Multiple sequence alignment - TraesCS5D01G387900

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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 TraesCS5D01G387900 chr5D 100.000 3296 0 0 1 3296 457662853 457666148 0.000000e+00 6087
1 TraesCS5D01G387900 chr5D 78.544 1305 237 33 1009 2293 65753744 65755025 0.000000e+00 819
2 TraesCS5D01G387900 chr5B 92.681 2555 114 33 1 2514 559762533 559765055 0.000000e+00 3615
3 TraesCS5D01G387900 chr5B 90.418 814 42 11 2515 3293 559765089 559765901 0.000000e+00 1038
4 TraesCS5D01G387900 chr5B 78.419 1265 240 25 1044 2293 65279495 65278249 0.000000e+00 793
5 TraesCS5D01G387900 chr5A 94.546 1852 59 23 696 2511 575594087 575595932 0.000000e+00 2822
6 TraesCS5D01G387900 chr5A 78.741 1303 238 30 1009 2293 55018467 55019748 0.000000e+00 835
7 TraesCS5D01G387900 chr5A 91.699 518 38 2 1348 1861 33001989 33001473 0.000000e+00 713
8 TraesCS5D01G387900 chr5A 91.022 401 17 4 2911 3293 575596418 575596817 1.050000e-144 523
9 TraesCS5D01G387900 chr5A 91.957 373 22 5 2515 2879 575595974 575596346 1.750000e-142 516
10 TraesCS5D01G387900 chr5A 95.050 101 5 0 589 689 575593821 575593921 3.400000e-35 159
11 TraesCS5D01G387900 chr2B 91.892 518 39 3 1343 1858 666078736 666079252 0.000000e+00 721
12 TraesCS5D01G387900 chr1A 90.979 521 44 3 1343 1861 21481610 21482129 0.000000e+00 699
13 TraesCS5D01G387900 chr1A 77.414 642 115 22 1025 1657 521629138 521629758 4.050000e-94 355
14 TraesCS5D01G387900 chr1B 90.856 514 38 2 1348 1861 494066560 494066056 0.000000e+00 680
15 TraesCS5D01G387900 chr3B 82.592 787 68 37 107 864 779641362 779640616 6.000000e-177 630
16 TraesCS5D01G387900 chr1D 77.404 624 111 22 1043 1657 426586991 426587593 8.760000e-91 344
17 TraesCS5D01G387900 chr7B 84.127 189 24 4 968 1153 494219643 494219828 9.400000e-41 178
18 TraesCS5D01G387900 chr4B 94.667 75 4 0 2225 2299 639238543 639238469 2.080000e-22 117


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 TraesCS5D01G387900 chr5D 457662853 457666148 3295 False 6087.0 6087 100.00000 1 3296 1 chr5D.!!$F2 3295
1 TraesCS5D01G387900 chr5D 65753744 65755025 1281 False 819.0 819 78.54400 1009 2293 1 chr5D.!!$F1 1284
2 TraesCS5D01G387900 chr5B 559762533 559765901 3368 False 2326.5 3615 91.54950 1 3293 2 chr5B.!!$F1 3292
3 TraesCS5D01G387900 chr5B 65278249 65279495 1246 True 793.0 793 78.41900 1044 2293 1 chr5B.!!$R1 1249
4 TraesCS5D01G387900 chr5A 575593821 575596817 2996 False 1005.0 2822 93.14375 589 3293 4 chr5A.!!$F2 2704
