Multiple sequence alignment - TraesCS5D01G545100

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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 TraesCS5D01G545100 chr5D 100.000 7110 0 0 1 7110 554466487 554473596 0.000000e+00 13130.0
1 TraesCS5D01G545100 chr5D 88.400 500 53 5 3459 3955 554469048 554469545 1.320000e-166 597.0
2 TraesCS5D01G545100 chr5D 88.400 500 53 5 2562 3059 554469945 554470441 1.320000e-166 597.0
3 TraesCS5D01G545100 chr5D 96.667 60 1 1 68 127 554466497 554466555 1.630000e-16 99.0
4 TraesCS5D01G545100 chr5D 96.667 60 1 1 11 69 554466554 554466613 1.630000e-16 99.0
5 TraesCS5D01G545100 chr5D 75.676 148 26 7 587 734 47284005 47283868 1.660000e-06 65.8
6 TraesCS5D01G545100 chr5D 100.000 28 0 0 638 665 363303676 363303703 1.300000e-02 52.8
7 TraesCS5D01G545100 chr4A 93.067 4327 178 48 868 5139 614116733 614112474 0.000000e+00 6216.0
8 TraesCS5D01G545100 chr4A 98.154 596 10 1 5140 5734 614112318 614111723 0.000000e+00 1038.0
9 TraesCS5D01G545100 chr4A 96.026 453 10 1 5707 6151 614111717 614111265 0.000000e+00 730.0
10 TraesCS5D01G545100 chr4A 84.399 641 67 14 2569 3208 614114164 614113556 3.670000e-167 599.0
11 TraesCS5D01G545100 chr4A 83.937 635 84 12 3459 4079 614115041 614114411 6.140000e-165 592.0
12 TraesCS5D01G545100 chr4A 90.601 383 16 3 6558 6922 614110609 614110229 2.300000e-134 490.0
13 TraesCS5D01G545100 chr4A 85.888 411 25 14 6150 6551 614111238 614110852 2.390000e-109 407.0
14 TraesCS5D01G545100 chr4A 95.690 116 5 0 6922 7037 614110172 614110057 3.390000e-43 187.0
15 TraesCS5D01G545100 chr4A 88.679 53 2 1 669 717 32114874 32114926 2.140000e-05 62.1
16 TraesCS5D01G545100 chr5B 96.430 2801 65 19 2942 5716 696197097 696194306 0.000000e+00 4586.0
17 TraesCS5D01G545100 chr5B 91.044 1217 92 8 1398 2600 696198654 696197441 0.000000e+00 1628.0
18 TraesCS5D01G545100 chr5B 85.834 953 58 31 5703 6605 696194288 696193363 0.000000e+00 941.0
19 TraesCS5D01G545100 chr5B 91.256 629 29 14 831 1453 696199252 696198644 0.000000e+00 833.0
20 TraesCS5D01G545100 chr5B 87.776 499 58 3 2562 3059 696196586 696196090 1.330000e-161 580.0
21 TraesCS5D01G545100 chr5B 91.304 230 14 2 6795 7021 696193179 696192953 6.930000e-80 309.0
22 TraesCS5D01G545100 chr5B 96.460 113 4 0 131 243 696201549 696201437 3.390000e-43 187.0
23 TraesCS5D01G545100 chr5B 83.036 224 14 12 722 921 696201438 696201215 1.580000e-41 182.0
24 TraesCS5D01G545100 chr5B 82.394 142 21 4 232 370 332409321 332409461 3.480000e-23 121.0
25 TraesCS5D01G545100 chr5B 96.154 52 1 1 586 636 457341161 457341110 4.570000e-12 84.2
26 TraesCS5D01G545100 chr5B 92.727 55 4 0 587 641 557897573 557897519 5.910000e-11 80.5
