Multiple sequence alignment - TraesCS6D01G012400

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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 TraesCS6D01G012400 chr6D 100.000 3334 0 0 1 3334 4837755 4841088 0.000000e+00 6157
1 TraesCS6D01G012400 chr6A 94.824 2241 104 8 517 2751 3912534 3914768 0.000000e+00 3485
2 TraesCS6D01G012400 chr6A 97.095 241 7 0 3094 3334 3914977 3915217 1.110000e-109 407
3 TraesCS6D01G012400 chr6A 92.228 193 8 2 2919 3104 3914765 3914957 1.970000e-67 267
4 TraesCS6D01G012400 chr6A 86.154 130 13 4 1264 1390 18931236 18931363 5.800000e-28 135
5 TraesCS6D01G012400 chr6B 89.591 2565 199 32 520 3058 8902810 8900288 0.000000e+00 3195
6 TraesCS6D01G012400 chr6B 89.773 2161 154 30 520 2658 9169206 9171321 0.000000e+00 2704
7 TraesCS6D01G012400 chr6B 87.896 537 49 8 1 525 9168638 9169170 4.730000e-173 617
8 TraesCS6D01G012400 chr6B 93.603 297 14 2 2364 2658 8873028 8872735 3.950000e-119 438
9 TraesCS6D01G012400 chr5B 80.288 1040 166 25 1268 2281 13497960 13496934 0.000000e+00 749
10 TraesCS6D01G012400 chr1B 76.764 1261 239 38 1257 2484 21512762 21511523 0.000000e+00 656
11 TraesCS6D01G012400 chr5D 81.550 813 132 17 1441 2242 14535681 14534876 0.000000e+00 654


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 TraesCS6D01G012400 chr6D 4837755 4841088 3333 False 6157.000000 6157 100.000000 1 3334 1 chr6D.!!$F1 3333
1 TraesCS6D01G012400 chr6A 3912534 3915217 2683 False 1386.333333 3485 94.715667 517 3334 3 chr6A.!!$F2 2817
2 TraesCS6D01G012400 chr6B 8900288 8902810 2522 True 3195.000000 3195 89.591000 520 3058 1 chr6B.!!$R2 2538
3 TraesCS6D01G012400 chr6B 9168638 9171321 2683 False 1660.500000 2704 88.834500 1 2658 2 chr6B.!!$F1 2657
4 TraesCS6D01G012400 chr5B 13496934 13497960 1026 True 749.000000 749 80.288000 1268 2281 1 chr5B.!!$R1 1013
5 TraesCS6D01G012400 chr1B 21511523 21512762 1239 True 656.000000 656 76.764000 1257 2484 1 chr1B.!!$R1 1227
6 TraesCS6D01G012400 chr5D 14534876 14535681 805 True 654.000000 654 81.550000 1441 2242 1 chr5D.!!$R1 801

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
131 140 0.178995 TCATGGCTTGGAGCACACAA 60.179 50.0 2.04 0.00 44.75 3.33 F
359 371 0.179020 TCAGGGGCCGCATCTAAATG 60.179 55.0 23.39 9.57 35.87 2.32 F
371 383 0.551377 TCTAAATGGGGTCTGGGGCA 60.551 55.0 0.00 0.00 0.00 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1523 1631 1.620822 ACCGCAAGCCAAAGAAGAAT 58.379 45.000 0.0 0.0 0.0 2.40 R
2249 2363 0.463474 GTGATGGAGGAGGCAGCTTC 60.463 60.000 0.0 0.0 0.0 3.86 R
