Multiple sequence alignment - TraesCS3D01G262900

Loading Multiple Alignment...

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 TraesCS3D01G262900 chr3D 100.000 2687 0 0 1 2687 364733133 364735819 0.000000e+00 4963.0
1 TraesCS3D01G262900 chr3D 82.237 152 24 3 257 407 536888271 536888122 7.810000e-26 128.0
2 TraesCS3D01G262900 chr3D 100.000 42 0 0 502 543 364733600 364733641 7.980000e-11 78.7
3 TraesCS3D01G262900 chr3D 100.000 42 0 0 468 509 364733634 364733675 7.980000e-11 78.7
4 TraesCS3D01G262900 chr3B 95.334 2079 54 13 502 2543 474996826 474998898 0.000000e+00 3262.0
5 TraesCS3D01G262900 chr3B 83.846 520 61 15 1 509 474996359 474996866 8.710000e-130 473.0
6 TraesCS3D01G262900 chr3B 95.172 145 7 0 2543 2687 474998932 474999076 2.080000e-56 230.0
7 TraesCS3D01G262900 chr3B 79.213 178 33 3 257 432 238116869 238116694 1.310000e-23 121.0
8 TraesCS3D01G262900 chr3B 100.000 28 0 0 207 234 828791136 828791163 5.000000e-03 52.8
9 TraesCS3D01G262900 chr3A 92.698 1753 54 13 502 2226 486044112 486045818 0.000000e+00 2460.0
10 TraesCS3D01G262900 chr3A 84.146 410 56 7 1 401 486042112 486042521 3.240000e-104 388.0
11 TraesCS3D01G262900 chr3A 90.706 269 15 5 2283 2543 486045818 486046084 1.530000e-92 350.0
12 TraesCS3D01G262900 chr3A 93.662 142 8 1 2543 2684 486046113 486046253 7.540000e-51 211.0
13 TraesCS3D01G262900 chr3A 74.929 351 62 17 2185 2530 486045446 486045775 1.300000e-28 137.0
14 TraesCS3D01G262900 chr3A 90.196 102 7 3 411 509 486044052 486044153 2.170000e-26 130.0
15 TraesCS3D01G262900 chr3A 77.949 195 38 4 245 437 9518118 9518309 1.690000e-22 117.0
16 TraesCS3D01G262900 chr2D 82.418 182 28 3 257 436 547148995 547148816 3.580000e-34 156.0
17 TraesCS3D01G262900 chr2A 81.868 182 29 3 257 436 690720007 690719828 1.670000e-32 150.0
18 TraesCS3D01G262900 chr1D 79.121 182 34 4 257 436 489752277 489752098 3.630000e-24 122.0
19 TraesCS3D01G262900 chr7D 79.213 178 31 6 257 432 586794642 586794469 4.700000e-23 119.0
20 TraesCS3D01G262900 chr7D 83.929 56 9 0 53 108 258188483 258188428 1.000000e-03 54.7
21 TraesCS3D01G262900 chr4A 78.571 182 34 5 257 436 738727734 738727556 6.080000e-22 115.0
22 TraesCS3D01G262900 chr7A 77.966 118 15 8 53 170 279124104 279123998 2.230000e-06 63.9
23 TraesCS3D01G262900 chr5B 94.737 38 2 0 207 244 454908302 454908265 2.890000e-05 60.2


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 TraesCS3D01G262900 chr3D 364733133 364735819 2686 False 1706.800000 4963 100.000000 1 2687 3 chr3D.!!$F1 2686
