Multiple sequence alignment - TraesCS6A01G057900

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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 TraesCS6A01G057900 chr6A 100.000 5024 0 0 1 5024 30463691 30468714 0.000000e+00 9278.0
1 TraesCS6A01G057900 chr6A 82.500 80 5 5 4826 4902 27357286 27357213 1.510000e-05 62.1
2 TraesCS6A01G057900 chr6D 92.804 4419 171 39 1 4347 27524672 27520329 0.000000e+00 6263.0
3 TraesCS6A01G057900 chr6D 89.720 107 11 0 4453 4559 27520285 27520179 2.440000e-28 137.0
4 TraesCS6A01G057900 chr6B 92.141 2163 79 28 289 2385 51218912 51216775 0.000000e+00 2968.0
5 TraesCS6A01G057900 chr6B 95.727 1802 58 7 2490 4286 51216765 51214978 0.000000e+00 2883.0
6 TraesCS6A01G057900 chr6B 85.703 1217 114 28 2851 4055 50396227 50397395 0.000000e+00 1229.0
7 TraesCS6A01G057900 chr6B 91.472 727 25 11 4315 5019 51214980 51214269 0.000000e+00 965.0
8 TraesCS6A01G057900 chr6B 90.554 307 12 9 1 301 51220411 51220116 1.700000e-104 390.0
9 TraesCS6A01G057900 chr6B 78.462 260 50 4 2364 2619 510250941 510250684 1.120000e-36 165.0
10 TraesCS6A01G057900 chr6B 92.308 65 4 1 4829 4893 642972216 642972153 1.930000e-14 91.6
11 TraesCS6A01G057900 chr4A 82.088 910 129 21 3122 4022 157561743 157562627 0.000000e+00 747.0
12 TraesCS6A01G057900 chr4D 81.466 928 138 14 3122 4022 317198751 317197831 0.000000e+00 730.0
13 TraesCS6A01G057900 chr4D 78.516 256 50 3 2369 2620 404458769 404459023 4.020000e-36 163.0
14 TraesCS6A01G057900 chr4B 84.254 724 102 8 3307 4022 394384785 394384066 0.000000e+00 695.0
15 TraesCS6A01G057900 chr4B 87.500 56 3 4 4823 4875 124018804 124018858 1.510000e-05 62.1
16 TraesCS6A01G057900 chr5D 82.464 211 31 6 2368 2575 104118372 104118579 4.000000e-41 180.0
17 TraesCS6A01G057900 chr5D 90.196 51 3 2 4829 4878 486826718 486826767 1.170000e-06 65.8
18 TraesCS6A01G057900 chr5D 94.595 37 0 2 4895 4929 491437532 491437568 7.030000e-04 56.5
19 TraesCS6A01G057900 chr7D 78.125 256 51 4 2369 2620 321229695 321229441 1.870000e-34 158.0
20 TraesCS6A01G057900 chr7D 82.514 183 29 2 2390 2570 476112701 476112520 1.870000e-34 158.0
21 TraesCS6A01G057900 chrUn 83.333 174 15 8 4184 4347 137827041 137827210 1.130000e-31 148.0
22 TraesCS6A01G057900 chrUn 83.333 174 15 8 4184 4347 137828052 137828221 1.130000e-31 148.0
23 TraesCS6A01G057900 chrUn 83.333 174 15 8 4184 4347 137829672 137829841 1.130000e-31 148.0
