Multiple sequence alignment - TraesCS1B01G348300

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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 TraesCS1B01G348300 chr1B 100.000 3207 0 0 1 3207 577826848 577823642 0.000000e+00 5923
1 TraesCS1B01G348300 chr1B 85.480 854 116 6 979 1830 577654458 577653611 0.000000e+00 883
2 TraesCS1B01G348300 chr1D 92.383 2363 128 22 1 2339 427312035 427309701 0.000000e+00 3319
3 TraesCS1B01G348300 chr1D 85.948 854 112 6 978 1829 427158951 427158104 0.000000e+00 905
4 TraesCS1B01G348300 chr1D 84.142 618 50 27 286 889 427314058 427313475 3.610000e-154 555
5 TraesCS1B01G348300 chr1A 91.278 1628 110 20 716 2338 522507740 522506140 0.000000e+00 2191
6 TraesCS1B01G348300 chr1A 86.066 854 111 6 978 1829 522243011 522242164 0.000000e+00 911
7 TraesCS1B01G348300 chr1A 90.208 337 17 7 348 675 522508080 522507751 2.960000e-115 425
8 TraesCS1B01G348300 chr5B 96.237 877 25 5 2336 3207 514077201 514078074 0.000000e+00 1430
9 TraesCS1B01G348300 chr6B 94.476 887 22 8 2328 3207 718754791 718755657 0.000000e+00 1341
10 TraesCS1B01G348300 chr3A 84.018 657 77 19 2550 3189 722174969 722174324 9.840000e-170 606
11 TraesCS1B01G348300 chr7D 92.676 355 12 4 2441 2784 432953193 432952842 1.720000e-137 499
12 TraesCS1B01G348300 chr7D 96.522 115 4 0 2340 2454 432954485 432954371 1.170000e-44 191
13 TraesCS1B01G348300 chr3D 80.037 546 76 22 2646 3189 591967928 591968442 1.090000e-99 374
14 TraesCS1B01G348300 chr2B 91.781 73 4 2 2411 2483 640046473 640046543 2.040000e-17 100


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 TraesCS1B01G348300 chr1B 577823642 577826848 3206 True 5923 5923 100.0000 1 3207 1 chr1B.!!$R2 3206
1 TraesCS1B01G348300 chr1B 577653611 577654458 847 True 883 883 85.4800 979 1830 1 chr1B.!!$R1 851
2 TraesCS1B01G348300 chr1D 427309701 427314058 4357 True 1937 3319 88.2625 1 2339 2 chr1D.!!$R2 2338
3 TraesCS1B01G348300 chr1D 427158104 427158951 847 True 905 905 85.9480 978 1829 1 chr1D.!!$R1 851
4 TraesCS1B01G348300 chr1A 522506140 522508080 1940 True 1308 2191 90.7430 348 2338 2 chr1A.!!$R2 1990
5 TraesCS1B01G348300 chr1A 522242164 522243011 847 True 911 911 86.0660 978 1829 1 chr1A.!!$R1 851
6 TraesCS1B01G348300 chr5B 514077201 514078074 873 False 1430 1430 96.2370 2336 3207 1 chr5B.!!$F1 871
7 TraesCS1B01G348300 chr6B 718754791 718755657 866 False 1341 1341 94.4760 2328 3207 1 chr6B.!!$F1 879