1 TraesCS3D01G262900 chr3B 474996359 474999076 2717 False 1321.666667 3262 91.450667 1 2687 3 chr3B.!!$F2 2686
2 TraesCS3D01G262900 chr3A 486042112 486046253 4141 False 612.666667 2460 87.722833 1 2684 6 chr3A.!!$F2 2683

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
848 2383 0.035056 AGACGAAATCCCAAGGCAGG 60.035 55.0 0.0 0.0 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2427 4003 2.296792 TCACGGATTAATGCCCATGTG 58.703 47.619 0.9 4.18 0.0 3.21 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
179 180 0.727398 GAGTTGCCCTAATGCGTGTC 59.273 55.000 0.00 0.00 0.00 3.67
188 189 4.729595 CCCTAATGCGTGTCTTTTTAACC 58.270 43.478 0.00 0.00 0.00 2.85
191 192 3.915437 ATGCGTGTCTTTTTAACCCAG 57.085 42.857 0.00 0.00 0.00 4.45
207 208 2.224426 ACCCAGTACAATCAAAGTCGCA 60.224 45.455 0.00 0.00 0.00 5.10
209 210 3.067106 CCAGTACAATCAAAGTCGCACT 58.933 45.455 0.00 0.00 0.00 4.40
223 232 0.249120 CGCACTCACCCCTATGAACA 59.751 55.000 0.00 0.00 0.00 3.18
234 243 1.672363 CCTATGAACACACGCATGCAT 59.328 47.619 19.57 0.00 0.00 3.96
236 245 3.499537 CCTATGAACACACGCATGCATAT 59.500 43.478 19.57 0.00 0.00 1.78
243 252 4.554292 ACACACGCATGCATATTTTTGAA 58.446 34.783 19.57 0.00 0.00 2.69
249 258 5.574055 ACGCATGCATATTTTTGAAAGACTG 59.426 36.000 19.57 0.00 0.00 3.51
250 259 5.005012 CGCATGCATATTTTTGAAAGACTGG 59.995 40.000 19.57 0.00 0.00 4.00
253 262 6.418057 TGCATATTTTTGAAAGACTGGGTT 57.582 33.333 0.00 0.00 0.00 4.11
254 263 7.531857 TGCATATTTTTGAAAGACTGGGTTA 57.468 32.000 0.00 0.00 0.00 2.85
284 293 6.820656 AGCATCTTGAGATTTTACGAAGTCAT 59.179 34.615 0.00 0.00 35.39 3.06
290 299 8.648557 TTGAGATTTTACGAAGTCATCATAGG 57.351 34.615 0.00 0.00 43.93 2.57
292 301 6.582636 AGATTTTACGAAGTCATCATAGGCA 58.417 36.000 0.00 0.00 43.93 4.75
295 304 1.202417 ACGAAGTCATCATAGGCACCG 60.202 52.381 0.00 0.00 29.74 4.94
315 324 1.790623 GCGCAGTCGACAAAAAGTCTA 59.209 47.619 19.50 0.00 45.32 2.59
318 328 3.119792 CGCAGTCGACAAAAAGTCTACTC 59.880 47.826 19.50 0.00 46.79 2.59
322 332 5.977725 CAGTCGACAAAAAGTCTACTCTCAA 59.022 40.000 19.50 0.00 46.79 3.02
330 340 7.169982 ACAAAAAGTCTACTCTCAATGAACGAG 59.830 37.037 0.00 0.00 0.00 4.18
343 353 0.389948 GAACGAGCATCACCGGAAGT 60.390 55.000 9.46 0.00 33.17 3.01
373 383 9.754382 AAATACATTTAGGAATAATGCAAGCAG 57.246 29.630 0.00 0.00 36.65 4.24
391 401 5.927281 AGCAGCAATGTCAAATTTAGGAT 57.073 34.783 0.00 0.00 0.00 3.24
402 412 8.924511 TGTCAAATTTAGGATTTGAACTCTCT 57.075 30.769 13.83 0.00 45.88 3.10
403 413 9.003658 TGTCAAATTTAGGATTTGAACTCTCTC 57.996 33.333 13.83 3.52 45.88 3.20
