Multiple sequence alignment - TraesCS5D01G299200

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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 TraesCS5D01G299200 chr5D 100.000 6527 0 0 1 6527 396801302 396807828 0.000000e+00 12054.0
1 TraesCS5D01G299200 chr5D 94.141 1246 45 7 3738 4976 102025759 102024535 0.000000e+00 1871.0
2 TraesCS5D01G299200 chr5D 92.528 803 40 7 2873 3664 102026546 102025753 0.000000e+00 1133.0
3 TraesCS5D01G299200 chr5D 94.000 300 17 1 5978 6276 396813623 396813922 2.770000e-123 453.0
4 TraesCS5D01G299200 chr5A 96.416 6557 167 31 1 6527 502371459 502377977 0.000000e+00 10744.0
5 TraesCS5D01G299200 chr5A 95.000 300 14 1 5978 6276 502383043 502383342 2.760000e-128 470.0
6 TraesCS5D01G299200 chr5B 95.601 2819 80 17 3744 6527 476800761 476803570 0.000000e+00 4479.0
7 TraesCS5D01G299200 chr5B 95.789 2660 93 11 1 2656 476796459 476799103 0.000000e+00 4274.0
8 TraesCS5D01G299200 chr5B 95.640 1032 40 3 2654 3684 476799498 476800525 0.000000e+00 1652.0
9 TraesCS5D01G299200 chr5B 85.789 577 52 13 5978 6527 476808196 476808769 9.430000e-163 584.0
10 TraesCS5D01G299200 chr5B 89.510 143 11 3 5730 5870 371744978 371745118 1.870000e-40 178.0
11 TraesCS5D01G299200 chr1A 92.971 1252 52 9 3738 4974 16516611 16515381 0.000000e+00 1792.0
12 TraesCS5D01G299200 chr1A 92.777 803 38 7 2873 3664 16517398 16516605 0.000000e+00 1144.0
13 TraesCS5D01G299200 chr1D 95.586 657 24 2 4320 4975 452419556 452420208 0.000000e+00 1048.0
14 TraesCS5D01G299200 chrUn 84.158 707 58 21 5860 6527 94934996 94934305 2.570000e-178 636.0
15 TraesCS5D01G299200 chrUn 82.277 694 62 18 5881 6527 314310430 314311109 1.600000e-150 544.0
16 TraesCS5D01G299200 chr7A 83.890 689 70 17 5860 6518 725248527 725247850 2.590000e-173 619.0
17 TraesCS5D01G299200 chr7A 92.308 65 5 0 5463 5527 260907727 260907791 6.970000e-15 93.5
18 TraesCS5D01G299200 chr2A 83.357 709 65 17 5860 6527 687055667 687056363 2.010000e-169 606.0
19 TraesCS5D01G299200 chr2B 83.333 696 65 14 5860 6515 711220857 711221541 4.360000e-166 595.0
20 TraesCS5D01G299200 chr2B 82.991 682 69 19 5881 6527 38894606 38893937 2.040000e-159 573.0
21 TraesCS5D01G299200 chr2B 85.868 559 40 16 5742 6276 697550152 697550695 5.720000e-155 558.0
22 TraesCS5D01G299200 chr2B 88.384 198 21 1 6330 6527 697550797 697550992 3.040000e-58 237.0
