Multiple sequence alignment - TraesCS6A01G061400

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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 TraesCS6A01G061400 chr6A 100.000 2630 0 0 1 2630 32918445 32921074 0.000000e+00 4857.0
1 TraesCS6A01G061400 chr6A 92.949 156 5 2 1055 1207 32919454 32919606 3.410000e-54 222.0
2 TraesCS6A01G061400 chr6A 92.949 156 5 2 1010 1162 32919499 32919651 3.410000e-54 222.0
3 TraesCS6A01G061400 chr6A 92.593 108 5 1 1103 1207 32919454 32919561 4.530000e-33 152.0
4 TraesCS6A01G061400 chr6D 89.053 1690 67 40 634 2257 29740668 29739031 0.000000e+00 1988.0
5 TraesCS6A01G061400 chr6D 91.667 348 26 3 1 347 29742817 29742472 1.830000e-131 479.0
6 TraesCS6A01G061400 chr6D 92.790 319 23 0 2312 2630 29736570 29736252 1.840000e-126 462.0
7 TraesCS6A01G061400 chr6D 96.691 272 5 4 335 602 29740943 29740672 1.440000e-122 449.0
8 TraesCS6A01G061400 chr6D 96.842 95 0 1 1124 1215 29740297 29740203 3.500000e-34 156.0
9 TraesCS6A01G061400 chr6D 100.000 39 0 0 1169 1207 29740297 29740259 3.630000e-09 73.1
10 TraesCS6A01G061400 chr6B 85.201 919 59 37 1118 1989 58076902 58077790 0.000000e+00 872.0
11 TraesCS6A01G061400 chr6B 89.558 565 57 2 1 564 58075921 58076484 0.000000e+00 715.0
12 TraesCS6A01G061400 chr6B 84.853 680 54 23 1991 2627 58077827 58078500 7.940000e-180 640.0
13 TraesCS6A01G061400 chr6B 85.412 473 25 9 671 1117 58076540 58076994 3.990000e-123 451.0
14 TraesCS6A01G061400 chr7B 86.436 752 69 18 1893 2630 94997005 94996273 0.000000e+00 793.0
15 TraesCS6A01G061400 chr4D 84.337 747 69 22 1893 2627 358698419 358699129 0.000000e+00 688.0
16 TraesCS6A01G061400 chr5B 86.000 100 13 1 1101 1200 63850926 63850828 3.580000e-19 106.0


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 TraesCS6A01G061400 chr6A 32918445 32921074 2629 False 1363.250000 4857 94.622750 1 2630 4 chr6A.!!$F1 2629
1 TraesCS6A01G061400 chr6D 29736252 29742817 6565 True 601.183333 1988 94.507167 1 2630 6 chr6D.!!$R1 2629
2 TraesCS6A01G061400 chr6B 58075921 58078500 2579 False 669.500000 872 86.256000 1 2627 4 chr6B.!!$F1 2626
3 TraesCS6A01G061400 chr7B 94996273 94997005 732 True 793.000000 793 86.436000 1893 2630 1 chr7B.!!$R1 737
4 TraesCS6A01G061400 chr4D 358698419 358699129 710 False 688.000000 688 84.337000 1893 2627 1 chr4D.!!$F1 734

