Multiple sequence alignment - TraesCS5D01G312300

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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 TraesCS5D01G312300 chr5D 100.000 2498 0 0 1655 4152 408317285 408314788 0.000000e+00 4614.0
1 TraesCS5D01G312300 chr5D 100.000 1235 0 0 1 1235 408318939 408317705 0.000000e+00 2281.0
2 TraesCS5D01G312300 chr5D 93.333 120 8 0 2754 2873 408316126 408316007 1.190000e-40 178.0
3 TraesCS5D01G312300 chr5D 93.333 120 8 0 2814 2933 408316186 408316067 1.190000e-40 178.0
4 TraesCS5D01G312300 chr5B 93.586 1793 71 16 1673 3426 489809038 489807251 0.000000e+00 2634.0
5 TraesCS5D01G312300 chr5B 95.085 1241 50 4 1 1235 489810317 489809082 0.000000e+00 1943.0
6 TraesCS5D01G312300 chr5B 81.996 461 65 9 3703 4152 489805656 489805203 3.920000e-100 375.0
7 TraesCS5D01G312300 chr5B 90.000 120 12 0 2754 2873 489807901 489807782 5.560000e-34 156.0
8 TraesCS5D01G312300 chr5A 91.780 1545 96 21 1676 3199 514152528 514150994 0.000000e+00 2121.0
9 TraesCS5D01G312300 chr5A 96.283 807 21 5 427 1227 514153547 514152744 0.000000e+00 1315.0
10 TraesCS5D01G312300 chr5A 92.086 695 38 5 3475 4152 514150516 514149822 0.000000e+00 963.0
11 TraesCS5D01G312300 chr5A 92.347 392 21 2 1 392 514153925 514153543 2.180000e-152 549.0
12 TraesCS5D01G312300 chr5A 94.531 256 1 1 3226 3468 514150858 514150603 2.340000e-102 383.0
13 TraesCS5D01G312300 chr5A 92.500 120 9 0 2754 2873 514151378 514151259 5.520000e-39 172.0
14 TraesCS5D01G312300 chr5A 97.674 43 1 0 3189 3231 514150978 514150936 1.600000e-09 75.0
15 TraesCS5D01G312300 chr1B 86.154 130 14 3 3483 3609 16433040 16433168 2.010000e-28 137.0
16 TraesCS5D01G312300 chrUn 83.673 98 12 2 3509 3603 63110172 63110268 5.720000e-14 89.8
17 TraesCS5D01G312300 chr2D 88.235 68 8 0 3891 3958 375151414 375151347 9.570000e-12 82.4
18 TraesCS5D01G312300 chr3D 100.000 28 0 0 3838 3865 122771581 122771608 8.000000e-03 52.8


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 TraesCS5D01G312300 chr5D 408314788 408318939 4151 True 1812.750000 4614 96.666500 1 4152 4 chr5D.!!$R1 4151
1 TraesCS5D01G312300 chr5B 489805203 489810317 5114 True 1277.000000 2634 90.166750 1 4152 4 chr5B.!!$R1 4151
2 TraesCS5D01G312300 chr5A 514149822 514153925 4103 True 796.857143 2121 93.885857 1 4152 7 chr5A.!!$R1 4151

