Multiple sequence alignment - TraesCS3A01G196300

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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 TraesCS3A01G196300 chr3A 100.000 8500 0 0 1 8500 296931199 296922700 0.000000e+00 15697.0
1 TraesCS3A01G196300 chr3B 96.761 5280 131 22 1 5269 284003579 284008829 0.000000e+00 8767.0
2 TraesCS3A01G196300 chr3B 95.348 3203 87 17 5320 8500 284009126 284012288 0.000000e+00 5033.0
3 TraesCS3A01G196300 chr3D 96.748 4428 96 15 1 4420 231718594 231722981 0.000000e+00 7336.0
4 TraesCS3A01G196300 chr3D 96.542 2429 52 7 5334 7739 231728043 231730462 0.000000e+00 3991.0
5 TraesCS3A01G196300 chr3D 96.682 874 19 6 4443 5314 231727027 231727892 0.000000e+00 1445.0
6 TraesCS3A01G196300 chr3D 91.543 473 12 5 7724 8196 231730502 231730946 2.010000e-175 627.0
7 TraesCS3A01G196300 chr3D 94.393 214 12 0 8287 8500 231730976 231731189 6.360000e-86 329.0
8 TraesCS3A01G196300 chr5D 88.333 360 28 5 4451 4796 43208517 43208158 3.670000e-113 420.0
9 TraesCS3A01G196300 chr5D 82.394 142 17 6 6242 6381 506087728 506087863 5.390000e-22 117.0
10 TraesCS3A01G196300 chr5B 90.747 281 18 4 4451 4723 40783878 40783598 1.350000e-97 368.0
11 TraesCS3A01G196300 chr4A 94.382 89 3 2 6244 6331 565304142 565304229 1.490000e-27 135.0
12 TraesCS3A01G196300 chrUn 94.318 88 3 2 6242 6328 126680584 126680498 5.350000e-27 134.0
13 TraesCS3A01G196300 chrUn 83.117 77 9 4 517 590 69337902 69337977 5.510000e-07 67.6
14 TraesCS3A01G196300 chrUn 83.117 77 9 4 517 590 69355487 69355562 5.510000e-07 67.6
15 TraesCS3A01G196300 chr7D 91.667 96 6 2 6242 6336 588081883 588081789 1.930000e-26 132.0
16 TraesCS3A01G196300 chr7A 91.667 96 6 2 6242 6336 679957124 679957030 1.930000e-26 132.0
17 TraesCS3A01G196300 chr2D 91.579 95 8 0 6242 6336 512769238 512769332 1.930000e-26 132.0
18 TraesCS3A01G196300 chr2B 91.667 96 6 2 6242 6336 153858329 153858235 1.930000e-26 132.0
19 TraesCS3A01G196300 chr5A 88.462 78 4 2 4824 4896 33002740 33002663 1.180000e-13 89.8


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 TraesCS3A01G196300 chr3A 296922700 296931199 8499 True 15697 15697 100.0000 1 8500 1 chr3A.!!$R1 8499
1 TraesCS3A01G196300 chr3B 284003579 284012288 8709 False 6900 8767 96.0545 1 8500 2 chr3B.!!$F1 8499