23 TraesCS5D01G299200 chr4A 84.973 559 44 19 5742 6276 492381724 492381182 1.250000e-146 531.0
24 TraesCS5D01G299200 chr4A 82.308 650 54 26 5921 6527 675184065 675184696 2.100000e-139 507.0
25 TraesCS5D01G299200 chr4A 87.978 183 20 1 6345 6527 492381066 492380886 1.430000e-51 215.0
26 TraesCS5D01G299200 chr4B 95.495 111 5 0 2418 2528 440301952 440301842 1.870000e-40 178.0
27 TraesCS5D01G299200 chr1B 93.694 111 7 0 2418 2528 14711951 14712061 4.050000e-37 167.0
28 TraesCS5D01G299200 chr7D 90.769 65 6 0 5463 5527 244773951 244774015 3.240000e-13 87.9
29 TraesCS5D01G299200 chr7B 90.769 65 6 0 5463 5527 220134817 220134881 3.240000e-13 87.9


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 TraesCS5D01G299200 chr5D 396801302 396807828 6526 False 12054.000000 12054 100.000000 1 6527 1 chr5D.!!$F1 6526
1 TraesCS5D01G299200 chr5D 102024535 102026546 2011 True 1502.000000 1871 93.334500 2873 4976 2 chr5D.!!$R1 2103
2 TraesCS5D01G299200 chr5A 502371459 502377977 6518 False 10744.000000 10744 96.416000 1 6527 1 chr5A.!!$F1 6526
3 TraesCS5D01G299200 chr5B 476796459 476803570 7111 False 3468.333333 4479 95.676667 1 6527 3 chr5B.!!$F3 6526
4 TraesCS5D01G299200 chr5B 476808196 476808769 573 False 584.000000 584 85.789000 5978 6527 1 chr5B.!!$F2 549
5 TraesCS5D01G299200 chr1A 16515381 16517398 2017 True 1468.000000 1792 92.874000 2873 4974 2 chr1A.!!$R1 2101
6 TraesCS5D01G299200 chr1D 452419556 452420208 652 False 1048.000000 1048 95.586000 4320 4975 1 chr1D.!!$F1 655
7 TraesCS5D01G299200 chrUn 94934305 94934996 691 True 636.000000 636 84.158000 5860 6527 1 chrUn.!!$R1 667
8 TraesCS5D01G299200 chrUn 314310430 314311109 679 False 544.000000 544 82.277000 5881 6527 1 chrUn.!!$F1 646
9 TraesCS5D01G299200 chr7A 725247850 725248527 677 True 619.000000 619 83.890000 5860 6518 1 chr7A.!!$R1 658
10 TraesCS5D01G299200 chr2A 687055667 687056363 696 False 606.000000 606 83.357000 5860 6527 1 chr2A.!!$F1 667
11 TraesCS5D01G299200 chr2B 711220857 711221541 684 False 595.000000 595 83.333000 5860 6515 1 chr2B.!!$F1 655
12 TraesCS5D01G299200 chr2B 38893937 38894606 669 True 573.000000 573 82.991000 5881 6527 1 chr2B.!!$R1 646
13 TraesCS5D01G299200 chr2B 697550152 697550992 840 False 397.500000 558 87.126000 5742 6527 2 chr2B.!!$F2 785
14 TraesCS5D01G299200 chr4A 675184065 675184696 631 False 507.000000 507 82.308000 5921 6527 1 chr4A.!!$F1 606