8 TraesCS1B01G348300 chr3A 722174324 722174969 645 True 606 606 84.0180 2550 3189 1 chr3A.!!$R1 639
9 TraesCS1B01G348300 chr7D 432952842 432954485 1643 True 345 499 94.5990 2340 2784 2 chr7D.!!$R1 444
10 TraesCS1B01G348300 chr3D 591967928 591968442 514 False 374 374 80.0370 2646 3189 1 chr3D.!!$F1 543

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
944 2996 0.670854 GCAACGTCTGGTTCTCCCTC 60.671 60.000 0.0 0.0 36.49 4.30 F
1498 3550 1.005748 CTCTTCGAGCAGGCACACA 60.006 57.895 0.0 0.0 0.00 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2086 4139 0.027194 CTCGCTCAACGCCATTGATG 59.973 55.0 0.0 0.0 46.37 3.07 R
3005 6280 1.792118 GCTTTCGGTTGTGACCCCAC 61.792 60.0 0.0 0.0 43.42 4.61 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
28 2052 6.512415 GCAGGTATGACTCAAACATGCTATTC 60.512 42.308 4.29 0.00 44.90 1.75
32 2056 7.443575 GGTATGACTCAAACATGCTATTCTGAT 59.556 37.037 0.00 0.00 32.55 2.90
37 2061 7.533426 ACTCAAACATGCTATTCTGATTGAAC 58.467 34.615 0.00 0.00 34.90 3.18
40 2064 7.391275 TCAAACATGCTATTCTGATTGAACTGA 59.609 33.333 0.00 0.00 37.52 3.41
52 2078 8.672823 TCTGATTGAACTGAATATGAATCTGG 57.327 34.615 0.00 0.00 0.00 3.86
54 2080 7.058525 TGATTGAACTGAATATGAATCTGGCT 58.941 34.615 0.00 0.00 0.00 4.75
60 2086 9.113838 GAACTGAATATGAATCTGGCTCTTTTA 57.886 33.333 0.00 0.00 0.00 1.52
62 2088 9.118300 ACTGAATATGAATCTGGCTCTTTTAAG 57.882 33.333 0.00 0.00 0.00 1.85
90 2121 5.628797 AGAAGGGCCATTGAAAAGAAAAA 57.371 34.783 7.73 0.00 0.00 1.94
114 2145 4.832248 AGGAAGCTGAACACAATTATCGA 58.168 39.130 0.00 0.00 0.00 3.59
116 2147 5.525378 AGGAAGCTGAACACAATTATCGATC 59.475 40.000 0.00 0.00 0.00 3.69
146 2177 2.813754 CCGAATGAACCATTGTGACAGT 59.186 45.455 0.00 0.00 33.90 3.55
157 2188 7.023197 ACCATTGTGACAGTGTAGTTTAAAC 57.977 36.000 10.47 10.47 0.00 2.01
185 2216 3.981071 ATGCAGCTAGTGGAAGTTGTA 57.019 42.857 0.00 0.00 31.01 2.41
193 2224 7.268586 CAGCTAGTGGAAGTTGTATATTGACT 58.731 38.462 0.00 0.00 0.00 3.41
196 2227 7.982354 GCTAGTGGAAGTTGTATATTGACTCTT 59.018 37.037 0.00 0.00 0.00 2.85
202 2233 7.064728 GGAAGTTGTATATTGACTCTTGACACC 59.935 40.741 0.00 0.00 0.00 4.16
205 2236 6.367374 TGTATATTGACTCTTGACACCCAA 57.633 37.500 0.00 0.00 0.00 4.12
224 2255 1.153289 CTCTGCTTCATGGACCCCG 60.153 63.158 0.00 0.00 0.00 5.73
233 2264 4.261614 GCTTCATGGACCCCGAATTTATTC 60.262 45.833 0.00 0.00 0.00 1.75
297 2331 9.276590 CTATCCAAATGTTGCTGTATATCTCAA 57.723 33.333 0.00 0.00 0.00 3.02
