Multiple sequence alignment - TraesCS6B01G035300

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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 TraesCS6B01G035300 chr6B 100.000 2882 0 0 1 2882 20945384 20942503 0.000000e+00 5323.0
1 TraesCS6B01G035300 chr6B 94.328 1904 65 16 1 1872 20883960 20882068 0.000000e+00 2878.0
2 TraesCS6B01G035300 chr6B 91.182 2132 145 20 1 2099 20707075 20704954 0.000000e+00 2856.0
3 TraesCS6B01G035300 chr6B 85.128 195 17 9 2141 2324 20703441 20703248 3.790000e-44 189.0
4 TraesCS6B01G035300 chr6B 93.913 115 6 1 2209 2323 20838381 20838268 3.820000e-39 172.0
5 TraesCS6B01G035300 chr6D 80.536 1120 157 28 801 1883 20763917 20762822 0.000000e+00 804.0
6 TraesCS6B01G035300 chr6D 82.933 750 105 16 999 1735 11074664 11073925 0.000000e+00 654.0
7 TraesCS6B01G035300 chr6D 86.314 548 72 3 2337 2882 42100430 42099884 6.880000e-166 593.0
8 TraesCS6B01G035300 chr6D 79.612 206 37 3 2475 2676 412058424 412058628 2.990000e-30 143.0
9 TraesCS6B01G035300 chr6D 92.308 91 7 0 1793 1883 11073828 11073738 2.330000e-26 130.0
10 TraesCS6B01G035300 chr6D 80.606 165 30 2 2513 2676 437781197 437781034 3.010000e-25 126.0
11 TraesCS6B01G035300 chr6D 75.314 239 47 11 2547 2777 348045346 348045580 1.410000e-18 104.0
12 TraesCS6B01G035300 chr6D 97.222 36 0 1 1151 1186 467856217 467856251 3.100000e-05 60.2
13 TraesCS6B01G035300 chr2D 87.796 549 62 4 2337 2882 304973409 304973955 3.130000e-179 638.0
14 TraesCS6B01G035300 chr2D 88.261 230 21 3 173 400 378094228 378094003 1.320000e-68 270.0
15 TraesCS6B01G035300 chr4D 86.364 550 64 7 2337 2882 19065992 19066534 8.890000e-165 590.0
16 TraesCS6B01G035300 chr4D 79.583 240 45 3 173 411 505724200 505723964 4.940000e-38 169.0
17 TraesCS6B01G035300 chr7B 85.610 549 74 5 2337 2881 742026519 742025972 3.220000e-159 571.0
18 TraesCS6B01G035300 chr7B 84.727 550 78 6 2337 2882 741972939 741972392 1.950000e-151 545.0
19 TraesCS6B01G035300 chr3D 83.747 443 67 5 2438 2876 351412097 351412538 5.750000e-112 414.0
20 TraesCS6B01G035300 chr3A 83.111 450 65 10 2439 2881 135577712 135577267 1.610000e-107 399.0
21 TraesCS6B01G035300 chr5D 82.679 433 70 5 2453 2881 558924196 558924627 2.100000e-101 379.0
22 TraesCS6B01G035300 chr5D 82.452 416 65 8 2444 2854 324749142 324749554 9.820000e-95 357.0
