Multiple sequence alignment - TraesCS6D01G104600

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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 TraesCS6D01G104600 chr6D 100.000 3257 0 0 1 3257 68105729 68102473 0.000000e+00 6015.0
1 TraesCS6D01G104600 chr6D 89.524 210 21 1 1 210 460979256 460979048 6.930000e-67 265.0
2 TraesCS6D01G104600 chr6D 96.296 54 1 1 2953 3006 283795809 283795861 1.610000e-13 87.9
3 TraesCS6D01G104600 chr6B 95.990 3192 97 17 84 3257 143206521 143203343 0.000000e+00 5156.0
4 TraesCS6D01G104600 chr6A 96.328 2887 74 16 396 3257 85592901 85590022 0.000000e+00 4715.0
5 TraesCS6D01G104600 chr6A 93.269 208 11 3 396 601 85697669 85697463 1.470000e-78 303.0
6 TraesCS6D01G104600 chr6A 86.667 210 25 2 1 210 355124156 355124362 2.530000e-56 230.0
7 TraesCS6D01G104600 chr3B 82.519 1310 147 44 963 2251 63392206 63393454 0.000000e+00 1075.0
8 TraesCS6D01G104600 chr3A 88.583 508 46 6 980 1485 51404825 51404328 9.990000e-170 606.0
9 TraesCS6D01G104600 chr3A 82.853 624 86 6 1665 2279 51404199 51403588 1.030000e-149 540.0
10 TraesCS6D01G104600 chr3D 87.259 518 52 8 963 1475 39596653 39597161 2.180000e-161 579.0
11 TraesCS6D01G104600 chr5A 88.406 207 24 0 4 210 703144963 703144757 1.940000e-62 250.0
12 TraesCS6D01G104600 chr5A 86.667 210 27 1 1 210 703009539 703009747 7.030000e-57 231.0
13 TraesCS6D01G104600 chr5A 85.377 212 28 3 1 210 106955489 106955279 1.970000e-52 217.0
14 TraesCS6D01G104600 chr5A 78.462 130 21 7 398 523 324500581 324500707 9.690000e-11 78.7
15 TraesCS6D01G104600 chr2D 87.981 208 25 0 1 208 197488371 197488578 2.510000e-61 246.0
16 TraesCS6D01G104600 chr7D 87.560 209 26 0 2 210 262208586 262208378 3.250000e-60 243.0
17 TraesCS6D01G104600 chr5B 85.990 207 23 4 3 208 136666730 136666529 1.970000e-52 217.0
18 TraesCS6D01G104600 chrUn 81.944 144 20 6 376 515 476184742 476184883 2.050000e-22 117.0
19 TraesCS6D01G104600 chrUn 98.246 57 0 1 2951 3007 17053311 17053366 7.440000e-17 99.0
20 TraesCS6D01G104600 chrUn 100.000 49 0 0 2951 2999 346183970 346184018 1.240000e-14 91.6
21 TraesCS6D01G104600 chr2A 81.944 144 20 6 376 515 398445216 398445075 2.050000e-22 117.0
22 TraesCS6D01G104600 chr2A 81.944 144 20 6 376 515 398870767 398870908 2.050000e-22 117.0
23 TraesCS6D01G104600 chr2A 98.039 51 0 1 2953 3003 654910277 654910326 1.610000e-13 87.9
24 TraesCS6D01G104600 chr2A 81.250 96 14 3 409 501 622265633 622265539 1.250000e-09 75.0
