Multiple sequence alignment - TraesCS2A01G346300

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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 TraesCS2A01G346300 chr2A 100.000 4153 0 0 1 4153 584580161 584576009 0.000000e+00 7670.0
1 TraesCS2A01G346300 chr2A 85.194 2087 206 49 837 2849 584523253 584521196 0.000000e+00 2047.0
2 TraesCS2A01G346300 chr2A 86.943 314 33 5 2846 3157 584521152 584520845 3.070000e-91 346.0
3 TraesCS2A01G346300 chr2A 89.005 191 12 3 3149 3330 584520461 584520271 1.160000e-55 228.0
4 TraesCS2A01G346300 chr2D 93.718 2770 93 32 805 3497 440969047 440966282 0.000000e+00 4076.0
5 TraesCS2A01G346300 chr2D 85.455 2097 199 45 837 2849 440784210 440782136 0.000000e+00 2085.0
6 TraesCS2A01G346300 chr2D 86.782 348 16 3 3832 4153 440955158 440954815 1.100000e-95 361.0
7 TraesCS2A01G346300 chr2D 86.705 346 20 2 3830 4153 440964090 440963749 1.100000e-95 361.0
8 TraesCS2A01G346300 chr2D 90.152 264 21 3 2895 3157 440782045 440781786 5.140000e-89 339.0
9 TraesCS2A01G346300 chr2D 89.583 192 11 3 3148 3330 440781370 440781179 6.940000e-58 235.0
10 TraesCS2A01G346300 chr2D 93.007 143 7 3 3501 3642 440966244 440966104 5.440000e-49 206.0
11 TraesCS2A01G346300 chr2D 92.857 112 7 1 3822 3933 440780411 440780301 1.190000e-35 161.0
12 TraesCS2A01G346300 chr2D 78.846 208 28 10 3927 4128 440779907 440779710 4.360000e-25 126.0
13 TraesCS2A01G346300 chr2D 90.541 74 4 2 728 799 440972730 440972658 1.230000e-15 95.3
14 TraesCS2A01G346300 chr2B 85.948 1715 147 35 837 2475 518753871 518752175 0.000000e+00 1746.0
15 TraesCS2A01G346300 chr2B 90.661 1317 87 18 803 2095 518760266 518758962 0.000000e+00 1718.0
16 TraesCS2A01G346300 chr2B 88.263 1474 84 43 2099 3497 518758898 518757439 0.000000e+00 1681.0
17 TraesCS2A01G346300 chr2B 95.710 303 11 2 3852 4153 518756688 518756387 1.740000e-133 486.0
18 TraesCS2A01G346300 chr2B 91.667 264 20 2 2895 3157 518751627 518751365 8.480000e-97 364.0
19 TraesCS2A01G346300 chr2B 82.609 299 36 10 3835 4125 518750584 518750294 2.480000e-62 250.0
20 TraesCS2A01G346300 chr2B 94.690 113 4 1 621 731 518761086 518760974 1.530000e-39 174.0
21 TraesCS2A01G346300 chr1A 93.255 593 38 2 32 622 4318678 4318086 0.000000e+00 872.0
22 TraesCS2A01G346300 chr4A 93.063 591 38 3 32 620 609949088 609948499 0.000000e+00 861.0