23 TraesCS6B01G035300 chr5A 84.800 250 36 2 173 420 680608546 680608795 1.710000e-62 250.0
24 TraesCS6B01G035300 chr1B 85.537 242 30 4 173 411 649370329 649370568 6.170000e-62 248.0
25 TraesCS6B01G035300 chr1B 82.412 199 29 6 203 396 383801222 383801419 4.940000e-38 169.0
26 TraesCS6B01G035300 chr1B 86.735 98 13 0 203 300 268407272 268407175 3.040000e-20 110.0
27 TraesCS6B01G035300 chr1A 78.756 193 40 1 203 394 240316550 240316358 8.380000e-26 128.0
28 TraesCS6B01G035300 chr2B 84.091 132 16 4 2547 2676 157639060 157638932 3.900000e-24 122.0
29 TraesCS6B01G035300 chr7D 81.679 131 24 0 2478 2608 44535462 44535592 3.040000e-20 110.0


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 TraesCS6B01G035300 chr6B 20942503 20945384 2881 True 5323.0 5323 100.0000 1 2882 1 chr6B.!!$R3 2881
1 TraesCS6B01G035300 chr6B 20882068 20883960 1892 True 2878.0 2878 94.3280 1 1872 1 chr6B.!!$R2 1871
2 TraesCS6B01G035300 chr6B 20703248 20707075 3827 True 1522.5 2856 88.1550 1 2324 2 chr6B.!!$R4 2323
3 TraesCS6B01G035300 chr6D 20762822 20763917 1095 True 804.0 804 80.5360 801 1883 1 chr6D.!!$R1 1082
4 TraesCS6B01G035300 chr6D 42099884 42100430 546 True 593.0 593 86.3140 2337 2882 1 chr6D.!!$R2 545
5 TraesCS6B01G035300 chr6D 11073738 11074664 926 True 392.0 654 87.6205 999 1883 2 chr6D.!!$R4 884
6 TraesCS6B01G035300 chr2D 304973409 304973955 546 False 638.0 638 87.7960 2337 2882 1 chr2D.!!$F1 545
7 TraesCS6B01G035300 chr4D 19065992 19066534 542 False 590.0 590 86.3640 2337 2882 1 chr4D.!!$F1 545
8 TraesCS6B01G035300 chr7B 742025972 742026519 547 True 571.0 571 85.6100 2337 2881 1 chr7B.!!$R2 544
9 TraesCS6B01G035300 chr7B 741972392 741972939 547 True 545.0 545 84.7270 2337 2882 1 chr7B.!!$R1 545

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
610 624 0.908198 GAAGATCAGGACAGCAGGGT 59.092 55.0 0.0 0.0 0.0 4.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2332 3910 0.54083 CCGGCTAGCTAGGTCCTCAT 60.541 60.0 22.1 0.0 0.0 2.9 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
118 119 4.712051 AAGCTCATGAGGGCACATATTA 57.288 40.909 23.89 0.00 0.00 0.98
187 188 2.575279 ACGAGTTACTCCCTCTGTCCTA 59.425 50.000 6.80 0.00 0.00 2.94
201 202 5.009811 CCTCTGTCCTAGTTTATTAGACCCG 59.990 48.000 0.00 0.00 0.00 5.28
227 228 7.589958 TCTTATTTTGGGCTAAAGTTTGACA 57.410 32.000 0.00 0.00 0.00 3.58