5 TraesCS5D01G387900 chr5A 55018467 55019748 1281 False 835.0 835 78.74100 1009 2293 1 chr5A.!!$F1 1284
6 TraesCS5D01G387900 chr5A 33001473 33001989 516 True 713.0 713 91.69900 1348 1861 1 chr5A.!!$R1 513
7 TraesCS5D01G387900 chr2B 666078736 666079252 516 False 721.0 721 91.89200 1343 1858 1 chr2B.!!$F1 515
8 TraesCS5D01G387900 chr1A 21481610 21482129 519 False 699.0 699 90.97900 1343 1861 1 chr1A.!!$F1 518
9 TraesCS5D01G387900 chr1A 521629138 521629758 620 False 355.0 355 77.41400 1025 1657 1 chr1A.!!$F2 632
10 TraesCS5D01G387900 chr1B 494066056 494066560 504 True 680.0 680 90.85600 1348 1861 1 chr1B.!!$R1 513
11 TraesCS5D01G387900 chr3B 779640616 779641362 746 True 630.0 630 82.59200 107 864 1 chr3B.!!$R1 757
12 TraesCS5D01G387900 chr1D 426586991 426587593 602 False 344.0 344 77.40400 1043 1657 1 chr1D.!!$F1 614

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
97 99 0.522180 CTGCTGCTGCCTTTCTCTTG 59.478 55.000 13.47 0.0 38.71 3.02 F
98 100 0.892358 TGCTGCTGCCTTTCTCTTGG 60.892 55.000 13.47 0.0 38.71 3.61 F
104 106 2.044946 CCTTTCTCTTGGCCCCCG 60.045 66.667 0.00 0.0 0.00 5.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2058 2304 2.248280 TGAAGTAACCGAGCTTTGCA 57.752 45.000 0.00 0.0 0.00 4.08 R
2241 2499 3.003173 TCCCCAAGCTCCGTCCTG 61.003 66.667 0.00 0.0 0.00 3.86 R
2484 2742 8.641541 CAATTACCAGGCAAGGTTATTATCATT 58.358 33.333 11.35 0.0 38.46 2.57 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 55 2.243810 GATGATTCCCTCCTACGCTCT 58.756 52.381 0.00 0.00 0.00 4.09
74 76 4.675303 ACCCAGCCCCACCAGCTA 62.675 66.667 0.00 0.00 38.95 3.32
75 77 3.099170 CCCAGCCCCACCAGCTAT 61.099 66.667 0.00 0.00 38.95 2.97
76 78 1.770110 CCCAGCCCCACCAGCTATA 60.770 63.158 0.00 0.00 38.95 1.31
77 79 1.757306 CCAGCCCCACCAGCTATAG 59.243 63.158 0.00 0.00 38.95 1.31
78 80 1.072159 CAGCCCCACCAGCTATAGC 59.928 63.158 17.33 17.33 38.95 2.97
96 98 1.242665 GCTGCTGCTGCCTTTCTCTT 61.243 55.000 19.30 0.00 38.71 2.85
97 99 0.522180 CTGCTGCTGCCTTTCTCTTG 59.478 55.000 13.47 0.00 38.71 3.02
98 100 0.892358 TGCTGCTGCCTTTCTCTTGG 60.892 55.000 13.47 0.00 38.71 3.61
103 105 2.363018 GCCTTTCTCTTGGCCCCC 60.363 66.667 0.00 0.00 43.11 5.40
104 106 2.044946 CCTTTCTCTTGGCCCCCG 60.045 66.667 0.00 0.00 0.00 5.73
105 107 2.751837 CTTTCTCTTGGCCCCCGC 60.752 66.667 0.00 0.00 0.00 6.13
205 208 4.522114 CTCCCCACAAACCAACAAATTTT 58.478 39.130 0.00 0.00 0.00 1.82
