Multiple sequence alignment - TraesCS7D01G283100

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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 TraesCS7D01G283100 chr7D 100.000 3834 0 0 1 3834 291607683 291611516 0.000000e+00 7081.0
1 TraesCS7D01G283100 chr7D 100.000 3631 0 0 4133 7763 291611815 291615445 0.000000e+00 6706.0
2 TraesCS7D01G283100 chr7D 91.489 47 2 2 4133 4177 368271908 368271954 6.500000e-06 63.9
3 TraesCS7D01G283100 chr7D 97.059 34 1 0 4133 4166 298312878 298312911 3.030000e-04 58.4
4 TraesCS7D01G283100 chr7D 100.000 31 0 0 4133 4163 452787801 452787831 3.030000e-04 58.4
5 TraesCS7D01G283100 chr3D 95.289 3842 144 20 1 3834 254423732 254419920 0.000000e+00 6058.0
6 TraesCS7D01G283100 chr3D 95.861 3600 138 10 4168 7763 323154358 323157950 0.000000e+00 5812.0
7 TraesCS7D01G283100 chr1D 95.108 3843 156 20 1 3832 95412076 95408255 0.000000e+00 6026.0
8 TraesCS7D01G283100 chr1D 94.312 3850 178 28 1 3834 78754830 78751006 0.000000e+00 5858.0
9 TraesCS7D01G283100 chr1D 95.340 3605 145 14 4168 7763 371719817 371723407 0.000000e+00 5705.0
10 TraesCS7D01G283100 chr4D 94.844 3840 166 19 1 3832 79271461 79267646 0.000000e+00 5965.0
11 TraesCS7D01G283100 chr4D 94.405 3843 176 24 1 3834 426270084 426266272 0.000000e+00 5869.0
12 TraesCS7D01G283100 chr2D 95.885 3597 138 6 4168 7763 259243992 259240405 0.000000e+00 5814.0
13 TraesCS7D01G283100 chr2D 97.059 68 2 0 4133 4200 220745495 220745428 1.770000e-21 115.0
14 TraesCS7D01G283100 chr2D 100.000 34 0 0 4133 4166 254952372 254952339 6.500000e-06 63.9
15 TraesCS7D01G283100 chr2D 100.000 34 0 0 4133 4166 273055941 273055974 6.500000e-06 63.9
16 TraesCS7D01G283100 chr1A 93.864 3846 202 17 1 3832 303520105 303523930 0.000000e+00 5764.0
17 TraesCS7D01G283100 chr1A 93.604 3846 212 22 1 3834 75532415 75536238 0.000000e+00 5709.0
18 TraesCS7D01G283100 chr5D 95.389 3600 154 12 4168 7763 190781240 190777649 0.000000e+00 5718.0
19 TraesCS7D01G283100 chr2A 93.623 3842 201 26 1 3834 160674569 160670764 0.000000e+00 5698.0
20 TraesCS7D01G283100 chr5A 93.512 3838 222 13 4 3834 154818382 154814565 0.000000e+00 5683.0
21 TraesCS7D01G283100 chr5A 84.600 1513 158 43 1 1489 261027594 261026133 0.000000e+00 1434.0
22 TraesCS7D01G283100 chr5A 91.429 175 13 2 1 173 142251652 142251478 1.010000e-58 239.0
23 TraesCS7D01G283100 chr5A 89.041 146 15 1 1 145 528071335 528071480 6.190000e-41 180.0
