAGTACGTTCTGTTCAAATTTTC 59.583 38.462 0.00 0.00 0.00 2.29
2958 6469 2.841215 CCCCAAGTACGTTCTGTTCAA 58.159 47.619 0.00 0.00 0.00 2.69
3033 6551 4.932789 GTGGATTCCACGCTGCTA 57.067 55.556 19.65 0.00 44.95 3.49
3106 6624 6.127140 ACCAATGAGCCGTTCTACTACTAATT 60.127 38.462 0.00 0.00 0.00 1.40
3138 6656 4.296621 ACTACTAATGAGCCGGGTTTTT 57.703 40.909 8.00 7.45 0.00 1.94
3139 6657 3.994931 ACTACTAATGAGCCGGGTTTT 57.005 42.857 8.00 7.84 0.00 2.43
3143 6661 3.190953 GCTACTACTACTAATGAGCCGGG 59.809 52.174 2.18 0.00 0.00 5.73
3144 6662 3.190953 GGCTACTACTACTAATGAGCCGG 59.809 52.174 0.00 0.00 38.73 6.13
3145 6663 4.422546 GGCTACTACTACTAATGAGCCG 57.577 50.000 0.00 0.00 38.73 5.52
3146 6664 4.154556 CGAGGCTACTACTACTAATGAGCC 59.845 50.000 1.71 1.71 46.79 4.70
3148 6666 4.998672 AGCGAGGCTACTACTACTAATGAG 59.001 45.833 0.00 0.00 36.99 2.90
3149 6667 4.970711 AGCGAGGCTACTACTACTAATGA 58.029 43.478 0.00 0.00 36.99 2.57
3150 6668 4.143073 CGAGCGAGGCTACTACTACTAATG 60.143 50.000 0.00 0.00 39.88 1.90
3151 6669 3.995705 CGAGCGAGGCTACTACTACTAAT 59.004 47.826 0.00 0.00 39.88 1.73
3152 6670 3.181471 ACGAGCGAGGCTACTACTACTAA 60.181 47.826 0.00 0.00 39.88 2.24
3153 6671 2.363680 ACGAGCGAGGCTACTACTACTA 59.636 50.000 0.00 0.00 39.88 1.82
3156 6674 1.579698 CACGAGCGAGGCTACTACTA 58.420 55.000 0.00 0.00 39.88 1.82
3157 6675 1.096386 CCACGAGCGAGGCTACTACT 61.096 60.000 0.00 0.00 39.88 2.57
3158 6676 1.094073 TCCACGAGCGAGGCTACTAC 61.094 60.000 1.33 0.00 39.88 2.73
3159 6677 1.094073 GTCCACGAGCGAGGCTACTA 61.094 60.000 1.33 0.00 39.88 1.82
3160 6678 2.045242 TCCACGAGCGAGGCTACT 60.045 61.111 1.33 0.00 39.88 2.57
3161 6679 1.094073 TAGTCCACGAGCGAGGCTAC 61.094 60.000 1.33 0.00 39.88 3.58
3162 6680 0.814410 CTAGTCCACGAGCGAGGCTA 60.814 60.000 1.33 6.06 39.88 3.93
3206 6724 1.280886 CTGGCGCTCTATGTCGATGC 61.281 60.000 7.64 0.00 0.00 3.91
3215 6733 0.669318 CACGAAAACCTGGCGCTCTA 60.669 55.000 7.64 0.00 0.00 2.43
3309 6828 9.314321 CGGACACATCTAACTCTAAAATATGTT 57.686 33.333 0.00 0.00 0.00 2.71
3321 6840 9.570468 TTTATCTAGATACGGACACATCTAACT 57.430 33.333 12.12 0.00 34.25 2.24
3349 6868 6.040504 AGTCCGTTCCAAAAAGCTTTTCTTAT 59.959 34.615 24.04 6.46 33.88 1.73
3381 6900 9.091220 AGAGGCGTATAGAAGTTTCCTAATAAT 57.909 33.333 0.00 0.00 0.00 1.28


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

AutoCloner maintained by Alex Coulton.