Multiple sequence alignment - TraesCS3D01G385500

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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 TraesCS3D01G385500 chr3D 100.000 3560 0 0 1 3560 501063314 501059755 0.000000e+00 6575
1 TraesCS3D01G385500 chr3D 90.549 1566 133 10 1037 2595 501032258 501030701 0.000000e+00 2058
2 TraesCS3D01G385500 chr3A 95.229 2641 76 13 865 3478 640363204 640365821 0.000000e+00 4133
3 TraesCS3D01G385500 chr3A 89.670 1578 150 8 1037 2607 640391385 640392956 0.000000e+00 1999
4 TraesCS3D01G385500 chr3A 89.362 1457 142 9 1138 2588 640497840 640499289 0.000000e+00 1820
5 TraesCS3D01G385500 chr3A 95.148 371 13 3 505 872 640362220 640362588 6.620000e-162 580
6 TraesCS3D01G385500 chr3A 86.512 430 41 7 48 464 640361568 640361993 1.160000e-124 457
7 TraesCS3D01G385500 chr3B 93.141 2464 112 25 160 2608 662528775 662526354 0.000000e+00 3561
8 TraesCS3D01G385500 chr3B 89.471 1681 143 21 895 2561 662479934 662478274 0.000000e+00 2093
9 TraesCS3D01G385500 chr3B 90.845 426 35 3 3138 3560 662525480 662525056 5.160000e-158 568
10 TraesCS3D01G385500 chr3B 93.528 309 17 3 1403 1711 461747723 461748028 1.160000e-124 457
11 TraesCS3D01G385500 chr3B 82.979 376 40 12 2607 2975 662526319 662525961 5.740000e-83 318
12 TraesCS3D01G385500 chr5D 93.857 293 17 1 1419 1711 47629229 47629520 1.170000e-119 440
13 TraesCS3D01G385500 chr1D 92.484 306 22 1 1406 1711 489787949 489788253 1.520000e-118 436


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 TraesCS3D01G385500 chr3D 501059755 501063314 3559 True 6575.000000 6575 100.000000 1 3560 1 chr3D.!!$R2 3559
1 TraesCS3D01G385500 chr3D 501030701 501032258 1557 True 2058.000000 2058 90.549000 1037 2595 1 chr3D.!!$R1 1558
2 TraesCS3D01G385500 chr3A 640391385 640392956 1571 False 1999.000000 1999 89.670000 1037 2607 1 chr3A.!!$F1 1570
3 TraesCS3D01G385500 chr3A 640497840 640499289 1449 False 1820.000000 1820 89.362000 1138 2588 1 chr3A.!!$F2 1450
4 TraesCS3D01G385500 chr3A 640361568 640365821 4253 False 1723.333333 4133 92.296333 48 3478 3 chr3A.!!$F3 3430
5 TraesCS3D01G385500 chr3B 662478274 662479934 1660 True 2093.000000 2093 89.471000 895 2561 1 chr3B.!!$R1 1666
6 TraesCS3D01G385500 chr3B 662525056 662528775 3719 True 1482.333333 3561 88.988333 160 3560 3 chr3B.!!$R2 3400