404 414 9.003658 GTCAAATTTAGGATTTGAACTCTCTCA 57.996 33.333 13.83 0.00 45.88 3.27
405 415 9.745018 TCAAATTTAGGATTTGAACTCTCTCAT 57.255 29.630 10.73 0.00 42.82 2.90
406 416 9.784680 CAAATTTAGGATTTGAACTCTCTCATG 57.215 33.333 5.75 0.00 40.42 3.07
407 417 9.745018 AAATTTAGGATTTGAACTCTCTCATGA 57.255 29.630 0.00 0.00 0.00 3.07
456 1990 8.951614 ATCATTATCTCATGTTTTCATCCCAT 57.048 30.769 0.00 0.00 38.64 4.00
487 2021 1.741401 CACATCTCGCCGCCAAAGA 60.741 57.895 0.00 0.00 0.00 2.52
488 2022 1.003839 ACATCTCGCCGCCAAAGAA 60.004 52.632 0.00 0.00 0.00 2.52
489 2023 0.605319 ACATCTCGCCGCCAAAGAAA 60.605 50.000 0.00 0.00 0.00 2.52
490 2024 0.521291 CATCTCGCCGCCAAAGAAAA 59.479 50.000 0.00 0.00 0.00 2.29
491 2025 1.068610 CATCTCGCCGCCAAAGAAAAA 60.069 47.619 0.00 0.00 0.00 1.94
492 2026 1.243902 TCTCGCCGCCAAAGAAAAAT 58.756 45.000 0.00 0.00 0.00 1.82
493 2027 2.428491 TCTCGCCGCCAAAGAAAAATA 58.572 42.857 0.00 0.00 0.00 1.40
494 2028 2.814919 TCTCGCCGCCAAAGAAAAATAA 59.185 40.909 0.00 0.00 0.00 1.40
495 2029 3.253677 TCTCGCCGCCAAAGAAAAATAAA 59.746 39.130 0.00 0.00 0.00 1.40
496 2030 3.978687 TCGCCGCCAAAGAAAAATAAAA 58.021 36.364 0.00 0.00 0.00 1.52
497 2031 3.984633 TCGCCGCCAAAGAAAAATAAAAG 59.015 39.130 0.00 0.00 0.00 2.27
498 2032 3.738791 CGCCGCCAAAGAAAAATAAAAGT 59.261 39.130 0.00 0.00 0.00 2.66
499 2033 4.143410 CGCCGCCAAAGAAAAATAAAAGTC 60.143 41.667 0.00 0.00 0.00 3.01
500 2034 4.988540 GCCGCCAAAGAAAAATAAAAGTCT 59.011 37.500 0.00 0.00 0.00 3.24
501 2035 5.465390 GCCGCCAAAGAAAAATAAAAGTCTT 59.535 36.000 0.00 0.00 31.69 3.01
502 2036 6.563939 GCCGCCAAAGAAAAATAAAAGTCTTG 60.564 38.462 0.00 0.00 30.85 3.02
503 2037 6.354858 CGCCAAAGAAAAATAAAAGTCTTGC 58.645 36.000 0.00 0.00 30.85 4.01
504 2038 6.019156 CGCCAAAGAAAAATAAAAGTCTTGCA 60.019 34.615 0.00 0.00 30.85 4.08
505 2039 7.125755 GCCAAAGAAAAATAAAAGTCTTGCAC 58.874 34.615 0.00 0.00 30.85 4.57
506 2040 7.201600 GCCAAAGAAAAATAAAAGTCTTGCACA 60.202 33.333 0.00 0.00 30.85 4.57
507 2041 8.829612 CCAAAGAAAAATAAAAGTCTTGCACAT 58.170 29.630 0.00 0.00 30.85 3.21
508 2042 9.853921 CAAAGAAAAATAAAAGTCTTGCACATC 57.146 29.630 0.00 0.00 30.85 3.06
509 2043 9.822185 AAAGAAAAATAAAAGTCTTGCACATCT 57.178 25.926 0.00 0.00 30.85 2.90
510 2044 9.468532 AAGAAAAATAAAAGTCTTGCACATCTC 57.531 29.630 0.00 0.00 0.00 2.75
511 2045 7.805071 AGAAAAATAAAAGTCTTGCACATCTCG 59.195 33.333 0.00 0.00 0.00 4.04
512 2046 2.977405 AAAAGTCTTGCACATCTCGC 57.023 45.000 0.00 0.00 0.00 5.03
513 2047 1.160137 AAAGTCTTGCACATCTCGCC 58.840 50.000 0.00 0.00 0.00 5.54
514 2048 1.016130 AAGTCTTGCACATCTCGCCG 61.016 55.000 0.00 0.00 0.00 6.46
