Multiple sequence alignment - TraesCS2D01G345900

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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 TraesCS2D01G345900 chr2D 100.000 2468 0 0 1 2468 441768842 441771309 0.000000e+00 4558
1 TraesCS2D01G345900 chr2B 94.836 1278 60 5 794 2067 521332177 521333452 0.000000e+00 1989
2 TraesCS2D01G345900 chr2B 86.792 212 23 2 2154 2360 521340362 521340573 5.310000e-57 231
3 TraesCS2D01G345900 chr2B 89.157 83 6 2 2346 2428 521340532 521340611 1.560000e-17 100
4 TraesCS2D01G345900 chr2A 92.966 1180 62 10 794 1965 585661489 585662655 0.000000e+00 1700
5 TraesCS2D01G345900 chr2A 83.146 445 37 19 1938 2360 585663624 585664052 3.000000e-99 372
6 TraesCS2D01G345900 chr1D 96.091 793 31 0 1 793 258349200 258349992 0.000000e+00 1293
7 TraesCS2D01G345900 chr1D 95.854 796 31 2 1 794 98831239 98830444 0.000000e+00 1286
8 TraesCS2D01G345900 chr1D 95.849 795 31 2 1 794 98828975 98828182 0.000000e+00 1284
9 TraesCS2D01G345900 chr4D 95.828 791 31 1 1 791 274463759 274464547 0.000000e+00 1277
10 TraesCS2D01G345900 chr4D 95.597 795 35 0 1 795 448523700 448524494 0.000000e+00 1275
11 TraesCS2D01G345900 chr7A 95.586 793 34 1 1 793 425788363 425789154 0.000000e+00 1269
12 TraesCS2D01G345900 chr6D 95.466 794 33 2 1 794 211666619 211665829 0.000000e+00 1264
13 TraesCS2D01G345900 chr4B 95.316 790 33 1 4 793 527284331 527283546 0.000000e+00 1251
14 TraesCS2D01G345900 chr1A 95.082 793 39 0 1 793 540328042 540328834 0.000000e+00 1249


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 TraesCS2D01G345900 chr2D 441768842 441771309 2467 False 4558 4558 100.0000 1 2468 1 chr2D.!!$F1 2467
1 TraesCS2D01G345900 chr2B 521332177 521333452 1275 False 1989 1989 94.8360 794 2067 1 chr2B.!!$F1 1273
2 TraesCS2D01G345900 chr2A 585661489 585664052 2563 False 1036 1700 88.0560 794 2360 2 chr2A.!!$F1 1566
3 TraesCS2D01G345900 chr1D 258349200 258349992 792 False 1293 1293 96.0910 1 793 1 chr1D.!!$F1 792
4 TraesCS2D01G345900 chr1D 98828182 98831239 3057 True 1285 1286 95.8515 1 794 2 chr1D.!!$R1 793
5 TraesCS2D01G345900 chr4D 274463759 274464547 788 False 1277 1277 95.8280 1 791 1 chr4D.!!$F1 790
6 TraesCS2D01G345900 chr4D 448523700 448524494 794 False 1275 1275 95.5970 1 795 1 chr4D.!!$F2 794