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
140 154 0.108851 CGAGGCAAAAATTTCCCCCG 60.109 55.0 0.0 0.00 0.0 5.73 F
142 156 0.684535 AGGCAAAAATTTCCCCCGTG 59.315 50.0 0.0 0.00 0.0 4.94 F
576 777 1.019278 CGAAAGTGTGTATGGCGCCT 61.019 55.0 29.7 15.76 0.0 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1968 2819 1.299976 GGCCATGAACTCGAGGGTT 59.700 57.895 18.41 3.18 0.00 4.11 R
2397 3248 3.329889 ATGGACTGGAAGCCCGCA 61.330 61.111 0.00 0.00 40.73 5.69 R
2601 3459 0.598419 GCACCTGCCAAAAGTGAAGC 60.598 55.000 0.00 0.00 33.21 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
18 19 3.884774 TGCGTTTGGGGAGCACCT 61.885 61.111 0.00 0.00 40.03 4.00
19 20 2.349755 GCGTTTGGGGAGCACCTA 59.650 61.111 0.00 0.00 40.03 3.08
20 21 1.077716 GCGTTTGGGGAGCACCTAT 60.078 57.895 0.00 0.00 40.03 2.57
21 22 1.376609 GCGTTTGGGGAGCACCTATG 61.377 60.000 0.00 0.00 40.03 2.23
30 31 3.187058 GCACCTATGCGGTTGTGG 58.813 61.111 0.00 0.00 46.37 4.17
31 32 2.406616 GCACCTATGCGGTTGTGGG 61.407 63.158 0.00 0.00 46.37 4.61
32 33 1.002624 CACCTATGCGGTTGTGGGT 60.003 57.895 0.00 0.00 46.37 4.51
33 34 0.608035 CACCTATGCGGTTGTGGGTT 60.608 55.000 0.00 0.00 46.37 4.11
34 35 0.322187 ACCTATGCGGTTGTGGGTTC 60.322 55.000 0.00 0.00 46.37 3.62
35 36 1.029947 CCTATGCGGTTGTGGGTTCC 61.030 60.000 0.00 0.00 0.00 3.62
36 37 0.322098 CTATGCGGTTGTGGGTTCCA 60.322 55.000 0.00 0.00 0.00 3.53
37 38 0.329931 TATGCGGTTGTGGGTTCCAT 59.670 50.000 0.00 0.00 35.28 3.41
38 39 1.250154 ATGCGGTTGTGGGTTCCATG 61.250 55.000 0.00 0.00 35.28 3.66
39 40 2.961768 CGGTTGTGGGTTCCATGC 59.038 61.111 0.00 0.00 35.28 4.06
40 41 2.635443 CGGTTGTGGGTTCCATGCC 61.635 63.158 0.00 0.00 35.28 4.40
41 42 1.532794 GGTTGTGGGTTCCATGCCA 60.533 57.895 0.00 0.00 35.28 4.92
42 43 0.904394 GGTTGTGGGTTCCATGCCAT 60.904 55.000 0.00 0.00 35.28 4.40
43 44 0.247185 GTTGTGGGTTCCATGCCATG 59.753 55.000 0.00 0.00 35.28 3.66
44 45 0.178938 TTGTGGGTTCCATGCCATGT 60.179 50.000 3.63 0.00 35.28 3.21
45 46 0.899253 TGTGGGTTCCATGCCATGTG 60.899 55.000 3.63 0.00 35.28 3.21
46 47 0.611618 GTGGGTTCCATGCCATGTGA 60.612 55.000 3.63 0.00 35.28 3.58
60 61 1.995484 CATGTGAGTAGTCCGCTTGTG 59.005 52.381 0.00 0.00 0.00 3.33
65 66 1.445582 GTAGTCCGCTTGTGGTCCG 60.446 63.158 0.00 0.00 0.00 4.79
