Multiple sequence alignment - TraesCS1B01G418000

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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 TraesCS1B01G418000 chr1B 100.000 3086 0 0 1 3086 642123979 642120894 0.000000e+00 5699.0
1 TraesCS1B01G418000 chr1B 85.603 257 24 2 1892 2148 40774006 40773763 1.100000e-64 257.0
2 TraesCS1B01G418000 chr1D 90.489 2313 117 40 30 2283 465351704 465349436 0.000000e+00 2957.0
3 TraesCS1B01G418000 chr1D 82.922 1013 78 46 2110 3086 465349448 465348495 0.000000e+00 824.0
4 TraesCS1B01G418000 chr1A 90.109 2285 106 64 29 2258 557874368 557872149 0.000000e+00 2857.0
5 TraesCS1B01G418000 chr1A 82.058 797 59 42 2337 3086 557865424 557864665 1.220000e-168 603.0
6 TraesCS1B01G418000 chr1A 93.182 44 2 1 2829 2872 557858522 557858480 2.570000e-06 63.9
7 TraesCS1B01G418000 chr3D 80.279 502 66 16 1016 1510 583914867 583914392 6.330000e-92 348.0
8 TraesCS1B01G418000 chr4B 89.272 261 23 3 1445 1701 429345171 429344912 3.840000e-84 322.0
9 TraesCS1B01G418000 chr4B 84.252 127 13 5 2964 3086 82372463 82372586 1.940000e-22 117.0
10 TraesCS1B01G418000 chr6D 79.947 374 39 21 1146 1510 460161834 460161488 3.070000e-60 243.0
11 TraesCS1B01G418000 chr5B 77.055 292 40 16 2804 3086 472121890 472121617 3.210000e-30 143.0
12 TraesCS1B01G418000 chr2B 81.481 162 19 7 1353 1510 775136865 775136711 4.180000e-24 122.0
13 TraesCS1B01G418000 chr2A 95.652 69 2 1 1849 1916 348213797 348213865 3.250000e-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 TraesCS1B01G418000 chr1B 642120894 642123979 3085 True 5699.0 5699 100.0000 1 3086 1 chr1B.!!$R2 3085
1 TraesCS1B01G418000 chr1D 465348495 465351704 3209 True 1890.5 2957 86.7055 30 3086 2 chr1D.!!$R1 3056
2 TraesCS1B01G418000 chr1A 557872149 557874368 2219 True 2857.0 2857 90.1090 29 2258 1 chr1A.!!$R3 2229
3 TraesCS1B01G418000 chr1A 557864665 557865424 759 True 603.0 603 82.0580 2337 3086 1 chr1A.!!$R2 749

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
450 470 0.326143 TAGCCTCATGCACCTGGGTA 60.326 55.0 0.0 8.07 44.83 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2335 2572 0.178987 ACAGAGGTGACTGACGGACT 60.179 55.0 0.0 0.0 44.43 3.85 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
24 25 7.899178 TTTTGTGGAAAAAGAAGAGAAAACC 57.101 32.000 0.00 0.00 0.00 3.27
25 26 6.850752 TTGTGGAAAAAGAAGAGAAAACCT 57.149 33.333 0.00 0.00 0.00 3.50