24 TraesCS7D01G283100 chr7A 94.559 3602 181 15 4168 7763 458658815 458655223 0.000000e+00 5552.0
25 TraesCS7D01G283100 chr7A 94.474 3601 185 11 4168 7763 265358088 265361679 0.000000e+00 5535.0
26 TraesCS7D01G283100 chr7A 91.579 285 22 2 4133 4417 265358136 265358418 7.300000e-105 392.0
27 TraesCS7D01G283100 chr4B 91.818 3642 252 26 4133 7763 425954255 425950649 0.000000e+00 5033.0
28 TraesCS7D01G283100 chr1B 92.356 3532 230 16 4168 7691 425399317 425402816 0.000000e+00 4990.0
29 TraesCS7D01G283100 chr1B 91.433 3642 264 31 4133 7763 274297810 274301414 0.000000e+00 4953.0
30 TraesCS7D01G283100 chr1B 97.059 34 1 0 4133 4166 163066781 163066748 3.030000e-04 58.4
31 TraesCS7D01G283100 chr1B 97.059 34 1 0 4133 4166 164397160 164397127 3.030000e-04 58.4
32 TraesCS7D01G283100 chr1B 97.059 34 1 0 4133 4166 206312111 206312144 3.030000e-04 58.4
33 TraesCS7D01G283100 chr1B 97.059 34 1 0 4133 4166 256486528 256486495 3.030000e-04 58.4
34 TraesCS7D01G283100 chr1B 97.059 34 1 0 4133 4166 338483637 338483670 3.030000e-04 58.4
35 TraesCS7D01G283100 chr3B 90.450 3644 278 45 4133 7761 247150910 247154498 0.000000e+00 4737.0
36 TraesCS7D01G283100 chr3B 90.152 2762 241 24 1 2737 603034656 603031901 0.000000e+00 3565.0
37 TraesCS7D01G283100 chr3B 90.061 2767 240 28 1 2741 129942389 129939632 0.000000e+00 3554.0
38 TraesCS7D01G283100 chr3B 89.458 2770 244 37 1 2741 300387409 300390159 0.000000e+00 3454.0
39 TraesCS7D01G283100 chr3B 88.608 158 17 1 1 158 310884398 310884554 2.860000e-44 191.0
40 TraesCS7D01G283100 chr2B 89.144 2091 164 40 5705 7763 261023388 261025447 0.000000e+00 2545.0
41 TraesCS7D01G283100 chr2B 90.223 1299 93 21 6470 7763 599881802 599883071 0.000000e+00 1664.0
42 TraesCS7D01G283100 chr2B 92.655 177 9 3 5 177 205284755 205284579 1.290000e-62 252.0
43 TraesCS7D01G283100 chr2B 88.514 148 16 1 1 148 433375348 433375494 2.230000e-40 178.0
44 TraesCS7D01G283100 chr7B 91.421 373 29 3 4133 4504 381022865 381022495 6.950000e-140 508.0


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 TraesCS7D01G283100 chr7D 291607683 291615445 7762 False 6893.5 7081 100.0000 1 7763 2 chr7D.!!$F4 7762
1 TraesCS7D01G283100 chr3D 254419920 254423732 3812 True 6058.0 6058 95.2890 1 3834 1 chr3D.!!$R1 3833
2 TraesCS7D01G283100 chr3D 323154358 323157950 3592 False 5812.0 5812 95.8610 4168 7763 1 chr3D.!!$F1 3595