7 TraesCS2D01G345900 chr7A 425788363 425789154 791 False 1269 1269 95.5860 1 793 1 chr7A.!!$F1 792
8 TraesCS2D01G345900 chr6D 211665829 211666619 790 True 1264 1264 95.4660 1 794 1 chr6D.!!$R1 793
9 TraesCS2D01G345900 chr4B 527283546 527284331 785 True 1251 1251 95.3160 4 793 1 chr4B.!!$R1 789
10 TraesCS2D01G345900 chr1A 540328042 540328834 792 False 1249 1249 95.0820 1 793 1 chr1A.!!$F1 792

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
59 60 0.179119 GACGGCCATGTACTACGCTT 60.179 55.0 2.24 0.0 0.0 4.68 F
769 3038 0.830444 TACAACCTGAGACCACGCCT 60.830 55.0 0.00 0.0 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1176 3450 0.465705 TTGACAGCTCCGGGATGATC 59.534 55.0 13.99 8.7 35.04 2.92 R
1648 3925 0.667993 ACGCATTGACACAAACTGGG 59.332 50.0 0.00 0.0 0.00 4.45 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
59 60 0.179119 GACGGCCATGTACTACGCTT 60.179 55.000 2.24 0.00 0.00 4.68
103 105 4.052518 ATCCAGCAGGCACCACCC 62.053 66.667 0.00 0.00 40.58 4.61
149 151 4.735132 CGGAAGTTCCCGCGCAGA 62.735 66.667 16.47 0.00 43.25 4.26
409 411 1.231958 TGTTTGGCGACCGTTGATCC 61.232 55.000 0.00 0.00 0.00 3.36
488 490 1.279271 CGGCATATTAGGGGCTTAGCT 59.721 52.381 3.59 0.00 0.00 3.32
769 3038 0.830444 TACAACCTGAGACCACGCCT 60.830 55.000 0.00 0.00 0.00 5.52
858 3128 2.288825 TGTGTGAGCCTTTTCTCCTACG 60.289 50.000 0.00 0.00 32.22 3.51
919 3190 1.094785 TTCCTGCTAATTCTTGCCGC 58.905 50.000 0.00 0.00 0.00 6.53
964 3236 9.462174 TCTAATTGCAGTCTGTGTTTTTATTTG 57.538 29.630 0.93 0.00 0.00 2.32
1074 3348 1.664321 CGGGGACAAGGGTACTCTCG 61.664 65.000 0.00 0.00 0.00 4.04
1176 3450 3.131709 AGGCTGATTGACATAATCCGG 57.868 47.619 0.00 0.00 0.00 5.14
1197 3471 1.153289 CATCCCGGAGCTGTCAAGG 60.153 63.158 0.73 0.00 0.00 3.61
1211 3485 7.346751 AGCTGTCAAGGAACTATTTCAAAAA 57.653 32.000 0.00 0.00 38.49 1.94
1287 3561 1.473257 GCGCAGACAATATCCCTGTCA 60.473 52.381 0.30 0.00 44.68 3.58
1377 3651 1.143401 GTTCTACTACAGCCGGCCC 59.857 63.158 26.15 0.00 0.00 5.80
1475 3749 3.577501 GCTTGCTAGCTGATTTACGTC 57.422 47.619 17.23 0.00 44.27 4.34
1485 3759 2.358267 CTGATTTACGTCGCCTCCTACT 59.642 50.000 0.00 0.00 0.00 2.57
1495 3769 0.543749 GCCTCCTACTGGTGCTTCAT 59.456 55.000 0.00 0.00 34.23 2.57
1524 3798 1.003112 ATCGCGGTAAGTGGGCAAA 60.003 52.632 6.13 0.00 0.00 3.68