381 386 6.043411 CCAAAGTTTGACCCAAAATACGAAA 58.957 36.000 17.33 0.00 35.03 3.46
404 409 1.089112 CCCAATAAACCCGGACGAAC 58.911 55.000 0.73 0.00 0.00 3.95
421 433 4.232221 ACGAACGTAGTAGAATGTTGTGG 58.768 43.478 0.00 0.00 45.00 4.17
469 481 2.136298 TTGTGGCAAGAACAAGTCCA 57.864 45.000 0.00 0.00 32.71 4.02
485 497 1.071385 GTCCATGTATCCTCTGCCAGG 59.929 57.143 0.00 0.00 45.15 4.45
531 544 9.325198 TGTAGTATAATGCTTGTACCATTCAAG 57.675 33.333 0.00 0.00 43.31 3.02
542 556 2.348472 ACCATTCAAGAACCCCTCTCA 58.652 47.619 0.00 0.00 31.02 3.27
572 586 3.238788 TGACTGACTTGGTGGAGTCTA 57.761 47.619 6.59 0.00 44.99 2.59
579 593 4.281182 TGACTTGGTGGAGTCTAAAGTCTC 59.719 45.833 17.14 0.00 44.48 3.36
580 594 4.223953 ACTTGGTGGAGTCTAAAGTCTCA 58.776 43.478 6.58 0.00 32.98 3.27
585 599 5.130477 TGGTGGAGTCTAAAGTCTCAGTTTT 59.870 40.000 6.58 0.00 32.98 2.43
592 606 7.556844 AGTCTAAAGTCTCAGTTTTCAAGTGA 58.443 34.615 0.00 0.00 38.47 3.41
610 624 0.908198 GAAGATCAGGACAGCAGGGT 59.092 55.000 0.00 0.00 0.00 4.34
672 686 1.661112 GCAGAGAATACACGGACTTGC 59.339 52.381 0.00 0.00 0.00 4.01
705 726 6.704493 ACAAGTACGTGTTACATCAGAAATGT 59.296 34.615 8.75 0.00 36.13 2.71
713 734 7.425606 GTGTTACATCAGAAATGTCAACCTTT 58.574 34.615 0.00 0.00 33.76 3.11
717 738 6.549364 TACATCAGAAATGTCAACCTTTTGGT 59.451 34.615 0.00 0.00 43.03 3.67
1752 1830 6.589135 TGATGAAGATTATGCATGTCTCAGT 58.411 36.000 10.16 0.00 0.00 3.41
1761 1839 5.620738 ATGCATGTCTCAGTAACCATAGT 57.379 39.130 0.00 0.00 0.00 2.12
1780 1861 3.535561 AGTAGTGGGCAATTCGATTCAG 58.464 45.455 0.00 0.00 0.00 3.02
1802 1895 8.181487 TCAGCTAACGTCACTTATTATTGTTC 57.819 34.615 0.00 0.00 0.00 3.18
1879 1975 8.200792 GTGACAAAGGTAATCACTCTGAGATAT 58.799 37.037 12.44 1.26 39.72 1.63
1880 1976 9.421399 TGACAAAGGTAATCACTCTGAGATATA 57.579 33.333 12.44 0.00 0.00 0.86
2009 2105 6.436847 CCCCCATCTTAAAATTTGCCATTTTT 59.563 34.615 8.54 3.11 33.73 1.94
2047 2143 6.667007 TTACTGTTCACACATGAGCATATG 57.333 37.500 0.00 0.00 44.09 1.78
2051 2147 4.632688 TGTTCACACATGAGCATATGAGTG 59.367 41.667 18.08 18.08 45.21 3.51
2065 2161 0.581529 TGAGTGCAAGCTTCGTTTCG 59.418 50.000 0.00 0.00 0.00 3.46
2071 2167 3.117994 GTGCAAGCTTCGTTTCGAATTTC 59.882 43.478 0.00 0.00 44.85 2.17
2081 2177 6.721571 TCGTTTCGAATTTCTGCTATCTTT 57.278 33.333 0.00 0.00 31.06 2.52