23 TraesCS2A01G346300 chr4A 92.893 591 40 2 32 620 610003825 610003235 0.000000e+00 857.0
24 TraesCS2A01G346300 chr4A 92.893 591 40 2 32 620 610013837 610013247 0.000000e+00 857.0
25 TraesCS2A01G346300 chr4A 92.724 591 41 2 32 620 609999695 609999105 0.000000e+00 852.0
26 TraesCS2A01G346300 chr4A 92.724 591 41 2 32 620 610009705 610009115 0.000000e+00 852.0
27 TraesCS2A01G346300 chr4A 92.555 591 42 2 32 620 609953219 609952629 0.000000e+00 846.0
28 TraesCS2A01G346300 chr4A 92.217 591 44 2 32 620 610019714 610019124 0.000000e+00 835.0
29 TraesCS2A01G346300 chr3A 91.394 581 45 3 32 610 441194419 441193842 0.000000e+00 791.0


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 TraesCS2A01G346300 chr2A 584576009 584580161 4152 True 7670.000000 7670 100.000000 1 4153 1 chr2A.!!$R1 4152
1 TraesCS2A01G346300 chr2A 584520271 584523253 2982 True 873.666667 2047 87.047333 837 3330 3 chr2A.!!$R2 2493
2 TraesCS2A01G346300 chr2D 440963749 440972730 8981 True 1184.575000 4076 90.992750 728 4153 4 chr2D.!!$R3 3425
3 TraesCS2A01G346300 chr2D 440779710 440784210 4500 True 589.200000 2085 87.378600 837 4128 5 chr2D.!!$R2 3291
4 TraesCS2A01G346300 chr2B 518750294 518761086 10792 True 917.000000 1746 89.935429 621 4153 7 chr2B.!!$R1 3532
5 TraesCS2A01G346300 chr1A 4318086 4318678 592 True 872.000000 872 93.255000 32 622 1 chr1A.!!$R1 590
6 TraesCS2A01G346300 chr4A 609999105 610003825 4720 True 854.500000 857 92.808500 32 620 2 chr4A.!!$R3 588
7 TraesCS2A01G346300 chr4A 610009115 610013837 4722 True 854.500000 857 92.808500 32 620 2 chr4A.!!$R4 588
8 TraesCS2A01G346300 chr4A 609948499 609953219 4720 True 853.500000 861 92.809000 32 620 2 chr4A.!!$R2 588
9 TraesCS2A01G346300 chr4A 610019124 610019714 590 True 835.000000 835 92.217000 32 620 1 chr4A.!!$R1 588
10 TraesCS2A01G346300 chr3A 441193842 441194419 577 True 791.000000 791 91.394000 32 610 1 chr3A.!!$R1 578

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
25 26 0.039618 ACCACCAGGCCGAAATCATT 59.960 50.0 0.00 0.0 39.06 2.57 F
1420 13416 0.102120 CTTTGCCCGCAACAAACTGA 59.898 50.0 0.61 0.0 35.46 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1429 13425 0.107165 ACCTGGAGCCGGAATTTAGC 60.107 55.0 5.05 0.0 0.00 3.09 R
3253 15942 0.247736 CAGAGCACTAAGGCGGTTCT 59.752 55.0 0.00 0.0 39.27 3.01 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