26 27 6.451064 TGTGGAAAAAGAAGAGAAAACCTC 57.549 37.500 0.00 0.00 42.28 3.85
53 54 3.425162 AGAGGCCGAAAAATCTGACTT 57.575 42.857 0.00 0.00 0.00 3.01
143 144 3.124128 CCAATAATGCAGATCGACCGATG 59.876 47.826 9.83 0.00 34.60 3.84
354 372 4.486503 CCTCTGCTCTGCCCTGCC 62.487 72.222 0.00 0.00 0.00 4.85
374 392 2.257371 CGGTGTCACATCCGTCGT 59.743 61.111 5.12 0.00 41.58 4.34
429 447 3.912907 CCGGTAGGTGCGGCTAGG 61.913 72.222 0.00 0.00 0.00 3.02
432 450 1.831286 GGTAGGTGCGGCTAGGCTA 60.831 63.158 15.11 0.06 0.00 3.93
433 451 1.660917 GTAGGTGCGGCTAGGCTAG 59.339 63.158 17.33 17.33 0.00 3.42
446 466 1.525535 GGCTAGCCTCATGCACCTG 60.526 63.158 27.17 0.00 44.83 4.00
448 468 1.147824 CTAGCCTCATGCACCTGGG 59.852 63.158 0.00 0.00 44.83 4.45
450 470 0.326143 TAGCCTCATGCACCTGGGTA 60.326 55.000 0.00 8.07 44.83 3.69
451 471 1.153086 GCCTCATGCACCTGGGTAG 60.153 63.158 0.00 0.00 40.77 3.18
562 582 2.050895 CGATCGGATCGCTCGCTT 60.051 61.111 25.34 0.00 46.55 4.68
631 657 0.482887 CTTGTTTGTTCCCCTCCCCT 59.517 55.000 0.00 0.00 0.00 4.79
632 658 0.481128 TTGTTTGTTCCCCTCCCCTC 59.519 55.000 0.00 0.00 0.00 4.30
633 659 1.383019 GTTTGTTCCCCTCCCCTCC 59.617 63.158 0.00 0.00 0.00 4.30
634 660 1.855451 TTTGTTCCCCTCCCCTCCC 60.855 63.158 0.00 0.00 0.00 4.30
635 661 3.902927 TTGTTCCCCTCCCCTCCCC 62.903 68.421 0.00 0.00 0.00 4.81
654 680 3.347405 CCCGGTAAAACGCACGCA 61.347 61.111 0.00 0.00 0.00 5.24
765 819 2.671619 TGTTAAGTGCCCGCCTGC 60.672 61.111 0.00 0.00 0.00 4.85
766 820 3.799755 GTTAAGTGCCCGCCTGCG 61.800 66.667 4.20 4.20 39.44 5.18
822 888 4.974721 CTGGGCCACCACCACCAC 62.975 72.222 0.00 0.00 43.37 4.16
1180 1275 0.996583 GAATGGTGGGGTGAAGGGTA 59.003 55.000 0.00 0.00 0.00 3.69
1192 1287 0.036306 GAAGGGTAGTGGTGGTGGTG 59.964 60.000 0.00 0.00 0.00 4.17
1193 1288 1.423794 AAGGGTAGTGGTGGTGGTGG 61.424 60.000 0.00 0.00 0.00 4.61
1194 1289 2.151388 GGGTAGTGGTGGTGGTGGT 61.151 63.158 0.00 0.00 0.00 4.16
1299 1394 0.247736 ATCGTCAGAAGCAGGTGGTC 59.752 55.000 0.00 0.00 0.00 4.02
1305 1400 2.847234 AAGCAGGTGGTCCACGGA 60.847 61.111 15.93 0.00 34.83 4.69
1317 1412 2.104281 GGTCCACGGAGGTAATGCTAAT 59.896 50.000 0.00 0.00 39.02 1.73
1359 1454 1.801983 GTCGTCTTCCTCGTCCTCC 59.198 63.158 0.00 0.00 0.00 4.30
1557 1655 0.110486 TGGAGGCCACAGAAACTTCC 59.890 55.000 5.01 0.00 0.00 3.46
1971 2069 3.979497 GTCAAGGGGGTGGTGGGG 61.979 72.222 0.00 0.00 0.00 4.96
2158 2259 0.832135 TCCACTCCACTCCACTCCAC 60.832 60.000 0.00 0.00 0.00 4.02