27 TraesCS5D01G545100 chr5B 92.453 53 0 3 669 717 296833840 296833892 9.890000e-09 73.1
28 TraesCS5D01G545100 chr2B 90.500 600 37 10 947 1533 83316797 83316205 0.000000e+00 774.0
29 TraesCS5D01G545100 chr2B 90.333 600 38 10 947 1533 83360532 83359940 0.000000e+00 769.0
30 TraesCS5D01G545100 chr2B 82.480 371 38 10 241 594 415141798 415142158 4.170000e-77 300.0
31 TraesCS5D01G545100 chr2B 96.078 51 2 0 586 636 505803467 505803517 4.570000e-12 84.2
32 TraesCS5D01G545100 chr2B 94.340 53 3 0 589 641 656161211 656161263 1.640000e-11 82.4
33 TraesCS5D01G545100 chr2B 89.583 48 1 4 689 733 226521662 226521708 2.770000e-04 58.4
34 TraesCS5D01G545100 chr2B 84.211 57 7 2 689 745 92026380 92026326 4.000000e-03 54.7
35 TraesCS5D01G545100 chr6D 84.309 376 43 10 231 593 55943808 55943436 3.160000e-93 353.0
36 TraesCS5D01G545100 chr6D 83.422 374 37 10 244 593 450666492 450666864 2.470000e-84 324.0
37 TraesCS5D01G545100 chr6A 84.615 364 41 4 245 593 398185054 398184691 1.470000e-91 348.0
38 TraesCS5D01G545100 chr3D 84.595 370 36 15 240 593 573027198 573027562 1.470000e-91 348.0
39 TraesCS5D01G545100 chr7A 84.054 370 42 6 240 593 498321256 498321624 2.460000e-89 340.0
40 TraesCS5D01G545100 chr7A 89.189 111 11 1 240 349 671487475 671487585 3.460000e-28 137.0
41 TraesCS5D01G545100 chr7D 83.471 363 43 6 247 593 576343875 576343514 8.900000e-84 322.0
42 TraesCS5D01G545100 chr4D 82.586 379 47 10 231 593 11147610 11147235 4.140000e-82 316.0
43 TraesCS5D01G545100 chr1D 82.162 370 51 7 239 593 198439577 198439946 3.220000e-78 303.0
44 TraesCS5D01G545100 chr2A 84.158 303 33 4 300 587 576064980 576064678 5.430000e-71 279.0
45 TraesCS5D01G545100 chr2A 86.861 137 11 3 240 370 122146932 122147067 5.750000e-31 147.0
46 TraesCS5D01G545100 chr2A 90.741 54 0 2 669 717 93889049 93888996 4.600000e-07 67.6
47 TraesCS5D01G545100 chr2A 96.970 33 0 1 638 670 62368658 62368689 4.000000e-03 54.7
48 TraesCS5D01G545100 chr7B 86.250 240 27 4 359 593 642777757 642777995 9.150000e-64 255.0
49 TraesCS5D01G545100 chr7B 96.226 53 2 0 589 641 639040506 639040454 3.530000e-13 87.9
50 TraesCS5D01G545100 chr3A 85.124 242 22 4 3223 3462 556550968 556550739 1.190000e-57 235.0
51 TraesCS5D01G545100 chr3A 88.288 111 11 2 241 349 319962603 319962493 1.610000e-26 132.0
52 TraesCS5D01G545100 chr3B 84.426 244 28 7 3223 3461 561233931 561234169 1.540000e-56 231.0
53 TraesCS5D01G545100 chr3B 88.235 51 2 4 689 736 436305192 436305143 2.770000e-04 58.4
54 TraesCS5D01G545100 chrUn 87.302 126 11 5 225 349 278452351 278452230 9.620000e-29 139.0
55 TraesCS5D01G545100 chrUn 87.302 126 11 5 225 349 281850425 281850304 9.620000e-29 139.0