25 TraesCS6D01G104600 chr2B 78.344 157 27 7 368 520 779172122 779171969 9.620000e-16 95.3
26 TraesCS6D01G104600 chr4B 94.828 58 2 1 2950 3007 673246034 673245978 4.480000e-14 89.8
27 TraesCS6D01G104600 chr4B 89.552 67 5 2 2958 3023 372825412 372825477 2.080000e-12 84.2
28 TraesCS6D01G104600 chr1B 91.935 62 2 3 2953 3011 510225560 510225621 2.080000e-12 84.2


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 TraesCS6D01G104600 chr6D 68102473 68105729 3256 True 6015 6015 100.000 1 3257 1 chr6D.!!$R1 3256
1 TraesCS6D01G104600 chr6B 143203343 143206521 3178 True 5156 5156 95.990 84 3257 1 chr6B.!!$R1 3173
2 TraesCS6D01G104600 chr6A 85590022 85592901 2879 True 4715 4715 96.328 396 3257 1 chr6A.!!$R1 2861
3 TraesCS6D01G104600 chr3B 63392206 63393454 1248 False 1075 1075 82.519 963 2251 1 chr3B.!!$F1 1288
4 TraesCS6D01G104600 chr3A 51403588 51404825 1237 True 573 606 85.718 980 2279 2 chr3A.!!$R1 1299
5 TraesCS6D01G104600 chr3D 39596653 39597161 508 False 579 579 87.259 963 1475 1 chr3D.!!$F1 512

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
30 31 0.036388 GTCATTTGGAGCCGTGGAGA 60.036 55.000 0.0 0.0 0.00 3.71 F
702 715 0.666577 ACCAGCTTTGCGTACTCGTC 60.667 55.000 0.0 0.0 39.49 4.20 F
838 851 2.107204 CAGTCCAATCCCCAATCCCTAG 59.893 54.545 0.0 0.0 0.00 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1568 1606 3.991367 TCATCAGCACTAGCATCATCAG 58.009 45.455 0.0 0.0 45.49 2.90 R
2082 2135 1.075482 CACCAGCCCACCAATCTGT 59.925 57.895 0.0 0.0 0.00 3.41 R
2592 2650 7.655328 GTCCAGAATGTCTCAGATTACCAATAG 59.345 40.741 0.0 0.0 0.00 1.73 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
24 25 4.718940 ATTTTTAGGTCATTTGGAGCCG 57.281 40.909 0.00 0.00 45.21 5.52
25 26 2.871096 TTTAGGTCATTTGGAGCCGT 57.129 45.000 0.00 0.00 45.21 5.68
26 27 2.107950 TTAGGTCATTTGGAGCCGTG 57.892 50.000 0.00 0.00 45.21 4.94
27 28 0.251916 TAGGTCATTTGGAGCCGTGG 59.748 55.000 0.00 0.00 45.21 4.94
28 29 1.002624 GGTCATTTGGAGCCGTGGA 60.003 57.895 0.00 0.00 38.08 4.02
29 30 1.026718 GGTCATTTGGAGCCGTGGAG 61.027 60.000 0.00 0.00 38.08 3.86
30 31 0.036388 GTCATTTGGAGCCGTGGAGA 60.036 55.000 0.00 0.00 0.00 3.71
31 32 0.690192 TCATTTGGAGCCGTGGAGAA 59.310 50.000 0.00 0.00 0.00 2.87
32 33 1.281867 TCATTTGGAGCCGTGGAGAAT 59.718 47.619 0.00 0.00 0.00 2.40
33 34 2.503765 TCATTTGGAGCCGTGGAGAATA 59.496 45.455 0.00 0.00 0.00 1.75
34 35 3.136443 TCATTTGGAGCCGTGGAGAATAT 59.864 43.478 0.00 0.00 0.00 1.28