2161 2262 2.461695 CACTCCACTCCACTCCACTAT 58.538 52.381 0.00 0.00 0.00 2.12
2181 2282 4.752661 ATACCGAAGCTCGAGTAGAATC 57.247 45.455 15.13 4.85 43.74 2.52
2187 2288 2.548875 AGCTCGAGTAGAATCGTACGT 58.451 47.619 16.05 0.00 43.20 3.57
2243 2344 1.489481 TGATGAGCGGACTGGATCTT 58.511 50.000 0.00 0.00 0.00 2.40
2246 2483 0.537188 TGAGCGGACTGGATCTTTCC 59.463 55.000 0.00 0.00 42.94 3.13
2260 2497 1.762222 CTTTCCGATTAGGTGGCGCG 61.762 60.000 0.00 0.00 41.99 6.86
2261 2498 3.726595 TTCCGATTAGGTGGCGCGG 62.727 63.158 8.83 0.00 43.11 6.46
2292 2529 4.368808 CGGTCGCCGTTGCAACAG 62.369 66.667 28.01 18.92 42.73 3.16
2308 2545 0.188342 ACAGCCTTGGGTGGTTGATT 59.812 50.000 20.88 0.00 40.16 2.57
2309 2546 1.427368 ACAGCCTTGGGTGGTTGATTA 59.573 47.619 20.88 0.00 40.16 1.75
2310 2547 1.818674 CAGCCTTGGGTGGTTGATTAC 59.181 52.381 10.71 0.00 40.16 1.89
2311 2548 1.427368 AGCCTTGGGTGGTTGATTACA 59.573 47.619 0.00 0.00 0.00 2.41
2312 2549 2.042979 AGCCTTGGGTGGTTGATTACAT 59.957 45.455 0.00 0.00 0.00 2.29
2313 2550 2.831526 GCCTTGGGTGGTTGATTACATT 59.168 45.455 0.00 0.00 0.00 2.71
2314 2551 4.020543 GCCTTGGGTGGTTGATTACATTA 58.979 43.478 0.00 0.00 0.00 1.90
2315 2552 4.142249 GCCTTGGGTGGTTGATTACATTAC 60.142 45.833 0.00 0.00 0.00 1.89
2316 2553 5.261216 CCTTGGGTGGTTGATTACATTACT 58.739 41.667 0.00 0.00 0.00 2.24
2317 2554 5.357032 CCTTGGGTGGTTGATTACATTACTC 59.643 44.000 0.00 0.00 0.00 2.59
2318 2555 4.850680 TGGGTGGTTGATTACATTACTCC 58.149 43.478 0.00 0.00 0.00 3.85
2324 2561 7.441458 GGTGGTTGATTACATTACTCCTACATC 59.559 40.741 0.00 0.00 0.00 3.06
2335 2572 9.159254 ACATTACTCCTACATCAGATAATGGAA 57.841 33.333 0.00 0.00 33.29 3.53
2363 2616 4.635324 GTCAGTCACCTCTGTACTAGTACC 59.365 50.000 26.41 11.09 36.85 3.34
2381 2639 0.460311 CCAGTGTAGGGTCCGATGAC 59.540 60.000 0.00 0.00 40.98 3.06
2407 2665 3.812053 AGATGATCTTGATTTGTAGCGGC 59.188 43.478 0.00 0.00 0.00 6.53
2426 2684 2.506438 GTGCCGACTGCCGACTAC 60.506 66.667 0.00 0.00 41.76 2.73
2459 2717 4.828387 TCAGTGAGATGAGATGAGATCTGG 59.172 45.833 0.00 0.00 40.38 3.86
2477 2735 1.017387 GGCTGTCCCACGAATGAATC 58.983 55.000 0.00 0.00 0.00 2.52
2478 2736 1.017387 GCTGTCCCACGAATGAATCC 58.983 55.000 0.00 0.00 0.00 3.01
2484 2742 2.432146 TCCCACGAATGAATCCTCTCTG 59.568 50.000 0.00 0.00 0.00 3.35
2564 2839 6.413783 AGGGTCGATTTTTATGTGGTTTTT 57.586 33.333 0.00 0.00 0.00 1.94
2589 2864 8.610248 TTACAGTAGTAGATCTCAGTAGATGC 57.390 38.462 0.00 0.00 42.73 3.91