56 TraesCS5D01G545100 chr2D 90.476 105 9 1 246 349 219203666 219203562 3.460000e-28 137.0
57 TraesCS5D01G545100 chr2D 92.453 53 0 4 669 717 643870622 643870674 9.890000e-09 73.1
58 TraesCS5D01G545100 chr6B 94.444 54 2 1 584 636 234690707 234690654 1.640000e-11 82.4
59 TraesCS5D01G545100 chr6B 89.583 48 3 2 689 736 703667495 703667450 7.700000e-05 60.2
60 TraesCS5D01G545100 chr5A 91.525 59 5 0 583 641 206875797 206875739 1.640000e-11 82.4
61 TraesCS5D01G545100 chr5A 92.857 56 4 0 586 641 621833377 621833432 1.640000e-11 82.4
62 TraesCS5D01G545100 chr1A 91.379 58 3 2 577 634 305333507 305333452 2.130000e-10 78.7
63 TraesCS5D01G545100 chr4B 97.059 34 0 1 638 671 6032459 6032427 1.000000e-03 56.5
64 TraesCS5D01G545100 chr1B 100.000 28 0 0 637 664 52487556 52487529 1.300000e-02 52.8


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 TraesCS5D01G545100 chr5D 554466487 554473596 7109 False 13130.000 13130 100.00000 1 7110 1 chr5D.!!$F2 7109
1 TraesCS5D01G545100 chr5D 554466497 554470441 3944 False 348.000 597 92.53350 11 3955 4 chr5D.!!$F3 3944
2 TraesCS5D01G545100 chr4A 614110057 614116733 6676 True 1282.375 6216 90.97025 868 7037 8 chr4A.!!$R1 6169
3 TraesCS5D01G545100 chr5B 696192953 696201549 8596 True 1155.750 4586 90.39250 131 7021 8 chr5B.!!$R3 6890
4 TraesCS5D01G545100 chr2B 83316205 83316797 592 True 774.000 774 90.50000 947 1533 1 chr2B.!!$R1 586
5 TraesCS5D01G545100 chr2B 83359940 83360532 592 True 769.000 769 90.33300 947 1533 1 chr2B.!!$R2 586

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
4323 6542 8.69913 AGAAGATGACACACTATGATGTTCATA 58.301 33.333 0.0 0.0 38.26 2.15 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
6273 8750 0.261991 ATTCGACTAGGGAGGCCTGA 59.738 55.0 12.0 0.0 0.0 3.86 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
4323 6542 8.699130 AGAAGATGACACACTATGATGTTCATA 58.301 33.333 0.00 0.00 38.26 2.15
4756 6975 3.703052 GGGCAGTTCAGATCCATCAAATT 59.297 43.478 0.00 0.00 0.00 1.82
5131 7370 6.721318 ACCCAATGTGATCTGTAGTTATGTT 58.279 36.000 0.00 0.00 0.00 2.71
5162 7556 5.362430 TGTAAAAGCTTTCAAGAACCCATGT 59.638 36.000 13.10 0.00 0.00 3.21
5528 7922 9.606631 GGAATGGACAAGAGGATAATATCATAC 57.393 37.037 2.41 0.00 0.00 2.39
5643 8037 0.178973 ACAAACAGGGTAAGTGGGCC 60.179 55.000 0.00 0.00 0.00 5.80
5717 8150 7.067494 ACTGCATAAGATCCTTTGTATGTTTCC 59.933 37.037 0.00 0.00 0.00 3.13
5741 8182 3.081554 CAGTCCTGGGGTTCCCTG 58.918 66.667 7.87 4.32 45.70 4.45
5833 8278 1.135859 CGCTTGTTTGACATCAGGCTC 60.136 52.381 11.32 0.00 35.13 4.70
5857 8302 1.445582 GACGGAGGTTCACGCGATT 60.446 57.895 15.93 0.00 0.00 3.34
6139 8584 0.950836 CAACACGTGGATTCTTGGCA 59.049 50.000 21.57 0.00 0.00 4.92
