Multiple sequence alignment - TraesCS5A01G409500

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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 TraesCS5A01G409500 chr5A 100.000 3227 0 0 1 3227 599161689 599158463 0.000000e+00 5960.0
1 TraesCS5A01G409500 chr5A 97.586 580 13 1 2449 3027 502916247 502916826 0.000000e+00 992.0
2 TraesCS5A01G409500 chr5A 81.032 775 86 22 1 732 436638984 436638228 7.820000e-156 560.0
3 TraesCS5A01G409500 chr5A 85.976 164 11 5 3033 3196 589317238 589317389 7.160000e-37 165.0
4 TraesCS5A01G409500 chr5A 91.525 59 5 0 2449 2507 604236176 604236234 7.420000e-12 82.4
5 TraesCS5A01G409500 chr5D 95.326 1626 56 4 823 2448 480458423 480456818 0.000000e+00 2564.0
6 TraesCS5A01G409500 chr5D 77.347 671 99 24 78 705 89386598 89387258 6.630000e-92 348.0
7 TraesCS5A01G409500 chr5D 87.981 208 11 4 3027 3227 480456833 480456633 1.940000e-57 233.0
8 TraesCS5A01G409500 chr5B 95.334 1436 62 5 990 2421 588621313 588619879 0.000000e+00 2276.0
9 TraesCS5A01G409500 chr5B 91.226 1379 83 19 823 2168 588581083 588579710 0.000000e+00 1842.0
10 TraesCS5A01G409500 chr5B 95.122 287 10 2 2166 2448 588577267 588576981 1.770000e-122 449.0
11 TraesCS5A01G409500 chr5B 86.802 197 15 5 3027 3219 588576997 588576808 3.260000e-50 209.0
12 TraesCS5A01G409500 chr5B 95.349 129 6 0 832 960 588641416 588641288 4.220000e-49 206.0
13 TraesCS5A01G409500 chr5B 82.353 119 21 0 1067 1185 589349248 589349130 1.580000e-18 104.0
14 TraesCS5A01G409500 chr5B 87.013 77 8 2 2444 2519 322131295 322131370 5.740000e-13 86.1
15 TraesCS5A01G409500 chr3B 98.793 580 6 1 2449 3027 661422054 661422633 0.000000e+00 1031.0
16 TraesCS5A01G409500 chr3B 78.755 739 115 16 62 769 174452914 174452187 1.060000e-124 457.0
17 TraesCS5A01G409500 chr3B 83.019 106 11 4 2449 2548 794762484 794762588 4.430000e-14 89.8
18 TraesCS5A01G409500 chr4A 97.927 579 12 0 2449 3027 482411837 482411259 0.000000e+00 1003.0
19 TraesCS5A01G409500 chr4A 84.112 856 87 16 1 814 677961497 677962345 0.000000e+00 782.0
20 TraesCS5A01G409500 chr4A 74.926 674 122 23 96 739 117950172 117949516 6.860000e-67 265.0
21 TraesCS5A01G409500 chr4A 94.545 55 3 0 2453 2507 131994515 131994461 5.740000e-13 86.1
22 TraesCS5A01G409500 chr1B 97.445 587 14 1 2442 3027 301752160 301752746 0.000000e+00 1000.0
23 TraesCS5A01G409500 chr2A 97.432 584 14 1 2444 3027 226565551 226564969 0.000000e+00 994.0
24 TraesCS5A01G409500 chr2A 85.444 845 80 12 1 814 762932690 762931858 0.000000e+00 839.0