211 214 5.742926 CCACAAACCAACAAATTTTTGCATC 59.257 36.000 3.00 0.00 41.79 3.91
343 367 7.807687 TCGGACGTCTTTTTAGAAGAATTAG 57.192 36.000 16.46 0.00 0.00 1.73
344 368 6.309737 TCGGACGTCTTTTTAGAAGAATTAGC 59.690 38.462 16.46 0.00 0.00 3.09
348 372 6.310711 ACGTCTTTTTAGAAGAATTAGCGGAG 59.689 38.462 0.00 0.00 0.00 4.63
353 377 7.838771 TTTTAGAAGAATTAGCGGAGGTTAC 57.161 36.000 0.00 0.00 40.68 2.50
357 381 7.179076 AGAAGAATTAGCGGAGGTTACTTAA 57.821 36.000 0.00 0.00 40.68 1.85
359 383 8.265764 AGAAGAATTAGCGGAGGTTACTTAAAT 58.734 33.333 0.00 0.00 40.68 1.40
360 384 8.803397 AAGAATTAGCGGAGGTTACTTAAATT 57.197 30.769 0.00 0.00 40.68 1.82
361 385 9.895138 AAGAATTAGCGGAGGTTACTTAAATTA 57.105 29.630 0.00 0.00 40.68 1.40
370 394 9.158233 CGGAGGTTACTTAAATTATTTGTCAGA 57.842 33.333 0.00 0.00 0.00 3.27
388 412 3.308595 TCAGACGTGCGCCTTTATTTATG 59.691 43.478 4.18 0.00 0.00 1.90
390 414 3.308866 AGACGTGCGCCTTTATTTATGTC 59.691 43.478 4.18 4.54 0.00 3.06
391 415 2.353579 ACGTGCGCCTTTATTTATGTCC 59.646 45.455 4.18 0.00 0.00 4.02
395 419 3.805422 TGCGCCTTTATTTATGTCCGTAG 59.195 43.478 4.18 0.00 0.00 3.51
396 420 4.053295 GCGCCTTTATTTATGTCCGTAGA 58.947 43.478 0.00 0.00 0.00 2.59
397 421 4.084693 GCGCCTTTATTTATGTCCGTAGAC 60.085 45.833 0.00 0.00 43.83 2.59
412 436 3.314553 CGTAGACAAGACACAAACCGAT 58.685 45.455 0.00 0.00 0.00 4.18
426 450 4.214545 ACAAACCGATGATTCTGCGTTTAA 59.785 37.500 0.00 0.00 0.00 1.52
430 454 4.035208 ACCGATGATTCTGCGTTTAATTCC 59.965 41.667 0.00 0.00 0.00 3.01
433 457 5.006649 CGATGATTCTGCGTTTAATTCCAGA 59.993 40.000 0.00 0.00 32.90 3.86
435 459 4.094887 TGATTCTGCGTTTAATTCCAGAGC 59.905 41.667 0.00 0.00 35.91 4.09
439 463 3.407698 TGCGTTTAATTCCAGAGCAAGA 58.592 40.909 0.00 0.00 0.00 3.02
440 464 4.009675 TGCGTTTAATTCCAGAGCAAGAT 58.990 39.130 0.00 0.00 0.00 2.40
441 465 4.458989 TGCGTTTAATTCCAGAGCAAGATT 59.541 37.500 0.00 0.00 0.00 2.40
442 466 5.048083 TGCGTTTAATTCCAGAGCAAGATTT 60.048 36.000 0.00 0.00 0.00 2.17
443 467 6.150307 TGCGTTTAATTCCAGAGCAAGATTTA 59.850 34.615 0.00 0.00 0.00 1.40
444 468 6.469275 GCGTTTAATTCCAGAGCAAGATTTAC 59.531 38.462 0.00 0.00 0.00 2.01
446 470 8.879759 CGTTTAATTCCAGAGCAAGATTTACTA 58.120 33.333 0.00 0.00 0.00 1.82
513 543 3.760151 TGAAAATCTGCACTTGATGAGGG 59.240 43.478 0.00 0.00 0.00 4.30
528 558 3.662759 TGAGGGAAAAGACAACTTGGT 57.337 42.857 0.00 0.00 36.39 3.67
530 560 2.623416 GAGGGAAAAGACAACTTGGTGG 59.377 50.000 0.00 0.00 36.39 4.61
564 596 9.915629 TTTTTAAACGATTTTGGCATGTACTAT 57.084 25.926 0.00 0.00 0.00 2.12