24 TraesCS6A01G057900 chrUn 82.759 174 16 8 4184 4347 137828862 137829031 5.240000e-30 143.0
25 TraesCS6A01G057900 chrUn 80.583 103 10 5 4254 4347 137826305 137826406 2.510000e-08 71.3
26 TraesCS6A01G057900 chrUn 97.059 34 1 0 4892 4925 335110931 335110964 1.950000e-04 58.4
27 TraesCS6A01G057900 chr1A 80.663 181 30 4 2443 2621 322524303 322524126 8.770000e-28 135.0
28 TraesCS6A01G057900 chr1D 78.922 204 38 4 2367 2566 307441019 307441221 3.160000e-27 134.0
29 TraesCS6A01G057900 chr2D 81.529 157 26 3 2397 2552 150129921 150129767 5.280000e-25 126.0
30 TraesCS6A01G057900 chr2D 90.000 50 3 2 4825 4873 478115452 478115500 4.200000e-06 63.9
31 TraesCS6A01G057900 chr7A 89.706 68 4 2 4830 4894 25928444 25928511 3.220000e-12 84.2
32 TraesCS6A01G057900 chr3B 91.837 49 1 1 4830 4875 218003784 218003832 1.170000e-06 65.8
33 TraesCS6A01G057900 chr3B 94.595 37 0 2 4891 4926 704032204 704032239 7.030000e-04 56.5
34 TraesCS6A01G057900 chr5A 97.059 34 1 0 4892 4925 596551435 596551402 1.950000e-04 58.4
35 TraesCS6A01G057900 chr3D 82.812 64 11 0 4830 4893 573689313 573689250 1.950000e-04 58.4


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 TraesCS6A01G057900 chr6A 30463691 30468714 5023 False 9278.0 9278 100.0000 1 5024 1 chr6A.!!$F1 5023
1 TraesCS6A01G057900 chr6D 27520179 27524672 4493 True 3200.0 6263 91.2620 1 4559 2 chr6D.!!$R1 4558
2 TraesCS6A01G057900 chr6B 51214269 51220411 6142 True 1801.5 2968 92.4735 1 5019 4 chr6B.!!$R3 5018
3 TraesCS6A01G057900 chr6B 50396227 50397395 1168 False 1229.0 1229 85.7030 2851 4055 1 chr6B.!!$F1 1204
4 TraesCS6A01G057900 chr4A 157561743 157562627 884 False 747.0 747 82.0880 3122 4022 1 chr4A.!!$F1 900
5 TraesCS6A01G057900 chr4D 317197831 317198751 920 True 730.0 730 81.4660 3122 4022 1 chr4D.!!$R1 900
6 TraesCS6A01G057900 chr4B 394384066 394384785 719 True 695.0 695 84.2540 3307 4022 1 chr4B.!!$R1 715

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
676 1924 3.055094 ACCTGTATGGAAAGGTAGTGCTG 60.055 47.826 0.0 0.0 45.15 4.41 F
1767 3064 1.202651 ACATCCGATTTAAGCCCCTCG 60.203 52.381 0.0 0.0 0.00 4.63 F
3224 4526 0.177604 CAGTGGCTCCATGAGTCCTC 59.822 60.000 0.0 0.0 32.68 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2058 3355 0.535797 CAGCCACTCTGCTCTCATCA 59.464 55.0 0.0 0.0 40.32 3.07 R
3246 4548 1.047801 ACCATGCCAAGGGAAACAAC 58.952 50.0 0.0 0.0 0.00 3.32 R