25 TraesCS5A01G409500 chr2B 97.586 580 12 2 2449 3027 797940479 797941057 0.000000e+00 992.0
26 TraesCS5A01G409500 chr2B 97.265 585 11 3 2448 3027 133941327 133941911 0.000000e+00 987.0
27 TraesCS5A01G409500 chr2B 83.537 820 82 22 1 777 452910188 452910997 0.000000e+00 717.0
28 TraesCS5A01G409500 chr2B 82.110 654 71 24 7 622 93117470 93116825 4.770000e-143 518.0
29 TraesCS5A01G409500 chr4D 86.799 856 63 13 7 820 476308324 476307477 0.000000e+00 909.0
30 TraesCS5A01G409500 chr4D 79.396 762 104 26 1 726 121853087 121853831 3.740000e-134 488.0
31 TraesCS5A01G409500 chr4D 78.291 714 118 21 79 770 82327201 82327899 2.980000e-115 425.0
32 TraesCS5A01G409500 chr4D 82.237 152 13 4 3033 3182 259881547 259881408 5.660000e-23 119.0
33 TraesCS5A01G409500 chr7A 83.232 823 83 20 1 777 540868436 540869249 0.000000e+00 704.0
34 TraesCS5A01G409500 chr7A 80.892 785 96 20 1 740 425772067 425772842 1.300000e-158 569.0
35 TraesCS5A01G409500 chr7A 78.826 562 83 18 84 612 675325254 675324696 2.380000e-91 346.0
36 TraesCS5A01G409500 chr1D 82.360 822 91 18 1 777 37201998 37202810 0.000000e+00 665.0
37 TraesCS5A01G409500 chr6B 82.886 783 83 21 1 740 76215767 76214993 0.000000e+00 656.0
38 TraesCS5A01G409500 chr6D 81.763 828 87 26 1 777 36260929 36260115 4.540000e-178 634.0
39 TraesCS5A01G409500 chr6D 83.333 150 13 3 3033 3182 469093980 469093843 9.400000e-26 128.0
40 TraesCS5A01G409500 chr6D 73.871 310 47 19 375 670 23042176 23041887 3.430000e-15 93.5
41 TraesCS5A01G409500 chr4B 82.796 744 91 19 47 770 17829824 17830550 5.880000e-177 630.0
42 TraesCS5A01G409500 chr7D 82.078 770 93 12 1 738 87984321 87985077 1.650000e-172 616.0
43 TraesCS5A01G409500 chr7D 79.536 733 121 14 45 760 398003018 398003738 2.240000e-136 496.0
44 TraesCS5A01G409500 chr7D 92.063 63 5 0 2445 2507 125453046 125453108 4.430000e-14 89.8
45 TraesCS5A01G409500 chr7D 92.727 55 4 0 2449 2503 511084655 511084709 2.670000e-11 80.5
46 TraesCS5A01G409500 chr2D 83.676 680 83 14 47 706 592290155 592289484 1.650000e-172 616.0
47 TraesCS5A01G409500 chr2D 82.405 682 76 23 1 652 95408376 95409043 3.640000e-154 555.0
48 TraesCS5A01G409500 chr2D 83.729 590 63 10 1 559 385567898 385568485 7.930000e-146 527.0
49 TraesCS5A01G409500 chr2D 90.476 63 4 2 2445 2507 382441980 382442040 7.420000e-12 82.4
50 TraesCS5A01G409500 chr6A 81.997 661 72 25 1 622 46134638 46133986 4.770000e-143 518.0
51 TraesCS5A01G409500 chrUn 81.364 660 79 27 1 622 269554304 269553651 6.220000e-137 497.0