6143 8588 0.108585 ACGTGGATTCTTGGCACAGT 59.891 50.000 0.00 0.00 42.39 3.55
6178 8652 3.372206 CGCATCAGGTTCTAGGAAGTTTG 59.628 47.826 0.00 0.00 0.00 2.93
6243 8720 1.812922 CCTCAGCGACATCTGCACC 60.813 63.158 0.00 0.00 34.19 5.01
6246 8723 0.035317 TCAGCGACATCTGCACCTTT 59.965 50.000 0.00 0.00 34.19 3.11
6248 8725 0.877071 AGCGACATCTGCACCTTTTG 59.123 50.000 0.00 0.00 33.85 2.44
6249 8726 0.874390 GCGACATCTGCACCTTTTGA 59.126 50.000 0.00 0.00 0.00 2.69
6250 8727 1.135859 GCGACATCTGCACCTTTTGAG 60.136 52.381 0.00 0.00 0.00 3.02
6251 8728 2.146342 CGACATCTGCACCTTTTGAGT 58.854 47.619 0.00 0.00 0.00 3.41
6252 8729 2.158449 CGACATCTGCACCTTTTGAGTC 59.842 50.000 0.00 0.00 0.00 3.36
6253 8730 3.141398 GACATCTGCACCTTTTGAGTCA 58.859 45.455 0.00 0.00 0.00 3.41
6254 8731 2.880890 ACATCTGCACCTTTTGAGTCAC 59.119 45.455 0.00 0.00 0.00 3.67
6255 8732 1.581934 TCTGCACCTTTTGAGTCACG 58.418 50.000 0.00 0.00 0.00 4.35
6256 8733 0.588252 CTGCACCTTTTGAGTCACGG 59.412 55.000 0.00 0.00 0.00 4.94
6257 8734 0.817634 TGCACCTTTTGAGTCACGGG 60.818 55.000 0.00 0.00 0.00 5.28
6258 8735 1.949257 CACCTTTTGAGTCACGGGC 59.051 57.895 0.00 0.00 0.00 6.13
6259 8736 0.817634 CACCTTTTGAGTCACGGGCA 60.818 55.000 0.00 0.00 0.00 5.36
6260 8737 0.535102 ACCTTTTGAGTCACGGGCAG 60.535 55.000 0.00 0.00 0.00 4.85
6261 8738 0.250295 CCTTTTGAGTCACGGGCAGA 60.250 55.000 0.00 0.00 0.00 4.26
6262 8739 1.151668 CTTTTGAGTCACGGGCAGAG 58.848 55.000 0.00 0.00 0.00 3.35
6263 8740 0.884704 TTTTGAGTCACGGGCAGAGC 60.885 55.000 0.00 0.00 0.00 4.09
6305 8787 3.369546 AGTCGAATGTTTTGCCCTTTG 57.630 42.857 0.00 0.00 0.00 2.77
6306 8788 1.792367 GTCGAATGTTTTGCCCTTTGC 59.208 47.619 0.00 0.00 41.77 3.68
6307 8789 1.686052 TCGAATGTTTTGCCCTTTGCT 59.314 42.857 0.00 0.00 42.00 3.91
6308 8790 1.794116 CGAATGTTTTGCCCTTTGCTG 59.206 47.619 0.00 0.00 42.00 4.41
6310 8792 0.250424 ATGTTTTGCCCTTTGCTGCC 60.250 50.000 0.00 0.00 42.00 4.85
6311 8793 1.597854 GTTTTGCCCTTTGCTGCCC 60.598 57.895 0.00 0.00 42.00 5.36
6360 8842 1.269936 ACGTCGAAAACTGTTCCGGAT 60.270 47.619 4.15 0.00 0.00 4.18
6361 8843 1.126113 CGTCGAAAACTGTTCCGGATG 59.874 52.381 4.15 0.93 0.00 3.51
6363 8845 1.071071 TCGAAAACTGTTCCGGATGGT 59.929 47.619 4.15 1.28 36.30 3.55
6423 8912 1.000955 AGTCTTGGCTCAGTTGGTACG 59.999 52.381 0.00 0.00 0.00 3.67
6424 8913 0.320374 TCTTGGCTCAGTTGGTACGG 59.680 55.000 0.00 0.00 0.00 4.02
6425 8914 0.034896 CTTGGCTCAGTTGGTACGGT 59.965 55.000 0.00 0.00 0.00 4.83
6426 8915 1.274167 CTTGGCTCAGTTGGTACGGTA 59.726 52.381 0.00 0.00 0.00 4.02
6427 8916 0.604578 TGGCTCAGTTGGTACGGTAC 59.395 55.000 9.82 9.82 0.00 3.34
6506 9001 0.248843 GAACCTCCACCTGCTCTCAG 59.751 60.000 0.00 0.00 40.02 3.35