3 TraesCS7D01G283100 chr1D 95408255 95412076 3821 True 6026.0 6026 95.1080 1 3832 1 chr1D.!!$R2 3831
4 TraesCS7D01G283100 chr1D 78751006 78754830 3824 True 5858.0 5858 94.3120 1 3834 1 chr1D.!!$R1 3833
5 TraesCS7D01G283100 chr1D 371719817 371723407 3590 False 5705.0 5705 95.3400 4168 7763 1 chr1D.!!$F1 3595
6 TraesCS7D01G283100 chr4D 79267646 79271461 3815 True 5965.0 5965 94.8440 1 3832 1 chr4D.!!$R1 3831
7 TraesCS7D01G283100 chr4D 426266272 426270084 3812 True 5869.0 5869 94.4050 1 3834 1 chr4D.!!$R2 3833
8 TraesCS7D01G283100 chr2D 259240405 259243992 3587 True 5814.0 5814 95.8850 4168 7763 1 chr2D.!!$R3 3595
9 TraesCS7D01G283100 chr1A 303520105 303523930 3825 False 5764.0 5764 93.8640 1 3832 1 chr1A.!!$F2 3831
10 TraesCS7D01G283100 chr1A 75532415 75536238 3823 False 5709.0 5709 93.6040 1 3834 1 chr1A.!!$F1 3833
11 TraesCS7D01G283100 chr5D 190777649 190781240 3591 True 5718.0 5718 95.3890 4168 7763 1 chr5D.!!$R1 3595
12 TraesCS7D01G283100 chr2A 160670764 160674569 3805 True 5698.0 5698 93.6230 1 3834 1 chr2A.!!$R1 3833
13 TraesCS7D01G283100 chr5A 154814565 154818382 3817 True 5683.0 5683 93.5120 4 3834 1 chr5A.!!$R2 3830
14 TraesCS7D01G283100 chr5A 261026133 261027594 1461 True 1434.0 1434 84.6000 1 1489 1 chr5A.!!$R3 1488
15 TraesCS7D01G283100 chr7A 458655223 458658815 3592 True 5552.0 5552 94.5590 4168 7763 1 chr7A.!!$R1 3595
16 TraesCS7D01G283100 chr7A 265358088 265361679 3591 False 2963.5 5535 93.0265 4133 7763 2 chr7A.!!$F1 3630
17 TraesCS7D01G283100 chr4B 425950649 425954255 3606 True 5033.0 5033 91.8180 4133 7763 1 chr4B.!!$R1 3630
18 TraesCS7D01G283100 chr1B 425399317 425402816 3499 False 4990.0 4990 92.3560 4168 7691 1 chr1B.!!$F4 3523
19 TraesCS7D01G283100 chr1B 274297810 274301414 3604 False 4953.0 4953 91.4330 4133 7763 1 chr1B.!!$F2 3630
20 TraesCS7D01G283100 chr3B 247150910 247154498 3588 False 4737.0 4737 90.4500 4133 7761 1 chr3B.!!$F1 3628
21 TraesCS7D01G283100 chr3B 603031901 603034656 2755 True 3565.0 3565 90.1520 1 2737 1 chr3B.!!$R2 2736
22 TraesCS7D01G283100 chr3B 129939632 129942389 2757 True 3554.0 3554 90.0610 1 2741 1 chr3B.!!$R1 2740
23 TraesCS7D01G283100 chr3B 300387409 300390159 2750 False 3454.0 3454 89.4580 1 2741 1 chr3B.!!$F2 2740
24 TraesCS7D01G283100 chr2B 261023388 261025447 2059 False 2545.0 2545 89.1440 5705 7763 1 chr2B.!!$F1 2058
25 TraesCS7D01G283100 chr2B 599881802 599883071 1269 False 1664.0 1664 90.2230 6470 7763 1 chr2B.!!$F3 1293