2087 2183 4.574013 CGAATTTCTGCTATCTTTGGCTCT 59.426 41.667 0.00 0.00 0.00 4.09
2092 2188 6.992063 TTCTGCTATCTTTGGCTCTTTTAG 57.008 37.500 0.00 0.00 0.00 1.85
2096 2192 5.648092 TGCTATCTTTGGCTCTTTTAGTTCC 59.352 40.000 0.00 0.00 0.00 3.62
2099 2195 7.553044 GCTATCTTTGGCTCTTTTAGTTCCTAA 59.447 37.037 0.00 0.00 0.00 2.69
2100 2196 7.929941 ATCTTTGGCTCTTTTAGTTCCTAAG 57.070 36.000 0.00 0.00 33.19 2.18
2101 2197 6.838382 TCTTTGGCTCTTTTAGTTCCTAAGT 58.162 36.000 0.00 0.00 33.50 2.24
2102 2198 7.287810 TCTTTGGCTCTTTTAGTTCCTAAGTT 58.712 34.615 0.00 0.00 33.50 2.66
2103 2199 6.877611 TTGGCTCTTTTAGTTCCTAAGTTG 57.122 37.500 0.00 0.00 0.00 3.16
2105 2201 7.069877 TGGCTCTTTTAGTTCCTAAGTTGTA 57.930 36.000 0.00 0.00 0.00 2.41
2106 2202 7.159372 TGGCTCTTTTAGTTCCTAAGTTGTAG 58.841 38.462 0.00 0.00 0.00 2.74
2107 2203 7.015877 TGGCTCTTTTAGTTCCTAAGTTGTAGA 59.984 37.037 0.00 0.00 0.00 2.59
2108 2204 7.546316 GGCTCTTTTAGTTCCTAAGTTGTAGAG 59.454 40.741 0.00 0.00 0.00 2.43
2110 2206 9.628746 CTCTTTTAGTTCCTAAGTTGTAGAGTC 57.371 37.037 0.00 0.00 0.00 3.36
2111 2207 9.139734 TCTTTTAGTTCCTAAGTTGTAGAGTCA 57.860 33.333 0.00 0.00 0.00 3.41
2121 2487 4.770795 AGTTGTAGAGTCATTATGGTGCC 58.229 43.478 0.00 0.00 0.00 5.01
2137 2503 1.303317 GCCACCACCGATTTCACCT 60.303 57.895 0.00 0.00 0.00 4.00
2139 2505 1.734163 CCACCACCGATTTCACCTAC 58.266 55.000 0.00 0.00 0.00 3.18
2154 3721 2.093128 CACCTACGGCCTTATGGAAAGT 60.093 50.000 0.00 0.00 34.57 2.66
2196 3763 9.884814 AGATACAAATATACTCCTTGGAGTAGT 57.115 33.333 27.04 21.70 40.52 2.73
2230 3808 1.102978 GTTTTGTCTGTGTGGCCAGT 58.897 50.000 5.11 0.00 34.02 4.00
2249 3827 5.617751 GCCAGTCTAAAAGCATGTACACTTG 60.618 44.000 0.00 0.00 0.00 3.16
2254 3832 6.091441 GTCTAAAAGCATGTACACTTGGAGAG 59.909 42.308 0.00 0.00 0.00 3.20
2257 3835 1.555075 GCATGTACACTTGGAGAGGGA 59.445 52.381 0.00 0.00 31.33 4.20
2273 3851 5.356470 GGAGAGGGACATTGATTTCAAGAAG 59.644 44.000 0.00 0.00 39.47 2.85
2301 3879 2.863809 AGACAATGTTGGTTGGGAGTC 58.136 47.619 0.00 0.00 33.40 3.36
2313 3891 1.306568 GGGAGTCCTTGGAGAGGCT 60.307 63.158 9.58 0.00 45.87 4.58
2315 3893 0.988063 GGAGTCCTTGGAGAGGCTTT 59.012 55.000 0.41 0.00 45.87 3.51
2316 3894 1.339535 GGAGTCCTTGGAGAGGCTTTG 60.340 57.143 0.41 0.00 45.87 2.77
2331 3909 3.255725 GGCTTTGCCCGTTAAATAAACC 58.744 45.455 0.00 0.00 44.06 3.27
