Multiple sequence alignment - TraesCS5D01G034400

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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 TraesCS5D01G034400 chr5D 100.000 4248 0 0 1 4248 33658859 33654612 0.000000e+00 7845.0
1 TraesCS5D01G034400 chr5D 93.144 1692 91 12 436 2123 33049489 33047819 0.000000e+00 2459.0
2 TraesCS5D01G034400 chr5D 93.089 1693 91 10 436 2123 37046327 37047998 0.000000e+00 2455.0
3 TraesCS5D01G034400 chr5D 92.018 1303 82 10 822 2123 37040322 37041603 0.000000e+00 1810.0
4 TraesCS5D01G034400 chr5D 91.865 1303 83 11 822 2123 33055484 33054204 0.000000e+00 1797.0
5 TraesCS5D01G034400 chr5D 91.991 1286 82 15 2380 3652 37048571 37049848 0.000000e+00 1784.0
6 TraesCS5D01G034400 chr5D 92.308 1014 63 9 2380 3384 33047246 33046239 0.000000e+00 1426.0
7 TraesCS5D01G034400 chr5D 92.324 964 64 6 2380 3337 37042173 37043132 0.000000e+00 1362.0
8 TraesCS5D01G034400 chr5D 92.062 970 67 6 2380 3343 33053634 33052669 0.000000e+00 1356.0
9 TraesCS5D01G034400 chr5D 91.346 312 22 5 3345 3652 33046243 33045933 5.080000e-114 422.0
10 TraesCS5D01G034400 chr5D 92.095 253 19 1 571 822 37039994 37040246 5.220000e-94 355.0
11 TraesCS5D01G034400 chr5D 91.188 261 17 3 2122 2382 33047758 33047504 2.430000e-92 350.0
12 TraesCS5D01G034400 chr5D 91.700 253 20 1 571 822 33055812 33055560 2.430000e-92 350.0
13 TraesCS5D01G034400 chr5D 90.152 264 20 3 2119 2382 37048056 37048313 5.260000e-89 339.0
14 TraesCS5D01G034400 chr5D 90.421 261 17 4 2122 2382 33054143 33053891 1.890000e-88 337.0
15 TraesCS5D01G034400 chr5D 90.152 264 18 4 2119 2382 37041661 37041916 1.890000e-88 337.0
16 TraesCS5D01G034400 chr5D 90.270 185 7 2 229 403 33049751 33049568 9.190000e-57 231.0
17 TraesCS5D01G034400 chr5D 89.785 186 7 3 229 403 37046063 37046247 1.190000e-55 228.0
18 TraesCS5D01G034400 chr5D 93.333 75 3 1 3393 3465 33031211 33031137 4.490000e-20 110.0
19 TraesCS5D01G034400 chr5B 92.080 2904 170 26 597 3452 24147721 24144830 0.000000e+00 4034.0
20 TraesCS5D01G034400 chr5B 92.562 1694 104 11 436 2123 24776118 24774441 0.000000e+00 2410.0
21 TraesCS5D01G034400 chr5B 91.442 1297 82 13 2380 3652 24773863 24772572 0.000000e+00 1753.0
22 TraesCS5D01G034400 chr5B 90.199 1357 89 21 770 2123 24107940 24109255 0.000000e+00 1729.0
23 TraesCS5D01G034400 chr5B 92.247 1148 55 18 2691 3836 24807484 24808599 0.000000e+00 1596.0
24 TraesCS5D01G034400 chr5B 92.037 967 66 5 2380 3340 24109826 24110787 0.000000e+00 1349.0