515 2049 2.815211 TCTTGCACATCTCGCCGC 60.815 61.111 0.00 0.00 0.00 6.53
516 2050 3.869272 CTTGCACATCTCGCCGCC 61.869 66.667 0.00 0.00 0.00 6.13
517 2051 4.695993 TTGCACATCTCGCCGCCA 62.696 61.111 0.00 0.00 0.00 5.69
518 2052 4.695993 TGCACATCTCGCCGCCAA 62.696 61.111 0.00 0.00 0.00 4.52
519 2053 3.430862 GCACATCTCGCCGCCAAA 61.431 61.111 0.00 0.00 0.00 3.28
520 2054 2.787249 CACATCTCGCCGCCAAAG 59.213 61.111 0.00 0.00 0.00 2.77
521 2055 1.741401 CACATCTCGCCGCCAAAGA 60.741 57.895 0.00 0.00 0.00 2.52
561 2096 0.438830 CGAAAAGACCGAAAGAGGCG 59.561 55.000 0.00 0.00 33.69 5.52
567 2102 2.345880 GACCGAAAGAGGCGCCGATA 62.346 60.000 23.20 0.00 33.69 2.92
677 2212 0.455633 CACGTCCGTTTCCTCCGTAG 60.456 60.000 0.00 0.00 0.00 3.51
683 2218 1.993948 GTTTCCTCCGTAGCCCCCT 60.994 63.158 0.00 0.00 0.00 4.79
848 2383 0.035056 AGACGAAATCCCAAGGCAGG 60.035 55.000 0.00 0.00 0.00 4.85
851 2410 1.388133 GAAATCCCAAGGCAGGGGT 59.612 57.895 14.19 5.09 46.95 4.95
869 2428 1.450025 GTAGAAACTGGCCTTTCCCG 58.550 55.000 12.58 0.00 31.44 5.14
1239 2802 2.593956 GGACAAGGAGAAGGCCCGT 61.594 63.158 0.00 0.00 0.00 5.28
1473 3036 1.966451 CTTTGCCTTCTTCCGCGGT 60.966 57.895 27.15 0.00 0.00 5.68
1605 3168 4.611366 GGCGTCTTATTCGAGTTTTTGTTG 59.389 41.667 0.00 0.00 0.00 3.33
1761 3326 0.321919 TTTGGCTCTGAAGATGCGCT 60.322 50.000 9.73 0.00 0.00 5.92
1793 3358 3.746751 GCAGAGGTGAATGCTGATATGGT 60.747 47.826 0.00 0.00 39.38 3.55
2189 3754 3.818961 AGTGTTCTTGTGCATTGATCG 57.181 42.857 0.00 0.00 0.00 3.69
2194 3759 3.409851 TCTTGTGCATTGATCGCATTC 57.590 42.857 0.00 0.00 42.32 2.67
2195 3760 2.106418 CTTGTGCATTGATCGCATTCG 58.894 47.619 0.00 0.00 42.32 3.34
2204 3769 5.327091 CATTGATCGCATTCGTTTTCTTCT 58.673 37.500 0.00 0.00 36.96 2.85
2211 3776 4.319115 CGCATTCGTTTTCTTCTGTGATTG 59.681 41.667 0.00 0.00 0.00 2.67
2219 3784 7.698970 TCGTTTTCTTCTGTGATTGGTAAAAAC 59.301 33.333 0.00 0.00 33.17 2.43
2221 3786 5.103290 TCTTCTGTGATTGGTAAAAACGC 57.897 39.130 0.00 0.00 0.00 4.84
2228 3793 5.463724 TGTGATTGGTAAAAACGCCATTTTC 59.536 36.000 0.00 0.00 39.70 2.29
2236 3801 7.872993 TGGTAAAAACGCCATTTTCATAATTCA 59.127 29.630 0.00 0.00 39.70 2.57
2310 3875 6.560003 TCTGTTGATATGTTGGGATGTACT 57.440 37.500 0.00 0.00 0.00 2.73
2311 3876 7.669089 TCTGTTGATATGTTGGGATGTACTA 57.331 36.000 0.00 0.00 0.00 1.82
2312 3877 7.726216 TCTGTTGATATGTTGGGATGTACTAG 58.274 38.462 0.00 0.00 0.00 2.57
2313 3878 7.344612 TCTGTTGATATGTTGGGATGTACTAGT 59.655 37.037 0.00 0.00 0.00 2.57
2315 3880 8.325787 TGTTGATATGTTGGGATGTACTAGTTT 58.674 33.333 0.00 0.00 0.00 2.66