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
591 621 1.559219 TGCAAGTGGGATAAGCAGCTA 59.441 47.619 0.00 0.0 0.00 3.32 F
2254 2318 0.798776 CATCAACACGCAGGAAGACC 59.201 55.000 0.00 0.0 0.00 3.85 F
2423 2487 0.696485 GACCACCCCTATTGCCCCTA 60.696 60.000 0.00 0.0 0.00 3.53 F
3321 3410 1.178534 ATGAGAGAGAGCTAGCGCCC 61.179 60.000 15.37 2.8 36.60 6.13 F
4636 4808 0.687354 AGTTAGGCCACTCACACCAG 59.313 55.000 5.01 0.0 0.00 4.00 F
5569 5746 1.050988 ACAGATGGCGGCAGTCCTAT 61.051 55.000 19.29 0.0 0.00 2.57 F
5578 5755 1.134818 CGGCAGTCCTATAGTTGTGCA 60.135 52.381 15.46 0.0 32.42 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2401 2465 1.301954 GGCAATAGGGGTGGTCGTT 59.698 57.895 0.00 0.0 0.00 3.85 R
3378 3467 2.092807 GGGCTCCGGACCTGTTTATAAA 60.093 50.000 18.67 0.0 37.73 1.40 R
4497 4663 4.265904 TCATTCGTTGAGGTGTGTACAT 57.734 40.909 0.00 0.0 0.00 2.29 R
5296 5473 0.180878 TCGCCATGATGATGCTTGGA 59.819 50.000 0.00 0.0 35.67 3.53 R
6407 6601 0.391661 CATCGGGTTGTCACCTCCAG 60.392 60.000 0.00 0.0 43.65 3.86 R
6420 6614 1.081892 CAGACTTGTTCAGCATCGGG 58.918 55.000 0.00 0.0 0.00 5.14 R
7201 7416 1.337823 TGTCCTCGGCTGAAACTTAGC 60.338 52.381 0.00 0.0 40.41 3.09 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
540 569 3.193691 CCAAGTACCACAGTAGAGGAGTG 59.806 52.174 0.00 0.00 34.31 3.51
591 621 1.559219 TGCAAGTGGGATAAGCAGCTA 59.441 47.619 0.00 0.00 0.00 3.32
656 687 1.773052 CATCATCACCACCCCTGAGAT 59.227 52.381 0.00 0.00 0.00 2.75
782 826 2.111043 CACCCACTGAGCGGTTGT 59.889 61.111 0.00 0.00 0.00 3.32
784 828 2.140792 ACCCACTGAGCGGTTGTCT 61.141 57.895 0.00 0.00 0.00 3.41
1083 1134 2.660802 GACGTTCACATCCCCGGT 59.339 61.111 0.00 0.00 0.00 5.28
1148 1199 1.446966 GCAAGGAGACGCTGGAGAC 60.447 63.158 0.00 0.00 0.00 3.36
1233 1284 1.779025 GCCAGCGTCGTAGGATCGTA 61.779 60.000 8.95 0.00 0.00 3.43
1335 1386 1.375396 GGTGTACCACATCGCAGCA 60.375 57.895 0.00 0.00 35.86 4.41
1590 1647 7.918536 AGTTGATCGACTAGTGTAGTTTCTA 57.081 36.000 14.30 0.00 39.59 2.10
1798 1859 5.942236 AGCAGAACATACAACATTGACTGAT 59.058 36.000 0.00 0.00 0.00 2.90
2022 2086 3.423154 CCCAAGCGCCTGAACGAC 61.423 66.667 7.79 0.00 34.06 4.34
2064 2128 0.958091 TCACATTTGCCGGTTTCAGG 59.042 50.000 1.90 0.00 0.00 3.86
2071 2135 2.214376 TGCCGGTTTCAGGATTGAAT 57.786 45.000 1.90 0.00 42.60 2.57
2088 2152 3.925379 TGAATGCGACAAAGAGAAGCTA 58.075 40.909 0.00 0.00 0.00 3.32