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
618 2166 0.846015 CCATGGAGGTTATGGGCTCA 59.154 55.0 5.56 0.0 41.11 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1687 3268 0.517316 GTAGAGCCAAGCAACCGTTG 59.483 55.0 6.91 6.91 0.0 4.1 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
42 43 5.447413 CGTCGATCATATAACATAGCCTCGT 60.447 44.000 0.00 0.00 0.00 4.18
140 142 1.137675 CCCTTGGTAGCCTAACGTACC 59.862 57.143 0.00 0.00 39.44 3.34
151 154 3.181527 GCCTAACGTACCGTGATTGAAAC 60.182 47.826 0.00 0.00 39.99 2.78
153 156 4.325472 CCTAACGTACCGTGATTGAAACTC 59.675 45.833 0.00 0.00 39.99 3.01
203 206 1.938585 TCGTCCACTTCTTCCTCCAT 58.061 50.000 0.00 0.00 0.00 3.41
209 212 5.065218 CGTCCACTTCTTCCTCCATATTTTG 59.935 44.000 0.00 0.00 0.00 2.44
217 220 6.283694 TCTTCCTCCATATTTTGTCTGATCG 58.716 40.000 0.00 0.00 0.00 3.69
264 267 8.223177 TGTATTTCCTTTCCGAAACAAAACTA 57.777 30.769 0.00 0.00 34.68 2.24
292 295 9.869844 CTATATCACTTTTCCTCTTTAAATGCG 57.130 33.333 0.00 0.00 0.00 4.73
293 296 6.575162 ATCACTTTTCCTCTTTAAATGCGT 57.425 33.333 0.00 0.00 0.00 5.24
313 316 6.511416 TGCGTTGTAGTTTTGGTTAGTAGTA 58.489 36.000 0.00 0.00 0.00 1.82
613 2161 5.937975 AAACAAATCCATGGAGGTTATGG 57.062 39.130 21.33 7.72 45.17 2.74
614 2162 3.914771 ACAAATCCATGGAGGTTATGGG 58.085 45.455 21.33 7.39 44.18 4.00
615 2163 2.629617 CAAATCCATGGAGGTTATGGGC 59.370 50.000 21.33 0.00 44.18 5.36
616 2164 1.838611 ATCCATGGAGGTTATGGGCT 58.161 50.000 21.33 0.00 44.18 5.19
617 2165 1.140312 TCCATGGAGGTTATGGGCTC 58.860 55.000 11.44 0.00 44.18 4.70
618 2166 0.846015 CCATGGAGGTTATGGGCTCA 59.154 55.000 5.56 0.00 41.11 4.26
619 2167 1.215173 CCATGGAGGTTATGGGCTCAA 59.785 52.381 5.56 0.00 41.11 3.02
620 2168 2.358090 CCATGGAGGTTATGGGCTCAAA 60.358 50.000 5.56 0.00 41.11 2.69
621 2169 3.364549 CATGGAGGTTATGGGCTCAAAA 58.635 45.455 0.00 0.00 0.00 2.44
622 2170 3.756082 TGGAGGTTATGGGCTCAAAAT 57.244 42.857 0.00 0.00 0.00 1.82
623 2171 4.871871 TGGAGGTTATGGGCTCAAAATA 57.128 40.909 0.00 0.00 0.00 1.40
624 2172 5.199982 TGGAGGTTATGGGCTCAAAATAA 57.800 39.130 0.00 0.00 0.00 1.40
625 2173 5.584913 TGGAGGTTATGGGCTCAAAATAAA 58.415 37.500 0.00 0.00 0.00 1.40
626 2174 5.420739 TGGAGGTTATGGGCTCAAAATAAAC 59.579 40.000 0.00 0.00 0.00 2.01