68 69 2.915659 TCCGCTTGTGGTCCGTCT 60.916 61.111 0.00 0.00 0.00 4.18
69 70 2.738521 CCGCTTGTGGTCCGTCTG 60.739 66.667 0.00 0.00 0.00 3.51
94 95 8.630917 TGTTCGGTTTTCAATAAATTAACTGGA 58.369 29.630 0.00 0.00 0.00 3.86
127 128 9.607988 TCTTATTCTTAATTAATTGACGAGGCA 57.392 29.630 11.05 0.00 0.00 4.75
131 132 9.921637 ATTCTTAATTAATTGACGAGGCAAAAA 57.078 25.926 11.05 0.00 0.00 1.94
133 134 9.921637 TCTTAATTAATTGACGAGGCAAAAATT 57.078 25.926 11.05 15.15 34.55 1.82
136 137 7.595311 ATTAATTGACGAGGCAAAAATTTCC 57.405 32.000 0.00 0.00 0.00 3.13
140 154 0.108851 CGAGGCAAAAATTTCCCCCG 60.109 55.000 0.00 0.00 0.00 5.73
142 156 0.684535 AGGCAAAAATTTCCCCCGTG 59.315 50.000 0.00 0.00 0.00 4.94
152 166 1.719529 TTCCCCCGTGTGTAGAGAAA 58.280 50.000 0.00 0.00 0.00 2.52
156 170 2.612221 CCCCCGTGTGTAGAGAAAGTTC 60.612 54.545 0.00 0.00 0.00 3.01
174 188 9.778741 AGAAAGTTCTACATAATTGTGAAGTCA 57.221 29.630 9.40 0.00 36.53 3.41
213 227 3.069872 TGGTTTGCAAAGCACAATGAGAT 59.930 39.130 33.76 0.00 41.03 2.75
237 251 6.590234 ATTAGTTTAGCCCAACAAGGAAAG 57.410 37.500 0.00 0.00 41.22 2.62
249 263 7.682021 GCCCAACAAGGAAAGTATGTATTCATC 60.682 40.741 0.00 0.00 41.22 2.92
400 414 9.587772 GAATAGTATAGCACTTTCTCTGTTTCA 57.412 33.333 0.00 0.00 38.80 2.69
423 437 8.167605 TCACCGTTCCTATCACAAATTTAAAA 57.832 30.769 0.00 0.00 0.00 1.52
424 438 8.293867 TCACCGTTCCTATCACAAATTTAAAAG 58.706 33.333 0.00 0.00 0.00 2.27
483 497 4.755266 AACTGTCTGGTTAAGTGTCTGT 57.245 40.909 0.00 0.00 0.00 3.41
484 498 4.060038 ACTGTCTGGTTAAGTGTCTGTG 57.940 45.455 0.00 0.00 0.00 3.66
576 777 1.019278 CGAAAGTGTGTATGGCGCCT 61.019 55.000 29.70 15.76 0.00 5.52
746 951 2.677914 TCAGAAGAAGAGGGACACACA 58.322 47.619 0.00 0.00 0.00 3.72
747 952 2.365617 TCAGAAGAAGAGGGACACACAC 59.634 50.000 0.00 0.00 0.00 3.82
772 977 6.961554 CCTCGCAGAAATAAGAACACATAAAC 59.038 38.462 0.00 0.00 34.09 2.01
786 991 5.865085 ACACATAAACAGAGACTAGGCAAA 58.135 37.500 0.00 0.00 0.00 3.68
816 1021 7.547019 TGATTGAGTTGTATGACAGAGACATTC 59.453 37.037 0.00 0.00 0.00 2.67
887 1718 1.521681 GTCGTATGCCACCCAGCTC 60.522 63.158 0.00 0.00 0.00 4.09
975 1823 7.466860 GCAACAAGATCTAATTAACTAACCCCG 60.467 40.741 0.00 0.00 0.00 5.73
1242 2090 2.888863 CAGGCAGACCTCGAGTCC 59.111 66.667 12.31 2.30 46.34 3.85
1380 2231 2.113139 CAAGGTGAGGCGGTGGTT 59.887 61.111 0.00 0.00 0.00 3.67