2349 2466 3.146066 GACAGTTGCACCTTAATCACCA 58.854 45.455 0.0 0.0 0.0 4.17 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
53 54 6.860080 AGATGCACAAATCCTTACATTTCTG 58.140 36.000 0.00 0.00 0.00 3.02
105 106 2.889045 TGTATGACCGGTCTAGTATGCC 59.111 50.000 33.39 14.51 0.00 4.40
131 140 0.178995 TCATGGCTTGGAGCACACAA 60.179 50.000 2.04 0.00 44.75 3.33
286 295 5.612688 TGGAAGAGAATGAAATATAGGGGCT 59.387 40.000 0.00 0.00 0.00 5.19
323 332 1.885887 TGTCAAAGCAATGCACCCTAC 59.114 47.619 8.35 0.00 0.00 3.18
329 338 4.510167 AAGCAATGCACCCTACTAATCT 57.490 40.909 8.35 0.00 0.00 2.40
330 339 5.630415 AAGCAATGCACCCTACTAATCTA 57.370 39.130 8.35 0.00 0.00 1.98
331 340 5.220710 AGCAATGCACCCTACTAATCTAG 57.779 43.478 8.35 0.00 0.00 2.43
332 341 4.656112 AGCAATGCACCCTACTAATCTAGT 59.344 41.667 8.35 0.00 42.68 2.57
352 364 4.459199 AAAAATCAGGGGCCGCAT 57.541 50.000 23.39 4.51 0.00 4.73
359 371 0.179020 TCAGGGGCCGCATCTAAATG 60.179 55.000 23.39 9.57 35.87 2.32
370 382 0.853530 ATCTAAATGGGGTCTGGGGC 59.146 55.000 0.00 0.00 0.00 5.80
371 383 0.551377 TCTAAATGGGGTCTGGGGCA 60.551 55.000 0.00 0.00 0.00 5.36
373 385 1.780309 CTAAATGGGGTCTGGGGCATA 59.220 52.381 0.00 0.00 0.00 3.14
374 386 1.244366 AAATGGGGTCTGGGGCATAT 58.756 50.000 0.00 0.00 0.00 1.78
377 389 0.570727 TGGGGTCTGGGGCATATCTA 59.429 55.000 0.00 0.00 0.00 1.98
387 399 7.363968 GGTCTGGGGCATATCTATTTAGAGTAC 60.364 44.444 0.00 0.00 35.50 2.73
411 423 8.101654 ACCTGTTAGATTAGCTCTAATACGAG 57.898 38.462 0.00 0.00 45.78 4.18
447 459 5.332106 TGGCCCAACACATATTGGTATAT 57.668 39.130 0.00 0.00 46.72 0.86
448 460 5.710646 TGGCCCAACACATATTGGTATATT 58.289 37.500 0.00 0.00 46.72 1.28
568 622 3.501445 GTCTGATGCTATCAATGAAGGGC 59.499 47.826 0.00 0.00 39.11 5.19
602 656 5.878406 AGCTAATTCCTCTAAAGCTAGCA 57.122 39.130 18.83 0.00 41.56 3.49
608 662 5.939764 TTCCTCTAAAGCTAGCAAGATGA 57.060 39.130 18.83 14.80 0.00 2.92
614 668 7.094634 CCTCTAAAGCTAGCAAGATGAACAAAA 60.095 37.037 18.83 0.00 0.00 2.44
627 681 8.922676 CAAGATGAACAAAATCTTCCATTTCTG 58.077 33.333 0.00 0.00 41.39 3.02
651 705 8.565896 TGTTGCTAGATGATAATGTCTTGTTT 57.434 30.769 0.00 0.00 0.00 2.83
752 817 8.693504 CACAAAGTTAAAGCAAATAGTGATGTG 58.306 33.333 0.00 0.00 0.00 3.21
856 921 6.156256 CCATAAATAGCCCTGCCACTAGTATA 59.844 42.308 0.00 0.00 0.00 1.47
970 1035 7.184067 TCTCTCACCATATATCGAGCTAGTA 57.816 40.000 0.00 0.00 0.00 1.82
1176 1241 4.799917 GCCTACTTCAAAGAGAGGTTCGTT 60.800 45.833 13.37 0.00 37.73 3.85
1290 1357 7.665690 TGCTAATTTGTATGTGGTTTTCATGT 58.334 30.769 0.00 0.00 0.00 3.21