25 TraesCS5D01G034400 chr5B 94.159 856 45 4 620 1471 24806333 24807187 0.000000e+00 1299.0
26 TraesCS5D01G034400 chr5B 93.563 870 46 5 435 1301 24285189 24284327 0.000000e+00 1288.0
27 TraesCS5D01G034400 chr5B 84.064 502 65 7 436 927 24805831 24806327 1.790000e-128 470.0
28 TraesCS5D01G034400 chr5B 88.258 264 24 4 2119 2382 24109312 24109568 4.130000e-80 309.0
29 TraesCS5D01G034400 chr5B 85.623 313 24 11 1 313 24285603 24285312 4.130000e-80 309.0
30 TraesCS5D01G034400 chr5B 87.266 267 22 5 2122 2382 24774380 24774120 1.160000e-75 294.0
31 TraesCS5D01G034400 chr5B 83.387 313 20 16 6 313 24805422 24805707 1.170000e-65 261.0
32 TraesCS5D01G034400 chr5B 83.067 313 21 16 6 313 24776527 24776242 5.450000e-64 255.0
33 TraesCS5D01G034400 chr5B 98.000 50 1 0 354 403 24285311 24285262 2.100000e-13 87.9
34 TraesCS5D01G034400 chr5B 98.000 50 1 0 354 403 24776241 24776192 2.100000e-13 87.9
35 TraesCS5D01G034400 chr5B 96.226 53 2 0 351 403 24805705 24805757 2.100000e-13 87.9
36 TraesCS5D01G034400 chr5A 94.395 2462 103 15 887 3340 21440614 21438180 0.000000e+00 3749.0
37 TraesCS5D01G034400 chr5A 92.817 1239 60 12 887 2123 22059684 22058473 0.000000e+00 1768.0
38 TraesCS5D01G034400 chr5A 92.577 970 65 4 2380 3343 22057901 22056933 0.000000e+00 1386.0
39 TraesCS5D01G034400 chr5A 95.897 390 12 3 436 822 22060192 22059804 2.790000e-176 628.0
40 TraesCS5D01G034400 chr5A 82.864 426 46 11 229 653 22052853 22052454 1.450000e-94 357.0
41 TraesCS5D01G034400 chr5A 90.421 261 19 3 2122 2382 22058412 22058158 5.260000e-89 339.0
42 TraesCS5D01G034400 chr5A 93.333 120 8 0 270 389 22061386 22061267 1.210000e-40 178.0
43 TraesCS5D01G034400 chr5A 81.287 171 9 11 233 403 22060418 22060271 2.680000e-22 117.0
44 TraesCS5D01G034400 chr7D 87.563 595 71 2 3655 4248 84354522 84353930 0.000000e+00 686.0
45 TraesCS5D01G034400 chr7D 85.269 577 82 3 3675 4248 534434953 534434377 3.660000e-165 592.0
46 TraesCS5D01G034400 chr7D 84.941 591 73 9 3663 4248 598777694 598777115 6.120000e-163 584.0
47 TraesCS5D01G034400 chr1B 85.329 593 70 7 3669 4248 424173479 424172891 7.860000e-167 597.0
48 TraesCS5D01G034400 chr4B 83.139 599 96 5 3652 4248 634408437 634409032 3.740000e-150 542.0
49 TraesCS5D01G034400 chr4B 95.238 42 2 0 3343 3384 481601286 481601327 2.740000e-07 67.6
50 TraesCS5D01G034400 chr7A 83.566 572 89 3 3682 4248 203903373 203903944 8.090000e-147 531.0
51 TraesCS5D01G034400 chr7A 82.462 593 96 6 3663 4248 572252004 572251413 2.930000e-141 512.0