2332 3910 3.306156 GGCTTTGCCCGTTAAATAAACCA 60.306 43.478 0.00 0.00 44.06 3.67
2333 3911 4.500127 GCTTTGCCCGTTAAATAAACCAT 58.500 39.130 0.00 0.00 34.33 3.55
2334 3912 4.328712 GCTTTGCCCGTTAAATAAACCATG 59.671 41.667 0.00 0.00 34.33 3.66
2335 3913 5.715070 CTTTGCCCGTTAAATAAACCATGA 58.285 37.500 0.00 0.00 34.33 3.07
2378 3956 1.927210 CGCTCGTTCATCGGATTGG 59.073 57.895 0.00 0.00 40.32 3.16
2451 4029 2.618709 CAAAAAGGAAAGCGTCAGGTCT 59.381 45.455 0.00 0.00 0.00 3.85
2457 4036 2.353803 GGAAAGCGTCAGGTCTATGTGT 60.354 50.000 0.00 0.00 0.00 3.72
2488 4068 7.995488 GCTATCTATCCCACCTGCATTAATTAT 59.005 37.037 0.00 0.00 0.00 1.28
2497 4078 6.211986 CCACCTGCATTAATTATGGGATCAAT 59.788 38.462 0.00 0.00 34.66 2.57
2498 4079 7.256404 CCACCTGCATTAATTATGGGATCAATT 60.256 37.037 0.00 0.00 34.66 2.32
2499 4080 8.152246 CACCTGCATTAATTATGGGATCAATTT 58.848 33.333 0.00 0.00 34.66 1.82
2500 4081 8.716779 ACCTGCATTAATTATGGGATCAATTTT 58.283 29.630 0.00 0.00 34.66 1.82
2545 4127 4.893608 TCGAGTGTCAAAATTGAGATCCA 58.106 39.130 0.00 0.00 37.98 3.41
2549 4132 6.744537 CGAGTGTCAAAATTGAGATCCATTTC 59.255 38.462 0.00 0.00 37.98 2.17
2584 4168 1.864711 TCGCCACGAGTTCTTCAAAAG 59.135 47.619 0.00 0.00 0.00 2.27
2609 4193 4.528596 AGATCCCATATGAGTAGGTTTCGG 59.471 45.833 3.65 0.00 0.00 4.30
2614 4198 4.638421 CCATATGAGTAGGTTTCGGCAAAA 59.362 41.667 3.65 0.00 0.00 2.44
2615 4199 5.124776 CCATATGAGTAGGTTTCGGCAAAAA 59.875 40.000 3.65 0.00 0.00 1.94
2640 4224 5.581126 AAATCTTGAGCAACTTTGTGTGA 57.419 34.783 0.00 0.00 0.00 3.58
2643 4227 7.458409 AATCTTGAGCAACTTTGTGTGATAT 57.542 32.000 0.00 0.00 0.00 1.63
2710 4295 9.824216 TCCTAGTATGACTACCTATTAGCAAAT 57.176 33.333 0.00 0.00 0.00 2.32
2815 4400 3.358111 TCACTAAATCGCCCCAAATGA 57.642 42.857 0.00 0.00 0.00 2.57
2836 4421 0.814812 GGGGTCGACCTCTCTAGACG 60.815 65.000 32.52 0.00 40.03 4.18
2855 4440 4.949856 AGACGCTTTTAACCATCCAATGAT 59.050 37.500 0.00 0.00 0.00 2.45
2876 4461 6.923012 TGATGGTCATCGAATTTGTTTGAAT 58.077 32.000 6.49 0.00 40.63 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
143 144 7.012138 TCGTGTAAATTGGTTGTTGTAAGCTTA 59.988 33.333 0.86 0.86 0.00 3.09
187 188 7.282450 CCAAAATAAGAGCGGGTCTAATAAACT 59.718 37.037 10.52 0.00 32.65 2.66
201 202 6.586463 GTCAAACTTTAGCCCAAAATAAGAGC 59.414 38.462 0.00 0.00 0.00 4.09