2595 2870 0.678395 ATCTCAGTAGATGCCGCTGG 59.322 55.000 0.00 0.00 41.08 4.85
2617 2892 2.029290 GCTACCCACGTCTGAGAAAAGA 60.029 50.000 0.00 0.00 0.00 2.52
2670 2951 4.889112 TATCTCCTCGCCGCCGGT 62.889 66.667 4.45 0.00 34.56 5.28
2689 2970 3.677976 CGGTTAGATTTGGTAGGAGCGTT 60.678 47.826 0.00 0.00 0.00 4.84
2690 2971 3.621715 GGTTAGATTTGGTAGGAGCGTTG 59.378 47.826 0.00 0.00 0.00 4.10
2699 2980 1.605058 TAGGAGCGTTGCCTCTCACC 61.605 60.000 0.00 0.00 36.96 4.02
2795 3079 2.680339 GCACTGCTTCTATTTCCAGGAC 59.320 50.000 0.00 0.00 0.00 3.85
2861 3153 1.153978 CCCGCGCGTACAGTTTCTA 60.154 57.895 29.95 0.00 0.00 2.10
2865 3157 2.286595 CCGCGCGTACAGTTTCTATCTA 60.287 50.000 29.95 0.00 0.00 1.98
2866 3158 3.552541 CGCGCGTACAGTTTCTATCTAT 58.447 45.455 24.19 0.00 0.00 1.98
2867 3159 3.598668 CGCGCGTACAGTTTCTATCTATC 59.401 47.826 24.19 0.00 0.00 2.08
2868 3160 4.610905 CGCGCGTACAGTTTCTATCTATCT 60.611 45.833 24.19 0.00 0.00 1.98
2869 3161 5.389202 CGCGCGTACAGTTTCTATCTATCTA 60.389 44.000 24.19 0.00 0.00 1.98
2870 3162 6.544622 GCGCGTACAGTTTCTATCTATCTAT 58.455 40.000 8.43 0.00 0.00 1.98
2871 3163 6.683708 GCGCGTACAGTTTCTATCTATCTATC 59.316 42.308 8.43 0.00 0.00 2.08
2872 3164 7.413219 GCGCGTACAGTTTCTATCTATCTATCT 60.413 40.741 8.43 0.00 0.00 1.98
2873 3165 8.444715 CGCGTACAGTTTCTATCTATCTATCTT 58.555 37.037 0.00 0.00 0.00 2.40
2891 3187 3.665190 TCTTTCTTTCTTTCCTCGGCTC 58.335 45.455 0.00 0.00 0.00 4.70
2918 3214 0.543749 GCTTGAGCAGTGGATAGGGT 59.456 55.000 0.00 0.00 41.59 4.34
2987 3322 0.757935 GCCATGCATTCCCCTGTCAT 60.758 55.000 0.00 0.00 0.00 3.06
2993 3328 1.950484 GCATTCCCCTGTCATTGTCGT 60.950 52.381 0.00 0.00 0.00 4.34
2997 3332 1.021390 CCCCTGTCATTGTCGTGCTC 61.021 60.000 0.00 0.00 0.00 4.26
3004 3349 2.808543 GTCATTGTCGTGCTCTCCTTTT 59.191 45.455 0.00 0.00 0.00 2.27
3005 3350 2.807967 TCATTGTCGTGCTCTCCTTTTG 59.192 45.455 0.00 0.00 0.00 2.44
3006 3351 0.944386 TTGTCGTGCTCTCCTTTTGC 59.056 50.000 0.00 0.00 0.00 3.68
3007 3352 0.884704 TGTCGTGCTCTCCTTTTGCC 60.885 55.000 0.00 0.00 0.00 4.52
3008 3353 0.884704 GTCGTGCTCTCCTTTTGCCA 60.885 55.000 0.00 0.00 0.00 4.92
3009 3354 0.884704 TCGTGCTCTCCTTTTGCCAC 60.885 55.000 0.00 0.00 0.00 5.01
3010 3355 0.886490 CGTGCTCTCCTTTTGCCACT 60.886 55.000 0.00 0.00 0.00 4.00
3011 3356 0.877743 GTGCTCTCCTTTTGCCACTC 59.122 55.000 0.00 0.00 0.00 3.51
3012 3357 0.250901 TGCTCTCCTTTTGCCACTCC 60.251 55.000 0.00 0.00 0.00 3.85
3013 3358 0.037447 GCTCTCCTTTTGCCACTCCT 59.963 55.000 0.00 0.00 0.00 3.69