52 TraesCS5D01G034400 chr4D 85.430 453 63 3 3651 4101 69737349 69736898 6.430000e-128 468.0
53 TraesCS5D01G034400 chr4D 85.242 454 63 3 3652 4104 109476884 109477334 8.320000e-127 464.0
54 TraesCS5D01G034400 chr4D 95.238 42 2 0 3343 3384 391719301 391719342 2.740000e-07 67.6
55 TraesCS5D01G034400 chr3B 80.135 594 103 14 3663 4248 361739623 361739037 3.030000e-116 429.0
56 TraesCS5D01G034400 chrUn 87.500 136 6 2 229 354 478151402 478151536 3.420000e-31 147.0
57 TraesCS5D01G034400 chr7B 97.436 39 1 0 3343 3381 450281910 450281948 2.740000e-07 67.6
58 TraesCS5D01G034400 chr2A 91.111 45 4 0 3343 3387 632931732 632931688 1.280000e-05 62.1


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 TraesCS5D01G034400 chr5D 33654612 33658859 4247 True 7845.000000 7845 100.000000 1 4248 1 chr5D.!!$R2 4247
1 TraesCS5D01G034400 chr5D 37039994 37049848 9854 False 1083.750000 2455 91.450750 229 3652 8 chr5D.!!$F1 3423
2 TraesCS5D01G034400 chr5D 33045933 33055812 9879 True 969.777778 2459 91.589333 229 3652 9 chr5D.!!$R3 3423
3 TraesCS5D01G034400 chr5B 24144830 24147721 2891 True 4034.000000 4034 92.080000 597 3452 1 chr5B.!!$R1 2855
4 TraesCS5D01G034400 chr5B 24107940 24110787 2847 False 1129.000000 1729 90.164667 770 3340 3 chr5B.!!$F1 2570
5 TraesCS5D01G034400 chr5B 24772572 24776527 3955 True 959.980000 2410 90.467400 6 3652 5 chr5B.!!$R3 3646
6 TraesCS5D01G034400 chr5B 24805422 24808599 3177 False 742.780000 1596 90.016600 6 3836 5 chr5B.!!$F2 3830
7 TraesCS5D01G034400 chr5B 24284327 24285603 1276 True 561.633333 1288 92.395333 1 1301 3 chr5B.!!$R2 1300
8 TraesCS5D01G034400 chr5A 21438180 21440614 2434 True 3749.000000 3749 94.395000 887 3340 1 chr5A.!!$R1 2453
9 TraesCS5D01G034400 chr5A 22056933 22061386 4453 True 736.000000 1768 91.055333 233 3343 6 chr5A.!!$R3 3110
10 TraesCS5D01G034400 chr7D 84353930 84354522 592 True 686.000000 686 87.563000 3655 4248 1 chr7D.!!$R1 593
11 TraesCS5D01G034400 chr7D 534434377 534434953 576 True 592.000000 592 85.269000 3675 4248 1 chr7D.!!$R2 573
12 TraesCS5D01G034400 chr7D 598777115 598777694 579 True 584.000000 584 84.941000 3663 4248 1 chr7D.!!$R3 585
13 TraesCS5D01G034400 chr1B 424172891 424173479 588 True 597.000000 597 85.329000 3669 4248 1 chr1B.!!$R1 579
14 TraesCS5D01G034400 chr4B 634408437 634409032 595 False 542.000000 542 83.139000 3652 4248 1 chr4B.!!$F2 596
15 TraesCS5D01G034400 chr7A 203903373 203903944 571 False 531.000000 531 83.566000 3682 4248 1 chr7A.!!$F1 566