298 2332 7.320443 TCCAAATGTTGCTGTATATCTCAAC 57.680 36.000 0.00 0.00 39.23 3.18
315 2349 2.822561 TCAACAAGTTTTGCACCACAGA 59.177 40.909 0.00 0.00 0.00 3.41
338 2372 4.119442 GCAAAGATTGATGTGCCAAGAT 57.881 40.909 0.00 0.00 0.00 2.40
339 2373 5.252969 GCAAAGATTGATGTGCCAAGATA 57.747 39.130 0.00 0.00 0.00 1.98
340 2374 5.839621 GCAAAGATTGATGTGCCAAGATAT 58.160 37.500 0.00 0.00 0.00 1.63
341 2375 6.973843 GCAAAGATTGATGTGCCAAGATATA 58.026 36.000 0.00 0.00 0.00 0.86
343 2377 8.086522 GCAAAGATTGATGTGCCAAGATATATT 58.913 33.333 0.00 0.00 0.00 1.28
344 2378 9.976511 CAAAGATTGATGTGCCAAGATATATTT 57.023 29.630 0.00 0.00 0.00 1.40
345 2379 9.976511 AAAGATTGATGTGCCAAGATATATTTG 57.023 29.630 0.00 0.00 0.00 2.32
346 2380 7.600065 AGATTGATGTGCCAAGATATATTTGC 58.400 34.615 0.00 0.00 0.00 3.68
347 2381 6.712179 TTGATGTGCCAAGATATATTTGCA 57.288 33.333 4.83 4.83 0.00 4.08
348 2382 6.712179 TGATGTGCCAAGATATATTTGCAA 57.288 33.333 10.10 0.00 0.00 4.08
349 2383 7.110043 TGATGTGCCAAGATATATTTGCAAA 57.890 32.000 15.44 15.44 0.00 3.68
350 2384 6.979817 TGATGTGCCAAGATATATTTGCAAAC 59.020 34.615 15.41 0.84 0.00 2.93
351 2385 6.278172 TGTGCCAAGATATATTTGCAAACA 57.722 33.333 15.41 2.31 0.00 2.83
352 2386 6.876155 TGTGCCAAGATATATTTGCAAACAT 58.124 32.000 15.41 11.56 0.00 2.71
353 2387 7.329499 TGTGCCAAGATATATTTGCAAACATT 58.671 30.769 15.41 0.94 0.00 2.71
507 2547 1.079127 ACGTCATGGCGAAAGGGAG 60.079 57.895 28.94 0.00 35.59 4.30
665 2712 4.744631 GTGCCAAAAAGTATTCTGTTGGTG 59.255 41.667 13.38 0.00 39.69 4.17
680 2731 3.892200 GGTGTCACCAAATTGCTGG 57.108 52.632 17.59 0.00 42.68 4.85
737 2788 9.481340 AAGCATTTTCATACTTTCTCCTTTTTC 57.519 29.630 0.00 0.00 0.00 2.29
781 2832 2.158449 GCGGCGATCCATTCTTAGATTG 59.842 50.000 12.98 0.00 0.00 2.67
790 2841 5.245531 TCCATTCTTAGATTGTCACACACC 58.754 41.667 3.85 0.00 0.00 4.16
791 2842 5.003160 CCATTCTTAGATTGTCACACACCA 58.997 41.667 3.85 0.00 0.00 4.17
942 2994 1.671379 GGCAACGTCTGGTTCTCCC 60.671 63.158 0.00 0.00 36.49 4.30
943 2995 1.371558 GCAACGTCTGGTTCTCCCT 59.628 57.895 0.00 0.00 36.49 4.20
944 2996 0.670854 GCAACGTCTGGTTCTCCCTC 60.671 60.000 0.00 0.00 36.49 4.30
984 3036 1.203065 GCAAACAGAAGCAGCACAAC 58.797 50.000 0.00 0.00 0.00 3.32
1089 3141 4.780021 ACCACATTCTCCTACATCAAGTCT 59.220 41.667 0.00 0.00 0.00 3.24
1182 3234 1.584724 CCCAGATACTGTCCAGGGTT 58.415 55.000 0.00 0.00 37.71 4.11
1255 3307 2.989253 TCTCGGGCGTCTTCAGCA 60.989 61.111 0.00 0.00 36.08 4.41