2 TraesCS3A01G196300 chr3D 231718594 231722981 4387 False 7336 7336 96.7480 1 4420 1 chr3D.!!$F1 4419
3 TraesCS3A01G196300 chr3D 231727027 231731189 4162 False 1598 3991 94.7900 4443 8500 4 chr3D.!!$F2 4057

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
229 230 0.107508 ATTGGATGGGCAGTGAGTCG 60.108 55.000 0.00 0.0 0.00 4.18 F
394 395 0.608856 TTGTCCCTACCGAGTACGCA 60.609 55.000 0.00 0.0 38.29 5.24 F
1817 1824 0.250901 AGCTCATCAACTTGGCCGTT 60.251 50.000 0.00 0.0 0.00 4.44 F
3451 3460 1.135094 CCCAGGACAGTGAGGCATAT 58.865 55.000 0.00 0.0 0.00 1.78 F
4156 4167 1.629861 TGTGCATGAGAATGAGACCCA 59.370 47.619 0.00 0.0 0.00 4.51 F
5824 6083 2.317040 TCTCGAGAGTGGAGTTTTGGT 58.683 47.619 12.08 0.0 33.26 3.67 F
6225 6487 2.850695 ATCTCCTACTCCCTCCGTTT 57.149 50.000 0.00 0.0 0.00 3.60 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1709 1714 0.171007 AAGCACAAATCCGAATGGCG 59.829 50.000 0.0 0.0 40.47 5.69 R
2267 2274 0.962356 AAAGGGCACAGGAGCAATCG 60.962 55.000 0.0 0.0 35.83 3.34 R
3739 3749 1.172812 GGCCTTCGGTATCCCAATGC 61.173 60.000 0.0 0.0 0.00 3.56 R
5314 5327 0.321671 CAGAGAAAAGCTGTCGGGGA 59.678 55.000 0.0 0.0 0.00 4.81 R
5919 6178 0.039708 GCAGCTCACACCAAAGCTTC 60.040 55.000 0.0 0.0 46.49 3.86 R
7226 7509 1.211457 ACTTGAGGCTGCTTGGATAGG 59.789 52.381 0.0 0.0 0.00 2.57 R
7883 8221 1.901159 AGCCATGCCAAAATAGTGCAA 59.099 42.857 0.0 0.0 38.69 4.08 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
23 24 2.115266 CCCACCAACCCAGGACAC 59.885 66.667 0.00 0.00 0.00 3.67
165 166 1.069765 CGAGGCCAACACACAGAGT 59.930 57.895 5.01 0.00 0.00 3.24
170 171 0.663153 GCCAACACACAGAGTTGTCC 59.337 55.000 0.00 0.00 43.61 4.02
171 172 2.016604 GCCAACACACAGAGTTGTCCA 61.017 52.381 0.00 0.00 43.61 4.02
223 224 2.173519 CTGAACAATTGGATGGGCAGT 58.826 47.619 10.83 0.00 0.00 4.40
227 228 1.076024 ACAATTGGATGGGCAGTGAGT 59.924 47.619 10.83 0.00 0.00 3.41
229 230 0.107508 ATTGGATGGGCAGTGAGTCG 60.108 55.000 0.00 0.00 0.00 4.18
394 395 0.608856 TTGTCCCTACCGAGTACGCA 60.609 55.000 0.00 0.00 38.29 5.24
429 430 3.136123 CCCGAGCGAACTACCCGA 61.136 66.667 0.00 0.00 0.00 5.14
453 454 0.971959 GGGCCAATGATGCTGACCAA 60.972 55.000 4.39 0.00 0.00 3.67
473 474 6.092748 ACCAACAAAAACATCTCATAATCGC 58.907 36.000 0.00 0.00 0.00 4.58
518 519 5.946942 TCAAGCTCAATCTAGAGGACAAT 57.053 39.130 0.00 0.00 36.15 2.71