16 TraesCS5D01G034400 chr7A 572251413 572252004 591 True 512.000000 512 82.462000 3663 4248 1 chr7A.!!$R1 585
17 TraesCS5D01G034400 chr3B 361739037 361739623 586 True 429.000000 429 80.135000 3663 4248 1 chr3B.!!$R1 585

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
112 113 0.731855 GAAGTCCCAGTACGCGTCAC 60.732 60.000 18.63 12.91 0.00 3.67 F
115 116 1.076533 GTCCCAGTACGCGTCACATG 61.077 60.000 18.63 10.55 0.00 3.21 F
116 117 1.214325 CCCAGTACGCGTCACATGA 59.786 57.895 18.63 0.00 0.00 3.07 F
204 211 1.223763 GGGTAGGTAGCCCTTGCAC 59.776 63.158 0.00 0.00 42.66 4.57 F
209 216 1.620822 AGGTAGCCCTTGCACTTTTG 58.379 50.000 0.00 0.00 38.13 2.44 F
1688 8144 2.038659 ACACCAACAAAACCTCCATGG 58.961 47.619 4.97 4.97 42.93 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1130 7499 0.398381 TGGCCTGCCCCAATTATTCC 60.398 55.000 3.32 0.00 34.56 3.01 R
1163 7532 0.625849 ATTACTGGCACAAGGGAGGG 59.374 55.000 0.00 0.00 38.70 4.30 R
1679 8135 2.421529 GGATTTTACGAGCCATGGAGGT 60.422 50.000 18.40 11.87 40.61 3.85 R
1866 8330 4.062677 CCTATCCGGGAAACAATTCGTA 57.937 45.455 0.00 0.00 36.36 3.43 R
2126 8714 5.941555 TCCCAAGAGAGAGAAAATCCTAC 57.058 43.478 0.00 0.00 0.00 3.18 R
3661 10607 0.247185 CCGAAATGCAGGCAACCAAT 59.753 50.000 0.00 0.00 37.17 3.16 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
67 68 5.461032 ACCATCTAAAACCGAAAAATGCA 57.539 34.783 0.00 0.00 0.00 3.96
72 73 9.097257 CCATCTAAAACCGAAAAATGCATTTAT 57.903 29.630 24.35 12.14 0.00 1.40
103 104 5.536497 AAAATTCCATAGGAAGTCCCAGT 57.464 39.130 4.65 0.00 45.48 4.00
104 105 6.652205 AAAATTCCATAGGAAGTCCCAGTA 57.348 37.500 4.65 0.00 45.48 2.74
105 106 5.632034 AATTCCATAGGAAGTCCCAGTAC 57.368 43.478 4.65 0.00 45.48 2.73
107 108 1.068741 CCATAGGAAGTCCCAGTACGC 59.931 57.143 0.00 0.00 37.41 4.42
108 109 1.030457 ATAGGAAGTCCCAGTACGCG 58.970 55.000 3.53 3.53 37.41 6.01
111 112 1.582968 GAAGTCCCAGTACGCGTCA 59.417 57.895 18.63 0.00 0.00 4.35
112 113 0.731855 GAAGTCCCAGTACGCGTCAC 60.732 60.000 18.63 12.91 0.00 3.67
113 114 1.457823 AAGTCCCAGTACGCGTCACA 61.458 55.000 18.63 0.00 0.00 3.58
115 116 1.076533 GTCCCAGTACGCGTCACATG 61.077 60.000 18.63 10.55 0.00 3.21
116 117 1.214325 CCCAGTACGCGTCACATGA 59.786 57.895 18.63 0.00 0.00 3.07
188 189 4.847367 GGGAGCCATGCAAGGGGG 62.847 72.222 10.51 1.29 38.99 5.40
204 211 1.223763 GGGTAGGTAGCCCTTGCAC 59.776 63.158 0.00 0.00 42.66 4.57
209 216 1.620822 AGGTAGCCCTTGCACTTTTG 58.379 50.000 0.00 0.00 38.13 2.44