1591 3868 4.702131 ACATGCCTTTCTTGGTCTTGTATC 59.298 41.667 0.00 0.00 0.00 2.24
1599 3876 6.911250 TTCTTGGTCTTGTATCTCTGTGTA 57.089 37.500 0.00 0.00 0.00 2.90
1607 3884 7.278868 GGTCTTGTATCTCTGTGTAAAGATTGG 59.721 40.741 0.00 0.00 34.21 3.16
1635 3912 0.953471 TGGCATAGAACGTGGTGTGC 60.953 55.000 9.78 9.78 0.00 4.57
1636 3913 0.673644 GGCATAGAACGTGGTGTGCT 60.674 55.000 15.64 0.00 40.62 4.40
1641 3918 4.371786 CATAGAACGTGGTGTGCTGATAT 58.628 43.478 0.00 0.00 36.96 1.63
1648 3925 0.383231 GGTGTGCTGATATTGCAGGC 59.617 55.000 4.85 2.21 41.41 4.85
1744 4021 0.316204 ATTCAAGCTGTGGCACTTGC 59.684 50.000 19.83 21.14 42.41 4.01
1775 4052 6.154706 TCCAGTCTAGGGTAGAGTTTGATTTC 59.845 42.308 0.00 0.00 36.35 2.17
1798 4075 0.179070 GCAGTCTGTAGCTTAGCCCC 60.179 60.000 0.00 0.00 0.00 5.80
1900 4177 4.404507 TTTGATCTTCGTTTGCAGCTAC 57.595 40.909 0.00 0.00 0.00 3.58
2011 5286 4.443457 CCTCAGTTGTCTTCTCTTGTTCCA 60.443 45.833 0.00 0.00 0.00 3.53
2012 5287 4.697514 TCAGTTGTCTTCTCTTGTTCCAG 58.302 43.478 0.00 0.00 0.00 3.86
2013 5288 4.162320 TCAGTTGTCTTCTCTTGTTCCAGT 59.838 41.667 0.00 0.00 0.00 4.00
2015 5290 6.042093 TCAGTTGTCTTCTCTTGTTCCAGTAT 59.958 38.462 0.00 0.00 0.00 2.12
2016 5291 6.146837 CAGTTGTCTTCTCTTGTTCCAGTATG 59.853 42.308 0.00 0.00 0.00 2.39
2017 5292 4.569943 TGTCTTCTCTTGTTCCAGTATGC 58.430 43.478 0.00 0.00 31.97 3.14
2058 5336 2.494471 AGTACTGTAATGGTGCGCACTA 59.506 45.455 36.84 33.23 0.00 2.74
2059 5337 2.010145 ACTGTAATGGTGCGCACTAG 57.990 50.000 36.84 25.09 0.00 2.57
2060 5338 0.652592 CTGTAATGGTGCGCACTAGC 59.347 55.000 36.84 24.86 37.71 3.42
2061 5339 0.036858 TGTAATGGTGCGCACTAGCA 60.037 50.000 36.84 27.21 45.96 3.49
2067 5345 4.454948 TGCGCACTAGCACTGTTT 57.545 50.000 5.66 0.00 42.92 2.83
2068 5346 2.701587 TGCGCACTAGCACTGTTTT 58.298 47.368 5.66 0.00 42.92 2.43
2069 5347 1.021202 TGCGCACTAGCACTGTTTTT 58.979 45.000 5.66 0.00 42.92 1.94
2088 5366 4.661993 TTTTGAATGTACGCACTAGCAG 57.338 40.909 0.00 0.00 42.27 4.24
2095 5373 2.295070 TGTACGCACTAGCAGAGTTGAA 59.705 45.455 0.00 0.00 42.27 2.69
2104 5382 0.951040 GCAGAGTTGAACCTCGGTGG 60.951 60.000 0.00 0.00 42.93 4.61
2114 5392 1.597027 CCTCGGTGGTGGTGTCAAC 60.597 63.158 0.00 0.00 0.00 3.18
2117 5395 0.035343 TCGGTGGTGGTGTCAACAAA 60.035 50.000 0.00 0.00 42.96 2.83