601 602 2.867647 GCAAAAGGACTGCATTTGGACC 60.868 50.000 10.77 0.00 39.69 4.46
950 955 2.125310 CGCGCATCCCACCTAACA 60.125 61.111 8.75 0.00 0.00 2.41
1429 1434 1.874466 GCTCTTCCTGCGCGTCTAC 60.874 63.158 8.43 0.00 0.00 2.59
1702 1707 2.485122 GGCGTGTTGCTATGGTGC 59.515 61.111 0.00 0.00 45.43 5.01
1709 1714 1.153369 TTGCTATGGTGCGCTCCTC 60.153 57.895 27.24 14.68 35.36 3.71
1710 1715 2.659897 GCTATGGTGCGCTCCTCG 60.660 66.667 27.24 16.48 42.12 4.63
1817 1824 0.250901 AGCTCATCAACTTGGCCGTT 60.251 50.000 0.00 0.00 0.00 4.44
1971 1978 3.025107 TCGCAGAGGGGAGGGTAT 58.975 61.111 0.00 0.00 0.00 2.73
2098 2105 3.694043 TCATTCGGATGTTGTTGAGGA 57.306 42.857 3.00 0.00 34.77 3.71
2219 2226 2.073056 TCATTGGAACACGATGGAACG 58.927 47.619 0.00 0.00 40.73 3.95
2222 2229 2.465860 TGGAACACGATGGAACGATT 57.534 45.000 0.00 0.00 37.03 3.34
2510 2518 3.343941 TGTTTCTATACCCCAGTGCAC 57.656 47.619 9.40 9.40 0.00 4.57
2546 2554 6.101650 TGTTTGTTCAGATCTAAGCTCTGA 57.898 37.500 0.00 3.38 45.58 3.27
2561 2569 8.087136 TCTAAGCTCTGATTCTAGCATGTATTG 58.913 37.037 12.21 0.00 41.32 1.90
3281 3290 4.218417 CCCTTCACCATTGATCTCGTTTTT 59.782 41.667 0.00 0.00 0.00 1.94
3324 3333 3.371965 TCTGGTCAAGGGGAGTATACAC 58.628 50.000 5.50 0.00 0.00 2.90
3451 3460 1.135094 CCCAGGACAGTGAGGCATAT 58.865 55.000 0.00 0.00 0.00 1.78
3739 3749 7.509050 TTCACATTTGCATTGATGTTTATCG 57.491 32.000 7.82 0.00 34.42 2.92
3902 3913 4.584325 ACAACATCTTGTGCAAACTGGTAT 59.416 37.500 0.00 0.00 39.28 2.73
4156 4167 1.629861 TGTGCATGAGAATGAGACCCA 59.370 47.619 0.00 0.00 0.00 4.51
4221 4232 3.330701 TCCCTAGCACAGAAAAGGATTGT 59.669 43.478 0.00 0.00 0.00 2.71
4295 4306 5.560148 CACGGCAAACATTGTAACTAGATC 58.440 41.667 0.00 0.00 0.00 2.75
4338 4349 6.408891 GCCAGTAAAACCATATGTAGTACCCT 60.409 42.308 1.24 0.00 0.00 4.34
4420 4431 3.774766 TCTTAACTAGGGAGCAGCATTGA 59.225 43.478 0.00 0.00 0.00 2.57
4565 4576 4.300189 TGGGTTGTCGAAACAAATGAAG 57.700 40.909 10.99 0.00 46.56 3.02
4723 4734 4.336993 GGCCATACCTCTCATCGTCTATAG 59.663 50.000 0.00 0.00 34.51 1.31
5193 5206 5.691754 GGTTGATTAACTGGTTTTGCTGAAG 59.308 40.000 0.00 0.00 36.99 3.02
5258 5271 5.826601 TTCTTTTGCACACACAGTATTCA 57.173 34.783 0.00 0.00 0.00 2.57
5295 5308 4.135747 TGATCATACGATGACAAGGCAA 57.864 40.909 0.00 0.00 43.01 4.52
5296 5309 4.512484 TGATCATACGATGACAAGGCAAA 58.488 39.130 0.00 0.00 43.01 3.68