19 20 4.263572 CACCACCACCAGGCCGAA 62.264 66.667 0.00 0.00 39.06 4.30
20 21 3.494254 ACCACCACCAGGCCGAAA 61.494 61.111 0.00 0.00 39.06 3.46
21 22 2.035626 CCACCACCAGGCCGAAAT 59.964 61.111 0.00 0.00 39.06 2.17
22 23 2.046285 CCACCACCAGGCCGAAATC 61.046 63.158 0.00 0.00 39.06 2.17
23 24 1.303236 CACCACCAGGCCGAAATCA 60.303 57.895 0.00 0.00 39.06 2.57
24 25 0.680921 CACCACCAGGCCGAAATCAT 60.681 55.000 0.00 0.00 39.06 2.45
25 26 0.039618 ACCACCAGGCCGAAATCATT 59.960 50.000 0.00 0.00 39.06 2.57
26 27 1.283613 ACCACCAGGCCGAAATCATTA 59.716 47.619 0.00 0.00 39.06 1.90
27 28 2.091885 ACCACCAGGCCGAAATCATTAT 60.092 45.455 0.00 0.00 39.06 1.28
28 29 2.958355 CCACCAGGCCGAAATCATTATT 59.042 45.455 0.00 0.00 0.00 1.40
29 30 4.141287 CCACCAGGCCGAAATCATTATTA 58.859 43.478 0.00 0.00 0.00 0.98
30 31 4.766891 CCACCAGGCCGAAATCATTATTAT 59.233 41.667 0.00 0.00 0.00 1.28
144 4276 0.531200 AAAACGCCGAGCTAGCTAGT 59.469 50.000 19.38 12.63 0.00 2.57
161 4293 7.119262 GCTAGCTAGTGTTCTTGTCCAAATAAA 59.881 37.037 21.62 0.00 0.00 1.40
281 4414 2.042537 TCCTCAGCCGCCAGAGAT 60.043 61.111 11.06 0.00 33.74 2.75
370 4503 3.624959 GCTTCATAACCAGGGCCTAAACT 60.625 47.826 5.28 0.00 0.00 2.66
383 4516 2.890945 GCCTAAACTCCAAGCCTTTTGA 59.109 45.455 0.00 0.00 0.00 2.69
393 4526 4.641094 TCCAAGCCTTTTGACGTTTCTTAA 59.359 37.500 0.00 0.00 0.00 1.85
405 4538 7.033530 TGACGTTTCTTAATTGGTCACAAAT 57.966 32.000 0.00 0.00 40.55 2.32
441 4574 4.048504 GCGTTGCTTACTTGGTGAAAAAT 58.951 39.130 0.00 0.00 0.00 1.82
470 4603 3.484649 CGACTTCGACGTTTCTTCTTTGA 59.515 43.478 0.00 0.00 43.02 2.69
491 4624 3.313012 TCAAAAACGCTAGCTAGCTCA 57.687 42.857 36.02 7.77 46.85 4.26
492 4625 3.659786 TCAAAAACGCTAGCTAGCTCAA 58.340 40.909 36.02 16.14 46.85 3.02
495 4628 0.809385 AACGCTAGCTAGCTCAACGA 59.191 50.000 36.02 11.53 46.85 3.85
516 8782 8.369588 CAACGATTTTATGTTGGATAAAAACGG 58.630 33.333 22.41 10.38 45.43 4.44
551 8818 4.487948 CGTTACAAAAGGGTCAGATCGTA 58.512 43.478 0.00 0.00 0.00 3.43
677 8944 1.609072 GCGGAAGGCCAATTAAGATCC 59.391 52.381 5.01 0.00 34.80 3.36
685 8952 2.618709 GCCAATTAAGATCCAGGGTTCG 59.381 50.000 0.00 0.00 0.00 3.95
720 8989 4.752879 CGGAGCCGCGGAGGAAAA 62.753 66.667 33.48 0.00 45.00 2.29
721 8990 2.820037 GGAGCCGCGGAGGAAAAG 60.820 66.667 33.48 0.00 45.00 2.27
763 9085 0.455815 GATCATTGTCCGGCCCAAAC 59.544 55.000 9.94 0.00 0.00 2.93