52 TraesCS5A01G409500 chr7B 82.017 595 74 13 1 562 24414606 24414012 2.910000e-130 475.0
53 TraesCS5A01G409500 chr3D 79.028 720 104 22 84 768 46267719 46267012 1.770000e-122 449.0
54 TraesCS5A01G409500 chr3D 79.185 687 99 21 78 732 588201006 588201680 1.370000e-118 436.0
55 TraesCS5A01G409500 chr3D 83.696 92 11 3 3105 3196 581721196 581721109 2.060000e-12 84.2


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 TraesCS5A01G409500 chr5A 599158463 599161689 3226 True 5960.000000 5960 100.0000 1 3227 1 chr5A.!!$R2 3226
1 TraesCS5A01G409500 chr5A 502916247 502916826 579 False 992.000000 992 97.5860 2449 3027 1 chr5A.!!$F1 578
2 TraesCS5A01G409500 chr5A 436638228 436638984 756 True 560.000000 560 81.0320 1 732 1 chr5A.!!$R1 731
3 TraesCS5A01G409500 chr5D 480456633 480458423 1790 True 1398.500000 2564 91.6535 823 3227 2 chr5D.!!$R1 2404
4 TraesCS5A01G409500 chr5D 89386598 89387258 660 False 348.000000 348 77.3470 78 705 1 chr5D.!!$F1 627
5 TraesCS5A01G409500 chr5B 588619879 588621313 1434 True 2276.000000 2276 95.3340 990 2421 1 chr5B.!!$R1 1431
6 TraesCS5A01G409500 chr5B 588576808 588581083 4275 True 833.333333 1842 91.0500 823 3219 3 chr5B.!!$R4 2396
7 TraesCS5A01G409500 chr3B 661422054 661422633 579 False 1031.000000 1031 98.7930 2449 3027 1 chr3B.!!$F1 578
8 TraesCS5A01G409500 chr3B 174452187 174452914 727 True 457.000000 457 78.7550 62 769 1 chr3B.!!$R1 707
9 TraesCS5A01G409500 chr4A 482411259 482411837 578 True 1003.000000 1003 97.9270 2449 3027 1 chr4A.!!$R3 578
10 TraesCS5A01G409500 chr4A 677961497 677962345 848 False 782.000000 782 84.1120 1 814 1 chr4A.!!$F1 813
11 TraesCS5A01G409500 chr4A 117949516 117950172 656 True 265.000000 265 74.9260 96 739 1 chr4A.!!$R1 643
12 TraesCS5A01G409500 chr1B 301752160 301752746 586 False 1000.000000 1000 97.4450 2442 3027 1 chr1B.!!$F1 585
13 TraesCS5A01G409500 chr2A 226564969 226565551 582 True 994.000000 994 97.4320 2444 3027 1 chr2A.!!$R1 583
14 TraesCS5A01G409500 chr2A 762931858 762932690 832 True 839.000000 839 85.4440 1 814 1 chr2A.!!$R2 813
15 TraesCS5A01G409500 chr2B 797940479 797941057 578 False 992.000000 992 97.5860 2449 3027 1 chr2B.!!$F3 578
16 TraesCS5A01G409500 chr2B 133941327 133941911 584 False 987.000000 987 97.2650 2448 3027 1 chr2B.!!$F1 579
17 TraesCS5A01G409500 chr2B 452910188 452910997 809 False 717.000000 717 83.5370 1 777 1 chr2B.!!$F2 776
18 TraesCS5A01G409500 chr2B 93116825 93117470 645 True 518.000000 518 82.1100 7 622 1 chr2B.!!$R1 615