2123 5401 3.063316 GTGGTGGTGTCAACAAAATTTGC 59.937 43.478 5.52 0.00 42.96 3.68
2124 5402 3.055530 TGGTGGTGTCAACAAAATTTGCT 60.056 39.130 5.52 0.00 37.71 3.91
2126 5404 4.033932 GGTGGTGTCAACAAAATTTGCTTC 59.966 41.667 5.52 0.00 0.00 3.86
2142 5433 2.279582 CTTCGGTAGCATCTGAACGT 57.720 50.000 0.00 0.00 0.00 3.99
2150 5441 3.207474 AGCATCTGAACGTGCAAATTC 57.793 42.857 0.00 4.57 43.63 2.17
2153 5444 4.093998 AGCATCTGAACGTGCAAATTCTAG 59.906 41.667 0.00 7.93 43.63 2.43
2235 5535 4.525874 TGTTAACAATGATGTGGATGCCAA 59.474 37.500 5.64 0.00 40.46 4.52
2287 5591 5.351465 ACATAGTCGAAACTGTGCAATTAGG 59.649 40.000 0.00 0.00 45.64 2.69
2288 5592 3.074412 AGTCGAAACTGTGCAATTAGGG 58.926 45.455 0.00 0.00 33.32 3.53
2317 5621 0.316689 GCAGGTGAACGTGGTTTTCG 60.317 55.000 5.40 0.00 32.80 3.46
2322 5626 4.024725 CAGGTGAACGTGGTTTTCGAATAA 60.025 41.667 0.00 0.00 0.00 1.40
2323 5627 4.758165 AGGTGAACGTGGTTTTCGAATAAT 59.242 37.500 0.00 0.00 0.00 1.28
2325 5629 5.916320 GGTGAACGTGGTTTTCGAATAATTT 59.084 36.000 0.00 0.00 0.00 1.82
2326 5630 7.041235 AGGTGAACGTGGTTTTCGAATAATTTA 60.041 33.333 0.00 0.00 0.00 1.40
2327 5631 7.751793 GGTGAACGTGGTTTTCGAATAATTTAT 59.248 33.333 0.00 0.00 0.00 1.40
2412 5718 8.849543 ACTATGTAACTTTACCATTAGGGAGA 57.150 34.615 0.00 0.00 41.15 3.71
2413 5719 9.275572 ACTATGTAACTTTACCATTAGGGAGAA 57.724 33.333 0.00 0.00 41.15 2.87
2420 5726 8.521170 ACTTTACCATTAGGGAGAAATAAAGC 57.479 34.615 0.00 0.00 41.15 3.51
2421 5727 7.560262 ACTTTACCATTAGGGAGAAATAAAGCC 59.440 37.037 0.00 0.00 41.15 4.35
2422 5728 5.734031 ACCATTAGGGAGAAATAAAGCCT 57.266 39.130 0.00 0.00 41.15 4.58
2423 5729 6.841781 ACCATTAGGGAGAAATAAAGCCTA 57.158 37.500 0.00 0.00 41.15 3.93
2424 5730 6.602278 ACCATTAGGGAGAAATAAAGCCTAC 58.398 40.000 0.00 0.00 41.15 3.18
2425 5731 6.390165 ACCATTAGGGAGAAATAAAGCCTACT 59.610 38.462 0.00 0.00 41.15 2.57
2426 5732 7.091947 ACCATTAGGGAGAAATAAAGCCTACTT 60.092 37.037 0.00 0.00 41.15 2.24
2427 5733 7.780271 CCATTAGGGAGAAATAAAGCCTACTTT 59.220 37.037 0.00 0.00 43.74 2.66
2428 5734 8.841300 CATTAGGGAGAAATAAAGCCTACTTTC 58.159 37.037 0.00 0.00 42.59 2.62
2429 5735 6.644308 AGGGAGAAATAAAGCCTACTTTCT 57.356 37.500 0.00 0.00 42.59 2.52
2430 5736 6.418946 AGGGAGAAATAAAGCCTACTTTCTG 58.581 40.000 6.65 0.00 42.59 3.02