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
986 1033 0.246635 TTTACTCTGCTCCCTGCGTC 59.753 55.0 0.00 0.0 46.63 5.19 F
1192 1239 1.343069 AGGTCAGGTGTTGTCTCCTC 58.657 55.0 0.00 0.0 35.65 3.71 F
2701 2781 0.034896 AGAACATCGCGGACAAACCT 59.965 50.0 6.13 0.0 36.31 3.50 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2440 2517 0.033504 TCGTTGGAGTGGCAGACTTC 59.966 55.0 0.00 0.0 33.83 3.01 R
3014 3094 0.254178 CCAGTAGCTGGCTCATGGTT 59.746 55.0 14.22 0.0 45.13 3.67 R
3676 4701 0.178941 GAGCCGGTATCCCCCTAAGA 60.179 60.0 1.90 0.0 0.00 2.10 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
186 187 3.963129 TGGCCTCGAGAAAAACCATATT 58.037 40.909 15.71 0.00 0.00 1.28
252 253 7.437748 CCACTATTGGGTGTTGAATTAACAAA 58.562 34.615 0.00 0.00 41.60 2.83
392 432 3.258872 ACTGGTTGCCGTACAAGTGTATA 59.741 43.478 0.00 0.00 39.50 1.47
393 433 4.247258 CTGGTTGCCGTACAAGTGTATAA 58.753 43.478 0.00 0.00 39.50 0.98
394 434 3.995705 TGGTTGCCGTACAAGTGTATAAC 59.004 43.478 0.00 0.03 39.50 1.89
395 435 3.371898 GGTTGCCGTACAAGTGTATAACC 59.628 47.826 10.99 10.99 39.50 2.85
396 436 3.957591 TGCCGTACAAGTGTATAACCA 57.042 42.857 0.00 0.00 32.54 3.67
397 437 4.475051 TGCCGTACAAGTGTATAACCAT 57.525 40.909 0.00 0.00 32.54 3.55
398 438 4.185394 TGCCGTACAAGTGTATAACCATG 58.815 43.478 0.00 0.00 32.54 3.66
399 439 3.001939 GCCGTACAAGTGTATAACCATGC 59.998 47.826 0.00 0.00 32.54 4.06
400 440 4.439057 CCGTACAAGTGTATAACCATGCT 58.561 43.478 0.00 0.00 32.54 3.79
401 441 5.593968 CCGTACAAGTGTATAACCATGCTA 58.406 41.667 0.00 0.00 32.54 3.49
402 442 6.044046 CCGTACAAGTGTATAACCATGCTAA 58.956 40.000 0.00 0.00 32.54 3.09
403 443 6.019318 CCGTACAAGTGTATAACCATGCTAAC 60.019 42.308 0.00 0.00 32.54 2.34
404 444 6.019318 CGTACAAGTGTATAACCATGCTAACC 60.019 42.308 0.00 0.00 32.54 2.85
405 445 6.062258 ACAAGTGTATAACCATGCTAACCT 57.938 37.500 0.00 0.00 0.00 3.50
406 446 6.113411 ACAAGTGTATAACCATGCTAACCTC 58.887 40.000 0.00 0.00 0.00 3.85
407 447 5.291905 AGTGTATAACCATGCTAACCTCC 57.708 43.478 0.00 0.00 0.00 4.30
408 448 4.969359 AGTGTATAACCATGCTAACCTCCT 59.031 41.667 0.00 0.00 0.00 3.69
409 449 5.070580 AGTGTATAACCATGCTAACCTCCTC 59.929 44.000 0.00 0.00 0.00 3.71
410 450 5.070580 GTGTATAACCATGCTAACCTCCTCT 59.929 44.000 0.00 0.00 0.00 3.69
411 451 4.965200 ATAACCATGCTAACCTCCTCTC 57.035 45.455 0.00 0.00 0.00 3.20