1291 1358 8.797438 TGCTAATTTGTATGTGGTTTTCATGTA 58.203 29.630 0.00 0.00 0.00 2.29
1415 1505 3.119708 CCAAGTGTTGGCAGAGCTTAATC 60.120 47.826 0.00 0.00 45.17 1.75
1461 1561 4.993584 AGTAGCAAGTGTTGATCAGTCTTG 59.006 41.667 21.44 21.44 38.60 3.02
1758 1866 1.940883 GACGACGGACCACCATGCTA 61.941 60.000 0.00 0.00 35.59 3.49
1799 1913 4.778143 GCGTGGAGGTGGGCGATT 62.778 66.667 0.00 0.00 0.00 3.34
1985 2099 4.101448 CAGGTCTGGCTTCCCGGG 62.101 72.222 16.85 16.85 38.11 5.73
2093 2207 4.572571 GGGCCGGTGTTCACCACA 62.573 66.667 19.90 0.00 46.44 4.17
2162 2276 2.898738 CTCCACGAGCAGCTCCAT 59.101 61.111 17.16 2.18 0.00 3.41
2287 2401 2.690778 ATTCCAAGCTCGCGTTGGC 61.691 57.895 19.18 15.48 43.72 4.52
2349 2466 2.587194 GATGAGCCGCTGCGTCAT 60.587 61.111 22.77 22.77 44.33 3.06
2414 2560 7.541122 AGAACATAGTTCGCTATTTTCTTCC 57.459 36.000 9.11 0.00 46.70 3.46
2415 2561 7.103641 AGAACATAGTTCGCTATTTTCTTCCA 58.896 34.615 9.11 0.00 46.70 3.53
2416 2562 7.770897 AGAACATAGTTCGCTATTTTCTTCCAT 59.229 33.333 9.11 0.00 46.70 3.41
2417 2563 7.865706 ACATAGTTCGCTATTTTCTTCCATT 57.134 32.000 0.00 0.00 38.29 3.16
2418 2564 8.281212 ACATAGTTCGCTATTTTCTTCCATTT 57.719 30.769 0.00 0.00 38.29 2.32
2419 2565 8.739972 ACATAGTTCGCTATTTTCTTCCATTTT 58.260 29.630 0.00 0.00 38.29 1.82
2420 2566 9.573133 CATAGTTCGCTATTTTCTTCCATTTTT 57.427 29.630 0.00 0.00 38.29 1.94
2421 2567 9.788960 ATAGTTCGCTATTTTCTTCCATTTTTC 57.211 29.630 0.00 0.00 37.11 2.29
2422 2568 7.886338 AGTTCGCTATTTTCTTCCATTTTTCT 58.114 30.769 0.00 0.00 0.00 2.52
2423 2569 8.360390 AGTTCGCTATTTTCTTCCATTTTTCTT 58.640 29.630 0.00 0.00 0.00 2.52
2424 2570 8.639428 GTTCGCTATTTTCTTCCATTTTTCTTC 58.361 33.333 0.00 0.00 0.00 2.87
2479 2625 8.784043 AGATAGGTTATTGGAAATAATTCACGC 58.216 33.333 0.00 0.00 37.29 5.34
2489 2635 5.333875 GGAAATAATTCACGCGGATTAGTCC 60.334 44.000 12.47 16.54 37.97 3.85
2578 2732 9.515020 CACTTTAAATTAACAAAGCTCTTGACA 57.485 29.630 13.35 1.32 35.58 3.58
2642 2799 1.729586 ACAAGTGGTTAGCTCTCCCA 58.270 50.000 0.00 0.00 0.00 4.37
2649 2806 3.916438 TTAGCTCTCCCACCCCGCA 62.916 63.158 0.00 0.00 0.00 5.69
2686 2843 0.828677 CGGAAGGAAACCCTACCGAT 59.171 55.000 0.00 0.00 42.40 4.18
2749 2907 0.874390 CGTGCCTATGTGTTGCTGTT 59.126 50.000 0.00 0.00 0.00 3.16
2752 2910 1.247567 GCCTATGTGTTGCTGTTGGT 58.752 50.000 0.00 0.00 0.00 3.67
2758 2916 1.034838 GTGTTGCTGTTGGTGGGTCA 61.035 55.000 0.00 0.00 0.00 4.02
2762 2920 2.981560 GCTGTTGGTGGGTCATGCG 61.982 63.158 0.00 0.00 0.00 4.73
2785 2943 2.734346 GTGCGGGCAATGTTGTGC 60.734 61.111 0.00 0.00 44.14 4.57