3014 3359 1.948144 GCTCTCCTTTTGCCACTCCTC 60.948 57.143 0.00 0.00 0.00 3.71
3015 3360 1.627834 CTCTCCTTTTGCCACTCCTCT 59.372 52.381 0.00 0.00 0.00 3.69
3016 3361 1.625818 TCTCCTTTTGCCACTCCTCTC 59.374 52.381 0.00 0.00 0.00 3.20
3031 3376 1.548809 CCTCTCCTCTCACTGTCCACA 60.549 57.143 0.00 0.00 0.00 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.676004 AGGTTTTCTCTTCTTTTTCCACAAAA 58.324 30.769 0.00 0.00 0.00 2.44
1 2 7.239763 AGGTTTTCTCTTCTTTTTCCACAAA 57.760 32.000 0.00 0.00 0.00 2.83
2 3 6.850752 AGGTTTTCTCTTCTTTTTCCACAA 57.149 33.333 0.00 0.00 0.00 3.33
3 4 6.451064 GAGGTTTTCTCTTCTTTTTCCACA 57.549 37.500 0.00 0.00 39.38 4.17
25 26 0.179032 TTTTCGGCCTCTTGCACAGA 60.179 50.000 0.00 0.00 43.89 3.41
26 27 0.667993 TTTTTCGGCCTCTTGCACAG 59.332 50.000 0.00 0.00 43.89 3.66
27 28 1.269448 GATTTTTCGGCCTCTTGCACA 59.731 47.619 0.00 0.00 43.89 4.57
33 34 3.425162 AAGTCAGATTTTTCGGCCTCT 57.575 42.857 0.00 0.00 0.00 3.69
53 54 0.822944 TCAACGGTGTCGGGTGAGTA 60.823 55.000 0.00 0.00 41.39 2.59
168 169 4.341783 AGTGACTGGCTGGCTGGC 62.342 66.667 11.09 11.09 42.18 4.85
169 170 2.046507 GAGTGACTGGCTGGCTGG 60.047 66.667 12.46 3.50 0.00 4.85
170 171 1.079266 GAGAGTGACTGGCTGGCTG 60.079 63.158 6.56 6.56 0.00 4.85
171 172 2.289532 GGAGAGTGACTGGCTGGCT 61.290 63.158 2.00 0.00 0.00 4.75
172 173 2.267324 GGAGAGTGACTGGCTGGC 59.733 66.667 0.00 0.00 0.00 4.85
173 174 1.611851 AGGGAGAGTGACTGGCTGG 60.612 63.158 0.00 0.00 0.00 4.85
174 175 1.896694 GAGGGAGAGTGACTGGCTG 59.103 63.158 0.00 0.00 0.00 4.85
175 176 1.680651 CGAGGGAGAGTGACTGGCT 60.681 63.158 0.00 0.00 0.00 4.75
310 328 1.005984 TCGTTCGTTCCATGGCGAA 60.006 52.632 19.41 19.41 43.55 4.70
338 356 4.486503 GGGCAGGGCAGAGCAGAG 62.487 72.222 0.00 0.00 0.00 3.35
358 376 1.445582 GGACGACGGATGTGACACC 60.446 63.158 2.45 0.00 0.00 4.16
374 392 1.381056 GCAGAGAGCTGGGAGAGGA 60.381 63.158 0.00 0.00 42.53 3.71
429 447 1.525535 CCAGGTGCATGAGGCTAGC 60.526 63.158 6.04 6.04 45.15 3.42
432 450 1.616327 TACCCAGGTGCATGAGGCT 60.616 57.895 0.00 0.00 45.15 4.58
433 451 1.153086 CTACCCAGGTGCATGAGGC 60.153 63.158 0.00 0.00 45.13 4.70
434 452 1.153086 GCTACCCAGGTGCATGAGG 60.153 63.158 0.00 0.00 0.00 3.86
448 468 2.049063 CTATGGCGGGCGAGCTAC 60.049 66.667 0.00 0.00 37.29 3.58
609 635 1.185618 GGAGGGGAACAAACAAGGGC 61.186 60.000 0.00 0.00 0.00 5.19
610 636 0.541998 GGGAGGGGAACAAACAAGGG 60.542 60.000 0.00 0.00 0.00 3.95