5297 5310 4.332543 TGATCATACGATGACAAGGCAAAC 59.667 41.667 0.00 0.00 43.01 2.93
5298 5311 3.937814 TCATACGATGACAAGGCAAACT 58.062 40.909 0.00 0.00 33.59 2.66
5365 5624 4.240096 GCGGTACAACATACTACAACTGT 58.760 43.478 0.00 0.00 0.00 3.55
5561 5820 2.340210 TTACAGTCTGCCAAGTTGCA 57.660 45.000 0.00 0.00 39.37 4.08
5716 5975 5.472137 GCTTGGGATGAGTTACAGTTTGTTA 59.528 40.000 0.00 0.00 0.00 2.41
5786 6045 6.321690 TGCTATCTTGTCTAAGTTAGGTCCTC 59.678 42.308 10.02 0.00 36.99 3.71
5824 6083 2.317040 TCTCGAGAGTGGAGTTTTGGT 58.683 47.619 12.08 0.00 33.26 3.67
6156 6418 5.409826 GGCATTTCCGAATAATCTCCTACTG 59.590 44.000 0.00 0.00 0.00 2.74
6165 6427 7.648510 CCGAATAATCTCCTACTGTTCACTTAC 59.351 40.741 0.00 0.00 0.00 2.34
6225 6487 2.850695 ATCTCCTACTCCCTCCGTTT 57.149 50.000 0.00 0.00 0.00 3.60
6504 6766 3.895041 TGTCCATATCGCTGTATCTTCCA 59.105 43.478 0.00 0.00 0.00 3.53
6774 7037 6.775629 TGAAAGTATATACCATTTCCCCTTGC 59.224 38.462 18.07 2.52 32.01 4.01
6850 7113 4.082571 GCCAGTGTTATTTGCAGATCACTT 60.083 41.667 8.38 0.00 34.57 3.16
7005 7268 4.342862 TCTTGCTGCCAGAGGATATAAC 57.657 45.455 0.00 0.00 0.00 1.89
7067 7330 9.609346 AAACTAGTTTCATACAGTGTTACTTGT 57.391 29.630 15.22 2.85 33.65 3.16
7226 7509 3.282920 GATGCCCCGCTTGCTAGC 61.283 66.667 8.10 8.10 44.21 3.42
7460 7743 6.707440 TCTATCTCAACTTCAGATGACTCC 57.293 41.667 0.00 0.00 32.61 3.85
7525 7808 2.099141 TTGCATGGTCTGACTGCTAC 57.901 50.000 18.87 0.00 36.84 3.58
7536 7819 2.822561 CTGACTGCTACTTCAGGACTCA 59.177 50.000 0.00 0.00 38.36 3.41
7790 8128 1.067199 CAATTTTGCTCAGGCGACGC 61.067 55.000 12.43 12.43 42.25 5.19
7883 8221 3.464111 ACCGTTATAGCGCCAAATAGT 57.536 42.857 2.29 0.00 0.00 2.12
7887 8225 3.001838 CGTTATAGCGCCAAATAGTTGCA 59.998 43.478 2.29 0.00 33.01 4.08
7960 8298 5.817616 AGTGTACAACGACAGAAAATACG 57.182 39.130 0.00 0.00 0.00 3.06
7961 8299 5.284079 AGTGTACAACGACAGAAAATACGT 58.716 37.500 0.00 0.00 40.64 3.57
8229 8567 7.654022 AGGATTTGTTTTTCTGGTTCTTACA 57.346 32.000 0.00 0.00 0.00 2.41
8230 8568 8.250143 AGGATTTGTTTTTCTGGTTCTTACAT 57.750 30.769 0.00 0.00 0.00 2.29
8231 8569 8.704668 AGGATTTGTTTTTCTGGTTCTTACATT 58.295 29.630 0.00 0.00 0.00 2.71
8273 8611 3.764434 ACTTCCATGGTAGATCGCGATAT 59.236 43.478 23.76 22.35 0.00 1.63
8293 8631 7.064609 GCGATATTTAACATGGCTATAGCTCAA 59.935 37.037 23.53 10.71 41.70 3.02