2795 2953 1.069022 CAATGTTGTGCCTTGTCGGAG 60.069 52.381 0.00 0.00 33.16 4.63
2798 2956 1.148273 TTGTGCCTTGTCGGAGCTT 59.852 52.632 0.00 0.00 33.16 3.74
2802 2960 0.884704 TGCCTTGTCGGAGCTTTCAC 60.885 55.000 0.00 0.00 33.16 3.18
2808 2966 2.357517 CGGAGCTTTCACTGCGGT 60.358 61.111 0.00 0.00 46.34 5.68
2809 2967 2.671177 CGGAGCTTTCACTGCGGTG 61.671 63.158 20.12 20.12 46.34 4.94
2810 2968 1.598130 GGAGCTTTCACTGCGGTGT 60.598 57.895 24.61 5.44 43.41 4.16
2818 2977 1.596752 CACTGCGGTGTTAGTGGCA 60.597 57.895 17.96 0.00 40.38 4.92
2820 2979 1.301716 CTGCGGTGTTAGTGGCAGT 60.302 57.895 0.00 0.00 45.84 4.40
2854 3013 3.799755 GCGGTCCAACATGGCGAC 61.800 66.667 0.00 0.00 37.47 5.19
2855 3014 3.487202 CGGTCCAACATGGCGACG 61.487 66.667 0.00 0.00 37.47 5.12
2885 3044 3.475566 TTGTGTCCTTCTGTTCCTCTG 57.524 47.619 0.00 0.00 0.00 3.35
2909 3068 3.803778 GTCCAGTTTGCCACTTTTGAATG 59.196 43.478 0.00 0.00 30.92 2.67
2921 3080 1.234821 TTTGAATGCGAGCGGAGTTT 58.765 45.000 0.00 0.00 0.00 2.66
3008 3167 6.183360 CCTCTGTCTGAATGCCTTATTCTTTG 60.183 42.308 0.00 0.00 44.49 2.77
3016 3175 2.014857 GCCTTATTCTTTGACGGGGTC 58.985 52.381 0.00 0.00 0.00 4.46
3017 3176 2.277084 CCTTATTCTTTGACGGGGTCG 58.723 52.381 0.00 0.00 43.02 4.79
3040 3206 2.168521 TGCTAGTGATGTTGGAGCCTAC 59.831 50.000 0.00 0.00 31.98 3.18
3058 3224 0.338814 ACGGGTATCCTCCTCCTTGT 59.661 55.000 0.00 0.00 0.00 3.16
3062 3228 2.090663 GGGTATCCTCCTCCTTGTACCT 60.091 54.545 0.00 0.00 33.72 3.08
3075 3241 0.252558 TGTACCTGGAGGGGAAGGAC 60.253 60.000 0.00 0.00 40.27 3.85
3082 3248 0.704664 GGAGGGGAAGGACATTTGGT 59.295 55.000 0.00 0.00 0.00 3.67
3162 3358 4.623932 ACATACCATATGAAGCACCGAT 57.376 40.909 3.65 0.00 0.00 4.18
3175 3371 1.882352 GCACCGATCAAGGGACAAACT 60.882 52.381 0.00 0.00 35.02 2.66
3210 3406 2.971660 CCATATGGTGTGTGGTACGA 57.028 50.000 14.09 0.00 34.59 3.43
3211 3407 2.546778 CCATATGGTGTGTGGTACGAC 58.453 52.381 14.09 0.33 34.59 4.34
3303 3499 6.975197 TGCATTATTAGAACTGAGAGAAGACG 59.025 38.462 0.00 0.00 0.00 4.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 9.632638 AATGTAAGGATTTGTGCATCTAACTAT 57.367 29.630 0.00 0.00 0.00 2.12
30 31 6.624423 ACAGAAATGTAAGGATTTGTGCATC 58.376 36.000 0.00 0.00 39.20 3.91
86 87 3.154710 CTGGCATACTAGACCGGTCATA 58.845 50.000 35.00 23.37 0.00 2.15
90 91 1.341679 TGACTGGCATACTAGACCGGT 60.342 52.381 6.92 6.92 45.82 5.28
105 106 1.404391 GCTCCAAGCCATGAATGACTG 59.596 52.381 0.00 0.00 34.48 3.51
220 229 7.066887 TGCATACGAACTCCAATTTCACATTAT 59.933 33.333 0.00 0.00 0.00 1.28