611 637 0.541998 GGGGAGGGGAACAAACAAGG 60.542 60.000 0.00 0.00 0.00 3.61
612 638 0.482887 AGGGGAGGGGAACAAACAAG 59.517 55.000 0.00 0.00 0.00 3.16
631 657 4.391601 CGTTTTACCGGGCGGGGA 62.392 66.667 16.11 3.44 41.60 4.81
634 660 4.092652 GTGCGTTTTACCGGGCGG 62.093 66.667 6.32 0.00 42.03 6.13
635 661 4.433431 CGTGCGTTTTACCGGGCG 62.433 66.667 6.32 3.21 0.00 6.13
701 736 1.546099 GGTGCCGGGTTAAAAGGAGAA 60.546 52.381 2.18 0.00 0.00 2.87
824 890 4.853142 TATGGAGGAGGGCGCGGT 62.853 66.667 8.83 0.00 0.00 5.68
831 897 0.539051 GCGGGATGATATGGAGGAGG 59.461 60.000 0.00 0.00 0.00 4.30
838 904 2.436646 GCCGGGCGGGATGATATG 60.437 66.667 16.19 0.00 38.47 1.78
839 905 3.717294 GGCCGGGCGGGATGATAT 61.717 66.667 14.21 0.00 38.47 1.63
1180 1275 3.498071 CCCACCACCACCACCACT 61.498 66.667 0.00 0.00 0.00 4.00
1299 1394 2.494059 CCATTAGCATTACCTCCGTGG 58.506 52.381 0.00 0.00 42.93 4.94
1944 2042 2.928396 CCCTTGACCACCTCCGGT 60.928 66.667 0.00 0.00 43.91 5.28
2158 2259 5.444877 CGATTCTACTCGAGCTTCGGTATAG 60.445 48.000 13.61 4.23 41.12 1.31
2161 2262 2.543012 CGATTCTACTCGAGCTTCGGTA 59.457 50.000 13.61 0.00 41.12 4.02
2187 2288 4.367023 GTCACTGCGCGTGGGGTA 62.367 66.667 24.69 9.14 43.94 3.69
2228 2329 0.528684 CGGAAAGATCCAGTCCGCTC 60.529 60.000 14.27 0.00 46.91 5.03
2243 2344 2.202824 CGCGCCACCTAATCGGAA 60.203 61.111 0.00 0.00 36.31 4.30
2282 2519 2.336088 CCCAAGGCTGTTGCAACG 59.664 61.111 23.79 18.61 41.91 4.10
2292 2529 1.917872 TGTAATCAACCACCCAAGGC 58.082 50.000 0.00 0.00 0.00 4.35
2308 2545 9.822727 TCCATTATCTGATGTAGGAGTAATGTA 57.177 33.333 0.00 0.00 31.81 2.29
2309 2546 8.727100 TCCATTATCTGATGTAGGAGTAATGT 57.273 34.615 0.00 0.00 31.81 2.71
2310 2547 9.650539 CTTCCATTATCTGATGTAGGAGTAATG 57.349 37.037 0.00 0.08 32.57 1.90
2311 2548 9.386122 ACTTCCATTATCTGATGTAGGAGTAAT 57.614 33.333 0.00 0.00 0.00 1.89
2312 2549 8.783660 ACTTCCATTATCTGATGTAGGAGTAA 57.216 34.615 0.00 0.00 0.00 2.24
2313 2550 7.451877 GGACTTCCATTATCTGATGTAGGAGTA 59.548 40.741 0.00 0.00 35.64 2.59
2314 2551 6.268847 GGACTTCCATTATCTGATGTAGGAGT 59.731 42.308 0.00 5.12 35.64 3.85
2315 2552 6.571344 CGGACTTCCATTATCTGATGTAGGAG 60.571 46.154 0.00 2.49 35.14 3.69
2316 2553 5.243954 CGGACTTCCATTATCTGATGTAGGA 59.756 44.000 0.00 1.86 35.14 2.94
2317 2554 5.011125 ACGGACTTCCATTATCTGATGTAGG 59.989 44.000 0.00 0.00 35.14 3.18
2318 2555 6.090483 ACGGACTTCCATTATCTGATGTAG 57.910 41.667 0.00 0.00 35.14 2.74