2184 2248 3.938289 AAAGAGTACGACTCCTTGACC 57.062 47.619 10.24 0.00 46.18 4.02
2254 2318 0.798776 CATCAACACGCAGGAAGACC 59.201 55.000 0.00 0.00 0.00 3.85
2343 2407 4.739436 GCCACGTACAAGTCATGGATCATA 60.739 45.833 0.00 0.00 31.69 2.15
2401 2465 2.010145 GCGAGAGGCTGTGTAATTCA 57.990 50.000 0.00 0.00 39.11 2.57
2423 2487 0.696485 GACCACCCCTATTGCCCCTA 60.696 60.000 0.00 0.00 0.00 3.53
2426 2490 2.157691 ACCACCCCTATTGCCCCTATAT 60.158 50.000 0.00 0.00 0.00 0.86
2711 2789 9.314321 GCTCTAAAGTACTAGTTATGATGCAAA 57.686 33.333 0.00 0.00 0.00 3.68
2926 3004 4.136796 AGTTAAGAAGCATCAGCACACAA 58.863 39.130 0.00 0.00 45.49 3.33
2977 3055 7.939784 ATGACAGTACTAGTACACTTGATCA 57.060 36.000 29.87 22.48 38.48 2.92
2985 3063 7.618502 ACTAGTACACTTGATCAGACAGTAG 57.381 40.000 0.00 1.24 0.00 2.57
3024 3102 7.573968 AAAAAGTACAAAGAAGCATCAGTCT 57.426 32.000 0.00 0.00 0.00 3.24
3060 3138 9.642343 ACTATGAATGGACTATCAGTACAACTA 57.358 33.333 0.00 0.00 43.35 2.24
3274 3355 1.326548 CCTAGTAATTCGCACAACGCC 59.673 52.381 0.00 0.00 43.23 5.68
3314 3403 2.101783 CACAGGTCATGAGAGAGAGCT 58.898 52.381 0.00 0.00 42.80 4.09
3321 3410 1.178534 ATGAGAGAGAGCTAGCGCCC 61.179 60.000 15.37 2.80 36.60 6.13
3372 3461 1.901948 TTCGACCAGTGAGCCTCGT 60.902 57.895 0.00 0.00 0.00 4.18
3378 3467 2.986413 AGTGAGCCTCGTCTGCGT 60.986 61.111 0.00 0.00 39.49 5.24
3482 3571 1.300542 GACGAGCTATCTGGGCTGC 60.301 63.158 0.00 0.00 40.40 5.25
3555 3646 1.886886 TAAACAAACCAGAGGGCGAC 58.113 50.000 0.00 0.00 37.90 5.19
4281 4441 9.862371 TTCAACTACTAAAATGCAAAAAGTTCA 57.138 25.926 0.00 0.00 0.00 3.18
4540 4707 8.824159 ATGATCTGGTCGTAAAATAATCTCAG 57.176 34.615 0.00 0.00 0.00 3.35
4558 4726 1.533033 GTCCCCCAAACCACCCAAG 60.533 63.158 0.00 0.00 0.00 3.61
4636 4808 0.687354 AGTTAGGCCACTCACACCAG 59.313 55.000 5.01 0.00 0.00 4.00
4807 4980 1.607467 GCAACAACTCCCAGGGCAT 60.607 57.895 0.00 0.00 0.00 4.40
4868 5043 6.966021 TCAGTGGAAAAGCAATACTTAACAC 58.034 36.000 0.00 0.00 37.75 3.32
4985 5161 5.926542 GTCATAAGTACAGCTTGACAAGACA 59.073 40.000 19.51 0.00 35.86 3.41
5457 5634 1.079127 CGAACCAGACAAGGCCGAT 60.079 57.895 0.00 0.00 32.10 4.18
5568 5745 1.685765 ACAGATGGCGGCAGTCCTA 60.686 57.895 19.29 0.00 0.00 2.94
5569 5746 1.050988 ACAGATGGCGGCAGTCCTAT 61.051 55.000 19.29 0.00 0.00 2.57
5578 5755 1.134818 CGGCAGTCCTATAGTTGTGCA 60.135 52.381 15.46 0.00 32.42 4.57
5772 5949 6.660521 TCTCAAGTTACATGCATTTCTGGAAT 59.339 34.615 0.00 0.00 0.00 3.01