6552 9048 4.388469 GTCTGAATCTCAAACTCTCAGTGC 59.612 45.833 0.00 0.00 35.93 4.40
6587 9321 1.227823 TGGAACTTGACAGGTGGCG 60.228 57.895 0.00 0.00 0.00 5.69
6588 9322 1.227853 GGAACTTGACAGGTGGCGT 60.228 57.895 0.00 0.00 0.00 5.68
6605 9370 5.088739 GTGGCGTATATTGCATAATTCAGC 58.911 41.667 0.00 0.00 0.00 4.26
6642 9407 0.478072 AAGATGTGCCAACCTGTCCA 59.522 50.000 0.00 0.00 0.00 4.02
6644 9409 0.250901 GATGTGCCAACCTGTCCACT 60.251 55.000 0.00 0.00 0.00 4.00
6825 9614 5.424757 TCGGATCCGTTAATTTGTGATTCT 58.575 37.500 32.15 0.00 40.74 2.40
6847 9636 2.478539 GCAGAAATTGCGGGAATGTCTC 60.479 50.000 11.54 4.56 44.09 3.36
7037 9886 1.133025 CTGGTTGGTTGGATTCGCATC 59.867 52.381 0.00 0.00 0.00 3.91
7044 9893 2.031163 GGATTCGCATCCTCCGGG 59.969 66.667 6.86 0.00 45.41 5.73
7045 9894 2.666526 GATTCGCATCCTCCGGGC 60.667 66.667 0.00 0.00 0.00 6.13
7055 9904 4.778143 CTCCGGGCGGGACCTTTG 62.778 72.222 10.08 0.00 40.94 2.77
7078 9927 2.497770 GCATTGCATGGCACCTCC 59.502 61.111 3.15 0.00 38.71 4.30
7079 9928 3.085119 GCATTGCATGGCACCTCCC 62.085 63.158 3.15 0.00 38.71 4.30
7080 9929 2.042639 ATTGCATGGCACCTCCCC 60.043 61.111 0.00 0.00 38.71 4.81
7081 9930 2.629498 ATTGCATGGCACCTCCCCT 61.629 57.895 0.00 0.00 38.71 4.79
7082 9931 2.578586 ATTGCATGGCACCTCCCCTC 62.579 60.000 0.00 0.00 38.71 4.30
7083 9932 4.512914 GCATGGCACCTCCCCTCC 62.513 72.222 0.00 0.00 0.00 4.30
7084 9933 2.693864 CATGGCACCTCCCCTCCT 60.694 66.667 0.00 0.00 0.00 3.69
7085 9934 2.367512 ATGGCACCTCCCCTCCTC 60.368 66.667 0.00 0.00 0.00 3.71
7086 9935 4.741239 TGGCACCTCCCCTCCTCC 62.741 72.222 0.00 0.00 0.00 4.30
7087 9936 4.423209 GGCACCTCCCCTCCTCCT 62.423 72.222 0.00 0.00 0.00 3.69
7088 9937 3.086600 GCACCTCCCCTCCTCCTG 61.087 72.222 0.00 0.00 0.00 3.86
7089 9938 3.086600 CACCTCCCCTCCTCCTGC 61.087 72.222 0.00 0.00 0.00 4.85
7090 9939 3.288381 ACCTCCCCTCCTCCTGCT 61.288 66.667 0.00 0.00 0.00 4.24
7091 9940 2.767496 CCTCCCCTCCTCCTGCTG 60.767 72.222 0.00 0.00 0.00 4.41
7092 9941 2.040278 CTCCCCTCCTCCTGCTGT 59.960 66.667 0.00 0.00 0.00 4.40
7093 9942 2.284921 TCCCCTCCTCCTGCTGTG 60.285 66.667 0.00 0.00 0.00 3.66
7094 9943 3.406200 CCCCTCCTCCTGCTGTGG 61.406 72.222 0.00 0.00 0.00 4.17
7095 9944 2.608988 CCCTCCTCCTGCTGTGGT 60.609 66.667 0.00 0.00 0.00 4.16
7096 9945 2.667418 CCTCCTCCTGCTGTGGTG 59.333 66.667 0.00 0.00 0.00 4.17
7097 9946 2.219875 CCTCCTCCTGCTGTGGTGT 61.220 63.158 0.00 0.00 0.00 4.16
7098 9947 1.004080 CTCCTCCTGCTGTGGTGTG 60.004 63.158 0.00 0.00 0.00 3.82
7099 9948 2.033141 CCTCCTGCTGTGGTGTGG 59.967 66.667 0.00 0.00 0.00 4.17
7100 9949 2.033141 CTCCTGCTGTGGTGTGGG 59.967 66.667 0.00 0.00 0.00 4.61
7101 9950 2.772191 TCCTGCTGTGGTGTGGGT 60.772 61.111 0.00 0.00 0.00 4.51