342 347 7.439655 GTCAAACTTTGGCCATCTATAGACTAG 59.560 40.741 6.09 0.00 0.00 2.57
357 362 5.189659 TCGTATTTTGGGTCAAACTTTGG 57.810 39.130 1.62 0.00 32.79 3.28
381 386 1.931705 TCCGGGTTTATTGGGCCCT 60.932 57.895 25.70 5.93 40.22 5.19
404 409 3.322369 TGTGCCACAACATTCTACTACG 58.678 45.455 0.00 0.00 0.00 3.51
421 433 3.096489 TCAGAAATGCCAACTTTGTGC 57.904 42.857 0.00 0.00 29.59 4.57
469 481 1.771255 GTTCCCTGGCAGAGGATACAT 59.229 52.381 17.94 0.00 46.33 2.29
485 497 3.694566 ACAGAAATATCCAAAGCCGTTCC 59.305 43.478 0.00 0.00 0.00 3.62
519 532 3.256704 AGAGGGGTTCTTGAATGGTACA 58.743 45.455 0.00 0.00 35.70 2.90
531 544 0.035915 GCTGAAGGTGAGAGGGGTTC 60.036 60.000 0.00 0.00 0.00 3.62
572 586 7.554118 TGATCTTCACTTGAAAACTGAGACTTT 59.446 33.333 0.00 0.00 33.07 2.66
579 593 5.528690 TGTCCTGATCTTCACTTGAAAACTG 59.471 40.000 0.00 0.00 33.07 3.16
580 594 5.684704 TGTCCTGATCTTCACTTGAAAACT 58.315 37.500 0.00 0.00 33.07 2.66
585 599 2.634453 TGCTGTCCTGATCTTCACTTGA 59.366 45.455 0.00 0.00 0.00 3.02
592 606 1.366319 AACCCTGCTGTCCTGATCTT 58.634 50.000 0.00 0.00 0.00 2.40
672 686 1.865865 ACACGTACTTGTGGCAAGAG 58.134 50.000 14.81 8.44 44.21 2.85
705 726 5.923733 ACAATGTTGTACCAAAAGGTTGA 57.076 34.783 0.00 0.00 40.16 3.18
713 734 4.524714 CCATGGGTTACAATGTTGTACCAA 59.475 41.667 15.12 9.97 42.84 3.67
717 738 5.502079 CCTACCATGGGTTACAATGTTGTA 58.498 41.667 18.09 1.62 41.56 2.41
733 754 2.225805 ACTGTTCAGTACCCCCTACCAT 60.226 50.000 3.47 0.00 0.00 3.55
1752 1830 4.406326 TCGAATTGCCCACTACTATGGTTA 59.594 41.667 0.00 0.00 38.16 2.85
1761 1839 2.092968 AGCTGAATCGAATTGCCCACTA 60.093 45.455 0.00 0.00 0.00 2.74
1780 1861 7.064253 ACAGGAACAATAATAAGTGACGTTAGC 59.936 37.037 0.00 0.00 0.00 3.09
1802 1895 1.373748 CGGTAACCACGGTCACAGG 60.374 63.158 0.00 0.00 0.00 4.00
1961 2057 8.100164 GGGGGAATATTGTTGAAGAAAAATTGA 58.900 33.333 0.00 0.00 0.00 2.57
2021 2117 5.168526 TGCTCATGTGTGAACAGTAAAAC 57.831 39.130 0.00 0.00 33.05 2.43
2047 2143 0.859232 TCGAAACGAAGCTTGCACTC 59.141 50.000 2.10 0.00 31.06 3.51
2059 2155 5.734498 CCAAAGATAGCAGAAATTCGAAACG 59.266 40.000 0.00 0.00 0.00 3.60
2065 2161 6.448207 AAGAGCCAAAGATAGCAGAAATTC 57.552 37.500 0.00 0.00 0.00 2.17
2071 2167 6.183360 GGAACTAAAAGAGCCAAAGATAGCAG 60.183 42.308 0.00 0.00 0.00 4.24
2092 2188 8.258708 ACCATAATGACTCTACAACTTAGGAAC 58.741 37.037 0.00 0.00 0.00 3.62