1271 3323 2.513204 CATCGTCCAGCAGCAGGG 60.513 66.667 3.59 0.00 0.00 4.45
1341 3393 4.547367 GCCGCCGAGCCCTTGTAT 62.547 66.667 0.00 0.00 0.00 2.29
1388 3440 4.445545 CGGCTCGCAAAACTCGGC 62.446 66.667 0.00 0.00 0.00 5.54
1410 3462 2.167693 CTCCATCATGGCATTTGTGCTT 59.832 45.455 0.00 0.00 37.47 3.91
1422 3474 2.125106 GTGCTTAGCCCCGTCCTG 60.125 66.667 0.29 0.00 0.00 3.86
1446 3498 1.075525 TCCATTCCTCGGGATCGGT 60.076 57.895 0.00 0.00 36.95 4.69
1456 3508 2.047655 GGATCGGTGCGTGGTTCA 60.048 61.111 0.00 0.00 0.00 3.18
1498 3550 1.005748 CTCTTCGAGCAGGCACACA 60.006 57.895 0.00 0.00 0.00 3.72
1530 3582 1.736586 GGAGATGTCCGAGCACGAT 59.263 57.895 4.70 0.00 42.66 3.73
1714 3766 1.962822 CACATGGAGTGCAGCGTGT 60.963 57.895 8.34 0.00 42.15 4.49
1800 3852 1.737008 GTTCGAGAGCGTTCCACCC 60.737 63.158 0.00 0.00 38.98 4.61
1832 3884 5.450171 CGTCTTCCTCAAGGTACGTATATG 58.550 45.833 0.00 0.00 34.64 1.78
1855 3907 4.345257 GCATCCTCCTTGGTCAAGATACTA 59.655 45.833 11.87 0.00 40.79 1.82
1861 3913 6.072397 CCTCCTTGGTCAAGATACTATCTACG 60.072 46.154 11.87 0.00 40.79 3.51
1868 3920 4.519350 TCAAGATACTATCTACGCACCAGG 59.481 45.833 0.00 0.00 39.08 4.45
1965 4018 7.116948 CGAGAAGTGTGTCAAAATACTGAAGAT 59.883 37.037 0.00 0.00 0.00 2.40
1969 4022 8.225603 AGTGTGTCAAAATACTGAAGATTTGT 57.774 30.769 0.00 0.00 35.01 2.83
2080 4133 2.131183 GCCTTGCTCGATCTGTACATC 58.869 52.381 0.00 0.00 0.00 3.06
2086 4139 4.363138 TGCTCGATCTGTACATCATGTTC 58.637 43.478 0.00 0.00 0.00 3.18
2134 4187 2.500910 AGAGTGGAGCAAGATCTTCCTG 59.499 50.000 3.72 0.00 0.00 3.86
2238 4291 5.346822 GGTGATTACGTACTTTTGTGTCGAT 59.653 40.000 0.00 0.00 35.96 3.59
2239 4292 6.231365 GTGATTACGTACTTTTGTGTCGATG 58.769 40.000 0.00 0.00 35.96 3.84
2313 4370 2.696526 TCCTATCTACGATTGGGGCT 57.303 50.000 0.00 0.00 0.00 5.19
2457 5711 2.320587 CCAGCGTTGTGACAGCTCC 61.321 63.158 0.00 0.00 39.48 4.70
2845 6119 5.974108 TGGTGTCTCAACTATAAGGCTTAC 58.026 41.667 9.55 0.00 0.00 2.34
2904 6179 2.022129 CGCGAGCTTTCAAGTCGGT 61.022 57.895 0.00 0.00 33.38 4.69
3005 6280 7.894376 TGGGTCGTAACTATAACTTTTCAAG 57.106 36.000 0.00 0.00 0.00 3.02
3036 6311 3.140325 ACCGAAAGCATTCAAAGAGGA 57.860 42.857 2.22 0.00 35.15 3.71
3141 6417 2.827322 CTGCATGTTCATCAAAAGGGGA 59.173 45.455 0.00 0.00 0.00 4.81
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 3.181503 GCATGTTTGAGTCATACCTGCTG 60.182 47.826 25.53 13.59 35.50 4.41
3 4 3.012518 AGCATGTTTGAGTCATACCTGC 58.987 45.455 25.50 25.50 37.28 4.85