635 6599 2.670934 CGCTGCAGGCTTGTTCCT 60.671 61.111 17.12 0.00 39.13 3.36
724 7013 8.244113 CGTATCATGTGTATGTGTCCAGTATAT 58.756 37.037 0.00 0.00 35.73 0.86
725 7014 9.574458 GTATCATGTGTATGTGTCCAGTATATC 57.426 37.037 0.00 0.00 35.73 1.63
726 7015 6.677913 TCATGTGTATGTGTCCAGTATATCG 58.322 40.000 0.00 0.00 35.73 2.92
727 7016 4.866921 TGTGTATGTGTCCAGTATATCGC 58.133 43.478 0.00 0.00 0.00 4.58
728 7017 3.912563 GTGTATGTGTCCAGTATATCGCG 59.087 47.826 0.00 0.00 0.00 5.87
729 7018 3.816523 TGTATGTGTCCAGTATATCGCGA 59.183 43.478 13.09 13.09 0.00 5.87
824 7191 5.183904 GCAGGACTATTCTGACATTTTGGTT 59.816 40.000 0.00 0.00 34.36 3.67
1059 7428 2.914059 CGGATTAATGACCGGGTTCTT 58.086 47.619 6.32 0.55 44.59 2.52
1678 8134 5.478679 CCCCTTGTATTCATACACCAACAAA 59.521 40.000 0.00 0.00 42.48 2.83
1679 8135 6.015010 CCCCTTGTATTCATACACCAACAAAA 60.015 38.462 0.00 0.00 42.48 2.44
1688 8144 2.038659 ACACCAACAAAACCTCCATGG 58.961 47.619 4.97 4.97 42.93 3.66
1700 8156 2.222027 CCTCCATGGCTCGTAAAATCC 58.778 52.381 6.96 0.00 0.00 3.01
1866 8330 2.546795 GCCGATGATGTTCTCGAATCCT 60.547 50.000 0.00 0.00 37.05 3.24
2025 8489 7.044510 CGTGATTGTCATGATTCATTGCTTAAC 60.045 37.037 0.00 0.00 35.46 2.01
2150 8738 5.370875 AGGATTTTCTCTCTCTTGGGATG 57.629 43.478 0.00 0.00 0.00 3.51
2173 8761 6.429624 TGCATTTGCGCTATAGTTTATTGAG 58.570 36.000 9.73 0.00 45.83 3.02
2254 8842 5.491982 ACATCCTTTCAGTCATCTTGTACC 58.508 41.667 0.00 0.00 0.00 3.34
2290 8879 8.507249 GTGACACTCTAATCTTGTGCTTTATTT 58.493 33.333 0.00 0.00 35.33 1.40
2317 8906 2.586648 AACTTTTCGGGAATCCTGCT 57.413 45.000 2.50 0.00 0.00 4.24
2341 8930 5.772825 CCAAAGAGGTCAAACATTTGAGA 57.227 39.130 7.30 0.00 46.80 3.27
2675 9535 8.207545 ACTTTCCATGAGGAGCTACTAAAATAG 58.792 37.037 0.00 0.00 46.74 1.73
3244 10104 3.191581 TGACTTGGTCGAACTTGCAAAAA 59.808 39.130 0.33 0.00 34.95 1.94
3292 10156 6.959671 CTTTGGTTGCAAAGTTGAAAGTAA 57.040 33.333 0.00 0.00 37.39 2.24
3326 10190 5.345741 CACAGAAAACAAATAAATGGCTCCG 59.654 40.000 0.00 0.00 0.00 4.63
3584 10529 4.704965 AGGTCACAGGTAAAAGAGTCAAC 58.295 43.478 0.00 0.00 0.00 3.18
3646 10592 4.500603 TCAAGAGGACGTACTTGAAGAC 57.499 45.455 21.49 2.51 45.83 3.01
3661 10607 1.328680 GAAGACGTACTATGGACGCGA 59.671 52.381 15.93 0.00 44.14 5.87
3678 10624 1.632422 CGATTGGTTGCCTGCATTTC 58.368 50.000 0.00 0.00 0.00 2.17
3775 10723 0.804989 CTTTAAAGCACTCCCAGCCG 59.195 55.000 1.47 0.00 0.00 5.52
3909 10858 2.614520 TGCGTCTTCGAAAAATTGGTGA 59.385 40.909 0.00 0.00 39.71 4.02