2431 5737 6.215636 AGGGAGAAATAAAGCCTACTTTCTGA 59.784 38.462 6.65 0.00 42.59 3.27
2432 5738 6.884836 GGGAGAAATAAAGCCTACTTTCTGAA 59.115 38.462 6.65 0.00 42.59 3.02
2433 5739 7.066404 GGGAGAAATAAAGCCTACTTTCTGAAG 59.934 40.741 6.65 0.00 42.59 3.02
2434 5740 7.066404 GGAGAAATAAAGCCTACTTTCTGAAGG 59.934 40.741 6.65 0.00 42.59 3.46
2435 5741 7.690256 AGAAATAAAGCCTACTTTCTGAAGGA 58.310 34.615 6.52 0.00 42.59 3.36
2436 5742 8.164070 AGAAATAAAGCCTACTTTCTGAAGGAA 58.836 33.333 6.52 0.00 42.59 3.36
2437 5743 8.706322 AAATAAAGCCTACTTTCTGAAGGAAA 57.294 30.769 6.52 0.00 42.59 3.13
2438 5744 8.706322 AATAAAGCCTACTTTCTGAAGGAAAA 57.294 30.769 6.52 0.00 42.59 2.29
2439 5745 8.706322 ATAAAGCCTACTTTCTGAAGGAAAAA 57.294 30.769 6.52 0.00 42.59 1.94
2461 5767 6.731292 AAAAATGAGGGAAGCTTACTTTGT 57.269 33.333 8.99 0.00 35.82 2.83
2462 5768 5.712152 AAATGAGGGAAGCTTACTTTGTG 57.288 39.130 8.99 0.00 35.82 3.33
2463 5769 4.640771 ATGAGGGAAGCTTACTTTGTGA 57.359 40.909 8.99 0.00 35.82 3.58
2464 5770 4.640771 TGAGGGAAGCTTACTTTGTGAT 57.359 40.909 8.99 0.00 35.82 3.06
2465 5771 4.326826 TGAGGGAAGCTTACTTTGTGATG 58.673 43.478 8.99 0.00 35.82 3.07
2466 5772 3.690460 AGGGAAGCTTACTTTGTGATGG 58.310 45.455 8.99 0.00 35.82 3.51
2467 5773 2.755103 GGGAAGCTTACTTTGTGATGGG 59.245 50.000 8.99 0.00 35.82 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
409 411 4.168291 GAGCTGGAAGGCGGGGAG 62.168 72.222 0.00 0.00 37.29 4.30
488 490 1.136828 ACTGGGCCACAACTAACTGA 58.863 50.000 0.00 0.00 0.00 3.41
722 2991 3.866582 GAGGGATGGCGTGGAGGG 61.867 72.222 0.00 0.00 0.00 4.30
769 3038 0.043637 AGGAACCGGATCCCTACCAA 59.956 55.000 25.99 0.00 40.59 3.67
882 3153 5.880332 GCAGGAAACAAGTATGATTAGGTCA 59.120 40.000 0.00 0.00 42.06 4.02
919 3190 3.470709 AGAGATGATATTGTTGCACCGG 58.529 45.455 0.00 0.00 0.00 5.28
1033 3307 7.720515 CCCCGTATATAAACCATAGTTGGAAAA 59.279 37.037 0.00 0.00 46.92 2.29
1074 3348 1.360820 GGAAGTTCTTGTAGCTCGGC 58.639 55.000 2.25 0.00 0.00 5.54
1176 3450 0.465705 TTGACAGCTCCGGGATGATC 59.534 55.000 13.99 8.70 35.04 2.92
1197 3471 5.441709 TGGACCCGTTTTTGAAATAGTTC 57.558 39.130 0.00 0.00 0.00 3.01
1211 3485 2.363147 GAGCTCTCCTGGACCCGT 60.363 66.667 6.43 0.00 0.00 5.28
1245 3519 1.203050 ACATAAAAGCCACCCAGCAGT 60.203 47.619 0.00 0.00 34.23 4.40