4 5 6.765036 AGAATAGCATGTTTGAGTCATACCTG 59.235 38.462 10.70 11.66 0.00 4.00
16 2040 7.692460 TCAGTTCAATCAGAATAGCATGTTT 57.308 32.000 0.00 0.00 38.76 2.83
17 2041 7.692460 TTCAGTTCAATCAGAATAGCATGTT 57.308 32.000 0.00 0.00 38.76 2.71
28 2052 7.228906 AGCCAGATTCATATTCAGTTCAATCAG 59.771 37.037 0.00 0.00 0.00 2.90
32 2056 6.656902 AGAGCCAGATTCATATTCAGTTCAA 58.343 36.000 0.00 0.00 0.00 2.69
37 2061 9.334947 TCTTAAAAGAGCCAGATTCATATTCAG 57.665 33.333 0.00 0.00 0.00 3.02
60 2086 4.118168 TCAATGGCCCTTCTTCTTTCTT 57.882 40.909 0.00 0.00 0.00 2.52
62 2088 4.871933 TTTCAATGGCCCTTCTTCTTTC 57.128 40.909 0.00 0.00 0.00 2.62
90 2121 5.705441 TCGATAATTGTGTTCAGCTTCCTTT 59.295 36.000 0.00 0.00 0.00 3.11
103 2134 2.416547 GGATGGCGGATCGATAATTGTG 59.583 50.000 0.00 0.00 30.87 3.33
104 2135 2.615493 GGGATGGCGGATCGATAATTGT 60.615 50.000 0.00 0.00 30.87 2.71
112 2143 3.240134 ATTCGGGGATGGCGGATCG 62.240 63.158 0.00 0.00 30.87 3.69
114 2145 1.705002 TTCATTCGGGGATGGCGGAT 61.705 55.000 0.00 0.00 0.00 4.18
116 2147 2.186826 GTTCATTCGGGGATGGCGG 61.187 63.158 0.00 0.00 0.00 6.13
146 2177 6.128282 GCTGCATTCTGCTAGTTTAAACTACA 60.128 38.462 21.52 20.62 45.31 2.74
169 2200 7.343316 AGAGTCAATATACAACTTCCACTAGCT 59.657 37.037 0.00 0.00 0.00 3.32
170 2201 7.493367 AGAGTCAATATACAACTTCCACTAGC 58.507 38.462 0.00 0.00 0.00 3.42
185 2216 5.249393 AGAGTTGGGTGTCAAGAGTCAATAT 59.751 40.000 0.00 0.00 35.80 1.28
193 2224 1.131638 AGCAGAGTTGGGTGTCAAGA 58.868 50.000 0.00 0.00 35.80 3.02
196 2227 0.836606 TGAAGCAGAGTTGGGTGTCA 59.163 50.000 0.00 0.00 0.00 3.58
202 2233 1.457346 GGTCCATGAAGCAGAGTTGG 58.543 55.000 0.00 0.00 0.00 3.77
205 2236 1.903877 CGGGGTCCATGAAGCAGAGT 61.904 60.000 0.00 0.00 0.00 3.24
224 2255 8.147793 GCGACTTTTCTTTGAACGAATAAATTC 58.852 33.333 0.00 0.00 0.00 2.17
233 2264 4.461992 TTAGGCGACTTTTCTTTGAACG 57.538 40.909 0.00 0.00 43.67 3.95
285 2316 7.023575 GGTGCAAAACTTGTTGAGATATACAG 58.976 38.462 0.00 0.00 0.00 2.74
297 2331 1.750778 CCTCTGTGGTGCAAAACTTGT 59.249 47.619 0.00 0.00 0.00 3.16
298 2332 1.536709 GCCTCTGTGGTGCAAAACTTG 60.537 52.381 0.00 0.00 38.35 3.16
338 2372 9.377312 GGCTCCTTTTTAATGTTTGCAAATATA 57.623 29.630 20.06 8.71 0.00 0.86
339 2373 7.064490 CGGCTCCTTTTTAATGTTTGCAAATAT 59.936 33.333 16.21 15.51 0.00 1.28
340 2374 6.367422 CGGCTCCTTTTTAATGTTTGCAAATA 59.633 34.615 16.21 13.62 0.00 1.40
341 2375 5.179182 CGGCTCCTTTTTAATGTTTGCAAAT 59.821 36.000 16.21 1.69 0.00 2.32