627 2175 5.449999 GGAGGTTATGGGCTCAAAATAAACG 60.450 44.000 0.00 0.00 30.41 3.60
628 2176 4.401202 AGGTTATGGGCTCAAAATAAACGG 59.599 41.667 0.00 0.00 30.41 4.44
629 2177 4.399934 GGTTATGGGCTCAAAATAAACGGA 59.600 41.667 0.00 0.00 0.00 4.69
630 2178 5.449999 GGTTATGGGCTCAAAATAAACGGAG 60.450 44.000 0.00 0.00 0.00 4.63
631 2179 2.442413 TGGGCTCAAAATAAACGGAGG 58.558 47.619 0.00 0.00 0.00 4.30
632 2180 2.040545 TGGGCTCAAAATAAACGGAGGA 59.959 45.455 0.00 0.00 0.00 3.71
660 2212 2.498167 GATGGTGCTCGGCTCAATAAT 58.502 47.619 0.00 0.00 0.00 1.28
661 2213 3.557054 GGATGGTGCTCGGCTCAATAATA 60.557 47.826 0.00 0.00 0.00 0.98
664 2216 3.876914 TGGTGCTCGGCTCAATAATAAAG 59.123 43.478 0.00 0.00 0.00 1.85
665 2217 4.127171 GGTGCTCGGCTCAATAATAAAGA 58.873 43.478 0.00 0.00 0.00 2.52
666 2218 4.212214 GGTGCTCGGCTCAATAATAAAGAG 59.788 45.833 0.00 0.00 0.00 2.85
668 2220 5.176590 GTGCTCGGCTCAATAATAAAGAGAG 59.823 44.000 0.00 0.00 0.00 3.20
710 2263 2.760650 GGAGGTTATGGGCTCAAAAAGG 59.239 50.000 0.00 0.00 0.00 3.11
717 2270 6.463755 GGTTATGGGCTCAAAAAGGAAAAGAA 60.464 38.462 0.00 0.00 0.00 2.52
721 2274 5.879777 TGGGCTCAAAAAGGAAAAGAAAAAG 59.120 36.000 0.00 0.00 0.00 2.27
917 2493 4.229812 CCCTTTATAAACCTCCTTCCCACT 59.770 45.833 0.00 0.00 0.00 4.00
987 2564 3.230990 AAAAGCCCCAACCACCGC 61.231 61.111 0.00 0.00 0.00 5.68
1034 2611 3.771160 GGAGAAGAAGCCGGCGGA 61.771 66.667 33.44 0.00 0.00 5.54
1035 2612 2.202810 GAGAAGAAGCCGGCGGAG 60.203 66.667 33.44 3.96 0.00 4.63
1036 2613 2.680352 AGAAGAAGCCGGCGGAGA 60.680 61.111 33.44 0.00 0.00 3.71
1037 2614 2.227089 GAGAAGAAGCCGGCGGAGAA 62.227 60.000 33.44 0.00 0.00 2.87
1038 2615 1.811679 GAAGAAGCCGGCGGAGAAG 60.812 63.158 33.44 2.12 0.00 2.85
1039 2616 3.316573 AAGAAGCCGGCGGAGAAGG 62.317 63.158 33.44 1.21 0.00 3.46
1040 2617 3.771160 GAAGCCGGCGGAGAAGGA 61.771 66.667 33.44 0.00 0.00 3.36
1041 2618 3.083997 AAGCCGGCGGAGAAGGAT 61.084 61.111 33.44 3.20 0.00 3.24
1042 2619 2.980213 GAAGCCGGCGGAGAAGGATC 62.980 65.000 33.44 9.23 0.00 3.36
1043 2620 4.610714 GCCGGCGGAGAAGGATCC 62.611 72.222 33.44 2.48 35.88 3.36
1117 2694 2.680352 AGAAGGCGGCCGAGAAGA 60.680 61.111 33.48 0.00 0.00 2.87
1118 2695 2.227089 GAGAAGGCGGCCGAGAAGAA 62.227 60.000 33.48 0.00 0.00 2.52
1119 2696 1.811679 GAAGGCGGCCGAGAAGAAG 60.812 63.158 33.48 0.00 0.00 2.85