7102 9951 2.281761 CCTGCTGTGGTGTGGGTC 60.282 66.667 0.00 0.00 0.00 4.46
7103 9952 2.822637 CCTGCTGTGGTGTGGGTCT 61.823 63.158 0.00 0.00 0.00 3.85
7104 9953 1.149174 CTGCTGTGGTGTGGGTCTT 59.851 57.895 0.00 0.00 0.00 3.01
7105 9954 1.152984 TGCTGTGGTGTGGGTCTTG 60.153 57.895 0.00 0.00 0.00 3.02
7106 9955 2.555547 GCTGTGGTGTGGGTCTTGC 61.556 63.158 0.00 0.00 0.00 4.01
7107 9956 1.898574 CTGTGGTGTGGGTCTTGCC 60.899 63.158 0.00 0.00 0.00 4.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 8.995027 TGCCTACAAGAAATGACCATATATTT 57.005 30.769 0.00 0.00 0.00 1.40
4 5 9.017509 CATGCCTACAAGAAATGACCATATATT 57.982 33.333 0.00 0.00 0.00 1.28
5 6 8.385491 TCATGCCTACAAGAAATGACCATATAT 58.615 33.333 0.00 0.00 0.00 0.86
6 7 7.744733 TCATGCCTACAAGAAATGACCATATA 58.255 34.615 0.00 0.00 0.00 0.86
7 8 6.604171 TCATGCCTACAAGAAATGACCATAT 58.396 36.000 0.00 0.00 0.00 1.78
8 9 6.000246 TCATGCCTACAAGAAATGACCATA 58.000 37.500 0.00 0.00 0.00 2.74
9 10 4.858850 TCATGCCTACAAGAAATGACCAT 58.141 39.130 0.00 0.00 0.00 3.55
4323 6542 4.634199 CTTCCCATGCAATGTTTCAAGTT 58.366 39.130 0.00 0.00 44.81 2.66
4756 6975 8.506437 CATGTGAGTGTTTCTAGCTAAAATGAA 58.494 33.333 0.00 0.00 0.00 2.57
5131 7370 8.780249 GGTTCTTGAAAGCTTTTACAGTACATA 58.220 33.333 14.05 0.00 0.00 2.29
5162 7556 1.968704 TTGCGTGGTACAAATGACCA 58.031 45.000 0.00 0.00 44.16 4.02
5401 7795 2.972625 TGTGGTTCCATGAATCGTCTC 58.027 47.619 0.00 0.00 0.00 3.36
5528 7922 1.649664 CCCTTTCAGCTGAGACATCG 58.350 55.000 17.43 0.25 0.00 3.84
5643 8037 7.284034 ACCCAATAATCAGAAGCAACATTAGAG 59.716 37.037 0.00 0.00 0.00 2.43
5717 8150 0.542702 AACCCCAGGACTGCAAATGG 60.543 55.000 0.00 0.00 0.00 3.16
5741 8182 1.412343 ACCAACATCCAAAAGGCACAC 59.588 47.619 0.00 0.00 0.00 3.82
5833 8278 1.374758 GTGAACCTCCGTCTGCCTG 60.375 63.158 0.00 0.00 0.00 4.85
5857 8302 0.749818 TGCTCGTTTGCTTCCAACCA 60.750 50.000 0.00 0.00 0.00 3.67
6139 8584 1.667830 CGCCGTGTTGATCCACTGT 60.668 57.895 0.00 0.00 33.07 3.55
6143 8588 2.046411 ATGCGCCGTGTTGATCCA 60.046 55.556 4.18 0.00 0.00 3.41
6178 8652 1.754226 ACCCCATGTGTGTGAACAAAC 59.246 47.619 0.00 0.00 34.69 2.93
6232 8709 3.058639 GTGACTCAAAAGGTGCAGATGTC 60.059 47.826 0.00 0.00 0.00 3.06
6243 8720 1.151668 CTCTGCCCGTGACTCAAAAG 58.848 55.000 0.00 0.00 0.00 2.27
6246 8723 2.343758 GCTCTGCCCGTGACTCAA 59.656 61.111 0.00 0.00 0.00 3.02
6248 8725 3.069980 ATCGCTCTGCCCGTGACTC 62.070 63.158 0.00 0.00 0.00 3.36
6249 8726 3.071206 ATCGCTCTGCCCGTGACT 61.071 61.111 0.00 0.00 0.00 3.41
6250 8727 2.887568 CATCGCTCTGCCCGTGAC 60.888 66.667 0.00 0.00 0.00 3.67
6251 8728 4.819761 GCATCGCTCTGCCCGTGA 62.820 66.667 0.00 0.00 36.10 4.35
6255 8732 4.521062 AGACGCATCGCTCTGCCC 62.521 66.667 2.24 0.00 39.00 5.36