2324 2561 4.142160 TGACTGACGGACTTCCATTATCTG 60.142 45.833 0.00 0.00 35.14 2.90
2335 2572 0.178987 ACAGAGGTGACTGACGGACT 60.179 55.000 0.00 0.00 44.43 3.85
2363 2616 1.182667 TGTCATCGGACCCTACACTG 58.817 55.000 0.00 0.00 43.65 3.66
2381 2639 6.347483 CCGCTACAAATCAAGATCATCTCATG 60.347 42.308 0.00 0.00 0.00 3.07
2451 2709 1.142748 CGTGGGACAGCCAGATCTC 59.857 63.158 0.00 0.00 41.80 2.75
2452 2710 0.904865 TTCGTGGGACAGCCAGATCT 60.905 55.000 0.00 0.00 41.80 2.75
2453 2711 0.179000 ATTCGTGGGACAGCCAGATC 59.821 55.000 0.00 0.00 41.80 2.75
2454 2712 0.107508 CATTCGTGGGACAGCCAGAT 60.108 55.000 0.00 0.00 41.80 2.90
2455 2713 1.191489 TCATTCGTGGGACAGCCAGA 61.191 55.000 0.00 0.00 41.80 3.86
2459 2717 1.017387 GGATTCATTCGTGGGACAGC 58.983 55.000 0.00 0.00 41.80 4.40
2477 2735 1.066908 GAACGAGGAGATGCAGAGAGG 59.933 57.143 0.00 0.00 0.00 3.69
2478 2736 1.268488 CGAACGAGGAGATGCAGAGAG 60.268 57.143 0.00 0.00 0.00 3.20
2484 2742 2.586357 GGCCGAACGAGGAGATGC 60.586 66.667 0.00 0.00 0.00 3.91
2564 2839 7.662258 GGCATCTACTGAGATCTACTACTGTAA 59.338 40.741 0.00 0.00 40.68 2.41
2565 2840 7.162761 GGCATCTACTGAGATCTACTACTGTA 58.837 42.308 0.00 0.00 40.68 2.74
2566 2841 6.001460 GGCATCTACTGAGATCTACTACTGT 58.999 44.000 0.00 0.00 40.68 3.55
2567 2842 5.121611 CGGCATCTACTGAGATCTACTACTG 59.878 48.000 0.00 0.00 40.68 2.74
2568 2843 5.242434 CGGCATCTACTGAGATCTACTACT 58.758 45.833 0.00 0.00 40.68 2.57
2569 2844 4.142773 GCGGCATCTACTGAGATCTACTAC 60.143 50.000 0.00 0.00 40.68 2.73
2570 2845 4.004314 GCGGCATCTACTGAGATCTACTA 58.996 47.826 0.00 0.00 40.68 1.82
2578 2853 1.068753 CCCAGCGGCATCTACTGAG 59.931 63.158 1.45 0.00 33.10 3.35
2595 2870 0.606604 TTTCTCAGACGTGGGTAGCC 59.393 55.000 3.29 3.29 0.00 3.93
2617 2892 1.608590 GTACTGTGGTGCAATGCTTGT 59.391 47.619 6.82 0.00 0.00 3.16
2670 2951 3.267483 GCAACGCTCCTACCAAATCTAA 58.733 45.455 0.00 0.00 0.00 2.10
2689 2970 1.299648 CCATTTCCGGTGAGAGGCA 59.700 57.895 0.00 0.00 0.00 4.75
2690 2971 2.115291 GCCATTTCCGGTGAGAGGC 61.115 63.158 0.00 6.64 0.00 4.70
2699 2980 1.926511 GCCACAGAGTGCCATTTCCG 61.927 60.000 0.00 0.00 31.34 4.30
2780 3064 1.486726 AGCCGGTCCTGGAAATAGAAG 59.513 52.381 1.90 0.00 0.00 2.85
2786 3070 3.551496 CTGCAGCCGGTCCTGGAAA 62.551 63.158 0.00 0.00 32.63 3.13
2795 3079 2.831742 ATGGAATGCTGCAGCCGG 60.832 61.111 34.64 0.00 41.18 6.13
2826 3118 1.814169 GGGAACGGGATTCGCAGTC 60.814 63.158 1.41 0.00 46.85 3.51
2839 3131 4.729856 ACTGTACGCGCGGGGAAC 62.730 66.667 35.22 24.40 0.00 3.62