8303 8641 2.436173 GCTATAGCTCAAACCTCCCTGT 59.564 50.000 17.75 0.00 38.21 4.00
8433 8772 1.141053 CCTGGGGATAAAGGTTCCTCG 59.859 57.143 0.00 0.00 36.45 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
81 82 1.074248 CCTAGCCACCCGGTTGTTT 59.926 57.895 0.00 0.00 33.28 2.83
165 166 1.972752 ATGCGTGCATGCTGGACAA 60.973 52.632 29.83 10.58 38.73 3.18
210 211 0.107508 CGACTCACTGCCCATCCAAT 60.108 55.000 0.00 0.00 0.00 3.16
223 224 3.695606 GGTGCCTGCTCCGACTCA 61.696 66.667 0.00 0.00 0.00 3.41
227 228 2.604686 AAGAGGTGCCTGCTCCGA 60.605 61.111 0.00 0.00 35.01 4.55
229 230 0.957888 GTTCAAGAGGTGCCTGCTCC 60.958 60.000 2.03 2.03 0.00 4.70
272 273 1.986210 GCTCAATGGCCTTGGCCTT 60.986 57.895 28.37 20.74 35.43 4.35
327 328 0.950555 GGTCGTGTGAAGCTCATGCA 60.951 55.000 0.00 0.00 42.74 3.96
336 337 1.444119 GGCTGCTTTGGTCGTGTGAA 61.444 55.000 0.00 0.00 0.00 3.18
394 395 3.077519 GCGAGACCAGTATGCCCGT 62.078 63.158 0.00 0.00 31.97 5.28
441 442 4.341806 AGATGTTTTTGTTGGTCAGCATCA 59.658 37.500 0.00 0.00 35.34 3.07
453 454 5.121611 TGACGCGATTATGAGATGTTTTTGT 59.878 36.000 15.93 0.00 0.00 2.83
473 474 9.529325 TTGAAGATAATTGTACCTCTAATGACG 57.471 33.333 0.00 0.00 0.00 4.35
518 519 5.726397 CTGAAATGATCAAAATGCCCTTGA 58.274 37.500 0.00 0.00 37.67 3.02
586 587 0.541764 TTGGGGTCCAAATGCAGTCC 60.542 55.000 0.00 0.00 40.92 3.85
601 602 4.002797 GCTGTGGCTAAGGTTGGG 57.997 61.111 0.00 0.00 35.22 4.12
662 663 0.811915 CTCACGCTACAGTGGCTACT 59.188 55.000 7.38 0.00 42.10 2.57
774 776 1.824852 GGGGATTCAAATCTTTGCGGT 59.175 47.619 2.96 0.00 38.05 5.68
778 780 2.099756 GCGGAGGGGATTCAAATCTTTG 59.900 50.000 2.96 0.00 39.48 2.77
1658 1663 0.398318 GTGAGGTGGAAGAGCTGGTT 59.602 55.000 0.00 0.00 30.42 3.67
1709 1714 0.171007 AAGCACAAATCCGAATGGCG 59.829 50.000 0.00 0.00 40.47 5.69
1710 1715 2.262211 GAAAGCACAAATCCGAATGGC 58.738 47.619 0.00 0.00 34.14 4.40
1711 1716 2.161410 TCGAAAGCACAAATCCGAATGG 59.839 45.455 0.00 0.00 0.00 3.16
1712 1717 3.469899 TCGAAAGCACAAATCCGAATG 57.530 42.857 0.00 0.00 0.00 2.67
1713 1718 3.065371 GGATCGAAAGCACAAATCCGAAT 59.935 43.478 0.00 0.00 0.00 3.34
1714 1719 2.418628 GGATCGAAAGCACAAATCCGAA 59.581 45.455 0.00 0.00 0.00 4.30
1715 1720 2.006888 GGATCGAAAGCACAAATCCGA 58.993 47.619 0.00 0.00 0.00 4.55
1716 1721 1.737236 TGGATCGAAAGCACAAATCCG 59.263 47.619 0.00 0.00 39.00 4.18