412 452 2.559381 ACCATGCTAACCTCCTCTCT 57.441 50.000 0.00 0.00 0.00 3.10
413 453 2.839228 ACCATGCTAACCTCCTCTCTT 58.161 47.619 0.00 0.00 0.00 2.85
414 454 3.185455 ACCATGCTAACCTCCTCTCTTT 58.815 45.455 0.00 0.00 0.00 2.52
415 455 3.589288 ACCATGCTAACCTCCTCTCTTTT 59.411 43.478 0.00 0.00 0.00 2.27
416 456 4.043435 ACCATGCTAACCTCCTCTCTTTTT 59.957 41.667 0.00 0.00 0.00 1.94
417 457 4.397417 CCATGCTAACCTCCTCTCTTTTTG 59.603 45.833 0.00 0.00 0.00 2.44
418 458 3.412386 TGCTAACCTCCTCTCTTTTTGC 58.588 45.455 0.00 0.00 0.00 3.68
419 459 3.073062 TGCTAACCTCCTCTCTTTTTGCT 59.927 43.478 0.00 0.00 0.00 3.91
420 460 3.687212 GCTAACCTCCTCTCTTTTTGCTC 59.313 47.826 0.00 0.00 0.00 4.26
421 461 4.564613 GCTAACCTCCTCTCTTTTTGCTCT 60.565 45.833 0.00 0.00 0.00 4.09
422 462 3.415457 ACCTCCTCTCTTTTTGCTCTG 57.585 47.619 0.00 0.00 0.00 3.35
423 463 2.708325 ACCTCCTCTCTTTTTGCTCTGT 59.292 45.455 0.00 0.00 0.00 3.41
424 464 3.072944 CCTCCTCTCTTTTTGCTCTGTG 58.927 50.000 0.00 0.00 0.00 3.66
425 465 3.495806 CCTCCTCTCTTTTTGCTCTGTGT 60.496 47.826 0.00 0.00 0.00 3.72
426 466 4.133078 CTCCTCTCTTTTTGCTCTGTGTT 58.867 43.478 0.00 0.00 0.00 3.32
427 467 3.879295 TCCTCTCTTTTTGCTCTGTGTTG 59.121 43.478 0.00 0.00 0.00 3.33
428 468 3.629398 CCTCTCTTTTTGCTCTGTGTTGT 59.371 43.478 0.00 0.00 0.00 3.32
429 469 4.816385 CCTCTCTTTTTGCTCTGTGTTGTA 59.184 41.667 0.00 0.00 0.00 2.41
430 470 5.471456 CCTCTCTTTTTGCTCTGTGTTGTAT 59.529 40.000 0.00 0.00 0.00 2.29
751 793 1.073284 AGAAACGGTACTGCCCAATGT 59.927 47.619 0.23 0.00 0.00 2.71
752 794 2.303600 AGAAACGGTACTGCCCAATGTA 59.696 45.455 0.23 0.00 0.00 2.29
753 795 2.863132 AACGGTACTGCCCAATGTAA 57.137 45.000 0.23 0.00 0.00 2.41
754 796 3.359695 AACGGTACTGCCCAATGTAAT 57.640 42.857 0.23 0.00 0.00 1.89
755 797 2.639065 ACGGTACTGCCCAATGTAATG 58.361 47.619 0.23 0.00 0.00 1.90
946 993 0.614979 TACCTGCTCTCCCTGTGTCC 60.615 60.000 0.00 0.00 0.00 4.02
956 1003 2.358737 CTGTGTCCCGGCACCTTC 60.359 66.667 9.39 0.00 38.52 3.46
986 1033 0.246635 TTTACTCTGCTCCCTGCGTC 59.753 55.000 0.00 0.00 46.63 5.19
1190 1237 1.543429 CCAAGGTCAGGTGTTGTCTCC 60.543 57.143 0.00 0.00 0.00 3.71
1192 1239 1.343069 AGGTCAGGTGTTGTCTCCTC 58.657 55.000 0.00 0.00 35.65 3.71
1205 1256 7.309867 GGTGTTGTCTCCTCTATACTTCTTTGA 60.310 40.741 0.00 0.00 0.00 2.69