3918 10867 6.648879 TCGAAAAATTGGTGAGAGGATTTT 57.351 33.333 0.00 0.00 34.24 1.82
3973 10923 4.227134 CCCATCCTCTCACCGCCG 62.227 72.222 0.00 0.00 0.00 6.46
3991 10941 2.668550 AAAGCCCCGTCACGCTTC 60.669 61.111 0.00 0.00 44.40 3.86
4013 10965 1.840635 CTCCCCTTTCGATCTTTCCCT 59.159 52.381 0.00 0.00 0.00 4.20
4093 11049 4.373116 ACGGCGGCGACTCATGTT 62.373 61.111 38.93 10.08 0.00 2.71
4114 11070 5.011738 TGTTCTCAACTTCTTCGACCCTTAT 59.988 40.000 0.00 0.00 0.00 1.73
4233 11211 2.086869 AGATGTGCAAGCATGTGGTAC 58.913 47.619 0.00 0.00 0.00 3.34
4238 11216 0.168128 GCAAGCATGTGGTACGGTTC 59.832 55.000 0.00 0.00 0.00 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 8.973182 TGGTTTATGTTTGGTTTTCTCTACTTT 58.027 29.630 0.00 0.00 0.00 2.66
85 86 3.028850 CGTACTGGGACTTCCTATGGAA 58.971 50.000 0.00 0.00 39.66 3.53
86 87 2.662866 CGTACTGGGACTTCCTATGGA 58.337 52.381 0.00 0.00 36.20 3.41
87 88 1.068741 GCGTACTGGGACTTCCTATGG 59.931 57.143 0.00 0.00 36.20 2.74
92 93 1.153881 GACGCGTACTGGGACTTCC 60.154 63.158 13.97 0.00 0.00 3.46
95 96 1.248785 ATGTGACGCGTACTGGGACT 61.249 55.000 13.97 0.00 0.00 3.85
96 97 1.076533 CATGTGACGCGTACTGGGAC 61.077 60.000 13.97 0.00 0.00 4.46
97 98 1.214325 CATGTGACGCGTACTGGGA 59.786 57.895 13.97 0.00 0.00 4.37
108 109 4.196826 GAGCGCGCGTCATGTGAC 62.197 66.667 32.35 11.90 41.47 3.67
111 112 3.751401 ATACGAGCGCGCGTCATGT 62.751 57.895 40.75 22.58 44.39 3.21
112 113 3.024609 ATACGAGCGCGCGTCATG 61.025 61.111 40.75 20.32 44.39 3.07
113 114 3.024609 CATACGAGCGCGCGTCAT 61.025 61.111 40.75 27.18 44.39 3.06
115 116 3.669446 GACATACGAGCGCGCGTC 61.669 66.667 40.75 23.62 44.39 5.19
162 163 2.110967 CATGGCTCCCGCAAGAGTG 61.111 63.158 2.26 0.00 43.02 3.51
178 179 1.353394 GGCTACCTACCCCCTTGCAT 61.353 60.000 0.00 0.00 0.00 3.96
256 6156 0.176219 CCGGCCCATTAACGTACTCA 59.824 55.000 0.00 0.00 0.00 3.41
366 6277 3.007940 AGCAAGAAGGGCCCATTAAAAAC 59.992 43.478 27.56 6.04 0.00 2.43
635 6599 1.898472 CTGAGCCTCACCTGAAGAAGA 59.102 52.381 0.00 0.00 0.00 2.87
683 6966 7.121168 ACACATGATACGGAATGTCAAAAAGAT 59.879 33.333 0.00 0.00 34.81 2.40
841 7209 7.556275 ACGGTCCAAATAGATAAAACATGACAT 59.444 33.333 0.00 0.00 0.00 3.06
952 7320 3.067601 AGGTCAAAACGCACCCTAAAAAG 59.932 43.478 0.00 0.00 32.45 2.27
1059 7428 2.565391 TCGGTCACCAAAGAGCAATCTA 59.435 45.455 0.00 0.00 35.83 1.98
1130 7499 0.398381 TGGCCTGCCCCAATTATTCC 60.398 55.000 3.32 0.00 34.56 3.01
1163 7532 0.625849 ATTACTGGCACAAGGGAGGG 59.374 55.000 0.00 0.00 38.70 4.30