2100 2951 3.760035 GTGAAGGAGAGCCGCGGA 61.760 66.667 33.48 0.00 39.96 5.54
2115 2966 2.507324 GGAGCGCTCAACTCCGTC 60.507 66.667 36.27 14.56 44.10 4.79
2634 3528 2.355363 GTGCCGCAGTGTACGTGA 60.355 61.111 0.00 0.00 0.00 4.35
2838 3753 1.899814 TGGACTACTTCTTCGCCATGT 59.100 47.619 0.00 0.00 0.00 3.21
2914 3833 5.353678 GCAAGAAGACTGCTGATTGAACTAT 59.646 40.000 0.00 0.00 0.00 2.12
3133 4404 8.433599 ACTTCCTCCCTAAAGAAATATAAGAGC 58.566 37.037 0.00 0.00 0.00 4.09
3134 4405 8.568617 TTCCTCCCTAAAGAAATATAAGAGCT 57.431 34.615 0.00 0.00 0.00 4.09
3135 4406 9.670442 TTCCTCCCTAAAGAAATATAAGAGCTA 57.330 33.333 0.00 0.00 0.00 3.32
3136 4407 9.315363 TCCTCCCTAAAGAAATATAAGAGCTAG 57.685 37.037 0.00 0.00 0.00 3.42
3167 4455 7.465989 TGTTTTGTTAGTTAAACTGAAGACCG 58.534 34.615 0.00 0.00 38.99 4.79
3212 4500 3.449018 TCAAGAGGGAGTAACTCATGCTC 59.551 47.826 0.00 0.00 39.81 4.26
3229 4517 5.641636 TCATGCTCTTTCTGTAACGCAATAA 59.358 36.000 0.00 0.00 0.00 1.40
3331 4622 7.083858 GCTACAATAGTTTTGTCATTGAAGCA 58.916 34.615 1.96 0.00 34.48 3.91
3362 4653 2.948979 GACACCACAATCCACAACTTGA 59.051 45.455 0.00 0.00 0.00 3.02
3371 4662 1.601903 TCCACAACTTGACGCAATCAC 59.398 47.619 0.00 0.00 36.92 3.06
3460 4751 4.734398 TGGAACAAAACTGAGCACAATT 57.266 36.364 0.00 0.00 31.92 2.32
3461 4752 5.843673 TGGAACAAAACTGAGCACAATTA 57.156 34.783 0.00 0.00 31.92 1.40
3535 4826 2.107552 ACACCCAATATAATGTCCCCGG 59.892 50.000 0.00 0.00 0.00 5.73
3537 4828 2.374170 ACCCAATATAATGTCCCCGGAC 59.626 50.000 0.73 6.95 44.77 4.79
3539 4830 2.642807 CCAATATAATGTCCCCGGACCT 59.357 50.000 0.73 0.00 43.97 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.847798 ATAGGTGCTCCCCAAACGCA 61.848 55.000 0.00 0.00 0.00 5.24
2 3 1.077716 ATAGGTGCTCCCCAAACGC 60.078 57.895 0.00 0.00 0.00 4.84
3 4 2.780595 CATAGGTGCTCCCCAAACG 58.219 57.895 0.00 0.00 0.00 3.60
16 17 4.916702 ATGGAACCCACAACCGCATAGG 62.917 54.545 0.00 0.00 40.87 2.57
17 18 0.322098 TGGAACCCACAACCGCATAG 60.322 55.000 0.00 0.00 0.00 2.23
18 19 0.329931 ATGGAACCCACAACCGCATA 59.670 50.000 0.00 0.00 35.80 3.14
19 20 1.076549 ATGGAACCCACAACCGCAT 59.923 52.632 0.00 0.00 35.80 4.73
20 21 1.900981 CATGGAACCCACAACCGCA 60.901 57.895 0.00 0.00 35.80 5.69
21 22 2.961768 CATGGAACCCACAACCGC 59.038 61.111 0.00 0.00 35.80 5.68