1709 1770 7.540474 TCAGTAAACTGTTGGAAGATCTAGT 57.460 36.000 9.81 0.00 44.12 2.57
1759 1820 9.005777 GGAAGATAGATAATCTGACTAGAACGT 57.994 37.037 0.00 0.00 44.56 3.99
2082 2144 3.259374 AGGGTATGATGGCTATTGAGTCG 59.741 47.826 0.00 0.00 0.00 4.18
2125 2187 4.041740 TCACTGTACATACCTTCGCATC 57.958 45.455 0.00 0.00 0.00 3.91
2158 2220 1.749634 CTCTCCCGTCCGTTGTAGAAT 59.250 52.381 0.00 0.00 0.00 2.40
2165 2227 5.939296 TCCCGTCCGTTGTAGAATAAAAATT 59.061 36.000 0.00 0.00 0.00 1.82
2209 2278 5.789710 ACCATTTACCAAGTCGAAATACG 57.210 39.130 0.00 0.00 44.09 3.06
2226 2295 2.604046 ACGGCATCAGGATTGTAGAC 57.396 50.000 0.00 0.00 0.00 2.59
2237 2306 9.177608 CATCAGGATTGTAGACCATTTAAAGAA 57.822 33.333 0.00 0.00 0.00 2.52
2405 2482 2.697761 GCACCCAGCAGCACATCAG 61.698 63.158 0.00 0.00 44.79 2.90
2440 2517 0.179161 CTACAACGTCCAGCTCCTCG 60.179 60.000 0.00 0.00 0.00 4.63
2701 2781 0.034896 AGAACATCGCGGACAAACCT 59.965 50.000 6.13 0.00 36.31 3.50
2740 2820 4.400961 GCTGCCCCAAGAGCTCGT 62.401 66.667 8.37 1.01 32.12 4.18
2749 2829 1.404315 CCAAGAGCTCGTACCAAGGAC 60.404 57.143 8.37 0.00 0.00 3.85
2878 2958 1.784525 CCACAAGAAGAGTGTCGGTC 58.215 55.000 0.00 0.00 35.24 4.79
2914 2994 3.585990 GTCGATGCCGGCAATGGG 61.586 66.667 36.33 21.94 40.69 4.00
3014 3094 2.461695 CAAGAGGAAGGAGCAGAGGTA 58.538 52.381 0.00 0.00 0.00 3.08
3015 3095 2.834549 CAAGAGGAAGGAGCAGAGGTAA 59.165 50.000 0.00 0.00 0.00 2.85
3025 3105 0.253044 GCAGAGGTAACCATGAGCCA 59.747 55.000 0.00 0.00 37.17 4.75
3112 3192 1.002868 GAAGGAGCAGCAGAGGCAA 60.003 57.895 0.00 0.00 44.61 4.52
3506 3788 1.594397 CATCCGTCACATCCATGAACG 59.406 52.381 0.00 10.36 38.87 3.95
3594 3879 6.570690 AAAACTACTTATCGTCGAAGATGC 57.429 37.500 21.96 0.00 44.51 3.91
3596 3881 4.849883 ACTACTTATCGTCGAAGATGCAG 58.150 43.478 21.96 18.50 44.51 4.41
3607 4556 2.736719 CGAAGATGCAGACAATCTCCGT 60.737 50.000 0.00 0.00 0.00 4.69
3642 4591 4.143333 GGCAGCTCCGACGCCTAA 62.143 66.667 4.80 0.00 42.78 2.69
3676 4701 0.886490 CTTGCGGTGTCTCCTGCTTT 60.886 55.000 8.50 0.00 36.93 3.51
3687 4712 2.131023 CTCCTGCTTTCTTAGGGGGAT 58.869 52.381 0.00 0.00 34.76 3.85
3713 5236 2.345244 CTGCTTGCGGTGTCTCCT 59.655 61.111 0.00 0.00 0.00 3.69
3767 5290 1.351430 CGGTCACATCGCACGACATT 61.351 55.000 0.00 0.00 0.00 2.71
3842 5372 2.316067 TGGAGAGAAAGGATGGGAGAGA 59.684 50.000 0.00 0.00 0.00 3.10