4070 5414 1.026718 AACAGTATGAGCCCAAGCGC 61.027 55.0 0.0 0.0 42.26 5.92 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
32 35 4.749598 CCAAGTGGCTGGTCAATTTTAAAC 59.250 41.667 0.00 0.00 0.00 2.01
71 74 4.588899 TGGATATCAACTGTGGTCCTTTG 58.411 43.478 4.83 0.00 0.00 2.77
73 76 5.222027 TGGATATCAACTGTGGTCCTTTGAA 60.222 40.000 4.83 0.00 31.96 2.69
88 92 6.239317 GGTCCTTTGAAGTGGCTAGAAAAATT 60.239 38.462 0.00 0.00 0.00 1.82
99 103 5.827797 TGGCTAGAAAAATTGAACACTGAGT 59.172 36.000 0.00 0.00 0.00 3.41
181 186 5.828299 TGTTTACTTTGTTGAAGTCCCAG 57.172 39.130 0.00 0.00 45.40 4.45
205 210 6.667414 AGGCTCCTGGATAATCAGAGTAATAG 59.333 42.308 0.00 0.00 36.93 1.73
206 211 6.439058 GGCTCCTGGATAATCAGAGTAATAGT 59.561 42.308 0.00 0.00 36.93 2.12
207 212 7.616150 GGCTCCTGGATAATCAGAGTAATAGTA 59.384 40.741 0.00 0.00 36.93 1.82
265 272 9.850628 ATGATAAAAGAAATGTGTGATGAACTG 57.149 29.630 0.00 0.00 0.00 3.16
266 273 9.065798 TGATAAAAGAAATGTGTGATGAACTGA 57.934 29.630 0.00 0.00 0.00 3.41
305 1528 6.408869 TGAGTGTGAGAAATAGCATTGATGA 58.591 36.000 0.00 0.00 0.00 2.92
306 1529 6.880529 TGAGTGTGAGAAATAGCATTGATGAA 59.119 34.615 0.00 0.00 0.00 2.57
354 1578 4.989279 ATGATTATGGTGCAAGTCAACC 57.011 40.909 0.00 0.00 0.00 3.77
446 1671 9.267084 GAGAGAGAAGACAAAACTTAGTTTCAT 57.733 33.333 10.98 2.31 34.43 2.57
570 1818 3.402110 CCGCTATATCAAGTGATTGCCA 58.598 45.455 0.00 0.00 36.05 4.92
573 1821 5.388111 CGCTATATCAAGTGATTGCCAATG 58.612 41.667 0.00 0.00 36.05 2.82
586 1834 8.377799 AGTGATTGCCAATGTATCAGTATATCA 58.622 33.333 0.00 0.00 31.85 2.15
630 1878 4.767908 ACCCCACCATCATCAGTATATCT 58.232 43.478 0.00 0.00 0.00 1.98
663 1911 6.764308 AATGTTGAAGAATGACCTGTATGG 57.236 37.500 0.00 0.00 42.93 2.74
668 1916 5.500234 TGAAGAATGACCTGTATGGAAAGG 58.500 41.667 0.00 0.00 39.71 3.11
676 1924 3.055094 ACCTGTATGGAAAGGTAGTGCTG 60.055 47.826 0.00 0.00 45.15 4.41
684 1932 3.989817 GGAAAGGTAGTGCTGCAAATTTG 59.010 43.478 14.03 14.03 0.00 2.32
689 1937 6.780457 AGGTAGTGCTGCAAATTTGATAAT 57.220 33.333 22.31 6.07 0.00 1.28
690 1938 7.880160 AGGTAGTGCTGCAAATTTGATAATA 57.120 32.000 22.31 5.17 0.00 0.98
940 2219 5.834742 TGCATTACTTTCTGCCATATTCCAT 59.165 36.000 0.00 0.00 37.59 3.41
941 2220 7.003482 TGCATTACTTTCTGCCATATTCCATA 58.997 34.615 0.00 0.00 37.59 2.74
942 2221 7.670979 TGCATTACTTTCTGCCATATTCCATAT 59.329 33.333 0.00 0.00 37.59 1.78
943 2222 9.177608 GCATTACTTTCTGCCATATTCCATATA 57.822 33.333 0.00 0.00 32.15 0.86