5985 6163 9.195411 TGCACATGTTTCTCAAATTAATTTCTC 57.805 29.630 10.53 0.11 0.00 2.87
6028 6206 4.083110 GCACAAAGATGTATCAAGCACTGT 60.083 41.667 0.00 0.00 37.82 3.55
6141 6321 2.694628 TGAAGCATTTGGTGAAGCACTT 59.305 40.909 0.00 0.00 34.40 3.16
6222 6408 7.806487 TGTGTACTAGTTTCTGAACTACATTCG 59.194 37.037 0.00 0.00 44.13 3.34
6332 6526 8.837389 AGAAGACTAAACTTTAAATGTGTGTCC 58.163 33.333 0.00 0.00 0.00 4.02
6333 6527 8.747538 AAGACTAAACTTTAAATGTGTGTCCT 57.252 30.769 0.00 0.00 0.00 3.85
6337 6531 4.724279 ACTTTAAATGTGTGTCCTCCCT 57.276 40.909 0.00 0.00 0.00 4.20
6394 6588 6.623767 GCAGGAGGAGAAATTGTACACATTTC 60.624 42.308 22.50 22.50 35.25 2.17
6407 6601 2.290641 ACACATTTCTCGGTTTCAGCAC 59.709 45.455 0.00 0.00 0.00 4.40
6563 6758 0.179045 ATCCACCCATTCTACAGCGC 60.179 55.000 0.00 0.00 0.00 5.92
6573 6768 2.988010 TCTACAGCGCCATGAAGAAT 57.012 45.000 2.29 0.00 0.00 2.40
6700 6895 4.996758 AGACAATCGACAACATGATGACAA 59.003 37.500 10.29 0.00 0.00 3.18
6770 6965 1.089481 TTCGCGGGATGAAGATGCAC 61.089 55.000 6.13 0.00 0.00 4.57
7101 7315 4.532521 AGTGCCAGACTAACTAAGGACAAT 59.467 41.667 0.00 0.00 30.86 2.71
7161 7375 8.284945 AGACATTTACGGTAGTACTATCACAA 57.715 34.615 13.53 3.50 31.60 3.33
7162 7376 8.186821 AGACATTTACGGTAGTACTATCACAAC 58.813 37.037 13.53 0.00 31.60 3.32
7437 7656 9.689976 CATTCCATAAAACATTGACACACTAAA 57.310 29.630 0.00 0.00 0.00 1.85
7539 7761 4.202367 CCTTGAGAAGAACCACAACCTAGT 60.202 45.833 0.00 0.00 0.00 2.57
7755 7983 7.894753 TGATGATACCAATTAATGCCTTGAA 57.105 32.000 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 8.392612 GCATTCAAAAGGATTATCAAATGGTTG 58.607 33.333 0.00 0.00 35.95 3.77
202 207 9.339850 TGTTTGTTTTACTATGCCTTTGTACTA 57.660 29.630 0.00 0.00 0.00 1.82
540 569 0.543277 TGGTGATGATGGAGGTCTGC 59.457 55.000 0.00 0.00 0.00 4.26
591 621 8.603242 ATTCGTCTTGTCAAGTTGTACTTATT 57.397 30.769 12.30 0.00 36.03 1.40
656 687 2.161855 CTGCTAAATCCCACTTGCACA 58.838 47.619 0.00 0.00 0.00 4.57
782 826 0.250295 CCGTTTGCAGTCCCTTGAGA 60.250 55.000 0.00 0.00 0.00 3.27
784 828 0.817634 CACCGTTTGCAGTCCCTTGA 60.818 55.000 0.00 0.00 0.00 3.02
1083 1134 0.391228 TGGTGTACTTGCGCTTCTCA 59.609 50.000 9.73 0.00 0.00 3.27
1093 1144 4.918588 CCTATGAGGGTTTTGGTGTACTT 58.081 43.478 0.00 0.00 0.00 2.24
1148 1199 3.414700 GTTCGCTGGTGCAGACGG 61.415 66.667 0.00 0.00 39.64 4.79
1216 1267 0.235144 CCTACGATCCTACGACGCTG 59.765 60.000 0.00 0.00 37.03 5.18