1120 2697 3.959991 AAGGCGGCCGAGAAGAAGC 62.960 63.158 33.48 8.09 0.00 3.86
1127 2704 4.129737 CGAGAAGAAGCCCGCGGA 62.130 66.667 30.73 0.00 0.00 5.54
1128 2705 2.202810 GAGAAGAAGCCCGCGGAG 60.203 66.667 30.73 18.40 0.00 4.63
1129 2706 2.680352 AGAAGAAGCCCGCGGAGA 60.680 61.111 30.73 0.00 0.00 3.71
1130 2707 2.227089 GAGAAGAAGCCCGCGGAGAA 62.227 60.000 30.73 0.00 0.00 2.87
1131 2708 1.811679 GAAGAAGCCCGCGGAGAAG 60.812 63.158 30.73 11.36 0.00 2.85
1360 2937 1.556911 ACATCTACAGGGTGCTCAAGG 59.443 52.381 0.00 0.00 0.00 3.61
1378 2955 4.335647 AGGTGCACGGCAAGGAGG 62.336 66.667 11.45 0.00 41.47 4.30
1561 3138 0.721718 CTCCACGATTGCCTTCGAAC 59.278 55.000 11.78 0.00 41.62 3.95
1562 3139 0.034198 TCCACGATTGCCTTCGAACA 59.966 50.000 11.78 0.00 41.62 3.18
1601 3178 7.280769 GTCGACAATTTCAAAAATTACAAGGC 58.719 34.615 11.55 0.00 0.00 4.35
1655 3232 5.156355 GTTGACTTTGGTTATCTGCATGTG 58.844 41.667 0.00 0.00 0.00 3.21
1687 3268 3.258971 AGTGCTGGATAGAAGTTGCTC 57.741 47.619 0.00 0.00 0.00 4.26
1862 3478 7.539712 TTGTCTCTTTGTTGTAAGAACTGAG 57.460 36.000 0.00 0.00 33.96 3.35
1889 3505 5.181748 GTGATGCTCTTGTAAACTGGAGAT 58.818 41.667 0.00 0.00 0.00 2.75
1898 3526 7.287061 TCTTGTAAACTGGAGATTTGGAAAGA 58.713 34.615 0.00 0.00 0.00 2.52
1941 3569 5.939883 TGATGATGCAGTTGCTACTAAACTT 59.060 36.000 0.00 0.00 42.66 2.66
1989 3618 8.637986 AGTAATGTGAGATGAGATTCTAGGTTC 58.362 37.037 0.00 0.00 0.00 3.62
1995 3659 5.856156 AGATGAGATTCTAGGTTCTGCATG 58.144 41.667 0.00 0.00 0.00 4.06
1998 3662 4.713814 TGAGATTCTAGGTTCTGCATGAGT 59.286 41.667 0.00 0.00 0.00 3.41
1999 3663 5.188555 TGAGATTCTAGGTTCTGCATGAGTT 59.811 40.000 0.00 0.00 0.00 3.01
2032 3696 4.021104 AGAGACTCCATTGTTCAATCGTCA 60.021 41.667 0.00 0.00 0.00 4.35
2033 3697 4.836825 AGACTCCATTGTTCAATCGTCAT 58.163 39.130 15.04 4.95 0.00 3.06
2053 3717 2.226330 TGTTTAATTGCCTGCTGTCGT 58.774 42.857 0.00 0.00 0.00 4.34
2066 3730 2.142357 CTGTCGTCGAGCACCCTGAA 62.142 60.000 0.00 0.00 0.00 3.02
2071 3735 2.028839 TCGTCGAGCACCCTGAAATTAA 60.029 45.455 0.00 0.00 0.00 1.40
2073 3737 3.374058 CGTCGAGCACCCTGAAATTAATT 59.626 43.478 0.00 0.00 0.00 1.40
2075 3739 3.128589 TCGAGCACCCTGAAATTAATTGC 59.871 43.478 0.39 0.00 0.00 3.56
2076 3740 3.129287 CGAGCACCCTGAAATTAATTGCT 59.871 43.478 7.69 7.86 41.43 3.91