35 36 2.910688 TTGGAGCCGTGGAGAATATC 57.089 50.000 0.00 0.00 0.00 1.63
36 37 2.088104 TGGAGCCGTGGAGAATATCT 57.912 50.000 0.00 0.00 0.00 1.98
37 38 3.238788 TGGAGCCGTGGAGAATATCTA 57.761 47.619 0.00 0.00 0.00 1.98
38 39 3.779444 TGGAGCCGTGGAGAATATCTAT 58.221 45.455 0.00 0.00 0.00 1.98
39 40 3.764434 TGGAGCCGTGGAGAATATCTATC 59.236 47.826 0.00 0.00 0.00 2.08
40 41 4.020543 GGAGCCGTGGAGAATATCTATCT 58.979 47.826 0.00 0.00 0.00 1.98
41 42 4.097286 GGAGCCGTGGAGAATATCTATCTC 59.903 50.000 0.00 0.00 42.09 2.75
42 43 4.929479 AGCCGTGGAGAATATCTATCTCT 58.071 43.478 3.81 0.00 42.38 3.10
43 44 4.704540 AGCCGTGGAGAATATCTATCTCTG 59.295 45.833 3.81 0.00 42.38 3.35
44 45 4.702612 GCCGTGGAGAATATCTATCTCTGA 59.297 45.833 3.81 0.00 42.38 3.27
45 46 5.359576 GCCGTGGAGAATATCTATCTCTGAT 59.640 44.000 3.81 0.00 42.38 2.90
46 47 6.680131 GCCGTGGAGAATATCTATCTCTGATG 60.680 46.154 3.81 0.00 42.38 3.07
47 48 6.376864 CCGTGGAGAATATCTATCTCTGATGT 59.623 42.308 3.81 0.00 42.38 3.06
48 49 7.554476 CCGTGGAGAATATCTATCTCTGATGTA 59.446 40.741 3.81 0.00 42.38 2.29
49 50 8.611757 CGTGGAGAATATCTATCTCTGATGTAG 58.388 40.741 3.81 0.00 42.38 2.74
50 51 8.405531 GTGGAGAATATCTATCTCTGATGTAGC 58.594 40.741 3.81 0.00 42.38 3.58
51 52 8.335484 TGGAGAATATCTATCTCTGATGTAGCT 58.665 37.037 0.00 0.00 42.38 3.32
52 53 9.189156 GGAGAATATCTATCTCTGATGTAGCTT 57.811 37.037 0.00 0.00 42.38 3.74
59 60 8.072321 TCTATCTCTGATGTAGCTTTTTCAGT 57.928 34.615 15.11 4.05 37.46 3.41
60 61 8.535335 TCTATCTCTGATGTAGCTTTTTCAGTT 58.465 33.333 15.11 7.75 37.46 3.16
61 62 7.608308 ATCTCTGATGTAGCTTTTTCAGTTC 57.392 36.000 15.11 0.00 37.46 3.01
62 63 5.934625 TCTCTGATGTAGCTTTTTCAGTTCC 59.065 40.000 15.11 0.00 37.46 3.62
63 64 5.620206 TCTGATGTAGCTTTTTCAGTTCCA 58.380 37.500 15.11 0.00 37.46 3.53
64 65 5.702670 TCTGATGTAGCTTTTTCAGTTCCAG 59.297 40.000 15.11 0.00 37.46 3.86
65 66 5.620206 TGATGTAGCTTTTTCAGTTCCAGA 58.380 37.500 0.00 0.00 0.00 3.86
66 67 6.061441 TGATGTAGCTTTTTCAGTTCCAGAA 58.939 36.000 0.00 0.00 0.00 3.02
67 68 6.716628 TGATGTAGCTTTTTCAGTTCCAGAAT 59.283 34.615 0.00 0.00 0.00 2.40
68 69 6.959639 TGTAGCTTTTTCAGTTCCAGAATT 57.040 33.333 0.00 0.00 0.00 2.17
69 70 6.970484 TGTAGCTTTTTCAGTTCCAGAATTC 58.030 36.000 0.00 0.00 0.00 2.17
70 71 6.772716 TGTAGCTTTTTCAGTTCCAGAATTCT 59.227 34.615 0.88 0.88 0.00 2.40
71 72 6.721704 AGCTTTTTCAGTTCCAGAATTCTT 57.278 33.333 4.86 0.00 0.00 2.52
72 73 6.510536 AGCTTTTTCAGTTCCAGAATTCTTG 58.489 36.000 4.86 2.18 0.00 3.02