983 2262 6.552725 TGGCTTAGACTCATACTTCTCATCAT 59.447 38.462 0.00 0.00 0.00 2.45
1125 2404 3.027170 GCACTTGACGGATGGCGTG 62.027 63.158 0.00 0.00 0.00 5.34
1422 2701 2.109181 GGCTACGAGGTGGATGGC 59.891 66.667 0.00 0.00 0.00 4.40
1482 2761 4.389576 CCTGTGCAAGAACGCCGC 62.390 66.667 0.00 0.00 0.00 6.53
1738 3035 8.448615 GGTTGACCTGTTTAATTCTACATACAC 58.551 37.037 0.00 0.00 0.00 2.90
1749 3046 5.554437 TTCTACATACACAAACAGGGACA 57.446 39.130 0.00 0.00 0.00 4.02
1767 3064 1.202651 ACATCCGATTTAAGCCCCTCG 60.203 52.381 0.00 0.00 0.00 4.63
1986 3283 3.135167 GGGATAACTGGGGTGTATTTCGA 59.865 47.826 0.00 0.00 0.00 3.71
2058 3355 0.322277 CAGTGACTCCAGCAGCCATT 60.322 55.000 0.00 0.00 0.00 3.16
2109 3406 1.230324 GCCAGAAGTCTGTGTTCACC 58.770 55.000 7.51 0.00 42.27 4.02
2508 3805 6.000219 AGATCCATCATGGGAAGTATTTTCG 59.000 40.000 3.05 0.00 41.12 3.46
2865 4164 5.010314 TGTCTTCGAAGTAAGTACACCATGT 59.990 40.000 23.85 0.00 0.00 3.21
2868 4167 4.084287 TCGAAGTAAGTACACCATGTCCT 58.916 43.478 0.00 0.00 0.00 3.85
2873 4172 7.148689 CGAAGTAAGTACACCATGTCCTTTTAC 60.149 40.741 0.00 0.00 29.25 2.01
2902 4201 7.773489 TGGTTCAAAAGAATGGATGATGTTA 57.227 32.000 0.00 0.00 0.00 2.41
2939 4238 5.029807 TGGCCGATTGTTATTGACTATGA 57.970 39.130 0.00 0.00 0.00 2.15
3192 4494 4.403752 AGACGGTAAGGAATTACCACTACC 59.596 45.833 15.46 0.00 45.58 3.18
3223 4525 0.252421 TCAGTGGCTCCATGAGTCCT 60.252 55.000 0.00 0.00 32.68 3.85
3224 4526 0.177604 CAGTGGCTCCATGAGTCCTC 59.822 60.000 0.00 0.00 32.68 3.71
3236 4538 4.280677 CCATGAGTCCTCTCTAGTCCATTC 59.719 50.000 0.00 0.00 40.98 2.67
3241 4543 7.126061 TGAGTCCTCTCTAGTCCATTCAATAA 58.874 38.462 0.00 0.00 40.98 1.40
3288 4592 7.179516 TGGTGATAACTTTGTATACCTCTCACA 59.820 37.037 0.00 0.00 32.88 3.58
3316 4640 8.769891 TGACCGCTGTATATTTACATTTATGTG 58.230 33.333 5.64 0.00 41.89 3.21
3885 5229 0.673985 CTGACTGGACCGTGTTCTCA 59.326 55.000 0.00 0.00 0.00 3.27
4065 5409 1.819632 GCCCGGATAACTGTGCCTG 60.820 63.158 0.73 0.00 0.00 4.85
4068 5412 1.613255 CCCGGATAACTGTGCCTGTTT 60.613 52.381 0.73 0.00 0.00 2.83
4070 5414 1.393539 CGGATAACTGTGCCTGTTTCG 59.606 52.381 3.54 0.00 0.00 3.46
4286 5636 9.364110 CTTTTGTTGTGACAAGTTTTGTTAAAC 57.636 29.630 0.00 0.00 45.80 2.01
4445 5805 1.512926 CACCTGCTGTGTGGTAAGTC 58.487 55.000 4.88 0.00 40.26 3.01
4565 5925 3.430236 GCTGCCAACTTTGTACAAAGGTT 60.430 43.478 38.27 28.97 45.33 3.50