2316 3881 8.827677 GTTGATATGTTGGGATGTACTAGTTTC 58.172 37.037 0.00 0.00 0.00 2.78
2318 3883 8.204160 TGATATGTTGGGATGTACTAGTTTCTG 58.796 37.037 0.00 0.00 0.00 3.02
2319 3884 6.620877 ATGTTGGGATGTACTAGTTTCTGA 57.379 37.500 0.00 0.00 0.00 3.27
2320 3885 6.037786 TGTTGGGATGTACTAGTTTCTGAG 57.962 41.667 0.00 0.00 0.00 3.35
2343 3916 7.392393 TGAGTAGGTAAAGTAAAGGAATTTGGC 59.608 37.037 0.00 0.00 0.00 4.52
2357 3930 2.738587 TTTGGCTGTTGGACCTGTTA 57.261 45.000 0.00 0.00 0.00 2.41
2424 4000 4.398044 GTGGGGTGTAATTGTCCTGTTATG 59.602 45.833 0.00 0.00 0.00 1.90
2427 4003 5.587443 GGGGTGTAATTGTCCTGTTATGTAC 59.413 44.000 0.00 0.00 0.00 2.90
2428 4004 6.174760 GGGTGTAATTGTCCTGTTATGTACA 58.825 40.000 0.00 0.00 34.95 2.90
2483 4059 6.912203 TGAAATTGTACGAGAACAGTTTGA 57.088 33.333 12.58 5.11 38.81 2.69
2508 4084 5.655488 TCTGCTTCTTATTGTAGCTCTGAC 58.345 41.667 0.00 0.00 39.42 3.51
2588 4198 9.949174 CAATAGTTGCACTGTATATTTGCATAA 57.051 29.630 6.68 0.00 45.35 1.90
2623 4233 6.568869 AGATGCTTTGACTGTACTCTGATAC 58.431 40.000 0.00 0.00 0.00 2.24
2638 4249 7.724305 ACTCTGATACGTTACACATGTTTTT 57.276 32.000 0.00 0.00 0.00 1.94
2640 4251 9.263538 ACTCTGATACGTTACACATGTTTTTAA 57.736 29.630 0.00 0.00 0.00 1.52
2648 4259 9.834628 ACGTTACACATGTTTTTAATAGAATGG 57.165 29.630 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 1.993370 GTCGGAGGAGAAATGTTGTCG 59.007 52.381 0.00 0.00 0.00 4.35
17 18 2.815308 CCCCTTCATCGTCGGAGG 59.185 66.667 0.00 0.00 0.00 4.30
48 49 2.099405 CGGTGCTACCCCATTTGAAAT 58.901 47.619 0.00 0.00 33.75 2.17
179 180 7.589954 CGACTTTGATTGTACTGGGTTAAAAAG 59.410 37.037 0.00 0.00 0.00 2.27
188 189 3.067106 AGTGCGACTTTGATTGTACTGG 58.933 45.455 0.00 0.00 28.67 4.00
191 192 3.120649 GGTGAGTGCGACTTTGATTGTAC 60.121 47.826 0.00 0.00 0.00 2.90
207 208 1.275291 CGTGTGTTCATAGGGGTGAGT 59.725 52.381 0.00 0.00 0.00 3.41
209 210 0.036765 GCGTGTGTTCATAGGGGTGA 60.037 55.000 0.00 0.00 0.00 4.02
223 232 5.345741 GTCTTTCAAAAATATGCATGCGTGT 59.654 36.000 22.77 13.42 0.00 4.49
236 245 7.068839 TGCTATGTTAACCCAGTCTTTCAAAAA 59.931 33.333 2.48 0.00 0.00 1.94
243 252 5.700402 AGATGCTATGTTAACCCAGTCTT 57.300 39.130 2.48 0.00 0.00 3.01
249 258 7.573968 AAATCTCAAGATGCTATGTTAACCC 57.426 36.000 2.48 0.00 34.49 4.11
250 259 9.937175 GTAAAATCTCAAGATGCTATGTTAACC 57.063 33.333 2.48 0.00 34.49 2.85
253 262 9.594478 TTCGTAAAATCTCAAGATGCTATGTTA 57.406 29.630 0.00 0.00 34.49 2.41
254 263 8.492673 TTCGTAAAATCTCAAGATGCTATGTT 57.507 30.769 0.00 0.00 34.49 2.71