15 TraesCS5D01G299200 chr4A 492380886 492381724 838 True 373.000000 531 86.475500 5742 6527 2 chr4A.!!$R1 785

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
461 472 1.071699 TGTCGCCCATAGATTTAGCCC 59.928 52.381 0.00 0.0 0.00 5.19 F
1818 1833 0.179001 AAAGGGTTGCGGTAGCTGTT 60.179 50.000 0.00 0.0 45.42 3.16 F
2858 3270 0.471591 TGCAGGCCTGGGTTTTTGAT 60.472 50.000 33.46 0.0 0.00 2.57 F
3702 4126 0.853530 ATAGGTGAAATGCCCCTCCC 59.146 55.000 0.00 0.0 0.00 4.30 F
4788 5408 0.323178 ACCGCTACCGAGGAAGAGAA 60.323 55.000 0.00 0.0 36.29 2.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2115 2130 0.107214 CAATGCGTGGGGATACAGGT 60.107 55.000 0.00 0.0 39.74 4.00 R
3092 3514 0.252284 ACTCGAGGGTGGTGGAGATT 60.252 55.000 18.41 0.0 0.00 2.40 R
4084 4688 4.874966 CTTGATGCAAGTTTGGGACAAAAA 59.125 37.500 0.00 0.0 39.10 1.94 R
5359 6008 2.095617 ACGCCGCACTTTTAATAACACC 60.096 45.455 0.00 0.0 0.00 4.16 R
6015 6706 3.443681 AGGATCCAAGCCAATTGTTTACG 59.556 43.478 15.82 0.0 37.17 3.18 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
41 42 2.127869 CGGAGAAGGGGATCGCTCA 61.128 63.158 9.90 0.00 0.00 4.26
90 91 2.360553 ATCCGCTAGCAAGATCATCG 57.639 50.000 16.45 0.00 0.00 3.84
237 242 3.067106 TCAGTTTCTTGATCTGGTTCGC 58.933 45.455 0.00 0.00 0.00 4.70
309 319 4.981806 ATGTATGGATTTTTGGTCCGTG 57.018 40.909 0.00 0.00 38.64 4.94
330 340 1.152673 GTGGGGGATCTTGGATGCC 60.153 63.158 9.15 9.15 0.00 4.40
353 363 6.150140 GCCTTCATGTGTGATTCTAGTTCTTT 59.850 38.462 0.00 0.00 33.56 2.52
371 381 1.372582 TTTGCTCTGGTCATCGATGC 58.627 50.000 20.81 14.84 0.00 3.91
413 423 4.237976 TCCTAGTTTCCTCGATCTGAGT 57.762 45.455 11.76 0.00 43.64 3.41
424 435 5.009631 CCTCGATCTGAGTCCATCTAGATT 58.990 45.833 1.33 0.00 43.64 2.40
425 436 5.106197 CCTCGATCTGAGTCCATCTAGATTG 60.106 48.000 1.33 0.00 43.64 2.67
426 437 4.217334 TCGATCTGAGTCCATCTAGATTGC 59.783 45.833 1.33 0.00 32.49 3.56
427 438 4.617995 CGATCTGAGTCCATCTAGATTGCC 60.618 50.000 1.33 0.00 30.62 4.52
428 439 3.921104 TCTGAGTCCATCTAGATTGCCT 58.079 45.455 1.33 0.00 0.00 4.75
429 440 4.293494 TCTGAGTCCATCTAGATTGCCTT 58.707 43.478 1.33 0.00 0.00 4.35
430 441 4.343526 TCTGAGTCCATCTAGATTGCCTTC 59.656 45.833 1.33 0.00 0.00 3.46
431 442 4.293494 TGAGTCCATCTAGATTGCCTTCT 58.707 43.478 1.33 0.00 0.00 2.85
432 443 4.100653 TGAGTCCATCTAGATTGCCTTCTG 59.899 45.833 1.33 0.00 0.00 3.02