73 74 6.097412 AGCTTTTTCAGTTCCAGAATTCTTGT 59.903 34.615 4.86 0.00 0.00 3.16
74 75 6.758416 GCTTTTTCAGTTCCAGAATTCTTGTT 59.242 34.615 4.86 0.00 0.00 2.83
75 76 7.254218 GCTTTTTCAGTTCCAGAATTCTTGTTG 60.254 37.037 4.86 4.09 0.00 3.33
76 77 4.836125 TCAGTTCCAGAATTCTTGTTGC 57.164 40.909 4.86 0.00 0.00 4.17
77 78 3.569701 TCAGTTCCAGAATTCTTGTTGCC 59.430 43.478 4.86 0.00 0.00 4.52
78 79 2.554032 AGTTCCAGAATTCTTGTTGCCG 59.446 45.455 4.86 0.00 0.00 5.69
79 80 1.533625 TCCAGAATTCTTGTTGCCGG 58.466 50.000 4.86 0.00 0.00 6.13
80 81 1.202879 TCCAGAATTCTTGTTGCCGGT 60.203 47.619 4.86 0.00 0.00 5.28
81 82 2.039216 TCCAGAATTCTTGTTGCCGGTA 59.961 45.455 4.86 0.00 0.00 4.02
82 83 2.817258 CCAGAATTCTTGTTGCCGGTAA 59.183 45.455 4.86 0.00 0.00 2.85
94 95 1.343075 TGCCGGTAATCTCCCTCTTCT 60.343 52.381 1.90 0.00 0.00 2.85
183 184 8.770828 CCCAGAACATAATAAATAACAGTACGG 58.229 37.037 0.00 0.00 0.00 4.02
211 212 8.786937 ACATAATGCAAAATTGACGTATCATC 57.213 30.769 0.00 0.00 33.85 2.92
214 215 5.895636 TGCAAAATTGACGTATCATCCTT 57.104 34.783 0.00 0.00 33.85 3.36
216 217 5.163663 TGCAAAATTGACGTATCATCCTTCC 60.164 40.000 0.00 0.00 33.85 3.46
325 326 5.651530 GACCAACGATCTGACTTTCTCATA 58.348 41.667 0.00 0.00 0.00 2.15
338 339 4.282195 ACTTTCTCATATCCGGATCCTCAC 59.718 45.833 23.08 0.00 0.00 3.51
366 367 6.340522 GTGGCATATTGCTTGAAATTTAGGT 58.659 36.000 0.00 0.00 44.28 3.08
368 369 6.154192 TGGCATATTGCTTGAAATTTAGGTCA 59.846 34.615 0.00 0.00 44.28 4.02
420 422 2.669569 CAACAGCGACACCCAGGG 60.670 66.667 2.85 2.85 0.00 4.45
583 586 2.589442 TTGGCGGCGTTCTCGTTT 60.589 55.556 9.37 0.00 39.49 3.60
697 710 3.824414 AAATACACCAGCTTTGCGTAC 57.176 42.857 0.00 0.00 0.00 3.67
702 715 0.666577 ACCAGCTTTGCGTACTCGTC 60.667 55.000 0.00 0.00 39.49 4.20
838 851 2.107204 CAGTCCAATCCCCAATCCCTAG 59.893 54.545 0.00 0.00 0.00 3.02
955 968 4.344865 TCCCAGCCCCTCGCAAAC 62.345 66.667 0.00 0.00 41.38 2.93
1407 1436 3.319198 GAGGACACGCCCAAGGGA 61.319 66.667 9.92 0.00 37.37 4.20
2082 2135 0.178921 AGCTTGAGACTGTCCTCCCA 60.179 55.000 3.76 0.00 32.32 4.37
2367 2423 2.300956 AGCTCTGTCTGTCTTCCTGA 57.699 50.000 0.00 0.00 0.00 3.86
2762 2820 5.794894 TGACTTCTACCTTAAGAAAGCTGG 58.205 41.667 3.36 0.00 35.14 4.85
3038 3098 3.141398 TCAATGGCAGTGAGACACTTTC 58.859 45.455 14.40 0.00 42.59 2.62
3220 3284 5.939883 ACTGCTGTATGTGCTTTTTATCTGA 59.060 36.000 0.00 0.00 0.00 3.27
3221 3285 6.600822 ACTGCTGTATGTGCTTTTTATCTGAT 59.399 34.615 0.00 0.00 0.00 2.90