22 23 2.635443 GGCATGGAACCCACAACCG 61.635 63.158 0.00 0.00 35.80 4.44
23 24 0.904394 ATGGCATGGAACCCACAACC 60.904 55.000 0.00 0.00 35.80 3.77
24 25 0.247185 CATGGCATGGAACCCACAAC 59.753 55.000 19.80 0.00 35.80 3.32
25 26 0.178938 ACATGGCATGGAACCCACAA 60.179 50.000 29.49 0.00 35.80 3.33
26 27 0.899253 CACATGGCATGGAACCCACA 60.899 55.000 29.49 0.00 35.80 4.17
27 28 0.611618 TCACATGGCATGGAACCCAC 60.612 55.000 29.49 0.00 35.80 4.61
28 29 0.323633 CTCACATGGCATGGAACCCA 60.324 55.000 29.49 7.17 38.19 4.51
29 30 0.323725 ACTCACATGGCATGGAACCC 60.324 55.000 29.49 0.00 33.60 4.11
30 31 2.292267 CTACTCACATGGCATGGAACC 58.708 52.381 29.49 0.00 33.60 3.62
31 32 2.939103 GACTACTCACATGGCATGGAAC 59.061 50.000 29.49 9.47 33.60 3.62
32 33 2.092968 GGACTACTCACATGGCATGGAA 60.093 50.000 29.49 16.53 33.60 3.53
33 34 1.486310 GGACTACTCACATGGCATGGA 59.514 52.381 29.49 21.41 33.60 3.41
34 35 1.807755 CGGACTACTCACATGGCATGG 60.808 57.143 29.49 18.66 33.60 3.66
35 36 1.575244 CGGACTACTCACATGGCATG 58.425 55.000 25.31 25.31 0.00 4.06
36 37 0.179073 GCGGACTACTCACATGGCAT 60.179 55.000 0.00 0.00 0.00 4.40
37 38 1.218047 GCGGACTACTCACATGGCA 59.782 57.895 0.00 0.00 0.00 4.92
38 39 0.108138 AAGCGGACTACTCACATGGC 60.108 55.000 0.00 0.00 0.00 4.40
39 40 1.066858 ACAAGCGGACTACTCACATGG 60.067 52.381 0.00 0.00 0.00 3.66
40 41 1.995484 CACAAGCGGACTACTCACATG 59.005 52.381 0.00 0.00 0.00 3.21
41 42 1.066858 CCACAAGCGGACTACTCACAT 60.067 52.381 0.00 0.00 0.00 3.21
42 43 0.317160 CCACAAGCGGACTACTCACA 59.683 55.000 0.00 0.00 0.00 3.58
43 44 0.317479 ACCACAAGCGGACTACTCAC 59.683 55.000 0.00 0.00 0.00 3.51
44 45 0.601558 GACCACAAGCGGACTACTCA 59.398 55.000 0.00 0.00 0.00 3.41
45 46 0.108756 GGACCACAAGCGGACTACTC 60.109 60.000 0.00 0.00 0.00 2.59
46 47 1.874345 CGGACCACAAGCGGACTACT 61.874 60.000 0.00 0.00 0.00 2.57
65 66 9.673454 AGTTAATTTATTGAAAACCGAACAGAC 57.327 29.630 0.00 0.00 0.00 3.51
68 69 8.630917 TCCAGTTAATTTATTGAAAACCGAACA 58.369 29.630 0.00 0.00 0.00 3.18
69 70 8.908678 GTCCAGTTAATTTATTGAAAACCGAAC 58.091 33.333 0.00 0.00 0.00 3.95
105 106 9.921637 TTTTTGCCTCGTCAATTAATTAAGAAT 57.078 25.926 0.00 0.00 0.00 2.40
121 122 3.832704 GGGGGAAATTTTTGCCTCG 57.167 52.632 12.51 0.00 46.56 4.63
127 128 3.824443 CTCTACACACGGGGGAAATTTTT 59.176 43.478 0.00 0.00 0.00 1.94