19 TraesCS5A01G409500 chr4D 476307477 476308324 847 True 909.000000 909 86.7990 7 820 1 chr4D.!!$R2 813
20 TraesCS5A01G409500 chr4D 121853087 121853831 744 False 488.000000 488 79.3960 1 726 1 chr4D.!!$F2 725
21 TraesCS5A01G409500 chr4D 82327201 82327899 698 False 425.000000 425 78.2910 79 770 1 chr4D.!!$F1 691
22 TraesCS5A01G409500 chr7A 540868436 540869249 813 False 704.000000 704 83.2320 1 777 1 chr7A.!!$F2 776
23 TraesCS5A01G409500 chr7A 425772067 425772842 775 False 569.000000 569 80.8920 1 740 1 chr7A.!!$F1 739
24 TraesCS5A01G409500 chr7A 675324696 675325254 558 True 346.000000 346 78.8260 84 612 1 chr7A.!!$R1 528
25 TraesCS5A01G409500 chr1D 37201998 37202810 812 False 665.000000 665 82.3600 1 777 1 chr1D.!!$F1 776
26 TraesCS5A01G409500 chr6B 76214993 76215767 774 True 656.000000 656 82.8860 1 740 1 chr6B.!!$R1 739
27 TraesCS5A01G409500 chr6D 36260115 36260929 814 True 634.000000 634 81.7630 1 777 1 chr6D.!!$R2 776
28 TraesCS5A01G409500 chr4B 17829824 17830550 726 False 630.000000 630 82.7960 47 770 1 chr4B.!!$F1 723
29 TraesCS5A01G409500 chr7D 87984321 87985077 756 False 616.000000 616 82.0780 1 738 1 chr7D.!!$F1 737
30 TraesCS5A01G409500 chr7D 398003018 398003738 720 False 496.000000 496 79.5360 45 760 1 chr7D.!!$F3 715
31 TraesCS5A01G409500 chr2D 592289484 592290155 671 True 616.000000 616 83.6760 47 706 1 chr2D.!!$R1 659
32 TraesCS5A01G409500 chr2D 95408376 95409043 667 False 555.000000 555 82.4050 1 652 1 chr2D.!!$F1 651
33 TraesCS5A01G409500 chr2D 385567898 385568485 587 False 527.000000 527 83.7290 1 559 1 chr2D.!!$F3 558
34 TraesCS5A01G409500 chr6A 46133986 46134638 652 True 518.000000 518 81.9970 1 622 1 chr6A.!!$R1 621
35 TraesCS5A01G409500 chrUn 269553651 269554304 653 True 497.000000 497 81.3640 1 622 1 chrUn.!!$R1 621
36 TraesCS5A01G409500 chr7B 24414012 24414606 594 True 475.000000 475 82.0170 1 562 1 chr7B.!!$R1 561
37 TraesCS5A01G409500 chr3D 46267012 46267719 707 True 449.000000 449 79.0280 84 768 1 chr3D.!!$R1 684
38 TraesCS5A01G409500 chr3D 588201006 588201680 674 False 436.000000 436 79.1850 78 732 1 chr3D.!!$F1 654


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
166 189 1.187087 GATCACCTTCTCACCCGAGT 58.813 55.000 0.00 0.0 40.44 4.18 F
1332 1460 1.078567 GAGACTGGCAAGCCTCAGG 60.079 63.158 12.96 0.0 33.37 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1691 1819 0.039527 GATCACCGGGTGTTTGTTGC 60.040 55.0 25.53 2.9 34.79 4.17 R
2641 5224 1.609208 GAGCAACCTTTCTGGAGCAA 58.391 50.0 0.00 0.0 40.77 3.91 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