433 444 4.036518 AGTCCATCTAGATTGCCTTCTGT 58.963 43.478 1.33 0.00 0.00 3.41
434 445 4.472833 AGTCCATCTAGATTGCCTTCTGTT 59.527 41.667 1.33 0.00 0.00 3.16
435 446 4.813697 GTCCATCTAGATTGCCTTCTGTTC 59.186 45.833 1.33 0.00 0.00 3.18
438 449 2.505819 TCTAGATTGCCTTCTGTTCCCC 59.494 50.000 0.00 0.00 0.00 4.81
460 471 2.037251 TCTGTCGCCCATAGATTTAGCC 59.963 50.000 0.00 0.00 0.00 3.93
461 472 1.071699 TGTCGCCCATAGATTTAGCCC 59.928 52.381 0.00 0.00 0.00 5.19
527 538 7.902387 TTTATTTGCTGATTTTGCTGCATTA 57.098 28.000 1.84 0.00 41.37 1.90
629 643 4.655649 TCTGCAGAGATAAATGGCTAGGAA 59.344 41.667 13.74 0.00 0.00 3.36
906 921 3.731652 TGCAACAGTTTTGGAGATTGG 57.268 42.857 0.00 0.00 0.00 3.16
966 981 4.401925 AGCACATTTTAGGAGCAACTTCT 58.598 39.130 0.00 0.00 0.00 2.85
1164 1179 1.338484 CCATACCCATCCATCAGCGAG 60.338 57.143 0.00 0.00 0.00 5.03
1241 1256 2.124612 CCATGCTGTCGATGGGCA 60.125 61.111 11.16 11.16 37.33 5.36
1247 1262 1.153309 CTGTCGATGGGCATGCAGA 60.153 57.895 21.36 5.03 0.00 4.26
1265 1280 2.040412 CAGACTCCCAAGGCCTAAAACT 59.960 50.000 5.16 0.00 0.00 2.66
1433 1448 3.745975 TCTTTAGTCATCAACACTTGCCG 59.254 43.478 0.00 0.00 0.00 5.69
1442 1457 3.064207 TCAACACTTGCCGTTCATCTAC 58.936 45.455 0.00 0.00 0.00 2.59
1578 1593 4.035324 CAGCATTCTGATCAAGTTAGGCAG 59.965 45.833 0.00 0.00 42.95 4.85
1818 1833 0.179001 AAAGGGTTGCGGTAGCTGTT 60.179 50.000 0.00 0.00 45.42 3.16
2031 2046 1.075374 AGGGATGCAGCAGGTAAAACA 59.925 47.619 3.51 0.00 0.00 2.83
2034 2049 2.352715 GGATGCAGCAGGTAAAACAACC 60.353 50.000 3.51 0.00 40.06 3.77
2098 2113 7.065204 GGTGTTCAGATAGAAGACTCCAAAATC 59.935 40.741 5.33 0.00 46.60 2.17
2115 2130 0.982852 ATCGGGTCCCAGAATCTGCA 60.983 55.000 9.12 0.00 0.00 4.41
2302 2318 1.148273 AGTTGGACACCGCACACAT 59.852 52.632 0.00 0.00 0.00 3.21
2715 3127 1.598130 GCCCGCCCTTGCTAGTATG 60.598 63.158 0.00 0.00 34.43 2.39
2766 3178 3.067180 CACTTGACTCATTTTGCCTGTGT 59.933 43.478 0.00 0.00 0.00 3.72
2858 3270 0.471591 TGCAGGCCTGGGTTTTTGAT 60.472 50.000 33.46 0.00 0.00 2.57
2984 3397 8.874156 TCACTATAATTGATGCCTCAAGTATCT 58.126 33.333 22.32 10.57 44.94 1.98
3113 3535 1.606601 CTCCACCACCCTCGAGTCA 60.607 63.158 12.31 0.00 0.00 3.41
3600 4024 2.628178 TCGTGCTGATTACTCCATAGGG 59.372 50.000 0.00 0.00 0.00 3.53
3702 4126 0.853530 ATAGGTGAAATGCCCCTCCC 59.146 55.000 0.00 0.00 0.00 4.30
3724 4148 6.275692 CCCCCTCCCTTTAAGTTTATACAT 57.724 41.667 0.00 0.00 0.00 2.29