3222 3286 7.770433 ACTGCTGTATGTGCTTTTTATCTGATA 59.230 33.333 0.00 0.00 0.00 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.209788 ACGGCTCCAAATGACCTAAAAATTTA 59.790 34.615 0.00 0.00 0.00 1.40
1 2 5.011635 ACGGCTCCAAATGACCTAAAAATTT 59.988 36.000 0.00 0.00 0.00 1.82
2 3 4.526650 ACGGCTCCAAATGACCTAAAAATT 59.473 37.500 0.00 0.00 0.00 1.82
3 4 4.082245 CACGGCTCCAAATGACCTAAAAAT 60.082 41.667 0.00 0.00 0.00 1.82
4 5 3.254657 CACGGCTCCAAATGACCTAAAAA 59.745 43.478 0.00 0.00 0.00 1.94
5 6 2.817258 CACGGCTCCAAATGACCTAAAA 59.183 45.455 0.00 0.00 0.00 1.52
6 7 2.432444 CACGGCTCCAAATGACCTAAA 58.568 47.619 0.00 0.00 0.00 1.85
7 8 1.339631 CCACGGCTCCAAATGACCTAA 60.340 52.381 0.00 0.00 0.00 2.69
8 9 0.251916 CCACGGCTCCAAATGACCTA 59.748 55.000 0.00 0.00 0.00 3.08
9 10 1.002134 CCACGGCTCCAAATGACCT 60.002 57.895 0.00 0.00 0.00 3.85
10 11 1.002624 TCCACGGCTCCAAATGACC 60.003 57.895 0.00 0.00 0.00 4.02
11 12 0.036388 TCTCCACGGCTCCAAATGAC 60.036 55.000 0.00 0.00 0.00 3.06
12 13 0.690192 TTCTCCACGGCTCCAAATGA 59.310 50.000 0.00 0.00 0.00 2.57
13 14 1.755179 ATTCTCCACGGCTCCAAATG 58.245 50.000 0.00 0.00 0.00 2.32
14 15 3.392616 AGATATTCTCCACGGCTCCAAAT 59.607 43.478 0.00 0.00 0.00 2.32
15 16 2.771943 AGATATTCTCCACGGCTCCAAA 59.228 45.455 0.00 0.00 0.00 3.28
16 17 2.398588 AGATATTCTCCACGGCTCCAA 58.601 47.619 0.00 0.00 0.00 3.53
17 18 2.088104 AGATATTCTCCACGGCTCCA 57.912 50.000 0.00 0.00 0.00 3.86
18 19 4.020543 AGATAGATATTCTCCACGGCTCC 58.979 47.826 0.00 0.00 0.00 4.70
19 20 4.947388 AGAGATAGATATTCTCCACGGCTC 59.053 45.833 0.19 0.00 0.00 4.70
20 21 4.704540 CAGAGATAGATATTCTCCACGGCT 59.295 45.833 0.19 0.00 0.00 5.52
21 22 4.702612 TCAGAGATAGATATTCTCCACGGC 59.297 45.833 0.19 0.00 0.00 5.68
22 23 6.376864 ACATCAGAGATAGATATTCTCCACGG 59.623 42.308 0.19 0.00 0.00 4.94
23 24 7.389803 ACATCAGAGATAGATATTCTCCACG 57.610 40.000 0.19 0.00 0.00 4.94
24 25 8.405531 GCTACATCAGAGATAGATATTCTCCAC 58.594 40.741 0.19 0.00 0.00 4.02
25 26 8.335484 AGCTACATCAGAGATAGATATTCTCCA 58.665 37.037 0.00 0.00 0.00 3.86
26 27 8.752005 AGCTACATCAGAGATAGATATTCTCC 57.248 38.462 0.00 0.00 0.00 3.71
33 34 8.703743 ACTGAAAAAGCTACATCAGAGATAGAT 58.296 33.333 22.27 3.01 41.38 1.98
34 35 8.072321 ACTGAAAAAGCTACATCAGAGATAGA 57.928 34.615 22.27 0.00 41.38 1.98
35 36 8.715191 AACTGAAAAAGCTACATCAGAGATAG 57.285 34.615 22.27 3.72 41.38 2.08
36 37 7.766278 GGAACTGAAAAAGCTACATCAGAGATA 59.234 37.037 22.27 0.00 41.38 1.98