166 189 1.187087 GATCACCTTCTCACCCGAGT 58.813 55.000 0.00 0.00 40.44 4.18
218 244 3.710722 CCTCCAAGGTGGCTCGCT 61.711 66.667 0.00 0.00 37.47 4.93
356 392 1.819928 CCATCCATGAACCACGAACA 58.180 50.000 0.00 0.00 0.00 3.18
388 437 1.444553 GTCTTCCAGCTGTCGTCGG 60.445 63.158 13.81 0.00 0.00 4.79
617 700 4.430765 GTCGCCGAAGCCCGAAGA 62.431 66.667 0.00 0.00 41.76 2.87
618 701 3.458163 TCGCCGAAGCCCGAAGAT 61.458 61.111 0.00 0.00 41.76 2.40
635 718 1.827344 AGATGAGACGATGAACAGCCA 59.173 47.619 0.00 0.00 0.00 4.75
716 806 4.456253 CCGACGACCGAGGTCACG 62.456 72.222 20.75 21.66 44.77 4.35
797 890 3.445450 GGAGATGGCTTTTCCTTTCTTCC 59.555 47.826 3.01 0.00 35.26 3.46
820 913 6.705381 TCCAACCGAAGAAAGAAAAACGTATA 59.295 34.615 0.00 0.00 0.00 1.47
821 914 6.793680 CCAACCGAAGAAAGAAAAACGTATAC 59.206 38.462 0.00 0.00 0.00 1.47
867 961 3.858238 GGAAACTATGAAACTCCGACTCG 59.142 47.826 0.00 0.00 0.00 4.18
890 984 4.018484 AGTAGTGGACGAGTTACACTCT 57.982 45.455 14.61 10.54 42.92 3.24
1320 1448 4.180946 CCGGTCCGCTCGAGACTG 62.181 72.222 18.75 10.85 39.83 3.51
1332 1460 1.078567 GAGACTGGCAAGCCTCAGG 60.079 63.158 12.96 0.00 33.37 3.86
1390 1518 2.587753 GCCGCTACAGCCGCATAA 60.588 61.111 9.26 0.00 43.14 1.90
1451 1579 2.829384 GCCCCGGCCAATATGAGGA 61.829 63.158 2.24 0.00 34.56 3.71
1464 1592 2.843401 ATGAGGATGATGAGCAGCTC 57.157 50.000 16.21 16.21 32.29 4.09
1734 1862 4.312231 CGCACCGTGCACTGGTTG 62.312 66.667 24.49 20.32 45.36 3.77
1862 1990 1.739067 GTTAGCAGAATGTCGGGCTT 58.261 50.000 0.00 0.00 39.31 4.35
1877 2005 1.477105 GGCTTCAAGAACAACAACGC 58.523 50.000 0.00 0.00 0.00 4.84
2407 4980 3.764434 GCTCCTCGACCTATCCATAATGA 59.236 47.826 0.00 0.00 0.00 2.57
2415 4988 4.448210 ACCTATCCATAATGAACGCGTTT 58.552 39.130 27.32 13.16 0.00 3.60
2602 5184 4.942761 ACAAAACCTGTGATCAGCATTT 57.057 36.364 0.00 0.00 40.09 2.32
2641 5224 1.355720 CATGGAGGTTCCCAGAAAGGT 59.644 52.381 0.00 0.00 39.97 3.50
2759 5342 4.380531 AGTGCAATCGTTTCTCTCTTTCA 58.619 39.130 0.00 0.00 0.00 2.69
2800 5383 1.219124 GAGCATCGTCTTGAGGGCA 59.781 57.895 0.00 0.00 34.28 5.36
3027 5610 1.523938 GCCATCCCCTTCGCTGTAC 60.524 63.158 0.00 0.00 0.00 2.90
3028 5611 1.904771 CCATCCCCTTCGCTGTACA 59.095 57.895 0.00 0.00 0.00 2.90
3029 5612 0.179073 CCATCCCCTTCGCTGTACAG 60.179 60.000 18.93 18.93 0.00 2.74
3030 5613 0.179073 CATCCCCTTCGCTGTACAGG 60.179 60.000 23.95 13.97 0.00 4.00
3031 5614 1.972660 ATCCCCTTCGCTGTACAGGC 61.973 60.000 23.95 14.77 0.00 4.85