1287 3561 2.282180 ACGCCCAAAGCACCGAAT 60.282 55.556 0.00 0.00 44.04 3.34
1377 3651 1.349259 CGACGGCGAAGGTAACCTTG 61.349 60.000 16.62 0.00 44.82 3.61
1475 3749 1.153549 GAAGCACCAGTAGGAGGCG 60.154 63.158 0.00 0.00 41.43 5.52
1485 3759 5.593968 GATGAAAATGCATATGAAGCACCA 58.406 37.500 6.97 0.00 45.95 4.17
1495 3769 3.874543 ACTTACCGCGATGAAAATGCATA 59.125 39.130 8.23 0.00 0.00 3.14
1524 3798 2.425312 TGTTGCGTTTTCTCACCATGTT 59.575 40.909 0.00 0.00 0.00 2.71
1591 3868 3.071874 TGGGCCAATCTTTACACAGAG 57.928 47.619 2.13 0.00 0.00 3.35
1599 3876 0.906775 CCAGCAATGGGCCAATCTTT 59.093 50.000 11.89 0.00 46.50 2.52
1619 3896 2.078849 TCAGCACACCACGTTCTATG 57.921 50.000 0.00 0.00 0.00 2.23
1621 3898 4.180817 CAATATCAGCACACCACGTTCTA 58.819 43.478 0.00 0.00 0.00 2.10
1635 3912 2.062971 AACTGGGCCTGCAATATCAG 57.937 50.000 10.71 0.59 0.00 2.90
1636 3913 2.101783 CAAACTGGGCCTGCAATATCA 58.898 47.619 10.71 0.00 0.00 2.15
1641 3918 1.381056 ACACAAACTGGGCCTGCAA 60.381 52.632 10.71 0.00 0.00 4.08
1648 3925 0.667993 ACGCATTGACACAAACTGGG 59.332 50.000 0.00 0.00 0.00 4.45
1744 4021 2.040012 TCTACCCTAGACTGGATAGCCG 59.960 54.545 0.00 0.00 36.79 5.52
1798 4075 1.881973 ACTACACATTGCCTGCACAAG 59.118 47.619 0.00 0.00 31.96 3.16
1967 5242 1.518056 AACACACCTTGCTGCATCGG 61.518 55.000 1.84 10.04 0.00 4.18
2011 5286 3.691118 AGATGTTGCGTCAAATGCATACT 59.309 39.130 0.00 0.00 40.22 2.12
2012 5287 4.019919 AGATGTTGCGTCAAATGCATAC 57.980 40.909 0.00 0.00 40.22 2.39
2013 5288 3.688673 TGAGATGTTGCGTCAAATGCATA 59.311 39.130 0.00 0.00 40.22 3.14
2015 5290 1.878734 TGAGATGTTGCGTCAAATGCA 59.121 42.857 0.00 0.00 38.54 3.96
2016 5291 2.160219 TCTGAGATGTTGCGTCAAATGC 59.840 45.455 0.00 0.00 0.00 3.56
2017 5292 3.434641 ACTCTGAGATGTTGCGTCAAATG 59.565 43.478 12.44 0.00 0.00 2.32
2066 5344 4.752604 TCTGCTAGTGCGTACATTCAAAAA 59.247 37.500 6.38 0.00 43.34 1.94
2067 5345 4.311606 TCTGCTAGTGCGTACATTCAAAA 58.688 39.130 6.38 0.00 43.34 2.44
2068 5346 3.920446 TCTGCTAGTGCGTACATTCAAA 58.080 40.909 6.38 0.00 43.34 2.69
2069 5347 3.056821 ACTCTGCTAGTGCGTACATTCAA 60.057 43.478 6.38 0.00 43.34 2.69
2070 5348 2.492088 ACTCTGCTAGTGCGTACATTCA 59.508 45.455 6.38 0.00 43.34 2.57
2071 5349 3.152261 ACTCTGCTAGTGCGTACATTC 57.848 47.619 6.38 0.00 43.34 2.67
2072 5350 3.056821 TCAACTCTGCTAGTGCGTACATT 60.057 43.478 6.38 0.00 43.34 2.71