659 696 2.596338 TCAGTCCTCGCCGTGACA 60.596 61.111 10.98 0.00 33.89 3.58
662 699 3.188786 GTCCTCGCCGTGACATGC 61.189 66.667 0.00 0.00 0.00 4.06
713 909 5.028549 TCCTGCCAATGAAGAAGATCTAC 57.971 43.478 0.00 0.00 0.00 2.59
794 1002 4.657075 TTTGTTTCTCCGAAGCGAATAC 57.343 40.909 0.00 0.00 0.00 1.89
795 1003 3.587797 TGTTTCTCCGAAGCGAATACT 57.412 42.857 0.00 0.00 0.00 2.12
796 1004 3.508762 TGTTTCTCCGAAGCGAATACTC 58.491 45.455 0.00 0.00 0.00 2.59
865 1086 2.291741 GACAAAAACAGAGAGGCCACTG 59.708 50.000 7.70 14.69 39.65 3.66
2020 2266 2.126228 GGTTCATGACGACGGCGA 60.126 61.111 22.49 0.00 41.64 5.54
2241 2499 1.227002 GTTCGGATGGGACGAGCTC 60.227 63.158 2.73 2.73 41.81 4.09
2431 2689 6.768029 TGCTTGTGATTAGAAATTTTGTGC 57.232 33.333 0.00 0.00 0.00 4.57
2484 2742 3.639094 GCTAGCCTGAAGGTCTGAATCTA 59.361 47.826 2.29 0.00 37.57 1.98
2502 2760 9.512588 CTGAATCTAATGATAATAACCTTGCCT 57.487 33.333 0.00 0.00 31.70 4.75
2503 2761 9.288576 TGAATCTAATGATAATAACCTTGCCTG 57.711 33.333 0.00 0.00 31.70 4.85
2504 2762 8.641498 AATCTAATGATAATAACCTTGCCTGG 57.359 34.615 0.00 0.00 31.70 4.45
2523 2823 3.485394 TGGTAATTGTGTCACTGCATGT 58.515 40.909 4.27 0.00 0.00 3.21
2687 2997 7.272978 TGAAGGCTTGAATCTAATGGTACTAC 58.727 38.462 3.46 0.00 0.00 2.73
2701 3011 3.640029 TGGTACTACATGGTAGCCTTAGC 59.360 47.826 0.00 0.49 38.82 3.09
2726 3036 3.611433 GCGACATGATTCAGGTTGC 57.389 52.632 23.45 23.45 45.77 4.17
2762 3072 3.633418 TCTCTGGAAGGTAGCCTACTTC 58.367 50.000 1.24 4.09 41.75 3.01
2825 3140 4.237724 GCTTTCCAAAGACAATTAGTGCC 58.762 43.478 3.11 0.00 38.28 5.01
2841 3159 4.989279 AGTGCCAATAAATTAGTGCCAG 57.011 40.909 0.00 0.00 0.00 4.85
2849 3167 2.119801 AATTAGTGCCAGGACAGCTG 57.880 50.000 13.48 13.48 0.00 4.24
2864 3182 2.221169 CAGCTGCTACAAGGTGTTTCA 58.779 47.619 0.00 0.00 40.12 2.69
2866 3184 3.254166 CAGCTGCTACAAGGTGTTTCATT 59.746 43.478 0.00 0.00 40.12 2.57
2904 3222 1.644337 TCTTCCCTGGCAGGTACTCTA 59.356 52.381 30.68 9.38 34.60 2.43
2908 3266 1.404843 CCTGGCAGGTACTCTACTCC 58.595 60.000 25.74 0.00 34.60 3.85
2926 3284 0.670546 CCGCTGAACGTCTGAACCAT 60.671 55.000 0.00 0.00 41.42 3.55
2967 3332 0.320374 CCTGCAACTGTCCCTACGAA 59.680 55.000 0.00 0.00 0.00 3.85
2969 3334 2.615493 CCTGCAACTGTCCCTACGAATT 60.615 50.000 0.00 0.00 0.00 2.17
2970 3335 3.369052 CCTGCAACTGTCCCTACGAATTA 60.369 47.826 0.00 0.00 0.00 1.40
2971 3336 4.442706 CTGCAACTGTCCCTACGAATTAT 58.557 43.478 0.00 0.00 0.00 1.28