37 38 6.597280 GGAACTGAAAAAGCTACATCAGAGAT 59.403 38.462 22.27 11.90 41.38 2.75
38 39 5.934625 GGAACTGAAAAAGCTACATCAGAGA 59.065 40.000 22.27 0.00 41.38 3.10
39 40 5.702670 TGGAACTGAAAAAGCTACATCAGAG 59.297 40.000 22.27 5.37 41.38 3.35
40 41 5.620206 TGGAACTGAAAAAGCTACATCAGA 58.380 37.500 22.27 4.39 41.38 3.27
41 42 5.702670 TCTGGAACTGAAAAAGCTACATCAG 59.297 40.000 16.67 16.67 43.79 2.90
42 43 5.620206 TCTGGAACTGAAAAAGCTACATCA 58.380 37.500 0.00 0.00 32.07 3.07
43 44 6.560253 TTCTGGAACTGAAAAAGCTACATC 57.440 37.500 0.00 0.00 43.10 3.06
55 56 3.569701 GGCAACAAGAATTCTGGAACTGA 59.430 43.478 17.08 0.00 33.53 3.41
56 57 3.610114 CGGCAACAAGAATTCTGGAACTG 60.610 47.826 17.08 9.50 0.00 3.16
57 58 2.554032 CGGCAACAAGAATTCTGGAACT 59.446 45.455 17.08 0.00 0.00 3.01
58 59 2.351738 CCGGCAACAAGAATTCTGGAAC 60.352 50.000 17.08 5.09 0.00 3.62
59 60 1.885887 CCGGCAACAAGAATTCTGGAA 59.114 47.619 17.08 0.00 0.00 3.53
60 61 1.202879 ACCGGCAACAAGAATTCTGGA 60.203 47.619 17.08 0.00 0.00 3.86
61 62 1.247567 ACCGGCAACAAGAATTCTGG 58.752 50.000 9.17 8.76 0.00 3.86
62 63 4.396166 AGATTACCGGCAACAAGAATTCTG 59.604 41.667 9.17 6.08 0.00 3.02
63 64 4.589908 AGATTACCGGCAACAAGAATTCT 58.410 39.130 0.00 0.88 0.00 2.40
64 65 4.201920 GGAGATTACCGGCAACAAGAATTC 60.202 45.833 0.00 0.00 0.00 2.17
65 66 3.694566 GGAGATTACCGGCAACAAGAATT 59.305 43.478 0.00 0.00 0.00 2.17
66 67 3.279434 GGAGATTACCGGCAACAAGAAT 58.721 45.455 0.00 0.00 0.00 2.40
67 68 2.617021 GGGAGATTACCGGCAACAAGAA 60.617 50.000 0.00 0.00 0.00 2.52
68 69 1.065709 GGGAGATTACCGGCAACAAGA 60.066 52.381 0.00 0.00 0.00 3.02
69 70 1.065418 AGGGAGATTACCGGCAACAAG 60.065 52.381 0.00 0.00 0.00 3.16
70 71 0.988832 AGGGAGATTACCGGCAACAA 59.011 50.000 0.00 0.00 0.00 2.83
71 72 0.539986 GAGGGAGATTACCGGCAACA 59.460 55.000 0.00 0.00 0.00 3.33
72 73 0.831307 AGAGGGAGATTACCGGCAAC 59.169 55.000 0.00 0.00 0.00 4.17
73 74 1.485066 GAAGAGGGAGATTACCGGCAA 59.515 52.381 0.00 0.00 0.00 4.52
74 75 1.120530 GAAGAGGGAGATTACCGGCA 58.879 55.000 0.00 0.00 0.00 5.69
75 76 1.415200 AGAAGAGGGAGATTACCGGC 58.585 55.000 0.00 0.00 0.00 6.13
76 77 2.766828 ACAAGAAGAGGGAGATTACCGG 59.233 50.000 0.00 0.00 0.00 5.28
77 78 3.447586 TCACAAGAAGAGGGAGATTACCG 59.552 47.826 0.00 0.00 0.00 4.02
78 79 5.422214 TTCACAAGAAGAGGGAGATTACC 57.578 43.478 0.00 0.00 0.00 2.85
79 80 6.468543 AGTTTCACAAGAAGAGGGAGATTAC 58.531 40.000 0.00 0.00 34.71 1.89
80 81 6.688073 AGTTTCACAAGAAGAGGGAGATTA 57.312 37.500 0.00 0.00 34.71 1.75