771 9093 4.614036 CGGCCCAAACCAACCCCT 62.614 66.667 0.00 0.00 0.00 4.79
776 9098 1.074248 CCAAACCAACCCCTAGCGT 59.926 57.895 0.00 0.00 0.00 5.07
792 9116 1.300620 CGTGCAACAGAGGACCGAA 60.301 57.895 0.00 0.00 35.74 4.30
795 9119 1.070786 GCAACAGAGGACCGAACCA 59.929 57.895 0.00 0.00 0.00 3.67
798 9122 2.504367 CAACAGAGGACCGAACCATTT 58.496 47.619 0.00 0.00 0.00 2.32
799 9123 2.474410 ACAGAGGACCGAACCATTTC 57.526 50.000 0.00 0.00 0.00 2.17
800 9124 1.978580 ACAGAGGACCGAACCATTTCT 59.021 47.619 0.00 0.00 0.00 2.52
801 9125 2.028020 ACAGAGGACCGAACCATTTCTC 60.028 50.000 0.00 0.00 0.00 2.87
1302 13298 0.670162 ACGTCTTCTTCCCGAACGAA 59.330 50.000 0.00 0.00 0.00 3.85
1341 13337 2.506438 GTCACCAGCTACGCCGAC 60.506 66.667 0.00 0.00 0.00 4.79
1380 13376 1.414919 GTCCCCAATGGCATACTCGTA 59.585 52.381 0.00 0.00 0.00 3.43
1420 13416 0.102120 CTTTGCCCGCAACAAACTGA 59.898 50.000 0.61 0.00 35.46 3.41
1429 13425 1.126846 GCAACAAACTGATCGAGACCG 59.873 52.381 0.00 0.00 37.07 4.79
1470 13478 1.141881 CCAGGTCGCGCTCTACATT 59.858 57.895 5.56 0.00 0.00 2.71
1600 13609 5.677319 TTAAGAATCACGATCTGGTTCCT 57.323 39.130 11.99 5.17 40.52 3.36
1620 13629 3.044305 GCACGTGCTCCTCACACC 61.044 66.667 32.55 0.00 45.92 4.16
1720 13729 6.867550 TCACTGTAACTGACCTGATATTCTG 58.132 40.000 0.00 0.00 0.00 3.02
1769 13779 6.889177 TGAAATGTATTCCTGTTTGAGCCATA 59.111 34.615 0.00 0.00 0.00 2.74
1774 13784 3.153369 TCCTGTTTGAGCCATAAAGCA 57.847 42.857 0.00 0.00 34.23 3.91
1934 13986 4.097892 GCTATAATTCACCAACCAACTGGG 59.902 45.833 0.00 0.00 41.16 4.45
1956 14008 8.517323 TGGGGCATTTTATTTTATCCCATTAT 57.483 30.769 0.00 0.00 38.18 1.28
1958 14010 8.825774 GGGGCATTTTATTTTATCCCATTATCT 58.174 33.333 0.00 0.00 34.04 1.98
1959 14011 9.657419 GGGCATTTTATTTTATCCCATTATCTG 57.343 33.333 0.00 0.00 32.68 2.90
1960 14012 9.657419 GGCATTTTATTTTATCCCATTATCTGG 57.343 33.333 0.00 0.00 45.51 3.86
1967 14019 8.608185 ATTTTATCCCATTATCTGGTTTGTGT 57.392 30.769 0.00 0.00 44.30 3.72
1968 14020 9.707957 ATTTTATCCCATTATCTGGTTTGTGTA 57.292 29.630 0.00 0.00 44.30 2.90
1969 14021 8.746052 TTTATCCCATTATCTGGTTTGTGTAG 57.254 34.615 0.00 0.00 44.30 2.74
1970 14022 6.575244 ATCCCATTATCTGGTTTGTGTAGA 57.425 37.500 0.00 0.00 44.30 2.59
2143 14272 2.914941 AGGGCATACATATCCTGATGCA 59.085 45.455 7.88 0.00 45.22 3.96
2356 14521 4.991153 TGTGTAGAATCAGGACTAGCAG 57.009 45.455 0.00 0.00 0.00 4.24