3807 4407 9.084533 TGGTAGATATAACAAGCAAAAGGTTTT 57.915 29.630 0.00 0.00 0.00 2.43
3809 4409 9.569167 GTAGATATAACAAGCAAAAGGTTTTCC 57.431 33.333 0.00 0.00 41.05 3.13
4084 4688 4.042187 AGAAGGGCTCATAATTATTCGCCT 59.958 41.667 23.81 12.46 37.66 5.52
4143 4750 7.962934 TTGTTTTGAATAAGAAAGTGTGTCG 57.037 32.000 0.00 0.00 0.00 4.35
4697 5309 2.282180 TGCGTTTTCTGAGCCCCC 60.282 61.111 0.00 0.00 0.00 5.40
4788 5408 0.323178 ACCGCTACCGAGGAAGAGAA 60.323 55.000 0.00 0.00 36.29 2.87
4896 5516 4.400884 AGATCACTCTAGGTTGTGTAGCTG 59.599 45.833 0.00 0.00 35.80 4.24
5035 5682 2.609002 CCAAAAACTTGCAAGACCAAGC 59.391 45.455 32.50 0.00 44.66 4.01
5045 5692 1.531149 CAAGACCAAGCACCGTAACAG 59.469 52.381 0.00 0.00 0.00 3.16
5071 5718 1.586123 CAAAGGCAAACAAACCGAACG 59.414 47.619 0.00 0.00 0.00 3.95
5250 5897 4.099881 TCCCAAAATTGCTGATTAGGATGC 59.900 41.667 0.00 0.00 0.00 3.91
5350 5999 8.005192 TGGCACATGCAGATATTAACATAAAA 57.995 30.769 6.15 0.00 44.36 1.52
5351 6000 8.640651 TGGCACATGCAGATATTAACATAAAAT 58.359 29.630 6.15 0.00 44.36 1.82
5604 6265 9.485206 TCAGTTAGTCTCTTTGTGTTTATTACC 57.515 33.333 0.00 0.00 0.00 2.85
5692 6353 6.091441 GTCTAGAACATGGTCAACACAATCTC 59.909 42.308 14.46 0.00 0.00 2.75
5696 6357 4.067896 ACATGGTCAACACAATCTCTGTC 58.932 43.478 0.00 0.00 35.47 3.51
5765 6428 3.886123 ACAACCACTGTGCTTAGTTTCT 58.114 40.909 1.29 0.00 36.69 2.52
5775 6438 7.116233 CACTGTGCTTAGTTTCTTTTTGTTGTT 59.884 33.333 0.00 0.00 0.00 2.83
5899 6567 4.691216 CCCAGCTTAGTAAATCCGCTAATC 59.309 45.833 0.00 0.00 0.00 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
90 91 0.255033 ACGGGGAATTTAGGCAGGAC 59.745 55.000 0.00 0.00 0.00 3.85
251 257 3.204827 CGCAGAAATCCAGGGCGG 61.205 66.667 0.00 0.00 43.63 6.13
309 319 0.106519 CATCCAAGATCCCCCACCAC 60.107 60.000 0.00 0.00 0.00 4.16
330 340 7.536622 GCAAAAGAACTAGAATCACACATGAAG 59.463 37.037 0.00 0.00 38.69 3.02
353 363 0.807275 CGCATCGATGACCAGAGCAA 60.807 55.000 29.20 0.00 0.00 3.91
371 381 0.848942 CGATCTGAAAGCGATCACCG 59.151 55.000 0.00 0.00 37.68 4.94
413 423 4.141620 GGAACAGAAGGCAATCTAGATGGA 60.142 45.833 11.59 0.00 0.00 3.41
424 435 0.768221 ACAGAGGGGAACAGAAGGCA 60.768 55.000 0.00 0.00 0.00 4.75
425 436 0.035915 GACAGAGGGGAACAGAAGGC 60.036 60.000 0.00 0.00 0.00 4.35
426 437 0.247736 CGACAGAGGGGAACAGAAGG 59.752 60.000 0.00 0.00 0.00 3.46
427 438 0.390472 GCGACAGAGGGGAACAGAAG 60.390 60.000 0.00 0.00 0.00 2.85