4568 5928 5.172205 TGCCAACTTTGTACAAAGGTTTTC 58.828 37.500 38.27 26.93 45.33 2.29
4572 5937 7.038659 CCAACTTTGTACAAAGGTTTTCATGA 58.961 34.615 38.27 10.00 45.33 3.07
4575 5940 7.642071 CTTTGTACAAAGGTTTTCATGATGG 57.358 36.000 32.06 9.58 42.96 3.51
4604 5969 1.915078 ATACCAGCACAGTGGCCCTC 61.915 60.000 0.00 0.00 41.90 4.30
4612 5979 4.269523 AGTGGCCCTCGCAAGCAA 62.270 61.111 0.00 0.00 36.38 3.91
4638 6005 5.948162 AGCATGACTTTTCATACACTGGAAT 59.052 36.000 0.00 0.00 40.79 3.01
4714 6081 5.735922 GCCACTACAATTGTTTTTGCTCAGA 60.736 40.000 17.78 0.00 0.00 3.27
4719 6086 6.942532 ACAATTGTTTTTGCTCAGAGAGTA 57.057 33.333 4.92 0.00 31.39 2.59
4720 6087 7.516198 ACAATTGTTTTTGCTCAGAGAGTAT 57.484 32.000 4.92 0.00 31.39 2.12
4801 6168 9.520204 CCAATTCAGAAACACCATATTATCAAC 57.480 33.333 0.00 0.00 0.00 3.18
4805 6172 7.171653 TCAGAAACACCATATTATCAACCACA 58.828 34.615 0.00 0.00 0.00 4.17
4806 6173 7.833682 TCAGAAACACCATATTATCAACCACAT 59.166 33.333 0.00 0.00 0.00 3.21
4807 6174 7.916977 CAGAAACACCATATTATCAACCACATG 59.083 37.037 0.00 0.00 0.00 3.21
4808 6175 7.833682 AGAAACACCATATTATCAACCACATGA 59.166 33.333 0.00 0.00 0.00 3.07
4809 6176 7.572523 AACACCATATTATCAACCACATGAG 57.427 36.000 0.00 0.00 31.76 2.90
4810 6177 5.532406 ACACCATATTATCAACCACATGAGC 59.468 40.000 0.00 0.00 31.76 4.26
4811 6178 4.756642 ACCATATTATCAACCACATGAGCG 59.243 41.667 0.00 0.00 31.76 5.03
4812 6179 4.154737 CCATATTATCAACCACATGAGCGG 59.845 45.833 0.00 0.00 31.76 5.52
4833 6200 5.352284 CGGATGAGCCCATATTATGTACTC 58.648 45.833 12.79 12.79 32.09 2.59
4843 6210 3.614568 ATTATGTACTCCCTCCGTCCT 57.385 47.619 0.00 0.00 0.00 3.85
4884 6251 7.129109 AGTTGATACACTTATTTTGTGACGG 57.871 36.000 0.00 0.00 38.65 4.79
4885 6252 6.932400 AGTTGATACACTTATTTTGTGACGGA 59.068 34.615 0.00 0.00 38.65 4.69
4937 6304 6.916360 AGATGTTTTTGAGGCATCCTAAAA 57.084 33.333 0.00 0.12 39.66 1.52
5019 6401 3.282021 GGCCACATGACATTCAGTGTAT 58.718 45.455 0.00 0.00 42.36 2.29
5020 6402 4.080638 TGGCCACATGACATTCAGTGTATA 60.081 41.667 0.00 0.00 42.36 1.47
5021 6403 4.512944 GGCCACATGACATTCAGTGTATAG 59.487 45.833 0.00 0.00 42.36 1.31
5022 6404 5.118990 GCCACATGACATTCAGTGTATAGT 58.881 41.667 0.00 0.00 42.36 2.12
5023 6405 5.586243 GCCACATGACATTCAGTGTATAGTT 59.414 40.000 0.00 0.00 42.36 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 74 6.638468 CAGTGTTCAATTTTTCTAGCCACTTC 59.362 38.462 0.00 0.00 0.00 3.01