2413 14578 9.552114 GATGCTACTTTGATGAACATAATATGC 57.448 33.333 0.00 0.00 0.00 3.14
2416 14581 8.019669 GCTACTTTGATGAACATAATATGCTGG 58.980 37.037 0.00 0.00 0.00 4.85
2420 14585 7.643569 TTGATGAACATAATATGCTGGTGTT 57.356 32.000 0.00 0.00 35.87 3.32
2477 14642 3.833070 CGGGATAAGCTAGTAGGTTGGAT 59.167 47.826 22.00 10.35 36.49 3.41
2552 14718 7.229306 TCAGATGTGTTGCTTTCAGAGTTAATT 59.771 33.333 0.00 0.00 0.00 1.40
2657 14824 7.770433 TCTGTTGCATATTTTCTACAGCAGTAT 59.230 33.333 6.11 0.00 39.62 2.12
3003 15227 5.010213 GTGGTACTCTAGGTTCTGATGATCC 59.990 48.000 0.00 0.00 33.36 3.36
3211 15899 3.072476 AGCACTGCCAGTTAAAACTCCTA 59.928 43.478 0.00 0.00 37.08 2.94
3247 15936 4.369182 TGTTTTCTCGAGGAACAGAAGTC 58.631 43.478 22.78 5.70 33.13 3.01
3248 15937 3.662247 TTTCTCGAGGAACAGAAGTCC 57.338 47.619 13.56 0.00 33.13 3.85
3249 15938 2.588464 TCTCGAGGAACAGAAGTCCT 57.412 50.000 13.56 0.00 36.43 3.85
3251 15940 4.030314 TCTCGAGGAACAGAAGTCCTTA 57.970 45.455 13.56 0.00 33.37 2.69
3253 15942 5.752650 TCTCGAGGAACAGAAGTCCTTATA 58.247 41.667 13.56 0.00 33.37 0.98
3297 15987 6.583806 GTCTTTACATCTGCTTGTCAATTTGG 59.416 38.462 0.00 0.00 0.00 3.28
3371 16092 6.183360 TGCTAGTATTGCTACCCGAAATAGTT 60.183 38.462 0.00 0.00 30.79 2.24
3457 16186 1.746787 GGGACCGTTGTTTGTTTGACT 59.253 47.619 0.00 0.00 0.00 3.41
3489 16218 1.229428 CTGCAACATCAGGAACGTGT 58.771 50.000 0.00 0.00 0.00 4.49
3498 16227 6.465439 ACATCAGGAACGTGTGATATCTAA 57.535 37.500 3.98 0.00 31.99 2.10
3499 16228 6.273825 ACATCAGGAACGTGTGATATCTAAC 58.726 40.000 3.98 1.59 31.99 2.34
3517 16285 3.570926 AACGCAGTAAGACGAGAATGA 57.429 42.857 0.00 0.00 45.00 2.57
3549 16317 2.229784 GTGAACCTGCAGCTAATTTGCT 59.770 45.455 8.66 8.67 45.18 3.91
3568 16562 0.109723 TTTTACCGCCACTCCAGCTT 59.890 50.000 0.00 0.00 0.00 3.74
3623 16619 8.137437 GCAATTGTACAGATAAAACAGCCATAT 58.863 33.333 7.40 0.00 0.00 1.78
3693 17158 6.596888 TCTCAAGCATTTTCATCTCGAAAGAT 59.403 34.615 0.00 0.00 44.32 2.40
3736 17202 9.765795 AGAAAATATCTACACGGAGATTTAAGG 57.234 33.333 0.00 0.00 36.51 2.69
3763 17229 2.103601 AGAAAACAAGCCTGCAAATGCT 59.896 40.909 6.97 0.00 42.66 3.79
3803 17282 0.464373 TGCAATAGCTAGGCAGGCAC 60.464 55.000 16.44 0.00 42.74 5.01
3949 18817 1.692411 AGCACACCCTTCTTTGGAAC 58.308 50.000 0.00 0.00 0.00 3.62
3955 18823 4.159506 CACACCCTTCTTTGGAACAGAAAA 59.840 41.667 0.00 0.00 42.39 2.29