131 132 1.946984 TCTCTACACACGGGGGAAAT 58.053 50.000 0.00 0.00 0.00 2.17
133 134 1.621814 CTTTCTCTACACACGGGGGAA 59.378 52.381 0.00 0.00 0.00 3.97
134 135 1.263356 CTTTCTCTACACACGGGGGA 58.737 55.000 0.00 0.00 0.00 4.81
136 137 2.299297 AGAACTTTCTCTACACACGGGG 59.701 50.000 0.00 0.00 29.94 5.73
201 215 6.712547 GGGCTAAACTAATATCTCATTGTGCT 59.287 38.462 0.00 0.00 0.00 4.40
203 217 8.345565 GTTGGGCTAAACTAATATCTCATTGTG 58.654 37.037 0.00 0.00 0.00 3.33
213 227 7.235804 ACTTTCCTTGTTGGGCTAAACTAATA 58.764 34.615 5.46 0.00 36.20 0.98
349 363 7.443272 TCAAATACGACGATACAGATCCTAGAA 59.557 37.037 0.00 0.00 0.00 2.10
395 409 5.622770 ATTTGTGATAGGAACGGTGAAAC 57.377 39.130 0.00 0.00 0.00 2.78
400 414 8.398878 TCTTTTAAATTTGTGATAGGAACGGT 57.601 30.769 0.00 0.00 0.00 4.83
423 437 9.178758 CCTTCTAAAATTAGTGCTACCATTTCT 57.821 33.333 0.46 0.00 32.61 2.52
424 438 7.915923 GCCTTCTAAAATTAGTGCTACCATTTC 59.084 37.037 0.46 0.00 32.61 2.17
431 445 9.456147 TGTAATTGCCTTCTAAAATTAGTGCTA 57.544 29.630 0.46 1.18 32.61 3.49
464 478 2.802816 GCACAGACACTTAACCAGACAG 59.197 50.000 0.00 0.00 0.00 3.51
465 479 2.484770 GGCACAGACACTTAACCAGACA 60.485 50.000 0.00 0.00 0.00 3.41
466 480 2.143925 GGCACAGACACTTAACCAGAC 58.856 52.381 0.00 0.00 0.00 3.51
467 481 1.071699 GGGCACAGACACTTAACCAGA 59.928 52.381 0.00 0.00 0.00 3.86
468 482 1.202758 TGGGCACAGACACTTAACCAG 60.203 52.381 0.00 0.00 0.00 4.00
470 484 2.200373 ATGGGCACAGACACTTAACC 57.800 50.000 0.00 0.00 0.00 2.85
471 485 3.270877 CCTATGGGCACAGACACTTAAC 58.729 50.000 0.00 0.00 0.00 2.01
473 487 2.546899 ACCTATGGGCACAGACACTTA 58.453 47.619 0.00 0.00 35.63 2.24
474 488 1.362224 ACCTATGGGCACAGACACTT 58.638 50.000 0.00 0.00 35.63 3.16
476 490 2.200373 AAACCTATGGGCACAGACAC 57.800 50.000 0.00 0.00 35.63 3.67
477 491 3.073209 TGTTAAACCTATGGGCACAGACA 59.927 43.478 0.00 0.00 35.63 3.41
478 492 3.681593 TGTTAAACCTATGGGCACAGAC 58.318 45.455 0.00 0.00 35.63 3.51
480 494 5.410067 CATTTGTTAAACCTATGGGCACAG 58.590 41.667 0.00 0.00 35.63 3.66
483 497 4.093011 AGCATTTGTTAAACCTATGGGCA 58.907 39.130 0.00 0.00 35.63 5.36
484 498 4.736126 AGCATTTGTTAAACCTATGGGC 57.264 40.909 0.00 0.00 35.63 5.36
576 777 0.248825 GAAACGCCAATGTGCACACA 60.249 50.000 24.37 5.85 46.44 3.72
728 933 1.694696 GGTGTGTGTCCCTCTTCTTCT 59.305 52.381 0.00 0.00 0.00 2.85