428 439 1.671742 GCGACAGAGGGGAACAGAA 59.328 57.895 0.00 0.00 0.00 3.02
429 440 2.283529 GGCGACAGAGGGGAACAGA 61.284 63.158 0.00 0.00 0.00 3.41
430 441 2.266055 GGCGACAGAGGGGAACAG 59.734 66.667 0.00 0.00 0.00 3.16
431 442 3.319198 GGGCGACAGAGGGGAACA 61.319 66.667 0.00 0.00 0.00 3.18
432 443 1.335132 TATGGGCGACAGAGGGGAAC 61.335 60.000 0.00 0.00 0.00 3.62
433 444 1.002403 TATGGGCGACAGAGGGGAA 59.998 57.895 0.00 0.00 0.00 3.97
434 445 1.457643 CTATGGGCGACAGAGGGGA 60.458 63.158 0.00 0.00 34.78 4.81
435 446 0.833834 ATCTATGGGCGACAGAGGGG 60.834 60.000 0.00 0.00 38.92 4.79
438 449 3.321497 GCTAAATCTATGGGCGACAGAG 58.679 50.000 0.00 0.00 39.78 3.35
460 471 9.757227 TCAACAGTGTTAAAAATTAATCTTGGG 57.243 29.630 8.49 0.00 0.00 4.12
494 505 7.282916 CAAAATCAGCAAATAAAAACTGTCCG 58.717 34.615 0.00 0.00 0.00 4.79
629 643 4.071423 TGTCACCACATTGTCGAATTGAT 58.929 39.130 0.00 0.00 0.00 2.57
681 696 1.270550 GAACCATGCCAACAGTTCAGG 59.729 52.381 5.66 0.00 38.74 3.86
906 921 4.755266 TGACCCCTTCAGCTATTACTTC 57.245 45.455 0.00 0.00 0.00 3.01
947 962 7.502561 ACAAACTAGAAGTTGCTCCTAAAATGT 59.497 33.333 0.00 0.00 38.66 2.71
1164 1179 0.871057 ACGCAGCTTTTCTCTTCAGC 59.129 50.000 0.00 0.00 0.00 4.26
1241 1256 0.621571 TAGGCCTTGGGAGTCTGCAT 60.622 55.000 12.58 0.00 0.00 3.96
1247 1262 2.445525 TCAAGTTTTAGGCCTTGGGAGT 59.554 45.455 12.58 0.00 38.83 3.85
1442 1457 0.609957 TTGAGGCCCATGCTGTTCAG 60.610 55.000 0.00 0.00 37.74 3.02
1578 1593 1.888512 TGAAATCCAGAGGTGCAAAGC 59.111 47.619 0.00 0.00 0.00 3.51
1818 1833 5.417580 GGAATGTGCTAATTTTGGTAGTGGA 59.582 40.000 0.00 0.00 0.00 4.02
1949 1964 9.793252 CACCTATTGATATTTCTGTTTCCTTTG 57.207 33.333 0.00 0.00 0.00 2.77
1950 1965 9.753674 TCACCTATTGATATTTCTGTTTCCTTT 57.246 29.630 0.00 0.00 0.00 3.11
2025 2040 7.721402 AGTTAACATGCAAGATGGTTGTTTTA 58.279 30.769 8.61 0.00 33.03 1.52
2031 2046 6.403866 TCAAAGTTAACATGCAAGATGGTT 57.596 33.333 8.61 0.00 0.00 3.67
2034 2049 5.004061 CGCATCAAAGTTAACATGCAAGATG 59.996 40.000 21.59 17.59 41.51 2.90
2098 2113 1.450312 GTGCAGATTCTGGGACCCG 60.450 63.158 15.28 0.63 31.21 5.28
2115 2130 0.107214 CAATGCGTGGGGATACAGGT 60.107 55.000 0.00 0.00 39.74 4.00
2143 2158 2.070573 AGGAAAGAGGCTTAAACCCCA 58.929 47.619 0.00 0.00 0.00 4.96
2715 3127 2.159212 GGGAAAAGAGCGAGAGACTACC 60.159 54.545 0.00 0.00 0.00 3.18
2766 3178 6.294508 GCTTATTAAAACTTCAGGGCTTCACA 60.295 38.462 0.00 0.00 0.00 3.58