1616 8072 6.814146 GGACTAAAACTAGTGACAAGATCCTG 59.186 42.308 0.00 0.00 0.00 3.86
1678 8134 2.871096 TTTTACGAGCCATGGAGGTT 57.129 45.000 18.40 0.00 40.61 3.50
1679 8135 2.421529 GGATTTTACGAGCCATGGAGGT 60.422 50.000 18.40 11.87 40.61 3.85
1688 8144 4.336532 AATGTCGTTGGATTTTACGAGC 57.663 40.909 0.00 0.00 46.17 5.03
1866 8330 4.062677 CCTATCCGGGAAACAATTCGTA 57.937 45.455 0.00 0.00 36.36 3.43
1916 8380 6.915544 TCAGTGAGAAAATCTGCATCATAC 57.084 37.500 0.00 0.00 0.00 2.39
2025 8489 6.066054 TCTCTGCTACGATTGAAGACATAG 57.934 41.667 0.00 0.00 0.00 2.23
2126 8714 5.941555 TCCCAAGAGAGAGAAAATCCTAC 57.058 43.478 0.00 0.00 0.00 3.18
2150 8738 6.658831 TCTCAATAAACTATAGCGCAAATGC 58.341 36.000 11.47 0.00 37.78 3.56
2173 8761 7.770897 TCCTAAAAGCTTGGAGTGAATAGAATC 59.229 37.037 0.00 0.00 0.00 2.52
2254 8842 0.109086 AGAGTGTCACGCCATCTTCG 60.109 55.000 2.78 0.00 0.00 3.79
2290 8879 6.428771 CAGGATTCCCGAAAAGTTTTACACTA 59.571 38.462 0.00 0.00 33.68 2.74
2341 8930 1.252904 GGTGCCACCATCAGCAACAT 61.253 55.000 9.55 0.00 46.16 2.71
2449 9307 6.591062 CACAAACTTGCCTAACATATGCAAAT 59.409 34.615 1.58 0.00 43.69 2.32
2599 9457 7.701539 ACTTTATGCCAATTGACAACAGATA 57.298 32.000 7.12 0.00 0.00 1.98
2675 9535 7.618137 TCAATAAGAGAACCCTGTAAACCTAC 58.382 38.462 0.00 0.00 0.00 3.18
3326 10190 8.375465 GTTTTAGATCAGCATACACATTTTTGC 58.625 33.333 0.00 0.00 35.34 3.68
3457 10400 8.936864 GCACTTCTACATAAAAAGTACAGTCAT 58.063 33.333 0.00 0.00 32.20 3.06
3584 10529 8.210946 TGTTTTCTAGGGTATCATATTGGTCAG 58.789 37.037 0.00 0.00 0.00 3.51
3646 10592 1.268896 ACCAATCGCGTCCATAGTACG 60.269 52.381 5.77 0.00 43.12 3.67
3661 10607 0.247185 CCGAAATGCAGGCAACCAAT 59.753 50.000 0.00 0.00 37.17 3.16
3692 10638 2.191908 CCGATTCAATCCCGGGCA 59.808 61.111 18.49 5.14 39.59 5.36
3695 10641 1.893808 CAGGCCGATTCAATCCCGG 60.894 63.158 0.00 0.00 45.51 5.73
3909 10858 1.283321 GGAGGTGAGCCAAAATCCTCT 59.717 52.381 8.97 0.00 42.76 3.69
3973 10923 2.668550 AAGCGTGACGGGGCTTTC 60.669 61.111 7.25 0.00 46.71 2.62
3983 10933 0.608640 GAAAGGGGAGAGAAGCGTGA 59.391 55.000 0.00 0.00 0.00 4.35
3987 10937 1.760029 AGATCGAAAGGGGAGAGAAGC 59.240 52.381 0.00 0.00 0.00 3.86
3990 10940 2.766828 GGAAAGATCGAAAGGGGAGAGA 59.233 50.000 0.00 0.00 0.00 3.10
3991 10941 2.158885 GGGAAAGATCGAAAGGGGAGAG 60.159 54.545 0.00 0.00 0.00 3.20
4093 11049 4.142447 CGATAAGGGTCGAAGAAGTTGAGA 60.142 45.833 0.00 0.00 44.06 3.27


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

AutoCloner maintained by Alex Coulton.