3032 5615 2.660064 CCCCTTCGCTGTACAGGCT 61.660 63.158 23.95 0.00 0.00 4.58
3033 5616 1.296715 CCCTTCGCTGTACAGGCTT 59.703 57.895 23.95 0.00 0.00 4.35
3034 5617 1.021390 CCCTTCGCTGTACAGGCTTG 61.021 60.000 23.95 0.00 0.00 4.01
3035 5618 1.639298 CCTTCGCTGTACAGGCTTGC 61.639 60.000 23.95 9.38 0.00 4.01
3036 5619 0.671781 CTTCGCTGTACAGGCTTGCT 60.672 55.000 23.95 0.00 0.00 3.91
3037 5620 0.606096 TTCGCTGTACAGGCTTGCTA 59.394 50.000 23.95 0.00 0.00 3.49
3038 5621 0.824109 TCGCTGTACAGGCTTGCTAT 59.176 50.000 23.95 0.00 0.00 2.97
3039 5622 1.207089 TCGCTGTACAGGCTTGCTATT 59.793 47.619 23.95 0.00 0.00 1.73
3040 5623 2.009774 CGCTGTACAGGCTTGCTATTT 58.990 47.619 23.95 0.00 0.00 1.40
3041 5624 2.030946 CGCTGTACAGGCTTGCTATTTC 59.969 50.000 23.95 2.13 0.00 2.17
3042 5625 3.009723 GCTGTACAGGCTTGCTATTTCA 58.990 45.455 23.95 0.00 0.00 2.69
3043 5626 3.181506 GCTGTACAGGCTTGCTATTTCAC 60.182 47.826 23.95 0.00 0.00 3.18
3044 5627 4.002982 CTGTACAGGCTTGCTATTTCACA 58.997 43.478 15.49 0.00 0.00 3.58
3045 5628 4.588899 TGTACAGGCTTGCTATTTCACAT 58.411 39.130 0.00 0.00 0.00 3.21
3094 5677 7.017950 ACCTCACATCTAAATCCATCACCATAT 59.982 37.037 0.00 0.00 0.00 1.78
3096 5679 7.976712 TCACATCTAAATCCATCACCATATGA 58.023 34.615 3.65 0.00 43.13 2.15
3098 5681 9.895138 CACATCTAAATCCATCACCATATGATA 57.105 33.333 3.65 0.00 46.96 2.15
3143 5729 2.031012 TGCAACTGTCCCTCGCAG 59.969 61.111 0.00 0.00 39.67 5.18
3174 5760 1.656818 ATGCAGCCGTGTATGTTGCC 61.657 55.000 0.00 0.00 33.98 4.52
3182 5768 1.606668 CGTGTATGTTGCCCAGTTGTT 59.393 47.619 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
166 189 4.847516 CGATGGAGCCGCGTCGAA 62.848 66.667 4.92 0.00 36.25 3.71
218 244 1.243902 CGGCAAGGGCTTCACTTTTA 58.756 50.000 0.00 0.00 40.87 1.52
388 437 2.415893 GGTTGCATATTGTGGTCTGCAC 60.416 50.000 0.00 0.00 43.74 4.57
407 456 1.380112 GAGGTAGTCCAGGAGCGGT 60.380 63.158 0.00 0.00 35.89 5.68
612 695 2.533535 GCTGTTCATCGTCTCATCTTCG 59.466 50.000 0.00 0.00 0.00 3.79
613 696 2.863137 GGCTGTTCATCGTCTCATCTTC 59.137 50.000 0.00 0.00 0.00 2.87
614 697 2.234661 TGGCTGTTCATCGTCTCATCTT 59.765 45.455 0.00 0.00 0.00 2.40
615 698 1.827344 TGGCTGTTCATCGTCTCATCT 59.173 47.619 0.00 0.00 0.00 2.90
616 699 2.299993 TGGCTGTTCATCGTCTCATC 57.700 50.000 0.00 0.00 0.00 2.92
617 700 2.768253 TTGGCTGTTCATCGTCTCAT 57.232 45.000 0.00 0.00 0.00 2.90
618 701 2.542020 TTTGGCTGTTCATCGTCTCA 57.458 45.000 0.00 0.00 0.00 3.27
656 743 3.595173 CATGTGTGTGGATCGGTTTAGA 58.405 45.455 0.00 0.00 0.00 2.10