1220 1271 0.659957 AACGCCTACGATCCTACGAC 59.340 55.000 0.00 0.00 43.93 4.34
1233 1284 1.597027 GTAGTGCACACCAACGCCT 60.597 57.895 21.04 0.00 0.00 5.52
1518 1574 7.531857 TTTTCCAAATAGTAATCCAGTGCAA 57.468 32.000 0.00 0.00 0.00 4.08
1862 1923 8.231692 TGGATGAATGTACTTCAAAAACAAGA 57.768 30.769 10.46 0.00 46.62 3.02
2064 2128 4.094212 GCTTCTCTTTGTCGCATTCAATC 58.906 43.478 0.00 0.00 0.00 2.67
2071 2135 3.728845 ACTTTAGCTTCTCTTTGTCGCA 58.271 40.909 0.00 0.00 0.00 5.10
2088 2152 2.721425 TCTCCAAACCGGACAACTTT 57.279 45.000 9.46 0.00 39.64 2.66
2184 2248 3.372676 GACGCTGGCTGCAACATCG 62.373 63.158 16.76 11.32 43.06 3.84
2343 2407 5.344743 AACCATCTGTGATGTAGTCGATT 57.655 39.130 6.78 0.00 0.00 3.34
2395 2459 4.519213 CAATAGGGGTGGTCGTTGAATTA 58.481 43.478 0.00 0.00 0.00 1.40
2401 2465 1.301954 GGCAATAGGGGTGGTCGTT 59.698 57.895 0.00 0.00 0.00 3.85
2423 2487 6.126825 GGCTCTGATGTATCTTCATCCCATAT 60.127 42.308 4.59 0.00 42.24 1.78
2426 2490 3.326006 GGCTCTGATGTATCTTCATCCCA 59.674 47.826 4.59 0.00 42.24 4.37
2926 3004 2.710377 TCTGCAAGCGACCAACATAAT 58.290 42.857 0.00 0.00 0.00 1.28
3010 3088 3.257393 CGCTTACAGACTGATGCTTCTT 58.743 45.455 10.08 0.00 0.00 2.52
3024 3102 4.341235 AGTCCATTCATAGTAGCGCTTACA 59.659 41.667 18.68 0.00 34.56 2.41
3060 3138 4.785511 AGATGTACTTGCGTGTAGACTT 57.214 40.909 0.00 0.00 0.00 3.01
3123 3203 4.104102 TCCACCAGTAACTTGGACTGAAAT 59.896 41.667 4.38 0.00 46.01 2.17
3249 3330 4.331717 CGTTGTGCGAATTACTAGGGATTT 59.668 41.667 0.00 0.00 44.77 2.17
3321 3410 4.308899 ACTTACCTGAGCGCTTATACAG 57.691 45.455 13.26 14.39 0.00 2.74
3372 3461 3.255725 CGGACCTGTTTATAAACGCAGA 58.744 45.455 20.51 5.16 41.74 4.26
3378 3467 2.092807 GGGCTCCGGACCTGTTTATAAA 60.093 50.000 18.67 0.00 37.73 1.40
4497 4663 4.265904 TCATTCGTTGAGGTGTGTACAT 57.734 40.909 0.00 0.00 0.00 2.29
4540 4707 1.533033 CTTGGGTGGTTTGGGGGAC 60.533 63.158 0.00 0.00 0.00 4.46
4620 4791 0.762842 ACACTGGTGTGAGTGGCCTA 60.763 55.000 3.32 0.00 46.56 3.93
4636 4808 4.032331 CGGTTTTGAAATTTGGTGTCACAC 59.968 41.667 0.00 0.00 0.00 3.82
4779 4952 2.427095 GGGAGTTGTTGCTCAAAACTGT 59.573 45.455 11.81 0.00 37.81 3.55
4855 5030 4.013728 TCCATGTGGGTGTTAAGTATTGC 58.986 43.478 0.00 0.00 38.11 3.56
4868 5043 4.333913 TTGTGATGTTTTTCCATGTGGG 57.666 40.909 0.00 0.00 35.41 4.61
4985 5161 3.066760 GGTTTTTACTGCTGCACTGACTT 59.933 43.478 0.00 0.00 0.00 3.01