73 76 5.827797 TCAGTGTTCAATTTTTCTAGCCACT 59.172 36.000 0.00 0.00 0.00 4.00
181 186 5.753721 ATTACTCTGATTATCCAGGAGCC 57.246 43.478 0.00 0.00 34.99 4.70
265 272 4.210746 CACACTCAATCGATGGTCATCATC 59.789 45.833 0.00 0.00 46.63 2.92
266 273 4.124970 CACACTCAATCGATGGTCATCAT 58.875 43.478 0.00 2.12 37.69 2.45
305 1528 4.524802 TTGGCCATGTGGATAGATCTTT 57.475 40.909 6.09 0.00 37.39 2.52
306 1529 4.524802 TTTGGCCATGTGGATAGATCTT 57.475 40.909 6.09 0.00 37.39 2.40
446 1671 2.821378 GCCAGCATATCCATGTATTGCA 59.179 45.455 9.05 0.00 34.40 4.08
474 1699 5.852738 ACATTGACAGTCGAGATTCTTTG 57.147 39.130 0.00 0.00 0.00 2.77
586 1834 3.771479 TCCTGTGATATTCTGCTGACAGT 59.229 43.478 3.99 0.00 44.77 3.55
630 1878 7.174946 GGTCATTCTTCAACATTTCTTGGTCTA 59.825 37.037 0.00 0.00 0.00 2.59
663 1911 4.870363 TCAAATTTGCAGCACTACCTTTC 58.130 39.130 13.54 0.00 0.00 2.62
676 1924 8.427012 CGGTTGTGCATATATTATCAAATTTGC 58.573 33.333 13.54 0.00 0.00 3.68
684 1932 4.625742 AGACGCGGTTGTGCATATATTATC 59.374 41.667 12.47 0.00 34.15 1.75
689 1937 1.566404 CAGACGCGGTTGTGCATATA 58.434 50.000 12.47 0.00 34.15 0.86
690 1938 1.705337 GCAGACGCGGTTGTGCATAT 61.705 55.000 12.47 0.00 35.91 1.78
905 2182 7.497909 GGCAGAAAGTAATGCAAGGTATTAGTA 59.502 37.037 0.00 0.00 44.37 1.82
906 2183 6.318900 GGCAGAAAGTAATGCAAGGTATTAGT 59.681 38.462 0.00 0.00 44.37 2.24
907 2184 6.318648 TGGCAGAAAGTAATGCAAGGTATTAG 59.681 38.462 0.00 0.00 44.37 1.73
940 2219 6.791867 AAGCCAGCGATATGGAACTATATA 57.208 37.500 5.98 0.00 43.57 0.86
941 2220 5.683876 AAGCCAGCGATATGGAACTATAT 57.316 39.130 5.98 0.00 43.57 0.86
942 2221 5.949952 TCTAAGCCAGCGATATGGAACTATA 59.050 40.000 5.98 0.00 43.57 1.31
943 2222 4.772624 TCTAAGCCAGCGATATGGAACTAT 59.227 41.667 5.98 0.00 43.57 2.12
983 2262 2.299582 CCCATTTTGACAATGCTGGTGA 59.700 45.455 9.20 0.00 0.00 4.02
1125 2404 2.746269 TGGCAGTTGTAGTTGTACGAC 58.254 47.619 4.97 4.97 42.12 4.34
1269 2548 0.109039 GAAGAGTCTCGAGGTGGTGC 60.109 60.000 13.56 0.00 0.00 5.01
1422 2701 1.003580 AGGTAATGGTCAGCTGTGTGG 59.996 52.381 14.67 0.00 0.00 4.17
1467 2746 3.648982 CTGCGGCGTTCTTGCACA 61.649 61.111 9.37 0.00 36.28 4.57
1482 2761 2.047274 ACGACATTCCACGGGCTG 60.047 61.111 0.00 0.00 0.00 4.85
1488 2767 6.774354 TTAGTTTTGTAGACGACATTCCAC 57.226 37.500 0.00 0.00 38.07 4.02
1717 3014 9.344772 TGTTTGTGTATGTAGAATTAAACAGGT 57.655 29.630 0.00 0.00 33.44 4.00