343 2377 4.054671 CGGCTCCTTTTTAATGTTTGCAA 58.945 39.130 0.00 0.00 0.00 4.08
344 2378 3.648009 CGGCTCCTTTTTAATGTTTGCA 58.352 40.909 0.00 0.00 0.00 4.08
345 2379 2.411748 GCGGCTCCTTTTTAATGTTTGC 59.588 45.455 0.00 0.00 0.00 3.68
346 2380 3.648009 TGCGGCTCCTTTTTAATGTTTG 58.352 40.909 0.00 0.00 0.00 2.93
347 2381 4.055360 GTTGCGGCTCCTTTTTAATGTTT 58.945 39.130 0.00 0.00 0.00 2.83
348 2382 3.068873 TGTTGCGGCTCCTTTTTAATGTT 59.931 39.130 0.00 0.00 0.00 2.71
349 2383 2.625790 TGTTGCGGCTCCTTTTTAATGT 59.374 40.909 0.00 0.00 0.00 2.71
350 2384 3.296322 TGTTGCGGCTCCTTTTTAATG 57.704 42.857 0.00 0.00 0.00 1.90
351 2385 3.554129 GGTTGTTGCGGCTCCTTTTTAAT 60.554 43.478 0.00 0.00 0.00 1.40
352 2386 2.223852 GGTTGTTGCGGCTCCTTTTTAA 60.224 45.455 0.00 0.00 0.00 1.52
353 2387 1.338655 GGTTGTTGCGGCTCCTTTTTA 59.661 47.619 0.00 0.00 0.00 1.52
507 2547 4.995487 GGATAATACCAAACCGGAGTCATC 59.005 45.833 9.46 4.32 38.63 2.92
636 2683 4.024048 CAGAATACTTTTTGGCACTCGTGT 60.024 41.667 0.00 0.00 0.00 4.49
680 2731 9.118236 GAGCAAAACTGATGAAATAACACTTAC 57.882 33.333 0.00 0.00 0.00 2.34
681 2732 8.296713 GGAGCAAAACTGATGAAATAACACTTA 58.703 33.333 0.00 0.00 0.00 2.24
682 2733 7.014615 AGGAGCAAAACTGATGAAATAACACTT 59.985 33.333 0.00 0.00 0.00 3.16
683 2734 6.491403 AGGAGCAAAACTGATGAAATAACACT 59.509 34.615 0.00 0.00 0.00 3.55
684 2735 6.583806 CAGGAGCAAAACTGATGAAATAACAC 59.416 38.462 0.00 0.00 36.86 3.32
686 2737 6.681777 ACAGGAGCAAAACTGATGAAATAAC 58.318 36.000 0.00 0.00 38.09 1.89
688 2739 7.362056 GCTTACAGGAGCAAAACTGATGAAATA 60.362 37.037 0.00 0.00 42.25 1.40
691 2742 4.216257 GCTTACAGGAGCAAAACTGATGAA 59.784 41.667 0.00 0.00 42.25 2.57
737 2788 2.288640 ACGGTTTCCACGAGGTTTCTAG 60.289 50.000 0.00 0.00 35.89 2.43
781 2832 5.248870 ACTGAAGAAAAATGGTGTGTGAC 57.751 39.130 0.00 0.00 0.00 3.67
942 2994 6.030849 GCGTTGGCAGATACTATATGTAGAG 58.969 44.000 3.17 0.00 39.62 2.43
943 2995 5.475564 TGCGTTGGCAGATACTATATGTAGA 59.524 40.000 3.17 0.00 46.21 2.59
944 2996 5.709966 TGCGTTGGCAGATACTATATGTAG 58.290 41.667 0.00 0.00 46.21 2.74
984 3036 1.362768 CCATGATCGACACAGTGTGG 58.637 55.000 26.40 10.55 37.94 4.17
1089 3141 2.202878 GCGGACTTGAGCGCCATA 60.203 61.111 2.29 0.00 0.00 2.74
1255 3307 4.479993 GCCCTGCTGCTGGACGAT 62.480 66.667 25.04 0.00 0.00 3.73
1370 3422 3.788766 CCGAGTTTTGCGAGCCGG 61.789 66.667 0.00 0.00 0.00 6.13
1380 3432 0.107017 CCATGATGGAGGCCGAGTTT 60.107 55.000 5.27 0.00 40.96 2.66
1388 3440 1.202486 GCACAAATGCCATGATGGAGG 60.202 52.381 17.22 1.26 46.97 4.30