5049 5226 3.357079 CAACCGCTCAGTGGGTGC 61.357 66.667 10.03 0.00 44.12 5.01
5068 5245 1.515521 CCCGTTTGCAGTCCCTTGTC 61.516 60.000 0.00 0.00 0.00 3.18
5296 5473 0.180878 TCGCCATGATGATGCTTGGA 59.819 50.000 0.00 0.00 35.67 3.53
5401 5578 1.959226 GCGTCTCTTTGCCGTGGAA 60.959 57.895 0.00 0.00 0.00 3.53
5457 5634 0.906282 TGAGCCTGCTCATCACCTCA 60.906 55.000 17.46 0.00 46.80 3.86
5568 5745 3.449018 AGAGTTCCTCGATGCACAACTAT 59.551 43.478 0.00 0.00 35.36 2.12
5569 5746 2.826128 AGAGTTCCTCGATGCACAACTA 59.174 45.455 0.00 0.00 35.36 2.24
5578 5755 1.066573 CACCAAGCAGAGTTCCTCGAT 60.067 52.381 0.00 0.00 35.36 3.59
5925 6102 4.648651 ACCTATACCACTTCACCAAACAC 58.351 43.478 0.00 0.00 0.00 3.32
5985 6163 9.791820 TTTGTGCATCAATTCTATATCAAGTTG 57.208 29.630 0.00 0.00 35.84 3.16
6316 6507 4.351111 AGAGGGAGGACACACATTTAAAGT 59.649 41.667 0.00 0.00 0.00 2.66
6332 6526 2.833604 CTTGGGCCTGCAAGAGGGAG 62.834 65.000 14.68 0.00 43.07 4.30
6333 6527 2.858476 TTGGGCCTGCAAGAGGGA 60.858 61.111 4.53 0.00 43.07 4.20
6394 6588 0.671781 CCTCCAGTGCTGAAACCGAG 60.672 60.000 0.02 0.00 0.00 4.63
6407 6601 0.391661 CATCGGGTTGTCACCTCCAG 60.392 60.000 0.00 0.00 43.65 3.86
6420 6614 1.081892 CAGACTTGTTCAGCATCGGG 58.918 55.000 0.00 0.00 0.00 5.14
6422 6616 1.800805 ACCAGACTTGTTCAGCATCG 58.199 50.000 0.00 0.00 0.00 3.84
6563 6758 5.068636 CCCTGTCCATCTTATTCTTCATGG 58.931 45.833 0.00 0.00 37.70 3.66
6573 6768 1.364678 TGGTCTCCCCTGTCCATCTTA 59.635 52.381 0.00 0.00 0.00 2.10
6618 6813 1.338107 ACGTGATGAGGTTGTCTGGA 58.662 50.000 0.00 0.00 0.00 3.86
6700 6895 5.420104 CCTGCTCTTTTGAAATATCCCAACT 59.580 40.000 0.00 0.00 0.00 3.16
6835 7042 5.837437 TGGTTCAACATAACGAAAGCAAAT 58.163 33.333 0.00 0.00 0.00 2.32
7082 7296 6.222038 TGCTATTGTCCTTAGTTAGTCTGG 57.778 41.667 0.00 0.00 0.00 3.86
7101 7315 4.401519 AGCGTCCAAGTCTACTATTTGCTA 59.598 41.667 0.00 0.00 0.00 3.49
7177 7392 7.068716 AGCCTTTTCAGTGTTCTTCTAAAACAT 59.931 33.333 0.00 0.00 38.75 2.71
7183 7398 6.827727 ACTTAGCCTTTTCAGTGTTCTTCTA 58.172 36.000 0.00 0.00 0.00 2.10
7201 7416 1.337823 TGTCCTCGGCTGAAACTTAGC 60.338 52.381 0.00 0.00 40.41 3.09
7335 7552 3.917329 TCAAGTGTACCAGAACTCTCG 57.083 47.619 0.00 0.00 0.00 4.04
7386 7604 1.807142 CTGAAGCTTCCCGTTCCTTTC 59.193 52.381 23.42 0.00 0.00 2.62
7539 7761 9.892130 TTTGATTTAGTTTTGGCCTTCTTTTTA 57.108 25.926 3.32 0.00 0.00 1.52


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

AutoCloner maintained by Alex Coulton.