2077 3741 4.427312 GAGCACCCTGAAATTAATTGCTG 58.573 43.478 12.11 9.19 38.91 4.41
2078 3742 2.931969 GCACCCTGAAATTAATTGCTGC 59.068 45.455 7.69 5.23 0.00 5.25
2079 3743 3.368739 GCACCCTGAAATTAATTGCTGCT 60.369 43.478 7.69 0.00 0.00 4.24
2080 3744 4.178540 CACCCTGAAATTAATTGCTGCTG 58.821 43.478 7.69 4.12 0.00 4.41
2081 3745 3.834231 ACCCTGAAATTAATTGCTGCTGT 59.166 39.130 7.69 4.66 0.00 4.40
2082 3746 4.178540 CCCTGAAATTAATTGCTGCTGTG 58.821 43.478 7.69 0.00 0.00 3.66
2083 3747 4.082081 CCCTGAAATTAATTGCTGCTGTGA 60.082 41.667 7.69 0.00 0.00 3.58
2084 3748 5.394883 CCCTGAAATTAATTGCTGCTGTGAT 60.395 40.000 7.69 0.00 0.00 3.06
2085 3749 5.747197 CCTGAAATTAATTGCTGCTGTGATC 59.253 40.000 7.69 0.00 0.00 2.92
2121 3795 1.021202 CTTTGTTGGCTCGTTGGTGA 58.979 50.000 0.00 0.00 0.00 4.02
2170 3844 6.238429 GGCAAAATGAGATTTCAAAAGCAACA 60.238 34.615 0.00 0.00 36.78 3.33
2171 3845 6.849305 GCAAAATGAGATTTCAAAAGCAACAG 59.151 34.615 0.00 0.00 36.78 3.16
2196 3871 8.507249 AGTACATTTCTGCTACTGATTTTTCAC 58.493 33.333 0.00 0.00 0.00 3.18
2311 6369 2.826128 CAGAGTAGGTAGGTGCAGAACA 59.174 50.000 0.00 0.00 0.00 3.18
2390 6477 3.146066 TGCTATGTGGTGTTCTTGTTCC 58.854 45.455 0.00 0.00 0.00 3.62
2395 6482 1.869132 GTGGTGTTCTTGTTCCGGTAC 59.131 52.381 3.92 3.92 0.00 3.34
2407 6494 6.714810 TCTTGTTCCGGTACTAGTTAGTGTTA 59.285 38.462 18.94 0.00 37.10 2.41
2414 6501 9.326413 TCCGGTACTAGTTAGTGTTACTTATAC 57.674 37.037 0.00 0.00 37.10 1.47
2531 6624 8.251750 TCTGCTGTGATGTAATTGTTACTAAC 57.748 34.615 2.04 0.00 37.06 2.34
2542 6635 8.491134 TGTAATTGTTACTAACCTCTGCCATAT 58.509 33.333 0.00 0.00 37.06 1.78
2544 6637 4.703897 TGTTACTAACCTCTGCCATATGC 58.296 43.478 0.00 0.00 41.77 3.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
140 142 3.481951 CGATTCACGGAGTTTCAATCACG 60.482 47.826 0.00 0.00 41.61 4.35
203 206 3.390135 GCCGATCCGATCAGACAAAATA 58.610 45.455 9.07 0.00 0.00 1.40
209 212 2.049985 CCGCCGATCCGATCAGAC 60.050 66.667 9.07 0.00 0.00 3.51
217 220 0.318107 CAATTCATTGCCGCCGATCC 60.318 55.000 0.00 0.00 0.00 3.36
273 276 6.144078 ACAACGCATTTAAAGAGGAAAAGT 57.856 33.333 0.00 0.00 0.00 2.66
289 292 5.358922 ACTACTAACCAAAACTACAACGCA 58.641 37.500 0.00 0.00 0.00 5.24
292 295 8.715088 CACCATACTACTAACCAAAACTACAAC 58.285 37.037 0.00 0.00 0.00 3.32