6256 8733 2.510238 AAGACGCATCGCTCTGCC 60.510 61.111 2.24 0.00 39.00 4.85
6257 8734 1.750572 CTGAAGACGCATCGCTCTGC 61.751 60.000 0.00 0.00 38.81 4.26
6258 8735 1.144565 CCTGAAGACGCATCGCTCTG 61.145 60.000 0.00 0.00 0.00 3.35
6259 8736 1.140589 CCTGAAGACGCATCGCTCT 59.859 57.895 0.00 0.00 0.00 4.09
6260 8737 2.520904 GCCTGAAGACGCATCGCTC 61.521 63.158 0.00 0.00 0.00 5.03
6261 8738 2.510238 GCCTGAAGACGCATCGCT 60.510 61.111 0.00 0.00 0.00 4.93
6262 8739 3.567797 GGCCTGAAGACGCATCGC 61.568 66.667 0.00 0.00 0.00 4.58
6263 8740 1.880340 GAGGCCTGAAGACGCATCG 60.880 63.158 12.00 0.00 0.00 3.84
6269 8746 1.116308 GACTAGGGAGGCCTGAAGAC 58.884 60.000 12.00 0.00 0.00 3.01
6273 8750 0.261991 ATTCGACTAGGGAGGCCTGA 59.738 55.000 12.00 0.00 0.00 3.86
6305 8787 1.448013 GTACTTCTCCACGGGCAGC 60.448 63.158 0.00 0.00 0.00 5.25
6306 8788 0.389948 GTGTACTTCTCCACGGGCAG 60.390 60.000 0.00 0.00 0.00 4.85
6307 8789 1.669440 GTGTACTTCTCCACGGGCA 59.331 57.895 0.00 0.00 0.00 5.36
6308 8790 4.592426 GTGTACTTCTCCACGGGC 57.408 61.111 0.00 0.00 0.00 6.13
6360 8842 3.222173 TGCTAAGCAGAGGAAAAACCA 57.778 42.857 0.00 0.00 36.05 3.67
6361 8843 4.790765 AATGCTAAGCAGAGGAAAAACC 57.209 40.909 0.00 0.00 43.65 3.27
6388 8874 3.243068 CCAAGACTTACAGTGCCAACAAC 60.243 47.826 0.00 0.00 0.00 3.32
6398 8884 3.070018 CCAACTGAGCCAAGACTTACAG 58.930 50.000 0.00 0.00 0.00 2.74
6423 8912 8.082242 AGATGCTTTTGTACTTTCAAATGTACC 58.918 33.333 13.32 2.72 38.22 3.34
6424 8913 8.905702 CAGATGCTTTTGTACTTTCAAATGTAC 58.094 33.333 10.43 10.43 38.98 2.90
6425 8914 8.081633 CCAGATGCTTTTGTACTTTCAAATGTA 58.918 33.333 0.00 0.00 37.20 2.29
6426 8915 6.925165 CCAGATGCTTTTGTACTTTCAAATGT 59.075 34.615 0.00 0.00 37.20 2.71
6427 8916 7.147312 TCCAGATGCTTTTGTACTTTCAAATG 58.853 34.615 0.00 0.00 37.20 2.32
6552 9048 4.058817 GTTCCACTGGACAACTAAGTGAG 58.941 47.826 0.00 0.00 43.22 3.51
6587 9321 9.003658 AGTAACCAGCTGAATTATGCAATATAC 57.996 33.333 17.39 1.32 0.00 1.47
6588 9322 9.219603 GAGTAACCAGCTGAATTATGCAATATA 57.780 33.333 17.39 0.00 0.00 0.86
6642 9407 4.056050 GTGTGACGTGTCCTTTTATCAGT 58.944 43.478 0.00 0.00 0.00 3.41
6644 9409 3.054166 CGTGTGACGTGTCCTTTTATCA 58.946 45.455 0.00 0.00 36.74 2.15
6792 9581 7.619964 AATTAACGGATCCGAATAGTTTGTT 57.380 32.000 39.55 21.51 42.83 2.83
6847 9636 5.568685 TCAGAGGAACATTCTAGTCTTCG 57.431 43.478 0.00 0.00 0.00 3.79
6946 9792 1.135721 GGATGCAATTGCCTCTCCAAC 59.864 52.381 27.66 12.53 41.18 3.77
6948 9794 0.749091 CGGATGCAATTGCCTCTCCA 60.749 55.000 28.68 14.08 41.18 3.86
6996 9845 2.542824 GCTACAGAGAAGGATCGACAGC 60.543 54.545 0.00 0.00 0.00 4.40
7038 9887 4.778143 CAAAGGTCCCGCCCGGAG 62.778 72.222 0.73 0.00 43.19 4.63