3867 5397 3.728373 GTGGGCCAGGGGTGTAGG 61.728 72.222 6.40 0.00 0.00 3.18
3918 5448 3.474806 CGGTTCACAGACGGATGC 58.525 61.111 0.00 0.00 0.00 3.91
3953 5483 1.327303 GGCAAAACACATCCAGACCA 58.673 50.000 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
103 104 1.063492 TGCCTGATTGCATCCCAGAAT 60.063 47.619 10.82 0.00 36.04 2.40
186 187 2.004017 GGATGTTGTCGCCGTTATTGA 58.996 47.619 0.00 0.00 0.00 2.57
233 234 4.159879 ACGGTTTGTTAATTCAACACCCAA 59.840 37.500 0.00 0.00 46.80 4.12
246 247 2.950433 CCGCTTCTAGACGGTTTGTTA 58.050 47.619 12.48 0.00 44.46 2.41
392 432 2.839228 AGAGAGGAGGTTAGCATGGTT 58.161 47.619 1.12 0.00 0.00 3.67
393 433 2.559381 AGAGAGGAGGTTAGCATGGT 57.441 50.000 1.62 1.62 0.00 3.55
394 434 3.922171 AAAGAGAGGAGGTTAGCATGG 57.078 47.619 0.00 0.00 0.00 3.66
395 435 4.142513 GCAAAAAGAGAGGAGGTTAGCATG 60.143 45.833 0.00 0.00 0.00 4.06
396 436 4.013050 GCAAAAAGAGAGGAGGTTAGCAT 58.987 43.478 0.00 0.00 0.00 3.79
397 437 3.073062 AGCAAAAAGAGAGGAGGTTAGCA 59.927 43.478 0.00 0.00 0.00 3.49
398 438 3.680490 AGCAAAAAGAGAGGAGGTTAGC 58.320 45.455 0.00 0.00 0.00 3.09
399 439 4.934602 CAGAGCAAAAAGAGAGGAGGTTAG 59.065 45.833 0.00 0.00 0.00 2.34
400 440 4.348168 ACAGAGCAAAAAGAGAGGAGGTTA 59.652 41.667 0.00 0.00 0.00 2.85
401 441 3.137360 ACAGAGCAAAAAGAGAGGAGGTT 59.863 43.478 0.00 0.00 0.00 3.50
402 442 2.708325 ACAGAGCAAAAAGAGAGGAGGT 59.292 45.455 0.00 0.00 0.00 3.85
403 443 3.072944 CACAGAGCAAAAAGAGAGGAGG 58.927 50.000 0.00 0.00 0.00 4.30
404 444 3.737850 ACACAGAGCAAAAAGAGAGGAG 58.262 45.455 0.00 0.00 0.00 3.69
405 445 3.845781 ACACAGAGCAAAAAGAGAGGA 57.154 42.857 0.00 0.00 0.00 3.71
406 446 3.629398 ACAACACAGAGCAAAAAGAGAGG 59.371 43.478 0.00 0.00 0.00 3.69
407 447 4.889832 ACAACACAGAGCAAAAAGAGAG 57.110 40.909 0.00 0.00 0.00 3.20
408 448 6.054941 TCATACAACACAGAGCAAAAAGAGA 58.945 36.000 0.00 0.00 0.00 3.10
409 449 6.304356 TCATACAACACAGAGCAAAAAGAG 57.696 37.500 0.00 0.00 0.00 2.85
410 450 6.882610 ATCATACAACACAGAGCAAAAAGA 57.117 33.333 0.00 0.00 0.00 2.52
411 451 7.935338 AAATCATACAACACAGAGCAAAAAG 57.065 32.000 0.00 0.00 0.00 2.27
412 452 8.409371 TGTAAATCATACAACACAGAGCAAAAA 58.591 29.630 0.00 0.00 0.00 1.94
413 453 7.935520 TGTAAATCATACAACACAGAGCAAAA 58.064 30.769 0.00 0.00 0.00 2.44
414 454 7.503521 TGTAAATCATACAACACAGAGCAAA 57.496 32.000 0.00 0.00 0.00 3.68