1401 3453 0.679960 GGACGGGGCTAAGCACAAAT 60.680 55.000 0.00 0.00 30.93 2.32
1404 3456 2.606519 AGGACGGGGCTAAGCACA 60.607 61.111 0.00 0.00 30.93 4.57
1422 3474 2.107141 CCGAGGAATGGAGCGACC 59.893 66.667 0.00 0.00 39.54 4.79
1428 3480 1.075525 ACCGATCCCGAGGAATGGA 60.076 57.895 15.80 0.52 38.22 3.41
1470 3522 2.119611 TCGAAGAGGCAGGGGTCA 59.880 61.111 0.00 0.00 0.00 4.02
1534 3586 1.368345 TTGATCAGCGCGTCCAATGG 61.368 55.000 8.43 0.00 0.00 3.16
1536 3588 0.673333 TGTTGATCAGCGCGTCCAAT 60.673 50.000 8.43 0.00 0.00 3.16
1699 3751 1.968017 CCAACACGCTGCACTCCAT 60.968 57.895 0.00 0.00 0.00 3.41
1714 3766 2.258591 GACGTGCTCGAGCTCCAA 59.741 61.111 35.27 15.06 42.66 3.53
1800 3852 4.421479 AGGAAGACGGCGTCTGCG 62.421 66.667 39.57 0.00 42.59 5.18
1832 3884 2.725221 ATCTTGACCAAGGAGGATGC 57.275 50.000 9.59 0.00 41.22 3.91
1855 3907 2.485479 CCTTAATGCCTGGTGCGTAGAT 60.485 50.000 0.00 0.00 45.60 1.98
1861 3913 0.108662 GCAACCTTAATGCCTGGTGC 60.109 55.000 0.00 0.00 37.85 5.01
1895 3948 2.624364 ACTGAAGACAAACATGCATGCA 59.376 40.909 26.53 25.04 0.00 3.96
1896 3949 3.240069 GACTGAAGACAAACATGCATGC 58.760 45.455 26.53 11.82 0.00 4.06
2080 4133 3.431856 CTCAACGCCATTGATGAACATG 58.568 45.455 0.00 0.00 46.37 3.21
2086 4139 0.027194 CTCGCTCAACGCCATTGATG 59.973 55.000 0.00 0.00 46.37 3.07
2134 4187 0.036294 AGTCGCTAAACCCAGCTTCC 60.036 55.000 0.00 0.00 39.51 3.46
2238 4291 1.017387 TAAATGCGCACACACACACA 58.983 45.000 14.90 0.00 0.00 3.72
2239 4292 2.112475 TTAAATGCGCACACACACAC 57.888 45.000 14.90 0.00 0.00 3.82
2303 4360 2.365617 ACAGTCTACATAGCCCCAATCG 59.634 50.000 0.00 0.00 0.00 3.34
2371 4434 4.343231 ACATGGTGAATGATGCCAAACTA 58.657 39.130 0.00 0.00 38.72 2.24
2372 4435 3.167485 ACATGGTGAATGATGCCAAACT 58.833 40.909 0.00 0.00 38.72 2.66
2373 4436 3.056678 TGACATGGTGAATGATGCCAAAC 60.057 43.478 0.00 0.00 38.72 2.93
2374 4437 3.163467 TGACATGGTGAATGATGCCAAA 58.837 40.909 0.00 0.00 38.72 3.28
2375 4438 2.756207 CTGACATGGTGAATGATGCCAA 59.244 45.455 0.00 0.00 38.72 4.52
2376 4439 2.371306 CTGACATGGTGAATGATGCCA 58.629 47.619 0.00 0.00 38.72 4.92
2457 5711 6.175087 CCAACATGAAAAGAAAAACGAAACG 58.825 36.000 0.00 0.00 0.00 3.60
2845 6119 7.784633 AAACCTGGTGTTGTAAATCATTTTG 57.215 32.000 0.00 0.00 37.23 2.44
3005 6280 1.792118 GCTTTCGGTTGTGACCCCAC 61.792 60.000 0.00 0.00 43.42 4.61


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

AutoCloner maintained by Alex Coulton.