1718 3015 9.825972 CTGTTTGTGTATGTAGAATTAAACAGG 57.174 33.333 15.09 2.04 44.68 4.00
1738 3035 4.438744 GCTTAAATCGGATGTCCCTGTTTG 60.439 45.833 0.00 0.00 0.00 2.93
1850 3147 4.954202 TCTCTAGGTCCATCACGTAAATGT 59.046 41.667 8.73 0.00 0.00 2.71
1986 3283 2.029073 CCGGTGCTCAAGTCGTGT 59.971 61.111 0.00 0.00 0.00 4.49
2058 3355 0.535797 CAGCCACTCTGCTCTCATCA 59.464 55.000 0.00 0.00 40.32 3.07
2109 3406 2.844146 GCTTCAACACGGACGTCG 59.156 61.111 9.92 7.64 45.88 5.12
2474 3771 9.964354 CTTCCCATGATGGATCTAATTATACAA 57.036 33.333 14.26 0.00 40.96 2.41
2475 3772 9.116080 ACTTCCCATGATGGATCTAATTATACA 57.884 33.333 14.26 0.00 40.96 2.29
2480 3777 9.887862 AAAATACTTCCCATGATGGATCTAATT 57.112 29.630 14.26 4.44 40.96 1.40
2481 3778 9.525826 GAAAATACTTCCCATGATGGATCTAAT 57.474 33.333 14.26 0.00 40.96 1.73
2482 3779 7.661437 CGAAAATACTTCCCATGATGGATCTAA 59.339 37.037 14.26 0.96 40.96 2.10
2483 3780 7.161404 CGAAAATACTTCCCATGATGGATCTA 58.839 38.462 14.26 0.00 40.96 1.98
2484 3781 6.000219 CGAAAATACTTCCCATGATGGATCT 59.000 40.000 14.26 0.00 40.96 2.75
2582 3879 8.460831 AAATAAGGTGCATCAATTTTCGTTAC 57.539 30.769 0.00 0.00 0.00 2.50
2775 4074 3.345714 GTTATCGACGAATGCAAGCTTG 58.654 45.455 22.44 22.44 0.00 4.01
2902 4201 1.671850 CGGCCAGTCATAAACAGTCGT 60.672 52.381 2.24 0.00 29.83 4.34
2939 4238 6.055588 AGTACACAAATACAAACAGAGCACT 58.944 36.000 0.00 0.00 0.00 4.40
3236 4538 5.639082 GCCAAGGGAAACAACATTCTTATTG 59.361 40.000 0.00 0.00 0.00 1.90
3241 4543 2.676748 TGCCAAGGGAAACAACATTCT 58.323 42.857 0.00 0.00 0.00 2.40
3246 4548 1.047801 ACCATGCCAAGGGAAACAAC 58.952 50.000 0.00 0.00 0.00 3.32
3316 4640 2.758009 TGTCCCTGTACAAGCGTAAAC 58.242 47.619 0.00 0.00 0.00 2.01
3322 4649 3.380320 ACAAGTTTTGTCCCTGTACAAGC 59.620 43.478 0.00 0.00 40.56 4.01
3450 4777 2.095059 GCAGTGTGTGTCAATCCAATCC 60.095 50.000 0.00 0.00 0.00 3.01
3561 4898 2.817844 CAGGTAAACAGCAAAGTACCCC 59.182 50.000 0.00 0.00 37.33 4.95
3993 5337 2.358957 CTTTTCGGGATGCACATCTGA 58.641 47.619 10.30 6.36 37.92 3.27
4065 5409 1.366111 TATGAGCCCAAGCGCGAAAC 61.366 55.000 12.10 0.00 46.67 2.78
4068 5412 2.202878 GTATGAGCCCAAGCGCGA 60.203 61.111 12.10 0.00 46.67 5.87
4070 5414 1.026718 AACAGTATGAGCCCAAGCGC 61.027 55.000 0.00 0.00 42.26 5.92
4379 5739 6.024552 AGCATTTGAATGATGTAAACCGTT 57.975 33.333 7.86 0.00 38.70 4.44
4466 5826 2.035066 GCAGACACTTTGTTGGCAAGAT 59.965 45.455 0.00 0.00 35.82 2.40