2096 2192 6.480320 GGCACCATAATGACTCTACAACTTAG 59.520 42.308 0.00 0.00 0.00 2.18
2099 2195 4.225042 TGGCACCATAATGACTCTACAACT 59.775 41.667 0.00 0.00 0.00 3.16
2100 2196 4.332819 GTGGCACCATAATGACTCTACAAC 59.667 45.833 6.29 0.00 0.00 3.32
2101 2197 4.513442 GTGGCACCATAATGACTCTACAA 58.487 43.478 6.29 0.00 0.00 2.41
2102 2198 3.118408 GGTGGCACCATAATGACTCTACA 60.118 47.826 31.26 0.00 38.42 2.74
2103 2199 3.118408 TGGTGGCACCATAATGACTCTAC 60.118 47.826 34.67 4.51 44.79 2.59
2105 2201 1.915489 TGGTGGCACCATAATGACTCT 59.085 47.619 34.67 0.00 44.79 3.24
2106 2202 2.418368 TGGTGGCACCATAATGACTC 57.582 50.000 34.67 5.74 44.79 3.36
2121 2487 1.355971 CGTAGGTGAAATCGGTGGTG 58.644 55.000 0.00 0.00 0.00 4.17
2137 2503 3.244630 ACAACACTTTCCATAAGGCCGTA 60.245 43.478 0.00 0.00 33.74 4.02
2139 2505 2.159382 ACAACACTTTCCATAAGGCCG 58.841 47.619 0.00 0.00 33.74 6.13
2197 3764 9.561069 ACACAGACAAAACTCTAAGACATATTT 57.439 29.630 0.00 0.00 0.00 1.40
2198 3765 8.993121 CACACAGACAAAACTCTAAGACATATT 58.007 33.333 0.00 0.00 0.00 1.28
2201 3768 5.760253 CCACACAGACAAAACTCTAAGACAT 59.240 40.000 0.00 0.00 0.00 3.06
2203 3770 4.024809 GCCACACAGACAAAACTCTAAGAC 60.025 45.833 0.00 0.00 0.00 3.01
2222 3800 2.162681 ACATGCTTTTAGACTGGCCAC 58.837 47.619 0.00 0.00 0.00 5.01
2230 3808 6.109156 TCTCCAAGTGTACATGCTTTTAGA 57.891 37.500 0.00 1.61 0.00 2.10
2249 3827 4.848357 TCTTGAAATCAATGTCCCTCTCC 58.152 43.478 0.00 0.00 35.02 3.71
2254 3832 3.766051 AGCCTTCTTGAAATCAATGTCCC 59.234 43.478 0.00 0.00 35.02 4.46
2257 3835 4.828939 TGTGAGCCTTCTTGAAATCAATGT 59.171 37.500 0.00 0.00 35.02 2.71
2273 3851 1.956477 ACCAACATTGTCTTGTGAGCC 59.044 47.619 0.00 0.00 0.00 4.70
2301 3879 4.009015 GGCAAAGCCTCTCCAAGG 57.991 61.111 0.00 0.00 46.69 3.61
2313 3891 5.336849 CCTCATGGTTTATTTAACGGGCAAA 60.337 40.000 0.00 0.00 37.64 3.68
2315 3893 3.697045 CCTCATGGTTTATTTAACGGGCA 59.303 43.478 0.00 0.00 37.64 5.36
2316 3894 3.949113 TCCTCATGGTTTATTTAACGGGC 59.051 43.478 0.00 0.00 37.64 6.13
2319 3897 6.018180 GCTAGGTCCTCATGGTTTATTTAACG 60.018 42.308 0.00 0.00 37.64 3.18
2320 3898 7.054751 AGCTAGGTCCTCATGGTTTATTTAAC 58.945 38.462 0.00 0.00 35.94 2.01
2322 3900 6.824958 AGCTAGGTCCTCATGGTTTATTTA 57.175 37.500 0.00 0.00 34.23 1.40
2323 3901 5.717119 AGCTAGGTCCTCATGGTTTATTT 57.283 39.130 0.00 0.00 34.23 1.40