1717 1722 2.749621 AGTGGATCGAAAGCACAAATCC 59.250 45.455 0.00 0.00 37.09 3.01
1817 1824 4.429522 TCGTCGATGGTCCCCGGA 62.430 66.667 0.73 0.00 0.00 5.14
1971 1978 7.079451 AGAAAAATAGAAACAGGGAGAGTCA 57.921 36.000 0.00 0.00 0.00 3.41
2010 2017 7.544915 ACTCTGAATATCATGTAATGCGATGAG 59.455 37.037 0.00 0.00 46.21 2.90
2098 2105 4.141482 ACATGGACTTAACTCCACTGTGTT 60.141 41.667 7.08 0.00 43.38 3.32
2222 2229 9.146984 CCTCGCCACTTTTTCGATATATAAATA 57.853 33.333 0.00 0.00 0.00 1.40
2234 2241 1.538512 GTTACCCCTCGCCACTTTTTC 59.461 52.381 0.00 0.00 0.00 2.29
2267 2274 0.962356 AAAGGGCACAGGAGCAATCG 60.962 55.000 0.00 0.00 35.83 3.34
2510 2518 9.994432 GATCTGAACAAACAATTAAGTAGATGG 57.006 33.333 0.00 0.00 0.00 3.51
2721 2729 1.340889 GACACAATGTTGCCCACACAT 59.659 47.619 0.00 0.00 38.61 3.21
3281 3290 9.170734 CCAGATAGAATTTCAAGTCAAGAATCA 57.829 33.333 0.00 0.00 0.00 2.57
3344 3353 7.902387 AACATGATAGATGGATTGATCTTCG 57.098 36.000 0.00 0.00 34.42 3.79
3451 3460 3.005684 CCAGGACATTTAACAAGCAAGCA 59.994 43.478 0.00 0.00 0.00 3.91
3553 3562 2.511218 TCTTTTGCAGCCCATCCTATCT 59.489 45.455 0.00 0.00 0.00 1.98
3707 3717 7.658167 ACATCAATGCAAATGTGAATTCTTCAA 59.342 29.630 7.05 0.00 42.15 2.69
3715 3725 6.034790 GCGATAAACATCAATGCAAATGTGAA 59.965 34.615 11.95 5.72 36.28 3.18
3724 3734 3.737266 CCCAATGCGATAAACATCAATGC 59.263 43.478 0.00 0.00 0.00 3.56
3739 3749 1.172812 GGCCTTCGGTATCCCAATGC 61.173 60.000 0.00 0.00 0.00 3.56
3902 3913 7.117236 GGTGAGAGAACGTTAACAACATAATGA 59.883 37.037 0.00 0.00 0.00 2.57
4156 4167 4.688413 GCTCTTCTCTCGAAATCTTTGTGT 59.312 41.667 0.00 0.00 0.00 3.72
4221 4232 7.348080 AGGACGACTGTATATTGATTCTTCA 57.652 36.000 0.00 0.00 0.00 3.02
4295 4306 4.889409 ACTGGCCAGGAATATTTGTACATG 59.111 41.667 35.42 6.41 0.00 3.21
4338 4349 1.153842 CACATCTACAGCGGCGACA 60.154 57.895 12.98 0.00 0.00 4.35
4420 4431 7.997223 TGTGTATCTAGCTGTAGTACTGGTAAT 59.003 37.037 16.69 14.69 31.41 1.89
4534 4545 0.958091 CGACAACCCATTCCTGCAAA 59.042 50.000 0.00 0.00 0.00 3.68
4565 4576 2.034053 TCCATCCACAAACGAAACTTGC 59.966 45.455 0.00 0.00 0.00 4.01
4723 4734 7.748241 CAGCTTCATTTTAACAGAAGAGTTAGC 59.252 37.037 12.48 0.00 40.85 3.09
5029 5040 5.001232 TCACCTCCTAGTTATGTGCAAAAC 58.999 41.667 0.00 0.00 0.00 2.43
5258 5271 9.226606 TCGTATGATCAACTGGAAAGTTAAATT 57.773 29.630 0.00 0.00 0.00 1.82