2073 5351 2.492088 TCAACTCTGCTAGTGCGTACAT 59.508 45.455 6.38 0.00 43.34 2.29
2074 5352 1.883926 TCAACTCTGCTAGTGCGTACA 59.116 47.619 6.38 0.00 43.34 2.90
2075 5353 2.631418 TCAACTCTGCTAGTGCGTAC 57.369 50.000 0.00 0.00 43.34 3.67
2076 5354 2.352421 GGTTCAACTCTGCTAGTGCGTA 60.352 50.000 0.00 0.00 43.34 4.42
2077 5355 1.605712 GGTTCAACTCTGCTAGTGCGT 60.606 52.381 0.00 0.00 43.34 5.24
2078 5356 1.071605 GGTTCAACTCTGCTAGTGCG 58.928 55.000 0.00 0.00 43.34 5.34
2079 5357 2.342179 GAGGTTCAACTCTGCTAGTGC 58.658 52.381 0.00 0.00 38.88 4.40
2080 5358 2.600731 CGAGGTTCAACTCTGCTAGTG 58.399 52.381 0.00 0.00 38.88 2.74
2081 5359 1.546476 CCGAGGTTCAACTCTGCTAGT 59.454 52.381 0.00 0.00 41.49 2.57
2082 5360 1.546476 ACCGAGGTTCAACTCTGCTAG 59.454 52.381 0.00 0.00 35.33 3.42
2083 5361 1.272490 CACCGAGGTTCAACTCTGCTA 59.728 52.381 0.00 0.00 35.33 3.49
2104 5382 4.259770 CGAAGCAAATTTTGTTGACACCAC 60.260 41.667 10.65 0.00 0.00 4.16
2123 5401 1.920574 CACGTTCAGATGCTACCGAAG 59.079 52.381 0.00 0.00 0.00 3.79
2124 5402 1.990799 CACGTTCAGATGCTACCGAA 58.009 50.000 0.00 0.00 0.00 4.30
2126 5404 0.735978 TGCACGTTCAGATGCTACCG 60.736 55.000 0.00 0.00 42.55 4.02
2134 5425 5.120674 CACATCTAGAATTTGCACGTTCAGA 59.879 40.000 11.58 11.42 0.00 3.27
2138 5429 3.119849 GGCACATCTAGAATTTGCACGTT 60.120 43.478 19.53 0.00 34.76 3.99
2139 5430 2.420022 GGCACATCTAGAATTTGCACGT 59.580 45.455 19.53 0.00 34.76 4.49
2212 5512 4.085009 TGGCATCCACATCATTGTTAACA 58.915 39.130 3.59 3.59 32.34 2.41
2213 5513 4.717233 TGGCATCCACATCATTGTTAAC 57.283 40.909 0.00 0.00 32.34 2.01
2215 5515 4.771577 AGTTTGGCATCCACATCATTGTTA 59.228 37.500 0.00 0.00 32.34 2.41
2287 5591 0.889994 TTCACCTGCAACATGATGCC 59.110 50.000 23.34 7.79 45.83 4.40
2288 5592 1.730121 CGTTCACCTGCAACATGATGC 60.730 52.381 20.11 20.11 46.58 3.91
2386 5692 9.940974 TCTCCCTAATGGTAAAGTTACATAGTA 57.059 33.333 3.75 0.00 35.37 1.82
2387 5693 8.849543 TCTCCCTAATGGTAAAGTTACATAGT 57.150 34.615 3.75 0.00 35.37 2.12
2394 5700 8.967918 GCTTTATTTCTCCCTAATGGTAAAGTT 58.032 33.333 0.00 0.00 34.77 2.66
2395 5701 7.560262 GGCTTTATTTCTCCCTAATGGTAAAGT 59.440 37.037 0.00 0.00 34.77 2.66
2396 5702 7.780271 AGGCTTTATTTCTCCCTAATGGTAAAG 59.220 37.037 0.00 0.00 34.77 1.85