2324 3902 5.221742 GCTAGCTAGGTCCTCATGGTTTATT 60.222 44.000 22.10 0.00 34.23 1.40
2325 3903 4.284746 GCTAGCTAGGTCCTCATGGTTTAT 59.715 45.833 22.10 0.00 34.23 1.40
2326 3904 3.641906 GCTAGCTAGGTCCTCATGGTTTA 59.358 47.826 22.10 0.00 34.23 2.01
2327 3905 2.436173 GCTAGCTAGGTCCTCATGGTTT 59.564 50.000 22.10 0.00 34.23 3.27
2328 3906 2.043227 GCTAGCTAGGTCCTCATGGTT 58.957 52.381 22.10 0.00 34.23 3.67
2329 3907 1.710816 GCTAGCTAGGTCCTCATGGT 58.289 55.000 22.10 0.00 34.23 3.55
2330 3908 0.972883 GGCTAGCTAGGTCCTCATGG 59.027 60.000 22.10 0.00 0.00 3.66
2331 3909 0.600557 CGGCTAGCTAGGTCCTCATG 59.399 60.000 22.10 0.05 0.00 3.07
2332 3910 0.540830 CCGGCTAGCTAGGTCCTCAT 60.541 60.000 22.10 0.00 0.00 2.90
2333 3911 1.152735 CCGGCTAGCTAGGTCCTCA 60.153 63.158 22.10 0.00 0.00 3.86
2334 3912 2.566570 GCCGGCTAGCTAGGTCCTC 61.567 68.421 22.15 4.89 0.00 3.71
2335 3913 2.522193 GCCGGCTAGCTAGGTCCT 60.522 66.667 22.15 0.00 0.00 3.85
2356 3934 3.554692 CCGATGAACGAGCGCACC 61.555 66.667 11.47 0.00 45.77 5.01
2410 3988 2.703536 TGGTGCAGTTGAAGAGAACCTA 59.296 45.455 0.00 0.00 0.00 3.08
2451 4029 4.830600 TGGGATAGATAGCGTGAACACATA 59.169 41.667 5.80 0.00 0.00 2.29
2457 4036 2.628178 CAGGTGGGATAGATAGCGTGAA 59.372 50.000 0.00 0.00 0.00 3.18
2549 4132 2.613506 GCGAGAAACCCAACGGTGG 61.614 63.158 14.25 14.25 43.71 4.61
2568 4152 5.348997 GGGATCTACTTTTGAAGAACTCGTG 59.651 44.000 0.00 0.00 0.00 4.35
2584 4168 6.350277 CCGAAACCTACTCATATGGGATCTAC 60.350 46.154 10.29 0.00 0.00 2.59
2616 4200 6.397272 TCACACAAAGTTGCTCAAGATTTTT 58.603 32.000 0.00 0.00 0.00 1.94
2617 4201 5.964758 TCACACAAAGTTGCTCAAGATTTT 58.035 33.333 0.00 0.00 0.00 1.82
2618 4202 5.581126 TCACACAAAGTTGCTCAAGATTT 57.419 34.783 0.00 0.00 0.00 2.17
2619 4203 5.779529 ATCACACAAAGTTGCTCAAGATT 57.220 34.783 0.00 0.00 0.00 2.40
2620 4204 8.043113 TCTATATCACACAAAGTTGCTCAAGAT 58.957 33.333 0.00 0.00 0.00 2.40
2684 4269 9.824216 ATTTGCTAATAGGTAGTCATACTAGGA 57.176 33.333 0.00 0.00 30.12 2.94
2710 4295 7.556275 GTCATGGTAACCAATTTAGAAGGATCA 59.444 37.037 0.00 0.00 36.95 2.92
2815 4400 1.224039 CTAGAGAGGTCGACCCCGT 59.776 63.158 30.82 15.76 36.42 5.28
2820 4405 1.371595 AAGCGTCTAGAGAGGTCGAC 58.628 55.000 7.13 7.13 32.91 4.20
2855 4440 7.881142 ACTTATTCAAACAAATTCGATGACCA 58.119 30.769 0.00 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.