240 249 8.528917 TCCATTTGTCTTATATACGTGCATAC 57.471 34.615 0.00 0.00 0.00 2.39
258 267 8.800332 CCCCTATATTTCATTCTCTTCCATTTG 58.200 37.037 0.00 0.00 0.00 2.32
259 268 7.452813 GCCCCTATATTTCATTCTCTTCCATTT 59.547 37.037 0.00 0.00 0.00 2.32
263 272 6.133253 AGCCCCTATATTTCATTCTCTTCC 57.867 41.667 0.00 0.00 0.00 3.46
286 295 9.719355 TGCTTTGACAGATTTTATAGAAGTGTA 57.281 29.630 0.00 0.00 0.00 2.90
339 351 0.773644 ATTTAGATGCGGCCCCTGAT 59.226 50.000 0.00 0.00 0.00 2.90
341 353 1.174712 CCATTTAGATGCGGCCCCTG 61.175 60.000 0.00 0.00 31.67 4.45
348 360 1.597742 CCAGACCCCATTTAGATGCG 58.402 55.000 0.00 0.00 31.67 4.73
352 364 0.551377 TGCCCCAGACCCCATTTAGA 60.551 55.000 0.00 0.00 0.00 2.10
359 371 1.972588 ATAGATATGCCCCAGACCCC 58.027 55.000 0.00 0.00 0.00 4.95
364 376 6.670027 AGGTACTCTAAATAGATATGCCCCAG 59.330 42.308 0.00 0.00 0.00 4.45
366 378 6.440965 ACAGGTACTCTAAATAGATATGCCCC 59.559 42.308 0.00 0.00 34.60 5.80
377 389 9.649316 AGAGCTAATCTAACAGGTACTCTAAAT 57.351 33.333 0.00 0.00 33.04 1.40
401 413 2.098443 TGCATGCACGACTCGTATTAGA 59.902 45.455 18.46 0.00 38.32 2.10
411 423 1.283793 GGCCATATGCATGCACGAC 59.716 57.895 25.37 9.36 43.89 4.34
447 459 9.462174 CTTTAATTTGTGTGCAGTGAAGAATAA 57.538 29.630 0.00 0.00 0.00 1.40
448 460 8.629158 ACTTTAATTTGTGTGCAGTGAAGAATA 58.371 29.630 0.00 0.00 0.00 1.75
532 586 5.998454 GCATCAGACATGCTTGTAGTAAT 57.002 39.130 5.05 0.00 41.52 1.89
562 616 4.359434 AGCTAGCTAATTTAGGCCCTTC 57.641 45.455 17.69 0.00 0.00 3.46
589 643 6.974932 TTGTTCATCTTGCTAGCTTTAGAG 57.025 37.500 17.23 6.32 0.00 2.43
591 645 8.457261 AGATTTTGTTCATCTTGCTAGCTTTAG 58.543 33.333 17.23 10.62 0.00 1.85
602 656 8.645110 ACAGAAATGGAAGATTTTGTTCATCTT 58.355 29.630 0.00 0.00 42.57 2.40
608 662 6.585416 AGCAACAGAAATGGAAGATTTTGTT 58.415 32.000 0.00 0.00 0.00 2.83
614 668 6.656902 TCATCTAGCAACAGAAATGGAAGAT 58.343 36.000 0.00 0.00 0.00 2.40
627 681 8.668353 TGAAACAAGACATTATCATCTAGCAAC 58.332 33.333 0.00 0.00 0.00 4.17
651 705 4.023291 GGGCCATCCAAAAGTTCTAATGA 58.977 43.478 4.39 0.00 35.00 2.57
856 921 6.915786 AGGTCCTGGATTTATAGCAAAAGAT 58.084 36.000 0.00 0.00 0.00 2.40
1176 1241 4.693095 TGCAACGACATAATTAGTGCTGAA 59.307 37.500 0.00 0.00 0.00 3.02
1403 1474 4.961435 AGCAAAAGAGATTAAGCTCTGC 57.039 40.909 23.19 21.35 44.18 4.26
1521 1629 3.153919 ACCGCAAGCCAAAGAAGAATAA 58.846 40.909 0.00 0.00 0.00 1.40
1523 1631 1.620822 ACCGCAAGCCAAAGAAGAAT 58.379 45.000 0.00 0.00 0.00 2.40
2249 2363 0.463474 GTGATGGAGGAGGCAGCTTC 60.463 60.000 0.00 0.00 0.00 3.86
2287 2401 3.405831 TCACCATGCTCTGTTTCTTCAG 58.594 45.455 0.00 0.00 36.85 3.02