3967 19233 8.839310 TTTGGAACAGAAAATTGACAAAAAGA 57.161 26.923 0.00 0.00 42.39 2.52
4089 19383 9.751542 TTTGAGTTAATTTTCTCCGCATTTTTA 57.248 25.926 6.98 0.00 0.00 1.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.783362 TTTCGGCCTGGTGGTGGTG 62.783 63.158 0.00 0.00 35.27 4.17
3 4 2.764637 GATTTCGGCCTGGTGGTGGT 62.765 60.000 0.00 0.00 35.27 4.16
4 5 2.035626 ATTTCGGCCTGGTGGTGG 59.964 61.111 0.00 0.00 35.27 4.61
5 6 0.680921 ATGATTTCGGCCTGGTGGTG 60.681 55.000 0.00 0.00 35.27 4.17
6 7 0.039618 AATGATTTCGGCCTGGTGGT 59.960 50.000 0.00 0.00 35.27 4.16
7 8 2.051334 TAATGATTTCGGCCTGGTGG 57.949 50.000 0.00 0.00 0.00 4.61
8 9 5.702865 CATAATAATGATTTCGGCCTGGTG 58.297 41.667 0.00 0.00 34.84 4.17
9 10 4.218417 GCATAATAATGATTTCGGCCTGGT 59.782 41.667 0.00 0.00 34.84 4.00
10 11 4.218200 TGCATAATAATGATTTCGGCCTGG 59.782 41.667 0.00 0.00 34.84 4.45
11 12 5.375417 TGCATAATAATGATTTCGGCCTG 57.625 39.130 0.00 0.00 34.84 4.85
12 13 6.040842 AGTTTGCATAATAATGATTTCGGCCT 59.959 34.615 0.00 0.00 34.84 5.19
13 14 6.215845 AGTTTGCATAATAATGATTTCGGCC 58.784 36.000 0.00 0.00 34.84 6.13
14 15 7.698836 AAGTTTGCATAATAATGATTTCGGC 57.301 32.000 0.00 0.00 34.84 5.54
30 31 8.963130 CGAGTTTATTTTGTGATAAAGTTTGCA 58.037 29.630 0.00 0.00 36.03 4.08
50 51 8.301730 TCGTGAAATAGTTTTATGTCGAGTTT 57.698 30.769 0.00 0.00 0.00 2.66
61 62 9.442047 AAAGAGATCAGATCGTGAAATAGTTTT 57.558 29.630 4.67 0.00 39.19 2.43
84 85 0.663153 GGGCTATGGCGTTGCTAAAG 59.337 55.000 12.65 0.00 39.81 1.85
108 109 5.974751 GGCGTTTTCATTTTAGACAGAAACA 59.025 36.000 0.00 0.00 30.47 2.83
161 4293 1.854227 GCTAGCTATCTCGGCGTTTT 58.146 50.000 7.70 0.00 34.52 2.43
309 4442 2.024176 TCTATGAAGGCTGGAAACGC 57.976 50.000 0.00 0.00 0.00 4.84
370 4503 2.650322 AGAAACGTCAAAAGGCTTGGA 58.350 42.857 0.00 0.00 0.00 3.53
383 4516 5.689961 GCATTTGTGACCAATTAAGAAACGT 59.310 36.000 0.00 0.00 0.00 3.99
393 4526 3.579586 AGTTCATGGCATTTGTGACCAAT 59.420 39.130 0.00 0.00 36.94 3.16
441 4574 4.753877 CGTCGAAGTCGCTCGGCA 62.754 66.667 6.76 0.00 43.59 5.69
491 4624 7.062488 GCCGTTTTTATCCAACATAAAATCGTT 59.938 33.333 19.17 0.00 40.88 3.85
492 4625 6.528774 GCCGTTTTTATCCAACATAAAATCGT 59.471 34.615 19.17 0.00 40.88 3.73
495 4628 5.289917 GCGCCGTTTTTATCCAACATAAAAT 59.710 36.000 0.00 0.00 34.60 1.82
533 8799 7.166167 AGTATTTTACGATCTGACCCTTTTGT 58.834 34.615 0.00 0.00 0.00 2.83