2972 3337 4.188462 TGCAACTGTCCCTACGAATTATG 58.812 43.478 0.00 0.00 0.00 1.90
2973 3338 3.002348 GCAACTGTCCCTACGAATTATGC 59.998 47.826 0.00 0.00 0.00 3.14
2974 3339 4.188462 CAACTGTCCCTACGAATTATGCA 58.812 43.478 0.00 0.00 0.00 3.96
2975 3340 3.793559 ACTGTCCCTACGAATTATGCAC 58.206 45.455 0.00 0.00 0.00 4.57
2976 3341 3.196901 ACTGTCCCTACGAATTATGCACA 59.803 43.478 0.00 0.00 0.00 4.57
2977 3342 3.527533 TGTCCCTACGAATTATGCACAC 58.472 45.455 0.00 0.00 0.00 3.82
2978 3343 3.055747 TGTCCCTACGAATTATGCACACA 60.056 43.478 0.00 0.00 0.00 3.72
3014 3382 9.528489 ACCCATTAATGACTACTGTAATTGTTT 57.472 29.630 17.23 0.00 30.29 2.83
3221 3604 2.032550 CCTTGCTGAAGAATATGCCGTG 59.967 50.000 0.00 0.00 0.00 4.94
3235 3618 0.863119 GCCGTGATCGCTTTTCATGC 60.863 55.000 4.48 0.00 35.54 4.06
3293 3677 4.780546 GAGTAAGCATCTCGGTAAAAGC 57.219 45.455 0.00 0.00 0.00 3.51
3294 3678 4.181578 GAGTAAGCATCTCGGTAAAAGCA 58.818 43.478 0.00 0.00 0.00 3.91
3295 3679 4.184629 AGTAAGCATCTCGGTAAAAGCAG 58.815 43.478 0.00 0.00 0.00 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
77 79 1.242665 AAGAGAAAGGCAGCAGCAGC 61.243 55.000 2.65 0.00 44.61 5.25
78 80 0.522180 CAAGAGAAAGGCAGCAGCAG 59.478 55.000 2.65 0.00 44.61 4.24
79 81 0.892358 CCAAGAGAAAGGCAGCAGCA 60.892 55.000 2.65 0.00 44.61 4.41
222 225 9.424319 TGCTAAAAAGATCTACTCACTGTAAAG 57.576 33.333 0.00 0.00 0.00 1.85
224 227 9.204570 GTTGCTAAAAAGATCTACTCACTGTAA 57.795 33.333 0.00 0.00 0.00 2.41
299 323 8.385111 CGTCCGATAAAAACAGCTTTATTTAGA 58.615 33.333 0.00 0.00 32.77 2.10
300 324 8.173130 ACGTCCGATAAAAACAGCTTTATTTAG 58.827 33.333 0.00 0.00 32.77 1.85
301 325 8.031848 ACGTCCGATAAAAACAGCTTTATTTA 57.968 30.769 0.00 0.00 32.77 1.40
312 336 8.490355 TCTTCTAAAAAGACGTCCGATAAAAAC 58.510 33.333 13.01 0.00 0.00 2.43
317 341 9.512435 CTAATTCTTCTAAAAAGACGTCCGATA 57.488 33.333 13.01 0.00 0.00 2.92
319 343 6.309737 GCTAATTCTTCTAAAAAGACGTCCGA 59.690 38.462 13.01 0.00 0.00 4.55
320 344 6.467648 GCTAATTCTTCTAAAAAGACGTCCG 58.532 40.000 13.01 0.00 0.00 4.79
343 367 7.754625 TGACAAATAATTTAAGTAACCTCCGC 58.245 34.615 0.00 0.00 0.00 5.54
344 368 9.158233 TCTGACAAATAATTTAAGTAACCTCCG 57.842 33.333 0.00 0.00 0.00 4.63
348 372 9.537848 CACGTCTGACAAATAATTTAAGTAACC 57.462 33.333 8.73 0.00 0.00 2.85
353 377 5.225129 GCGCACGTCTGACAAATAATTTAAG 59.775 40.000 0.30 0.00 0.00 1.85
357 381 2.159572 GGCGCACGTCTGACAAATAATT 60.160 45.455 10.83 0.00 0.00 1.40
359 383 0.793861 GGCGCACGTCTGACAAATAA 59.206 50.000 10.83 0.00 0.00 1.40