293 296 7.388500 GCACCATACTACTAACCAAAACTACAA 59.612 37.037 0.00 0.00 0.00 2.41
395 1942 2.364002 TCCTTTGCAACAAACCTAAGCC 59.636 45.455 0.00 0.00 0.00 4.35
602 2150 3.756082 ATTTTGAGCCCATAACCTCCA 57.244 42.857 0.00 0.00 0.00 3.86
603 2151 5.449999 CGTTTATTTTGAGCCCATAACCTCC 60.450 44.000 0.00 0.00 0.00 4.30
604 2152 5.449999 CCGTTTATTTTGAGCCCATAACCTC 60.450 44.000 0.00 0.00 0.00 3.85
605 2153 4.401202 CCGTTTATTTTGAGCCCATAACCT 59.599 41.667 0.00 0.00 0.00 3.50
606 2154 4.399934 TCCGTTTATTTTGAGCCCATAACC 59.600 41.667 0.00 0.00 0.00 2.85
607 2155 5.449999 CCTCCGTTTATTTTGAGCCCATAAC 60.450 44.000 0.00 0.00 0.00 1.89
608 2156 4.642885 CCTCCGTTTATTTTGAGCCCATAA 59.357 41.667 0.00 0.00 0.00 1.90
609 2157 4.080243 TCCTCCGTTTATTTTGAGCCCATA 60.080 41.667 0.00 0.00 0.00 2.74
610 2158 3.023832 CCTCCGTTTATTTTGAGCCCAT 58.976 45.455 0.00 0.00 0.00 4.00
611 2159 2.040545 TCCTCCGTTTATTTTGAGCCCA 59.959 45.455 0.00 0.00 0.00 5.36
612 2160 2.718563 TCCTCCGTTTATTTTGAGCCC 58.281 47.619 0.00 0.00 0.00 5.19
613 2161 5.763204 TGATATCCTCCGTTTATTTTGAGCC 59.237 40.000 0.00 0.00 0.00 4.70
614 2162 6.073003 CCTGATATCCTCCGTTTATTTTGAGC 60.073 42.308 0.00 0.00 0.00 4.26
615 2163 6.428159 CCCTGATATCCTCCGTTTATTTTGAG 59.572 42.308 0.00 0.00 0.00 3.02
616 2164 6.100569 TCCCTGATATCCTCCGTTTATTTTGA 59.899 38.462 0.00 0.00 0.00 2.69
617 2165 6.296026 TCCCTGATATCCTCCGTTTATTTTG 58.704 40.000 0.00 0.00 0.00 2.44
618 2166 6.509523 TCCCTGATATCCTCCGTTTATTTT 57.490 37.500 0.00 0.00 0.00 1.82
619 2167 6.476378 CATCCCTGATATCCTCCGTTTATTT 58.524 40.000 0.00 0.00 0.00 1.40
620 2168 5.045578 CCATCCCTGATATCCTCCGTTTATT 60.046 44.000 0.00 0.00 0.00 1.40
621 2169 4.471386 CCATCCCTGATATCCTCCGTTTAT 59.529 45.833 0.00 0.00 0.00 1.40
622 2170 3.838317 CCATCCCTGATATCCTCCGTTTA 59.162 47.826 0.00 0.00 0.00 2.01
623 2171 2.639839 CCATCCCTGATATCCTCCGTTT 59.360 50.000 0.00 0.00 0.00 3.60
624 2172 2.260822 CCATCCCTGATATCCTCCGTT 58.739 52.381 0.00 0.00 0.00 4.44
625 2173 1.150135 ACCATCCCTGATATCCTCCGT 59.850 52.381 0.00 0.00 0.00 4.69
626 2174 1.552337 CACCATCCCTGATATCCTCCG 59.448 57.143 0.00 0.00 0.00 4.63
627 2175 1.280421 GCACCATCCCTGATATCCTCC 59.720 57.143 0.00 0.00 0.00 4.30
628 2176 2.235898 GAGCACCATCCCTGATATCCTC 59.764 54.545 0.00 0.00 0.00 3.71