81 82 5.574970 AGTTTCACAAGAAGAGGGAGATT 57.425 39.130 0.00 0.00 34.71 2.40
82 83 5.312079 CAAGTTTCACAAGAAGAGGGAGAT 58.688 41.667 0.00 0.00 34.71 2.75
178 179 7.460896 CGTCAATTTTGCATTATGTTTCCGTAC 60.461 37.037 0.00 0.00 0.00 3.67
183 184 9.071221 TGATACGTCAATTTTGCATTATGTTTC 57.929 29.630 0.00 0.00 0.00 2.78
211 212 5.224821 TGAGCTATGAATCTGATGGAAGG 57.775 43.478 0.00 0.00 0.00 3.46
214 215 3.007723 GCCTGAGCTATGAATCTGATGGA 59.992 47.826 0.00 0.00 35.50 3.41
216 217 4.004196 TGCCTGAGCTATGAATCTGATG 57.996 45.455 0.00 0.00 40.80 3.07
271 272 1.270358 CCCAATAAGGAGAGCTACGCC 60.270 57.143 0.00 0.00 41.22 5.68
286 287 1.700739 TGGTCGAAACTACCACCCAAT 59.299 47.619 0.00 0.00 42.10 3.16
287 288 1.129917 TGGTCGAAACTACCACCCAA 58.870 50.000 0.00 0.00 42.10 4.12
311 312 4.524714 GGATCCGGATATGAGAAAGTCAGA 59.475 45.833 19.15 0.00 39.07 3.27
325 326 0.833287 CACCAAGTGAGGATCCGGAT 59.167 55.000 19.21 19.21 35.23 4.18
338 339 3.872511 TTCAAGCAATATGCCACCAAG 57.127 42.857 0.00 0.00 46.52 3.61
516 519 5.716228 AGAAAATGATATTGTGGCCTTGTCA 59.284 36.000 3.32 0.84 0.00 3.58
522 525 8.770438 TGTAAAAAGAAAATGATATTGTGGCC 57.230 30.769 0.00 0.00 0.00 5.36
608 620 3.062042 ACGATCCGTAAGAAACAACCAC 58.938 45.455 0.00 0.00 38.73 4.16
609 621 3.389925 ACGATCCGTAAGAAACAACCA 57.610 42.857 0.00 0.00 38.73 3.67
685 698 1.136690 TTGACGAGTACGCAAAGCTG 58.863 50.000 0.00 0.00 43.96 4.24
687 700 2.656192 TTTTGACGAGTACGCAAAGC 57.344 45.000 0.00 0.00 41.81 3.51
709 722 4.501071 ACAACTCGGACATGTATACAACC 58.499 43.478 10.14 12.32 0.00 3.77
1568 1606 3.991367 TCATCAGCACTAGCATCATCAG 58.009 45.455 0.00 0.00 45.49 2.90
1729 1776 9.305925 CTTTGGCTTATCATCAAAAGGATTAAC 57.694 33.333 0.00 0.00 32.57 2.01
2082 2135 1.075482 CACCAGCCCACCAATCTGT 59.925 57.895 0.00 0.00 0.00 3.41
2592 2650 7.655328 GTCCAGAATGTCTCAGATTACCAATAG 59.345 40.741 0.00 0.00 0.00 1.73
2781 2839 8.693542 AAACTATGCAGCAAACTTAATCAATC 57.306 30.769 0.00 0.00 0.00 2.67
2856 2914 6.379417 TGTGATTGGCATTTCCACATGTATAA 59.621 34.615 0.00 0.00 46.55 0.98
3038 3098 1.952367 GCTGGGAAGATGGACAAGGTG 60.952 57.143 0.00 0.00 0.00 4.00
3220 3284 7.230510 TGTGGCAAGTTTGAACTGAGTTATTAT 59.769 33.333 0.00 0.00 39.66 1.28
3221 3285 6.544197 TGTGGCAAGTTTGAACTGAGTTATTA 59.456 34.615 0.00 0.00 39.66 0.98
3222 3286 5.359576 TGTGGCAAGTTTGAACTGAGTTATT 59.640 36.000 0.00 0.00 39.66 1.40


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

AutoCloner maintained by Alex Coulton.