5314 5327 0.321671 CAGAGAAAAGCTGTCGGGGA 59.678 55.000 0.00 0.00 0.00 4.81
5315 5328 0.674895 CCAGAGAAAAGCTGTCGGGG 60.675 60.000 0.00 0.00 30.10 5.73
5316 5329 1.301677 GCCAGAGAAAAGCTGTCGGG 61.302 60.000 0.00 0.00 35.97 5.14
5318 5331 1.229428 TTGCCAGAGAAAAGCTGTCG 58.771 50.000 0.00 0.00 0.00 4.35
5673 5932 6.974622 CCCAAGCACATAATTCAATTGACTAC 59.025 38.462 7.89 0.00 0.00 2.73
5674 5933 6.889177 TCCCAAGCACATAATTCAATTGACTA 59.111 34.615 7.89 3.28 0.00 2.59
5786 6045 9.571810 CTCTCGAGATTATTCTGGATTTATGAG 57.428 37.037 17.03 0.00 36.31 2.90
5919 6178 0.039708 GCAGCTCACACCAAAGCTTC 60.040 55.000 0.00 0.00 46.49 3.86
6045 6304 8.581253 AAAAATCTACAAATGAACCTAGGGAG 57.419 34.615 14.81 0.00 0.00 4.30
6358 6620 4.559862 AATGTACTCCCTCTGTTCCAAG 57.440 45.455 0.00 0.00 0.00 3.61
6504 6766 4.649218 ACAAACCCTGAACAGCAAATTAGT 59.351 37.500 0.00 0.00 0.00 2.24
6774 7037 9.539825 GTTGCCTATCACTATGAGGATATAATG 57.460 37.037 0.00 0.00 31.45 1.90
6909 7172 2.293122 TGTTTTTCTTCATCTGTGCCGG 59.707 45.455 0.00 0.00 0.00 6.13
7005 7268 1.402968 CAATCAAATGCCTCACCTCCG 59.597 52.381 0.00 0.00 0.00 4.63
7081 7344 4.814771 GGTCGGAGGGAGTAATAAACATTG 59.185 45.833 0.00 0.00 0.00 2.82
7226 7509 1.211457 ACTTGAGGCTGCTTGGATAGG 59.789 52.381 0.00 0.00 0.00 2.57
7790 8128 6.403200 CCAAAAATTACTACATGAGTCACCGG 60.403 42.308 0.00 0.00 39.81 5.28
7866 8204 4.279659 GTGCAACTATTTGGCGCTATAAC 58.720 43.478 7.64 0.00 32.81 1.89
7883 8221 1.901159 AGCCATGCCAAAATAGTGCAA 59.099 42.857 0.00 0.00 38.69 4.08
7958 8296 6.859420 TGTATAAATGATTGCATGCTACGT 57.141 33.333 20.33 8.57 34.26 3.57
7959 8297 7.300320 ACATGTATAAATGATTGCATGCTACG 58.700 34.615 20.33 1.02 37.73 3.51
8042 8380 9.020731 GGTAAAACAATCTCCCAAGAAAGATTA 57.979 33.333 0.00 0.00 39.59 1.75
8251 8589 1.399714 TCGCGATCTACCATGGAAGT 58.600 50.000 21.47 0.00 0.00 3.01
8273 8611 6.423182 AGGTTTGAGCTATAGCCATGTTAAA 58.577 36.000 21.17 9.00 43.38 1.52
8293 8631 2.671070 CGGCATCACAGGGAGGTT 59.329 61.111 0.00 0.00 0.00 3.50
8303 8641 4.916983 AATAGCTTTTTATGCGGCATCA 57.083 36.364 20.34 5.60 35.28 3.07
8348 8686 4.022068 CAGCCCTGCAAACTCATTTTAAGA 60.022 41.667 0.00 0.00 0.00 2.10
8433 8772 1.456705 TTGGTGACACCCAAAGCCC 60.457 57.895 22.00 0.00 41.47 5.19


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

AutoCloner maintained by Alex Coulton.