360 384 0.037697 AGGCGCACGTCTGACAAATA 60.038 50.000 10.83 0.00 0.00 1.40
361 385 0.884704 AAGGCGCACGTCTGACAAAT 60.885 50.000 10.83 0.00 0.00 2.32
370 394 2.353579 GGACATAAATAAAGGCGCACGT 59.646 45.455 10.83 0.00 0.00 4.49
388 412 2.798847 GGTTTGTGTCTTGTCTACGGAC 59.201 50.000 0.00 0.00 42.42 4.79
390 414 1.790623 CGGTTTGTGTCTTGTCTACGG 59.209 52.381 0.00 0.00 0.00 4.02
391 415 2.734670 TCGGTTTGTGTCTTGTCTACG 58.265 47.619 0.00 0.00 0.00 3.51
395 419 4.452455 AGAATCATCGGTTTGTGTCTTGTC 59.548 41.667 0.00 0.00 0.00 3.18
396 420 4.214119 CAGAATCATCGGTTTGTGTCTTGT 59.786 41.667 0.00 0.00 0.00 3.16
397 421 4.715896 CAGAATCATCGGTTTGTGTCTTG 58.284 43.478 0.00 0.00 0.00 3.02
398 422 3.189287 GCAGAATCATCGGTTTGTGTCTT 59.811 43.478 0.00 0.00 0.00 3.01
399 423 2.744202 GCAGAATCATCGGTTTGTGTCT 59.256 45.455 0.00 0.00 0.00 3.41
402 426 1.464608 ACGCAGAATCATCGGTTTGTG 59.535 47.619 0.06 0.00 0.00 3.33
412 436 4.094887 GCTCTGGAATTAAACGCAGAATCA 59.905 41.667 0.00 0.00 0.00 2.57
483 508 7.928908 TCAAGTGCAGATTTTCATTTTGTAC 57.071 32.000 0.00 0.00 0.00 2.90
487 515 6.872020 CCTCATCAAGTGCAGATTTTCATTTT 59.128 34.615 0.00 0.00 0.00 1.82
489 517 5.105473 CCCTCATCAAGTGCAGATTTTCATT 60.105 40.000 0.00 0.00 0.00 2.57
491 519 3.760151 CCCTCATCAAGTGCAGATTTTCA 59.240 43.478 0.00 0.00 0.00 2.69
500 530 3.149196 TGTCTTTTCCCTCATCAAGTGC 58.851 45.455 0.00 0.00 0.00 4.40
513 543 7.454260 AATATCTCCACCAAGTTGTCTTTTC 57.546 36.000 1.45 0.00 0.00 2.29
731 927 9.853555 AGAAATTGCATGATATTCGTTTTGTTA 57.146 25.926 0.00 0.00 0.00 2.41
732 928 8.761575 AGAAATTGCATGATATTCGTTTTGTT 57.238 26.923 0.00 0.00 0.00 2.83
733 929 9.289303 GTAGAAATTGCATGATATTCGTTTTGT 57.711 29.630 0.00 0.00 0.00 2.83
734 930 8.463709 CGTAGAAATTGCATGATATTCGTTTTG 58.536 33.333 0.00 0.00 0.00 2.44
794 1002 4.477780 GAAGAGTGTTACTTCTCGTGGAG 58.522 47.826 0.00 0.00 40.10 3.86
795 1003 4.500603 GAAGAGTGTTACTTCTCGTGGA 57.499 45.455 0.00 0.00 40.10 4.02
865 1086 0.808755 CCTCACGTTGTTTATGCCCC 59.191 55.000 0.00 0.00 0.00 5.80
2020 2266 4.148825 GACCATCTGCTCCGGCGT 62.149 66.667 6.01 0.00 42.25 5.68
2058 2304 2.248280 TGAAGTAACCGAGCTTTGCA 57.752 45.000 0.00 0.00 0.00 4.08
2241 2499 3.003173 TCCCCAAGCTCCGTCCTG 61.003 66.667 0.00 0.00 0.00 3.86
2484 2742 8.641541 CAATTACCAGGCAAGGTTATTATCATT 58.358 33.333 11.35 0.00 38.46 2.57
2502 2760 3.485394 ACATGCAGTGACACAATTACCA 58.515 40.909 8.59 0.00 0.00 3.25
2503 2761 4.142687 GGTACATGCAGTGACACAATTACC 60.143 45.833 8.59 5.86 0.00 2.85