629 2177 2.264455 GAGCACCATCCCTGATATCCT 58.736 52.381 0.00 0.00 0.00 3.24
630 2178 1.066573 CGAGCACCATCCCTGATATCC 60.067 57.143 0.00 0.00 0.00 2.59
631 2179 1.066573 CCGAGCACCATCCCTGATATC 60.067 57.143 0.00 0.00 0.00 1.63
632 2180 0.979665 CCGAGCACCATCCCTGATAT 59.020 55.000 0.00 0.00 0.00 1.63
665 2217 9.974980 TCCGTTTATTTTATTTTCTTTTGCTCT 57.025 25.926 0.00 0.00 0.00 4.09
668 2220 8.984764 ACCTCCGTTTATTTTATTTTCTTTTGC 58.015 29.630 0.00 0.00 0.00 3.68
679 2232 5.757988 AGCCCATAACCTCCGTTTATTTTA 58.242 37.500 0.00 0.00 33.17 1.52
684 2237 2.189676 TGAGCCCATAACCTCCGTTTA 58.810 47.619 0.00 0.00 33.17 2.01
710 2263 5.041287 CACCTCCGTTTCCTTTTTCTTTTC 58.959 41.667 0.00 0.00 0.00 2.29
717 2270 1.133915 TGAGCACCTCCGTTTCCTTTT 60.134 47.619 0.00 0.00 0.00 2.27
721 2274 1.235281 GGTTGAGCACCTCCGTTTCC 61.235 60.000 0.00 0.00 43.29 3.13
893 2455 4.228895 GTGGGAAGGAGGTTTATAAAGGGA 59.771 45.833 0.00 0.00 0.00 4.20
917 2493 0.547075 TGGTGGGTTTGGAACGAGAA 59.453 50.000 0.00 0.00 0.00 2.87
1031 2608 4.286320 CCGCGGGATCCTTCTCCG 62.286 72.222 20.10 7.37 45.84 4.63
1032 2609 4.610714 GCCGCGGGATCCTTCTCC 62.611 72.222 29.38 1.03 34.31 3.71
1033 2610 4.951963 CGCCGCGGGATCCTTCTC 62.952 72.222 29.38 5.29 0.00 2.87
1117 2694 3.775654 CTCCTTCTCCGCGGGCTT 61.776 66.667 27.83 0.00 0.00 4.35
1125 2702 4.516195 GTCGCGGGCTCCTTCTCC 62.516 72.222 6.13 0.00 0.00 3.71
1126 2703 4.856607 CGTCGCGGGCTCCTTCTC 62.857 72.222 6.13 0.00 0.00 2.87
1239 2816 4.443266 GCCGGCAGACGCTTCTCT 62.443 66.667 24.80 0.00 42.52 3.10
1301 2878 1.631071 CCTCCTCTTGCCCTCCTTCC 61.631 65.000 0.00 0.00 0.00 3.46
1360 2937 2.743928 CTCCTTGCCGTGCACCTC 60.744 66.667 12.15 3.49 38.71 3.85
1378 2955 1.450312 CCTTGGAGGTGATGCCGAC 60.450 63.158 0.00 0.00 43.70 4.79
1522 3099 2.285368 ACTGCCGGGGAGGATGAA 60.285 61.111 20.28 0.00 45.00 2.57
1525 3102 2.444895 GAGACTGCCGGGGAGGAT 60.445 66.667 20.28 7.49 45.00 3.24
1655 3232 7.344095 TCTATCCAGCACTAGTACTTAAACC 57.656 40.000 0.00 0.00 0.00 3.27
1687 3268 0.517316 GTAGAGCCAAGCAACCGTTG 59.483 55.000 6.91 6.91 0.00 4.10
1862 3478 5.008613 TCCAGTTTACAAGAGCATCACAAAC 59.991 40.000 0.00 0.00 37.82 2.93
1898 3526 9.803315 CATCATCACAGAAGAAATGAATCATTT 57.197 29.630 19.88 19.88 45.25 2.32
1913 3541 2.484742 AGCAACTGCATCATCACAGA 57.515 45.000 4.22 0.00 45.16 3.41