2349 2466 3.146066 GACAGTTGCACCTTAATCACCA 58.854 45.455 0.00 0.00 0.00 4.17
2423 2569 9.862371 GTTCACTTGATTCTAGTAGAAAGATGA 57.138 33.333 16.37 12.33 37.82 2.92
2424 2570 9.868277 AGTTCACTTGATTCTAGTAGAAAGATG 57.132 33.333 16.37 10.52 37.82 2.90
2489 2635 4.436852 CCCGTTCGAACAATAATCCACTTG 60.437 45.833 26.71 6.56 0.00 3.16
2547 2694 9.131791 AGAGCTTTGTTAATTTAAAGTGAGGAA 57.868 29.630 0.00 0.00 36.52 3.36
2578 2732 6.765403 TCCACTTTGTAGTTGCACTATAGTT 58.235 36.000 1.56 0.00 32.65 2.24
2642 2799 2.869503 CTTGTAAGGCGATGCGGGGT 62.870 60.000 0.00 0.00 0.00 4.95
2738 2896 1.000270 ACCCACCAACAGCAACACA 60.000 52.632 0.00 0.00 0.00 3.72
2749 2907 3.716195 CCTCCGCATGACCCACCA 61.716 66.667 0.00 0.00 0.00 4.17
2752 2910 2.927856 ACACCTCCGCATGACCCA 60.928 61.111 0.00 0.00 0.00 4.51
2762 2920 3.443045 CATTGCCCGCACACCTCC 61.443 66.667 0.00 0.00 0.00 4.30
2785 2943 1.151668 CAGTGAAAGCTCCGACAAGG 58.848 55.000 0.00 0.00 42.97 3.61
2802 2960 3.566261 CTGCCACTAACACCGCAG 58.434 61.111 0.00 0.00 42.42 5.18
2818 2977 1.003355 CTGGGTCGATGTTGGCACT 60.003 57.895 0.00 0.00 0.00 4.40
2820 2979 2.350895 CCTGGGTCGATGTTGGCA 59.649 61.111 0.00 0.00 0.00 4.92
2852 3011 1.429463 GACACAATGGTCTCCACGTC 58.571 55.000 0.00 0.00 35.80 4.34
2854 3013 0.321671 AGGACACAATGGTCTCCACG 59.678 55.000 0.00 0.00 34.77 4.94
2855 3014 2.039084 AGAAGGACACAATGGTCTCCAC 59.961 50.000 0.00 0.00 34.77 4.02
2860 3019 2.814336 GGAACAGAAGGACACAATGGTC 59.186 50.000 0.00 0.00 37.06 4.02
2861 3020 2.443255 AGGAACAGAAGGACACAATGGT 59.557 45.455 0.00 0.00 0.00 3.55
2885 3044 1.119684 AAAAGTGGCAAACTGGACCC 58.880 50.000 0.00 0.00 39.81 4.46
3016 3175 1.394917 GCTCCAACATCACTAGCAACG 59.605 52.381 0.00 0.00 33.38 4.10
3017 3176 1.740025 GGCTCCAACATCACTAGCAAC 59.260 52.381 0.00 0.00 34.85 4.17
3040 3206 1.962100 GTACAAGGAGGAGGATACCCG 59.038 57.143 0.00 0.00 37.58 5.28
3058 3224 0.722676 ATGTCCTTCCCCTCCAGGTA 59.277 55.000 0.00 0.00 0.00 3.08
3062 3228 0.704076 CCAAATGTCCTTCCCCTCCA 59.296 55.000 0.00 0.00 0.00 3.86
3075 3241 7.012232 GGTATTTCCCAATTAATGCACCAAATG 59.988 37.037 0.00 0.00 0.00 2.32
3142 3338 4.568956 TGATCGGTGCTTCATATGGTATG 58.431 43.478 2.13 0.00 0.00 2.39
3162 3358 3.219281 GTTTGGCTAGTTTGTCCCTTGA 58.781 45.455 0.00 0.00 0.00 3.02
3175 3371 5.620206 CCATATGGTGTCTATGTTTGGCTA 58.380 41.667 14.09 0.00 0.00 3.93
3303 3499 7.041098 GGATTCATGGTTATGGTGTCTATGTTC 60.041 40.741 0.00 0.00 34.97 3.18


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

AutoCloner maintained by Alex Coulton.