4564 5924 7.671819 TGGTATTTAGGAACACCATCATGAAAA 59.328 33.333 0.00 0.00 36.15 2.29
4565 5925 7.178573 TGGTATTTAGGAACACCATCATGAAA 58.821 34.615 0.00 0.00 36.15 2.69
4568 5928 5.009010 GCTGGTATTTAGGAACACCATCATG 59.991 44.000 0.00 0.00 40.19 3.07
4572 5937 4.263727 TGTGCTGGTATTTAGGAACACCAT 60.264 41.667 0.00 0.00 40.19 3.55
4575 5940 4.154195 CACTGTGCTGGTATTTAGGAACAC 59.846 45.833 0.00 0.00 0.00 3.32
4604 5969 2.838386 AAGTCATGCTATTGCTTGCG 57.162 45.000 9.62 0.00 42.07 4.85
4612 5979 6.653020 TCCAGTGTATGAAAAGTCATGCTAT 58.347 36.000 6.40 0.00 44.64 2.97
4700 6067 7.715249 ACAAGTATACTCTCTGAGCAAAAACAA 59.285 33.333 5.70 0.00 32.04 2.83
4702 6069 7.360438 CCACAAGTATACTCTCTGAGCAAAAAC 60.360 40.741 5.70 0.00 32.04 2.43
4801 6168 1.890979 GGCTCATCCGCTCATGTGG 60.891 63.158 0.00 0.00 44.86 4.17
4805 6172 3.572397 ATGGGCTCATCCGCTCAT 58.428 55.556 0.00 0.00 45.50 2.90
4806 6173 1.059098 AATATGGGCTCATCCGCTCA 58.941 50.000 0.00 0.00 45.84 4.26
4807 6174 3.201290 CATAATATGGGCTCATCCGCTC 58.799 50.000 0.00 0.00 34.96 5.03
4808 6175 2.573462 ACATAATATGGGCTCATCCGCT 59.427 45.455 0.00 0.00 34.96 5.52
4809 6176 2.991250 ACATAATATGGGCTCATCCGC 58.009 47.619 0.00 0.00 34.96 5.54
4810 6177 5.344743 AGTACATAATATGGGCTCATCCG 57.655 43.478 0.00 0.00 34.96 4.18
4811 6178 5.396884 GGGAGTACATAATATGGGCTCATCC 60.397 48.000 0.00 12.92 37.09 3.51
4812 6179 5.426833 AGGGAGTACATAATATGGGCTCATC 59.573 44.000 0.00 14.07 37.09 2.92
4833 6200 4.161754 AGACACTTATTTTAGGACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
4884 6251 5.204409 TGAGACGGAGATAGTACTCTCTC 57.796 47.826 23.55 23.55 41.23 3.20
4885 6252 5.617528 TTGAGACGGAGATAGTACTCTCT 57.382 43.478 10.36 10.36 41.23 3.10
4937 6304 6.402456 ACAGAAGTACTCCTAAGACGTTTT 57.598 37.500 0.00 0.00 0.00 2.43
4975 6357 9.177608 GGCCAATGCTGATTAGTATTATATTCA 57.822 33.333 0.00 0.00 37.16 2.57
4976 6358 9.177608 TGGCCAATGCTGATTAGTATTATATTC 57.822 33.333 0.61 0.00 37.16 1.75
4982 6364 4.535781 TGTGGCCAATGCTGATTAGTATT 58.464 39.130 7.24 0.00 39.43 1.89
4983 6365 4.169059 TGTGGCCAATGCTGATTAGTAT 57.831 40.909 7.24 0.00 37.74 2.12
4984 6366 3.643199 TGTGGCCAATGCTGATTAGTA 57.357 42.857 7.24 0.00 37.74 1.82
4985 6367 2.512692 TGTGGCCAATGCTGATTAGT 57.487 45.000 7.24 0.00 37.74 2.24
4986 6368 2.953648 TCATGTGGCCAATGCTGATTAG 59.046 45.455 7.24 0.00 37.74 1.73


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

AutoCloner maintained by Alex Coulton.