551 8818 4.720530 AAACTCGACGCGAAAGTATTTT 57.279 36.364 15.93 1.69 39.27 1.82
763 9085 2.033448 TTGCACGCTAGGGGTTGG 59.967 61.111 11.95 0.00 0.00 3.77
771 9093 1.292223 GGTCCTCTGTTGCACGCTA 59.708 57.895 0.00 0.00 0.00 4.26
776 9098 1.070786 GGTTCGGTCCTCTGTTGCA 59.929 57.895 0.00 0.00 0.00 4.08
959 12945 1.985684 CGAATTTTTCGCCTGCCTTTC 59.014 47.619 0.00 0.00 46.97 2.62
1211 13197 2.718073 CGGAAATCGTCGGGGAGGT 61.718 63.158 0.00 0.00 0.00 3.85
1341 13337 1.699656 CGTTCTCCTGCGCCATCTTG 61.700 60.000 4.18 0.00 0.00 3.02
1420 13416 1.269621 CCGGAATTTAGCGGTCTCGAT 60.270 52.381 0.00 0.00 39.00 3.59
1429 13425 0.107165 ACCTGGAGCCGGAATTTAGC 60.107 55.000 5.05 0.00 0.00 3.09
1522 13531 1.400494 CTACATTAAACGCCAGCCACC 59.600 52.381 0.00 0.00 0.00 4.61
1620 13629 1.075425 CAGCGTCTTCTTCTGCTCCG 61.075 60.000 0.00 0.00 34.99 4.63
1720 13729 3.620929 AATGTCATGCTTGCATCGATC 57.379 42.857 4.99 0.00 0.00 3.69
1769 13779 7.763528 TGTTTGTTCACAATGATTAACTGCTTT 59.236 29.630 0.00 0.00 35.55 3.51
1934 13986 9.657419 CCAGATAATGGGATAAAATAAAATGCC 57.343 33.333 0.00 0.00 46.36 4.40
2143 14272 8.469309 AAATGGCTTATCTACTATTTGTGCAT 57.531 30.769 0.00 0.00 0.00 3.96
2335 14500 3.131223 GCTGCTAGTCCTGATTCTACACA 59.869 47.826 0.00 0.00 0.00 3.72
2356 14521 4.697352 AGGTCTTACACATGATCAGTTTGC 59.303 41.667 0.00 0.00 0.00 3.68
2413 14578 2.945008 TCTCAGCTTTTCACAACACCAG 59.055 45.455 0.00 0.00 0.00 4.00
2416 14581 4.736793 CACAATCTCAGCTTTTCACAACAC 59.263 41.667 0.00 0.00 0.00 3.32
2420 14585 4.512944 GTCTCACAATCTCAGCTTTTCACA 59.487 41.667 0.00 0.00 0.00 3.58
2518 14684 1.198637 GCAACACATCTGAAGCAGACC 59.801 52.381 0.00 0.00 43.63 3.85
2575 14741 6.656902 ACCTATGGGATACATAATGCTCATG 58.343 40.000 0.25 0.00 41.33 3.07
2589 14755 3.711704 CACAGACCACTAACCTATGGGAT 59.288 47.826 0.25 0.00 40.59 3.85
2657 14824 4.935205 CCTGACGTTATCCAACAGATCAAA 59.065 41.667 0.00 0.00 36.33 2.69
2880 15099 3.388024 AGAGCTCCTAGTGTTTTGTCACA 59.612 43.478 10.93 0.00 40.37 3.58
2881 15100 3.996480 AGAGCTCCTAGTGTTTTGTCAC 58.004 45.455 10.93 0.00 38.46 3.67
3003 15227 1.458445 CGTCATCACAAGACAGCACAG 59.542 52.381 0.00 0.00 35.77 3.66
3122 15346 8.498358 ACAACATAGCGATATGTCACATATTTG 58.502 33.333 25.15 18.50 39.54 2.32
3211 15899 7.035840 TCGAGAAAACAAGTGTCTACTACTT 57.964 36.000 0.00 0.00 38.84 2.24
3247 15936 3.069729 AGCACTAAGGCGGTTCTATAAGG 59.930 47.826 0.00 0.00 39.27 2.69