2843 3255 3.207265 ACAAAATCAAAAACCCAGGCC 57.793 42.857 0.00 0.00 0.00 5.19
2968 3381 6.299805 AGTAAACAGATACTTGAGGCATCA 57.700 37.500 0.00 0.00 32.18 3.07
2984 3397 7.441890 TCGAAATGGCAGAAAATAGTAAACA 57.558 32.000 0.00 0.00 0.00 2.83
3092 3514 0.252284 ACTCGAGGGTGGTGGAGATT 60.252 55.000 18.41 0.00 0.00 2.40
3347 3769 9.031537 TCTGTGATTGTCTTCAGTATTTAGGTA 57.968 33.333 0.00 0.00 0.00 3.08
3471 3894 4.389374 ACAAATATGCCATAGGAACTCGG 58.611 43.478 0.00 0.00 41.75 4.63
3702 4126 6.906848 TCATGTATAAACTTAAAGGGAGGGG 58.093 40.000 0.00 0.00 0.00 4.79
4084 4688 4.874966 CTTGATGCAAGTTTGGGACAAAAA 59.125 37.500 0.00 0.00 39.10 1.94
4697 5309 7.312657 TCGATCTTGATGATTTCTTGGAAAG 57.687 36.000 0.00 0.00 39.59 2.62
4896 5516 6.694877 AAAGGAAGTTGTGTTAAAGGAGAC 57.305 37.500 0.00 0.00 0.00 3.36
5035 5682 3.185797 GCCTTTGTAGTTCTGTTACGGTG 59.814 47.826 0.00 0.00 0.00 4.94
5045 5692 3.794564 CGGTTTGTTTGCCTTTGTAGTTC 59.205 43.478 0.00 0.00 0.00 3.01
5071 5718 6.558909 TGTTGTTTTTGCCAATTCCAATTTC 58.441 32.000 0.00 0.00 0.00 2.17
5250 5897 8.025445 AGCAACAGCAAAATCTCAGTATTTTAG 58.975 33.333 0.00 0.00 37.03 1.85
5351 6000 9.263538 CCGCACTTTTAATAACACCATATACTA 57.736 33.333 0.00 0.00 0.00 1.82
5352 6001 7.255001 GCCGCACTTTTAATAACACCATATACT 60.255 37.037 0.00 0.00 0.00 2.12
5353 6002 6.854381 GCCGCACTTTTAATAACACCATATAC 59.146 38.462 0.00 0.00 0.00 1.47
5354 6003 6.292973 CGCCGCACTTTTAATAACACCATATA 60.293 38.462 0.00 0.00 0.00 0.86
5355 6004 5.504994 CGCCGCACTTTTAATAACACCATAT 60.505 40.000 0.00 0.00 0.00 1.78
5356 6005 4.201832 CGCCGCACTTTTAATAACACCATA 60.202 41.667 0.00 0.00 0.00 2.74
5357 6006 3.426963 CGCCGCACTTTTAATAACACCAT 60.427 43.478 0.00 0.00 0.00 3.55
5358 6007 2.095668 CGCCGCACTTTTAATAACACCA 60.096 45.455 0.00 0.00 0.00 4.17
5359 6008 2.095617 ACGCCGCACTTTTAATAACACC 60.096 45.455 0.00 0.00 0.00 4.16
5360 6009 3.191735 ACGCCGCACTTTTAATAACAC 57.808 42.857 0.00 0.00 0.00 3.32
5692 6353 4.637483 AAGAAAACACACACCATGACAG 57.363 40.909 0.00 0.00 0.00 3.51
5696 6357 7.254727 CCCAAATAAAAGAAAACACACACCATG 60.255 37.037 0.00 0.00 0.00 3.66
5847 6512 4.036498 GCTCTGATTCCAAATGATGACTGG 59.964 45.833 0.00 0.00 0.00 4.00
6015 6706 3.443681 AGGATCCAAGCCAATTGTTTACG 59.556 43.478 15.82 0.00 37.17 3.18


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

AutoCloner maintained by Alex Coulton.