1941 3569 6.276847 ACTGAAAAACAAAATCGTATGGCAA 58.723 32.000 0.00 0.00 0.00 4.52
1995 3659 3.063485 GAGTCTCTTGGTTCTGCAACTC 58.937 50.000 0.00 0.00 32.50 3.01
1998 3662 1.768275 TGGAGTCTCTTGGTTCTGCAA 59.232 47.619 0.00 0.00 0.00 4.08
1999 3663 1.423584 TGGAGTCTCTTGGTTCTGCA 58.576 50.000 0.00 0.00 0.00 4.41
2010 3674 4.245660 TGACGATTGAACAATGGAGTCTC 58.754 43.478 14.42 0.00 32.48 3.36
2032 3696 2.819608 ACGACAGCAGGCAATTAAACAT 59.180 40.909 0.00 0.00 0.00 2.71
2033 3697 2.225491 GACGACAGCAGGCAATTAAACA 59.775 45.455 0.00 0.00 0.00 2.83
2053 3717 3.128589 GCAATTAATTTCAGGGTGCTCGA 59.871 43.478 0.00 0.00 0.00 4.04
2066 3730 5.297527 TCATCGATCACAGCAGCAATTAATT 59.702 36.000 0.00 0.00 0.00 1.40
2071 3735 2.320745 TCATCGATCACAGCAGCAAT 57.679 45.000 0.00 0.00 0.00 3.56
2073 3737 1.137479 TGATCATCGATCACAGCAGCA 59.863 47.619 0.00 0.00 43.11 4.41
2082 3746 5.582439 AAGCACGTTAATGATCATCGATC 57.418 39.130 18.83 10.94 39.31 3.69
2083 3747 5.294306 ACAAAGCACGTTAATGATCATCGAT 59.706 36.000 18.83 3.28 0.00 3.59
2084 3748 4.629634 ACAAAGCACGTTAATGATCATCGA 59.370 37.500 18.83 4.50 0.00 3.59
2085 3749 4.897224 ACAAAGCACGTTAATGATCATCG 58.103 39.130 9.06 11.01 0.00 3.84
2099 3763 0.594796 CCAACGAGCCAACAAAGCAC 60.595 55.000 0.00 0.00 0.00 4.40
2114 3788 6.144402 CAGCACAAAATTCAGTTATCACCAAC 59.856 38.462 0.00 0.00 0.00 3.77
2121 3795 6.203338 CCAAAAGCAGCACAAAATTCAGTTAT 59.797 34.615 0.00 0.00 0.00 1.89
2170 3844 8.507249 GTGAAAAATCAGTAGCAGAAATGTACT 58.493 33.333 0.00 0.00 0.00 2.73
2171 3845 7.478667 CGTGAAAAATCAGTAGCAGAAATGTAC 59.521 37.037 0.00 0.00 0.00 2.90
2196 3871 4.096311 CACCTAGTAACTGTCGAATCACG 58.904 47.826 0.00 0.00 44.09 4.35
2290 6348 2.826128 TGTTCTGCACCTACCTACTCTG 59.174 50.000 0.00 0.00 0.00 3.35
2292 6350 3.090037 TCTGTTCTGCACCTACCTACTC 58.910 50.000 0.00 0.00 0.00 2.59
2407 6494 8.975663 TGCTATGTACTACTGTCAGTATAAGT 57.024 34.615 13.10 11.85 33.71 2.24
2414 6501 5.807520 CCAAACTGCTATGTACTACTGTCAG 59.192 44.000 0.00 0.00 0.00 3.51
2416 6503 5.577164 CACCAAACTGCTATGTACTACTGTC 59.423 44.000 0.00 0.00 0.00 3.51
2542 6635 5.339008 ACTTATTCGGTAGATCACAAGCA 57.661 39.130 0.00 0.00 0.00 3.91
2544 6637 5.006746 GGCAACTTATTCGGTAGATCACAAG 59.993 44.000 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.