2397 5703 7.648770 AGGCTTTATTTCTCCCTAATGGTAAA 58.351 34.615 0.00 0.00 34.77 2.01
2398 5704 7.220890 AGGCTTTATTTCTCCCTAATGGTAA 57.779 36.000 0.00 0.00 34.77 2.85
2399 5705 6.841781 AGGCTTTATTTCTCCCTAATGGTA 57.158 37.500 0.00 0.00 34.77 3.25
2400 5706 5.734031 AGGCTTTATTTCTCCCTAATGGT 57.266 39.130 0.00 0.00 34.77 3.55
2401 5707 6.842676 AGTAGGCTTTATTTCTCCCTAATGG 58.157 40.000 0.00 0.00 30.55 3.16
2402 5708 8.753497 AAAGTAGGCTTTATTTCTCCCTAATG 57.247 34.615 0.00 0.00 42.60 1.90
2403 5709 8.782927 AGAAAGTAGGCTTTATTTCTCCCTAAT 58.217 33.333 12.71 0.00 44.25 1.73
2404 5710 8.047310 CAGAAAGTAGGCTTTATTTCTCCCTAA 58.953 37.037 14.61 0.00 44.25 2.69
2405 5711 7.402071 TCAGAAAGTAGGCTTTATTTCTCCCTA 59.598 37.037 14.61 0.00 44.25 3.53
2406 5712 6.215636 TCAGAAAGTAGGCTTTATTTCTCCCT 59.784 38.462 14.61 0.00 44.25 4.20
2407 5713 6.415573 TCAGAAAGTAGGCTTTATTTCTCCC 58.584 40.000 14.61 0.00 44.25 4.30
2408 5714 7.066404 CCTTCAGAAAGTAGGCTTTATTTCTCC 59.934 40.741 14.61 0.00 44.25 3.71
2409 5715 7.824779 TCCTTCAGAAAGTAGGCTTTATTTCTC 59.175 37.037 14.61 0.00 44.25 2.87
2410 5716 7.690256 TCCTTCAGAAAGTAGGCTTTATTTCT 58.310 34.615 12.71 12.71 44.25 2.52
2411 5717 7.923414 TCCTTCAGAAAGTAGGCTTTATTTC 57.077 36.000 0.00 1.32 44.25 2.17
2412 5718 8.706322 TTTCCTTCAGAAAGTAGGCTTTATTT 57.294 30.769 0.00 0.00 44.25 1.40
2413 5719 8.706322 TTTTCCTTCAGAAAGTAGGCTTTATT 57.294 30.769 0.00 0.00 45.11 1.40
2414 5720 8.706322 TTTTTCCTTCAGAAAGTAGGCTTTAT 57.294 30.769 0.00 0.00 45.11 1.40
2438 5744 6.323739 TCACAAAGTAAGCTTCCCTCATTTTT 59.676 34.615 0.00 0.00 33.01 1.94
2439 5745 5.833131 TCACAAAGTAAGCTTCCCTCATTTT 59.167 36.000 0.00 0.00 33.01 1.82
2440 5746 5.385198 TCACAAAGTAAGCTTCCCTCATTT 58.615 37.500 0.00 0.00 33.01 2.32
2441 5747 4.985538 TCACAAAGTAAGCTTCCCTCATT 58.014 39.130 0.00 0.00 33.01 2.57
2442 5748 4.640771 TCACAAAGTAAGCTTCCCTCAT 57.359 40.909 0.00 0.00 33.01 2.90
2443 5749 4.326826 CATCACAAAGTAAGCTTCCCTCA 58.673 43.478 0.00 0.00 33.01 3.86
2444 5750 3.691609 CCATCACAAAGTAAGCTTCCCTC 59.308 47.826 0.00 0.00 33.01 4.30
2445 5751 3.562176 CCCATCACAAAGTAAGCTTCCCT 60.562 47.826 0.00 0.00 33.01 4.20
2446 5752 2.755103 CCCATCACAAAGTAAGCTTCCC 59.245 50.000 0.00 0.00 33.01 3.97


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

AutoCloner maintained by Alex Coulton.