3248 15937 4.038162 AGAGCACTAAGGCGGTTCTATAAG 59.962 45.833 0.00 0.00 39.27 1.73
3249 15938 3.958798 AGAGCACTAAGGCGGTTCTATAA 59.041 43.478 0.00 0.00 39.27 0.98
3251 15940 2.101582 CAGAGCACTAAGGCGGTTCTAT 59.898 50.000 0.00 0.00 39.27 1.98
3253 15942 0.247736 CAGAGCACTAAGGCGGTTCT 59.752 55.000 0.00 0.00 39.27 3.01
3297 15987 3.170791 TGCTAGCTAACAGAGTCATGC 57.829 47.619 17.23 0.00 0.00 4.06
3347 16068 5.780984 ACTATTTCGGGTAGCAATACTAGC 58.219 41.667 0.00 0.00 46.62 3.42
3348 16069 6.645415 CCAACTATTTCGGGTAGCAATACTAG 59.355 42.308 0.00 0.00 0.00 2.57
3349 16070 6.098695 ACCAACTATTTCGGGTAGCAATACTA 59.901 38.462 0.00 0.00 0.00 1.82
3350 16071 5.104652 ACCAACTATTTCGGGTAGCAATACT 60.105 40.000 0.00 0.00 0.00 2.12
3351 16072 5.121105 ACCAACTATTTCGGGTAGCAATAC 58.879 41.667 0.00 0.00 0.00 1.89
3352 16073 5.129815 AGACCAACTATTTCGGGTAGCAATA 59.870 40.000 0.00 0.00 32.77 1.90
3353 16074 4.080526 AGACCAACTATTTCGGGTAGCAAT 60.081 41.667 0.00 0.00 32.77 3.56
3371 16092 1.546923 TGAACTCCGCGAATTAGACCA 59.453 47.619 8.23 0.84 0.00 4.02
3426 16147 1.779061 AACGGTCCCAGAAGGCATGT 61.779 55.000 0.00 0.00 34.51 3.21
3457 16186 4.037803 TGATGTTGCAGCTTTTCTTTGCTA 59.962 37.500 1.17 0.00 37.81 3.49
3489 16218 5.756833 TCTCGTCTTACTGCGTTAGATATCA 59.243 40.000 5.32 0.00 0.00 2.15
3498 16227 2.228103 TGTCATTCTCGTCTTACTGCGT 59.772 45.455 0.00 0.00 0.00 5.24
3499 16228 2.848887 CTGTCATTCTCGTCTTACTGCG 59.151 50.000 0.00 0.00 0.00 5.18
3517 16285 0.464373 CAGGTTCACCACACTGCTGT 60.464 55.000 0.00 0.00 38.89 4.40
3549 16317 0.109723 AAGCTGGAGTGGCGGTAAAA 59.890 50.000 0.00 0.00 34.52 1.52
3568 16562 5.828299 AACAGAAAAAGGTTCGTTGATCA 57.172 34.783 0.00 0.00 0.00 2.92
3606 16602 6.381481 TTCTGCATATGGCTGTTTTATCTG 57.619 37.500 4.56 0.00 45.15 2.90
3736 17202 2.159114 TGCAGGCTTGTTTTCTGGTTTC 60.159 45.455 0.00 0.00 0.00 2.78
3803 17282 5.882557 ACTGTCACTATTTTAATGCCTCCAG 59.117 40.000 0.00 0.00 0.00 3.86
3949 18817 7.756722 AGTGAGTGTCTTTTTGTCAATTTTCTG 59.243 33.333 0.00 0.00 0.00 3.02
3955 18823 5.440610 AGGAGTGAGTGTCTTTTTGTCAAT 58.559 37.500 0.00 0.00 0.00 2.57
3967 19233 2.736670 AAGGCAAAAGGAGTGAGTGT 57.263 45.000 0.00 0.00 0.00 3.55
4000 19266 6.071616 TGTTGGCAAAGACAAAACTAAAGAGT 60.072 34.615 0.00 0.00 37.59 3.24


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

AutoCloner maintained by Alex Coulton.