415 455 7.174772 ACATGTAAATCATACAACACAGAGCAA 59.825 33.333 0.00 0.00 34.67 3.91
416 456 6.654582 ACATGTAAATCATACAACACAGAGCA 59.345 34.615 0.00 0.00 34.67 4.26
417 457 6.963242 CACATGTAAATCATACAACACAGAGC 59.037 38.462 0.00 0.00 34.67 4.09
418 458 8.255394 TCACATGTAAATCATACAACACAGAG 57.745 34.615 0.00 0.00 34.67 3.35
419 459 8.614469 TTCACATGTAAATCATACAACACAGA 57.386 30.769 0.00 0.00 34.67 3.41
420 460 9.281075 CATTCACATGTAAATCATACAACACAG 57.719 33.333 0.00 0.00 34.67 3.66
421 461 8.791675 ACATTCACATGTAAATCATACAACACA 58.208 29.630 0.00 0.00 42.24 3.72
422 462 9.064804 CACATTCACATGTAAATCATACAACAC 57.935 33.333 0.00 0.00 42.14 3.32
423 463 9.007901 TCACATTCACATGTAAATCATACAACA 57.992 29.630 0.00 0.00 42.14 3.33
424 464 9.494479 CTCACATTCACATGTAAATCATACAAC 57.506 33.333 0.00 0.00 42.14 3.32
425 465 9.230122 ACTCACATTCACATGTAAATCATACAA 57.770 29.630 0.00 0.00 42.14 2.41
426 466 8.667463 CACTCACATTCACATGTAAATCATACA 58.333 33.333 0.00 0.00 42.14 2.29
427 467 8.124823 CCACTCACATTCACATGTAAATCATAC 58.875 37.037 0.00 0.00 42.14 2.39
428 468 7.201723 GCCACTCACATTCACATGTAAATCATA 60.202 37.037 0.00 0.00 42.14 2.15
429 469 6.405065 GCCACTCACATTCACATGTAAATCAT 60.405 38.462 0.00 0.00 42.14 2.45
430 470 5.106197 GCCACTCACATTCACATGTAAATCA 60.106 40.000 0.00 0.00 42.14 2.57
616 657 3.165160 ATGCCCATAGTCGGCCGAC 62.165 63.158 43.92 43.92 46.48 4.79
751 793 9.787435 AGCCGAATGGAAAGTATTATTACATTA 57.213 29.630 0.00 0.00 37.49 1.90
752 794 8.567948 CAGCCGAATGGAAAGTATTATTACATT 58.432 33.333 0.00 0.00 37.49 2.71
753 795 7.308589 GCAGCCGAATGGAAAGTATTATTACAT 60.309 37.037 0.00 0.00 37.49 2.29
754 796 6.017440 GCAGCCGAATGGAAAGTATTATTACA 60.017 38.462 0.00 0.00 37.49 2.41
755 797 6.017440 TGCAGCCGAATGGAAAGTATTATTAC 60.017 38.462 0.00 0.00 37.49 1.89
946 993 2.919494 GCCAAACTGAAGGTGCCGG 61.919 63.158 0.00 0.00 0.00 6.13
986 1033 2.208431 GATCCATTCTTCAGGTGCTCG 58.792 52.381 0.00 0.00 0.00 5.03
1055 1102 2.204461 TCTTCGTCCTTCCGCACCA 61.204 57.895 0.00 0.00 0.00 4.17
1058 1105 2.196382 CTCGTCTTCGTCCTTCCGCA 62.196 60.000 0.00 0.00 38.33 5.69
1205 1256 1.531149 CTCGGCGACAAAATGAACACT 59.469 47.619 4.99 0.00 0.00 3.55
1709 1770 6.430925 CCAAGGAAAGATGTGTATCAACTTCA 59.569 38.462 0.00 0.00 38.02 3.02
2082 2144 8.395633 AGTGAAAAGTGTTGTTATTACTGTGAC 58.604 33.333 0.00 0.00 0.00 3.67