781 874 2.288213 CGGTTGGAAGAAAGGAAAAGCC 60.288 50.000 0.00 0.00 0.00 4.35
797 890 6.513991 CGTATACGTTTTTCTTTCTTCGGTTG 59.486 38.462 17.16 0.00 34.11 3.77
821 914 4.691204 CAGATACATGCGCGCGCG 62.691 66.667 45.73 45.73 45.51 6.86
890 984 1.138069 TCATACGTACCGACCGACCTA 59.862 52.381 0.00 0.00 0.00 3.08
914 1008 4.865925 TCTGTATTTATTTGTCGGTCGTGG 59.134 41.667 0.00 0.00 0.00 4.94
1320 1448 1.676967 CTCCAACCTGAGGCTTGCC 60.677 63.158 0.00 2.97 0.00 4.52
1387 1515 0.754217 TCGCGGCTGTAGGACCTTAT 60.754 55.000 6.13 0.00 0.00 1.73
1388 1516 1.378911 TCGCGGCTGTAGGACCTTA 60.379 57.895 6.13 0.00 0.00 2.69
1390 1518 3.450115 GTCGCGGCTGTAGGACCT 61.450 66.667 1.90 0.00 0.00 3.85
1451 1579 0.179089 GACCGTGAGCTGCTCATCAT 60.179 55.000 32.45 20.93 42.73 2.45
1464 1592 1.655484 TGATATTGCTGCAGACCGTG 58.345 50.000 20.43 0.00 0.00 4.94
1660 1788 4.127744 CCGGGGTGGTGGATGCAT 62.128 66.667 0.00 0.00 0.00 3.96
1691 1819 0.039527 GATCACCGGGTGTTTGTTGC 60.040 55.000 25.53 2.90 34.79 4.17
1862 1990 2.033236 GTGATCGCGTTGTTGTTCTTGA 60.033 45.455 5.77 0.00 0.00 3.02
1877 2005 3.083600 GAAACGGCCAGCGTGATCG 62.084 63.158 2.24 0.00 40.37 3.69
2008 2136 4.211986 AACGGACTTGTGCACGTT 57.788 50.000 13.13 8.56 43.74 3.99
2407 4980 6.270815 TGCTAGAATCTATTAGAAACGCGTT 58.729 36.000 20.79 20.79 0.00 4.84
2602 5184 8.424918 CCTCCATGAGATAGCTAGTTTCTTTTA 58.575 37.037 0.00 0.00 0.00 1.52
2641 5224 1.609208 GAGCAACCTTTCTGGAGCAA 58.391 50.000 0.00 0.00 40.77 3.91
2759 5342 2.818921 ACTGATCCTCTCTGAGCTGTT 58.181 47.619 0.00 0.00 30.05 3.16
2800 5383 3.418995 AGAATCAGCACAGCACAAGAAT 58.581 40.909 0.00 0.00 0.00 2.40
3027 5610 5.363101 TCTAGATGTGAAATAGCAAGCCTG 58.637 41.667 0.00 0.00 0.00 4.85
3028 5611 5.620738 TCTAGATGTGAAATAGCAAGCCT 57.379 39.130 0.00 0.00 0.00 4.58
3029 5612 6.238610 CATCTAGATGTGAAATAGCAAGCC 57.761 41.667 22.42 0.00 34.23 4.35
3044 5627 9.988815 GGTAACTATTTCACATCACATCTAGAT 57.011 33.333 0.00 0.00 0.00 1.98
3100 5683 9.216117 ACGAATCTTATAGCAAAGTTTTACACT 57.784 29.630 0.00 0.00 37.30 3.55
3101 5684 9.262472 CACGAATCTTATAGCAAAGTTTTACAC 57.738 33.333 0.00 0.00 0.00 2.90
3102 5685 7.960738 GCACGAATCTTATAGCAAAGTTTTACA 59.039 33.333 0.00 0.00 0.00 2.41
3143 5729 2.165301 GCTGCATGGGACGTACGAC 61.165 63.158 24.41 16.49 0.00 4.34
3174 5760 3.304928 GGAAGACAGCATGAAACAACTGG 60.305 47.826 0.00 0.00 39.69 4.00
3182 5768 3.330701 AGGGTTTAGGAAGACAGCATGAA 59.669 43.478 0.00 0.00 39.69 2.57



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

AutoCloner maintained by Alex Coulton.