2865 3157 6.052360 GCCGAGGAAAGAAAGAAAGATAGAT 58.948 40.000 0.00 0.00 0.00 1.98
2866 3158 5.187967 AGCCGAGGAAAGAAAGAAAGATAGA 59.812 40.000 0.00 0.00 0.00 1.98
2867 3159 5.423886 AGCCGAGGAAAGAAAGAAAGATAG 58.576 41.667 0.00 0.00 0.00 2.08
2868 3160 5.046591 TGAGCCGAGGAAAGAAAGAAAGATA 60.047 40.000 0.00 0.00 0.00 1.98
2869 3161 4.257731 GAGCCGAGGAAAGAAAGAAAGAT 58.742 43.478 0.00 0.00 0.00 2.40
2870 3162 3.071023 TGAGCCGAGGAAAGAAAGAAAGA 59.929 43.478 0.00 0.00 0.00 2.52
2871 3163 3.403038 TGAGCCGAGGAAAGAAAGAAAG 58.597 45.455 0.00 0.00 0.00 2.62
2872 3164 3.181454 ACTGAGCCGAGGAAAGAAAGAAA 60.181 43.478 0.00 0.00 0.00 2.52
2873 3165 2.368875 ACTGAGCCGAGGAAAGAAAGAA 59.631 45.455 0.00 0.00 0.00 2.52
2874 3166 1.971357 ACTGAGCCGAGGAAAGAAAGA 59.029 47.619 0.00 0.00 0.00 2.52
2875 3167 2.464157 ACTGAGCCGAGGAAAGAAAG 57.536 50.000 0.00 0.00 0.00 2.62
2876 3168 2.878406 CAAACTGAGCCGAGGAAAGAAA 59.122 45.455 0.00 0.00 0.00 2.52
2891 3187 1.266175 CCACTGCTCAAGCTCAAACTG 59.734 52.381 3.32 0.00 42.66 3.16
2952 3258 2.270986 GGCTCTGCACTGGGGTTTG 61.271 63.158 0.00 0.00 0.00 2.93
2987 3322 0.944386 GCAAAAGGAGAGCACGACAA 59.056 50.000 0.00 0.00 0.00 3.18
2993 3328 0.250901 GGAGTGGCAAAAGGAGAGCA 60.251 55.000 0.00 0.00 0.00 4.26
2997 3332 1.339535 GGAGAGGAGTGGCAAAAGGAG 60.340 57.143 0.00 0.00 0.00 3.69
3004 3349 0.613292 GTGAGAGGAGAGGAGTGGCA 60.613 60.000 0.00 0.00 0.00 4.92
3005 3350 0.324275 AGTGAGAGGAGAGGAGTGGC 60.324 60.000 0.00 0.00 0.00 5.01
3006 3351 1.272425 ACAGTGAGAGGAGAGGAGTGG 60.272 57.143 0.00 0.00 0.00 4.00
3007 3352 2.091541 GACAGTGAGAGGAGAGGAGTG 58.908 57.143 0.00 0.00 0.00 3.51
3008 3353 1.005450 GGACAGTGAGAGGAGAGGAGT 59.995 57.143 0.00 0.00 0.00 3.85
3009 3354 1.005332 TGGACAGTGAGAGGAGAGGAG 59.995 57.143 0.00 0.00 0.00 3.69
3010 3355 1.076438 TGGACAGTGAGAGGAGAGGA 58.924 55.000 0.00 0.00 0.00 3.71
3011 3356 1.181786 GTGGACAGTGAGAGGAGAGG 58.818 60.000 0.00 0.00 0.00 3.69
3012 3357 1.818060 CTGTGGACAGTGAGAGGAGAG 59.182 57.143 0.00 0.00 39.09 3.20
3013 3358 1.916506 CTGTGGACAGTGAGAGGAGA 58.083 55.000 0.00 0.00 39.09 3.71
3014 3359 0.246086 GCTGTGGACAGTGAGAGGAG 59.754 60.000 8.54 0.00 45.45 3.69
3015 3360 0.469892 TGCTGTGGACAGTGAGAGGA 60.470 55.000 8.54 0.00 45.45 3.71
3016 3361 0.320247 GTGCTGTGGACAGTGAGAGG 60.320 60.000 8.54 0.00 45.45 3.69


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

AutoCloner maintained by Alex Coulton.