284 293 3.716539 GACTGCGCGGTGCCTATGA 62.717 63.158 29.82 0.00 45.60 2.15
292 301 2.101209 CTTTTTGTCGACTGCGCGGT 62.101 55.000 24.62 24.62 37.46 5.68
295 304 3.058457 GACTTTTTGTCGACTGCGC 57.942 52.632 17.92 0.00 35.81 6.09
305 314 7.408132 TCGTTCATTGAGAGTAGACTTTTTG 57.592 36.000 0.00 0.00 0.00 2.44
315 324 3.257393 GTGATGCTCGTTCATTGAGAGT 58.743 45.455 5.20 0.00 35.43 3.24
318 328 1.325640 CGGTGATGCTCGTTCATTGAG 59.674 52.381 0.00 0.00 36.53 3.02
322 332 0.249120 TTCCGGTGATGCTCGTTCAT 59.751 50.000 0.00 0.00 0.00 2.57
330 340 1.808411 TTTCAGACTTCCGGTGATGC 58.192 50.000 0.00 0.00 0.00 3.91
373 383 8.538409 AGTTCAAATCCTAAATTTGACATTGC 57.462 30.769 11.60 2.98 44.67 3.56
383 393 8.547173 ACTCATGAGAGAGTTCAAATCCTAAAT 58.453 33.333 29.27 0.00 46.26 1.40
401 411 4.494091 AAGTGGTATCCCAACTCATGAG 57.506 45.455 21.37 21.37 44.15 2.90
402 412 4.288366 TGAAAGTGGTATCCCAACTCATGA 59.712 41.667 0.00 0.00 44.15 3.07
403 413 4.588899 TGAAAGTGGTATCCCAACTCATG 58.411 43.478 0.00 0.00 44.15 3.07
404 414 4.927267 TGAAAGTGGTATCCCAACTCAT 57.073 40.909 0.00 0.00 44.15 2.90
405 415 4.324254 GGATGAAAGTGGTATCCCAACTCA 60.324 45.833 0.00 0.00 44.15 3.41
406 416 4.080299 AGGATGAAAGTGGTATCCCAACTC 60.080 45.833 0.00 0.00 44.15 3.01
407 417 3.852578 AGGATGAAAGTGGTATCCCAACT 59.147 43.478 0.00 0.00 44.15 3.16
409 419 6.159575 TGATTAGGATGAAAGTGGTATCCCAA 59.840 38.462 0.00 0.00 44.15 4.12
487 2021 6.363357 GCGAGATGTGCAAGACTTTTATTTTT 59.637 34.615 0.00 0.00 0.00 1.94
488 2022 5.858581 GCGAGATGTGCAAGACTTTTATTTT 59.141 36.000 0.00 0.00 0.00 1.82
489 2023 5.393962 GCGAGATGTGCAAGACTTTTATTT 58.606 37.500 0.00 0.00 0.00 1.40
490 2024 4.142600 GGCGAGATGTGCAAGACTTTTATT 60.143 41.667 0.00 0.00 0.00 1.40
491 2025 3.375299 GGCGAGATGTGCAAGACTTTTAT 59.625 43.478 0.00 0.00 0.00 1.40
492 2026 2.742053 GGCGAGATGTGCAAGACTTTTA 59.258 45.455 0.00 0.00 0.00 1.52
493 2027 1.537202 GGCGAGATGTGCAAGACTTTT 59.463 47.619 0.00 0.00 0.00 2.27
494 2028 1.160137 GGCGAGATGTGCAAGACTTT 58.840 50.000 0.00 0.00 0.00 2.66
495 2029 1.016130 CGGCGAGATGTGCAAGACTT 61.016 55.000 0.00 0.00 0.00 3.01
496 2030 1.446792 CGGCGAGATGTGCAAGACT 60.447 57.895 0.00 0.00 0.00 3.24
497 2031 3.084579 CGGCGAGATGTGCAAGAC 58.915 61.111 0.00 0.00 0.00 3.01
498 2032 2.815211 GCGGCGAGATGTGCAAGA 60.815 61.111 12.98 0.00 0.00 3.02
499 2033 3.869272 GGCGGCGAGATGTGCAAG 61.869 66.667 12.98 0.00 0.00 4.01
500 2034 4.695993 TGGCGGCGAGATGTGCAA 62.696 61.111 12.98 0.00 0.00 4.08
501 2035 4.695993 TTGGCGGCGAGATGTGCA 62.696 61.111 12.98 0.00 0.00 4.57
502 2036 3.386867 CTTTGGCGGCGAGATGTGC 62.387 63.158 12.98 0.00 0.00 4.57