2125 2187 0.809241 GGGAGAGCAGCATGTCTTCG 60.809 60.000 0.00 0.00 39.31 3.79
2193 2262 3.119065 TGATGCCGTATTTCGACTTGGTA 60.119 43.478 0.00 0.00 42.86 3.25
2209 2278 3.498774 ATGGTCTACAATCCTGATGCC 57.501 47.619 0.00 0.00 0.00 4.40
2237 2306 7.074653 TGTGTAGTATGAGAAGAGGGTTTTT 57.925 36.000 0.00 0.00 0.00 1.94
2329 2406 7.498900 ACAATGTCAAACAGTAAGATCAACAGA 59.501 33.333 0.00 0.00 0.00 3.41
2405 2482 1.404391 TGTAGGAGATTCGGACTTCGC 59.596 52.381 0.00 0.00 39.05 4.70
2440 2517 0.033504 TCGTTGGAGTGGCAGACTTC 59.966 55.000 0.00 0.00 33.83 3.01
2701 2781 1.006825 CCGTGACGTTCTTCATCGCA 61.007 55.000 3.64 0.00 0.00 5.10
2878 2958 1.237285 CCTTCAGGTCCTTTGCACCG 61.237 60.000 0.00 0.00 39.13 4.94
2914 2994 2.359230 ACTCTTCTTGCAGCGCCC 60.359 61.111 2.29 0.00 0.00 6.13
3014 3094 0.254178 CCAGTAGCTGGCTCATGGTT 59.746 55.000 14.22 0.00 45.13 3.67
3015 3095 1.910722 CCAGTAGCTGGCTCATGGT 59.089 57.895 14.22 0.00 45.13 3.55
3025 3105 2.453521 TCGACACCATTACCAGTAGCT 58.546 47.619 0.00 0.00 0.00 3.32
3037 3117 3.690280 TCAGCGGCATCGACACCA 61.690 61.111 1.45 0.00 39.00 4.17
3112 3192 1.693606 CCATGGCTTCCAACCTTTTGT 59.306 47.619 0.00 0.00 36.95 2.83
3491 3773 3.498397 AGTTTGACGTTCATGGATGTGAC 59.502 43.478 2.74 0.07 0.00 3.67
3506 3788 6.817765 TGGATTTGAGGTATGAAGTTTGAC 57.182 37.500 0.00 0.00 0.00 3.18
3568 3853 7.642978 GCATCTTCGACGATAAGTAGTTTTAGA 59.357 37.037 3.83 0.00 0.00 2.10
3594 3879 2.069273 GTCAACCACGGAGATTGTCTG 58.931 52.381 0.00 0.00 37.60 3.51
3596 3881 1.068474 CGTCAACCACGGAGATTGTC 58.932 55.000 0.00 0.00 45.46 3.18
3676 4701 0.178941 GAGCCGGTATCCCCCTAAGA 60.179 60.000 1.90 0.00 0.00 2.10
3687 4712 4.451150 CGCAAGCAGGAGCCGGTA 62.451 66.667 1.90 0.00 43.56 4.02
3713 5236 1.712018 CTGACCGACGCGACCAGATA 61.712 60.000 15.93 0.00 31.67 1.98
3742 5265 4.124351 GCGATGTGACCGGACGGA 62.124 66.667 18.80 0.00 38.96 4.69
3750 5273 3.062099 ACATTAATGTCGTGCGATGTGAC 59.938 43.478 15.47 0.00 35.87 3.67
3767 5290 1.227147 GCCGCAGTAGCCGACATTA 60.227 57.895 0.00 0.00 37.52 1.90
3842 5372 2.201210 CCTGGCCCACCCAAAACT 59.799 61.111 0.00 0.00 44.81 2.66
3918 5448 2.435938 CCATCCAACACGGTCCCG 60.436 66.667 3.76 3.76 46.03 5.14
4084 5617 4.808364 CCTCTAGCTTGTAAGATGAACTGC 59.192 45.833 0.00 0.00 0.00 4.40


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

AutoCloner maintained by Alex Coulton.