746 951 4.002906 TGTGTTCTTATTTCTGCGAGGT 57.997 40.909 0.00 0.00 0.00 3.85
747 952 6.662414 TTATGTGTTCTTATTTCTGCGAGG 57.338 37.500 0.00 0.00 0.00 4.63
786 991 6.014242 TCTCTGTCATACAACTCAATCAGGTT 60.014 38.462 0.00 0.00 0.00 3.50
816 1021 6.032094 TCGTCTGTTCCGCTAATAAACTAAG 58.968 40.000 0.00 0.00 0.00 2.18
991 1839 2.774007 CAACATCGGCATTTTCGAGTC 58.226 47.619 0.00 0.00 40.09 3.36
1242 2090 2.876645 GTCTTCCTGACGCGCGAG 60.877 66.667 39.36 24.32 35.81 5.03
1620 2471 4.704833 AACGCCATGCTCGCTGGT 62.705 61.111 5.65 0.00 36.10 4.00
1623 2474 2.816958 CAGAACGCCATGCTCGCT 60.817 61.111 5.65 0.00 0.00 4.93
1968 2819 1.299976 GGCCATGAACTCGAGGGTT 59.700 57.895 18.41 3.18 0.00 4.11
2397 3248 3.329889 ATGGACTGGAAGCCCGCA 61.330 61.111 0.00 0.00 40.73 5.69
2601 3459 0.598419 GCACCTGCCAAAAGTGAAGC 60.598 55.000 0.00 0.00 33.21 3.86
2914 3833 2.867624 ACACAAGTACGGTGACCTCTA 58.132 47.619 22.23 0.00 39.53 2.43
2927 3846 7.073265 CGTTCGAAATTTATTGGTACACAAGT 58.927 34.615 0.00 0.00 43.48 3.16
3108 4379 8.655901 AGCTCTTATATTTCTTTAGGGAGGAAG 58.344 37.037 0.00 0.00 0.00 3.46
3110 4381 9.315363 CTAGCTCTTATATTTCTTTAGGGAGGA 57.685 37.037 0.00 0.00 0.00 3.71
3167 4455 0.099436 GAATGTTCATCGGGCACAGC 59.901 55.000 0.00 0.00 0.00 4.40
3212 4500 7.095607 ACTCTCACTTTATTGCGTTACAGAAAG 60.096 37.037 0.00 0.00 38.27 2.62
3229 4517 2.288886 GCGGTGTTTCCTACTCTCACTT 60.289 50.000 0.00 0.00 0.00 3.16
3306 4597 7.083858 TGCTTCAATGACAAAACTATTGTAGC 58.916 34.615 15.97 15.97 46.40 3.58
3331 4622 0.253610 TTGTGGTGTCCCTTCGTGTT 59.746 50.000 0.00 0.00 0.00 3.32
3362 4653 0.041312 GCGTTTGACTGTGATTGCGT 60.041 50.000 0.00 0.00 0.00 5.24
3371 4662 2.027625 GGTCGGAGGCGTTTGACTG 61.028 63.158 10.49 0.00 28.75 3.51
3460 4751 7.684529 TCATACGGTTTTACCCCTAGTTTTTA 58.315 34.615 0.00 0.00 33.75 1.52
3461 4752 6.541907 TCATACGGTTTTACCCCTAGTTTTT 58.458 36.000 0.00 0.00 33.75 1.94
3528 4819 1.833787 TTGCTAACAGGTCCGGGGAC 61.834 60.000 9.40 9.40 43.87 4.46
3535 4826 3.133003 TGGCTAGATCTTGCTAACAGGTC 59.867 47.826 24.93 9.34 0.00 3.85
3537 4828 3.462021 GTGGCTAGATCTTGCTAACAGG 58.538 50.000 24.93 0.00 0.00 4.00
3539 4830 3.165058 CGTGGCTAGATCTTGCTAACA 57.835 47.619 24.93 14.06 0.00 2.41


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

AutoCloner maintained by Alex Coulton.