2504 2762 4.454161 TGGTACATGCAGTGACACAATTAC 59.546 41.667 8.59 0.65 0.00 1.89
2523 2823 9.144298 TGTGTTAATTTAGGTTCCAATTTGGTA 57.856 29.630 14.98 2.82 39.03 3.25
2687 2997 2.026822 CCTATGGGCTAAGGCTACCATG 60.027 54.545 17.83 10.60 39.59 3.66
2701 3011 2.420642 CTGAATCATGTCGCCTATGGG 58.579 52.381 0.00 0.00 0.00 4.00
2726 3036 4.635223 TCCAGAGAGTTCAGACAATGTTG 58.365 43.478 0.00 0.00 0.00 3.33
2762 3072 6.279882 TGCATGTGGAGTTTTTAAAGGAAAG 58.720 36.000 0.00 0.00 0.00 2.62
2794 3109 1.073923 TCTTTGGAAAGCCCTCAGGTC 59.926 52.381 0.00 0.00 35.99 3.85
2825 3140 4.641989 AGCTGTCCTGGCACTAATTTATTG 59.358 41.667 0.00 0.00 0.00 1.90
2841 3159 0.035458 ACACCTTGTAGCAGCTGTCC 59.965 55.000 16.64 4.02 0.00 4.02
2849 3167 3.424962 GCTCGAATGAAACACCTTGTAGC 60.425 47.826 0.00 0.00 0.00 3.58
2864 3182 6.092807 GGAAGAAGAGTTTATTGTGCTCGAAT 59.907 38.462 0.00 0.00 34.69 3.34
2866 3184 4.929808 GGAAGAAGAGTTTATTGTGCTCGA 59.070 41.667 0.00 0.00 34.69 4.04
2904 3222 0.318784 GTTCAGACGTTCAGCGGAGT 60.319 55.000 0.00 0.00 46.52 3.85
2967 3332 4.516698 GGTAAGCAGCTATGTGTGCATAAT 59.483 41.667 0.00 0.00 42.47 1.28
2969 3334 3.466836 GGTAAGCAGCTATGTGTGCATA 58.533 45.455 0.00 0.00 42.47 3.14
2970 3335 2.292267 GGTAAGCAGCTATGTGTGCAT 58.708 47.619 0.00 0.00 42.47 3.96
2971 3336 1.678728 GGGTAAGCAGCTATGTGTGCA 60.679 52.381 0.00 0.00 42.47 4.57
2972 3337 1.017387 GGGTAAGCAGCTATGTGTGC 58.983 55.000 0.00 0.00 40.17 4.57
2973 3338 2.401583 TGGGTAAGCAGCTATGTGTG 57.598 50.000 0.00 0.00 0.00 3.82
2974 3339 3.652057 AATGGGTAAGCAGCTATGTGT 57.348 42.857 0.00 0.00 0.00 3.72
2975 3340 5.764686 TCATTAATGGGTAAGCAGCTATGTG 59.235 40.000 15.36 0.00 0.00 3.21
2976 3341 5.765182 GTCATTAATGGGTAAGCAGCTATGT 59.235 40.000 15.36 0.00 0.00 2.29
2977 3342 6.000219 AGTCATTAATGGGTAAGCAGCTATG 59.000 40.000 15.36 0.00 0.00 2.23
2978 3343 6.192970 AGTCATTAATGGGTAAGCAGCTAT 57.807 37.500 15.36 0.00 0.00 2.97
3011 3379 8.344831 CCTTTTCAATTTCCAAATCCTGAAAAC 58.655 33.333 14.85 0.00 38.67 2.43
3012 3380 8.270744 TCCTTTTCAATTTCCAAATCCTGAAAA 58.729 29.630 16.53 16.53 39.88 2.29
3014 3382 7.216494 GTCCTTTTCAATTTCCAAATCCTGAA 58.784 34.615 0.00 0.00 0.00 3.02
3063 3431 1.524355 CGCTGAGATATTGTTGCGAGG 59.476 52.381 0.00 0.00 45.15 4.63
3221 3604 0.863119 GTGCGGCATGAAAAGCGATC 60.863 55.000 5.72 0.00 0.00 3.69
3235 3618 3.673484 CCTGCCAACCTTGTGCGG 61.673 66.667 0.00 0.00 33.40 5.69


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

AutoCloner maintained by Alex Coulton.