7046 9895 4.966787 TGCCGGTGCAAAGGTCCC 62.967 66.667 1.90 0.00 46.66 4.46
7056 9905 3.761140 TGCCATGCAATGCCGGTG 61.761 61.111 1.90 0.00 44.97 4.94
7057 9906 3.762247 GTGCCATGCAATGCCGGT 61.762 61.111 1.90 0.00 44.97 5.28
7058 9907 4.517815 GGTGCCATGCAATGCCGG 62.518 66.667 1.53 4.42 44.97 6.13
7059 9908 3.420214 GAGGTGCCATGCAATGCCG 62.420 63.158 1.53 0.00 44.97 5.69
7060 9909 2.497770 GAGGTGCCATGCAATGCC 59.502 61.111 1.53 0.00 44.97 4.40
7061 9910 2.497770 GGAGGTGCCATGCAATGC 59.502 61.111 0.00 0.00 44.97 3.56
7062 9911 2.428925 GGGGAGGTGCCATGCAATG 61.429 63.158 0.00 0.00 46.21 2.82
7063 9912 2.042639 GGGGAGGTGCCATGCAAT 60.043 61.111 0.00 0.00 41.47 3.56
7064 9913 3.267233 AGGGGAGGTGCCATGCAA 61.267 61.111 0.00 0.00 41.47 4.08
7065 9914 3.731728 GAGGGGAGGTGCCATGCA 61.732 66.667 0.00 0.00 38.95 3.96
7066 9915 4.512914 GGAGGGGAGGTGCCATGC 62.513 72.222 0.00 0.00 38.95 4.06
7067 9916 2.693864 AGGAGGGGAGGTGCCATG 60.694 66.667 0.00 0.00 38.95 3.66
7068 9917 2.367512 GAGGAGGGGAGGTGCCAT 60.368 66.667 0.00 0.00 38.95 4.40
7069 9918 4.741239 GGAGGAGGGGAGGTGCCA 62.741 72.222 0.00 0.00 38.95 4.92
7070 9919 4.423209 AGGAGGAGGGGAGGTGCC 62.423 72.222 0.00 0.00 0.00 5.01
7071 9920 3.086600 CAGGAGGAGGGGAGGTGC 61.087 72.222 0.00 0.00 0.00 5.01
7072 9921 3.086600 GCAGGAGGAGGGGAGGTG 61.087 72.222 0.00 0.00 0.00 4.00
7073 9922 3.288381 AGCAGGAGGAGGGGAGGT 61.288 66.667 0.00 0.00 0.00 3.85
7074 9923 2.767496 CAGCAGGAGGAGGGGAGG 60.767 72.222 0.00 0.00 0.00 4.30
7075 9924 2.040278 ACAGCAGGAGGAGGGGAG 59.960 66.667 0.00 0.00 0.00 4.30
7076 9925 2.284921 CACAGCAGGAGGAGGGGA 60.285 66.667 0.00 0.00 0.00 4.81
7077 9926 3.406200 CCACAGCAGGAGGAGGGG 61.406 72.222 0.00 0.00 0.00 4.79
7078 9927 2.608988 ACCACAGCAGGAGGAGGG 60.609 66.667 0.00 0.00 0.00 4.30
7079 9928 2.219875 ACACCACAGCAGGAGGAGG 61.220 63.158 0.00 0.00 0.00 4.30
7080 9929 1.004080 CACACCACAGCAGGAGGAG 60.004 63.158 0.00 0.00 0.00 3.69
7081 9930 2.519622 CCACACCACAGCAGGAGGA 61.520 63.158 0.00 0.00 0.00 3.71
7082 9931 2.033141 CCACACCACAGCAGGAGG 59.967 66.667 0.00 0.00 0.00 4.30
7083 9932 2.033141 CCCACACCACAGCAGGAG 59.967 66.667 0.00 0.00 0.00 3.69
7084 9933 2.772191 ACCCACACCACAGCAGGA 60.772 61.111 0.00 0.00 0.00 3.86
7085 9934 2.281761 GACCCACACCACAGCAGG 60.282 66.667 0.00 0.00 0.00 4.85
7086 9935 1.149174 AAGACCCACACCACAGCAG 59.851 57.895 0.00 0.00 0.00 4.24
7087 9936 1.152984 CAAGACCCACACCACAGCA 60.153 57.895 0.00 0.00 0.00 4.41
7088 9937 2.555547 GCAAGACCCACACCACAGC 61.556 63.158 0.00 0.00 0.00 4.40
7089 9938 1.898574 GGCAAGACCCACACCACAG 60.899 63.158 0.00 0.00 0.00 3.66
7090 9939 2.194597 GGCAAGACCCACACCACA 59.805 61.111 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.