503 2037 1.298157 TTCTTTGGCGGCGAGATGTG 61.298 55.000 12.98 0.00 0.00 3.21
504 2038 0.605319 TTTCTTTGGCGGCGAGATGT 60.605 50.000 12.98 0.00 0.00 3.06
505 2039 0.521291 TTTTCTTTGGCGGCGAGATG 59.479 50.000 12.98 3.25 0.00 2.90
506 2040 1.243902 TTTTTCTTTGGCGGCGAGAT 58.756 45.000 12.98 0.00 0.00 2.75
507 2041 1.243902 ATTTTTCTTTGGCGGCGAGA 58.756 45.000 12.98 10.24 0.00 4.04
508 2042 2.911819 TATTTTTCTTTGGCGGCGAG 57.088 45.000 12.98 5.07 0.00 5.03
509 2043 3.644884 TTTATTTTTCTTTGGCGGCGA 57.355 38.095 12.98 0.00 0.00 5.54
510 2044 3.738791 ACTTTTATTTTTCTTTGGCGGCG 59.261 39.130 0.51 0.51 0.00 6.46
511 2045 4.988540 AGACTTTTATTTTTCTTTGGCGGC 59.011 37.500 0.00 0.00 0.00 6.53
512 2046 6.563939 GCAAGACTTTTATTTTTCTTTGGCGG 60.564 38.462 0.00 0.00 0.00 6.13
513 2047 6.019156 TGCAAGACTTTTATTTTTCTTTGGCG 60.019 34.615 0.00 0.00 0.00 5.69
514 2048 7.125755 GTGCAAGACTTTTATTTTTCTTTGGC 58.874 34.615 0.00 0.00 0.00 4.52
515 2049 8.195617 TGTGCAAGACTTTTATTTTTCTTTGG 57.804 30.769 0.00 0.00 0.00 3.28
516 2050 9.853921 GATGTGCAAGACTTTTATTTTTCTTTG 57.146 29.630 0.00 0.00 0.00 2.77
517 2051 8.755018 CGATGTGCAAGACTTTTATTTTTCTTT 58.245 29.630 0.00 0.00 0.00 2.52
518 2052 8.134895 TCGATGTGCAAGACTTTTATTTTTCTT 58.865 29.630 0.00 0.00 0.00 2.52
519 2053 7.648142 TCGATGTGCAAGACTTTTATTTTTCT 58.352 30.769 0.00 0.00 0.00 2.52
520 2054 7.851822 TCGATGTGCAAGACTTTTATTTTTC 57.148 32.000 0.00 0.00 0.00 2.29
521 2055 8.641499 TTTCGATGTGCAAGACTTTTATTTTT 57.359 26.923 0.00 0.00 0.00 1.94
561 2096 1.300233 CCGTTCTGGCTCTATCGGC 60.300 63.158 0.00 0.00 0.00 5.54
702 2237 1.852965 CCTCCCCTTCTCTCTCTCTCT 59.147 57.143 0.00 0.00 0.00 3.10
703 2238 1.850345 TCCTCCCCTTCTCTCTCTCTC 59.150 57.143 0.00 0.00 0.00 3.20
848 2383 1.616187 GGGAAAGGCCAGTTTCTACCC 60.616 57.143 15.03 7.07 38.95 3.69
851 2410 0.326927 CCGGGAAAGGCCAGTTTCTA 59.673 55.000 15.03 0.00 38.95 2.10
869 2428 7.990886 AGAAAGAAAGGTGGGATTTTTAAAACC 59.009 33.333 0.00 0.00 0.00 3.27
921 2480 0.389948 GCGGAAGGAAGCGAGAAAGA 60.390 55.000 0.00 0.00 0.00 2.52
925 2484 3.771160 GGGCGGAAGGAAGCGAGA 61.771 66.667 0.00 0.00 0.00 4.04
984 2547 1.074167 CATAGGAGGGAGGGGCAGT 60.074 63.158 0.00 0.00 0.00 4.40
1605 3168 5.116983 CGACTGCAATTCCAACAATAACAAC 59.883 40.000 0.00 0.00 0.00 3.32
1684 3247 2.500098 CGATCCCTTGTTCCTTACCTCA 59.500 50.000 0.00 0.00 0.00 3.86
1761 3326 3.558931 TTCACCTCTGCAAGAAGACAA 57.441 42.857 0.00 0.00 46.34 3.18
1793 3358 2.925653 TCCCTTCCCATTTGAATCTCCA 59.074 45.455 0.00 0.00 0.00 3.86
2189 3754 4.618489 CCAATCACAGAAGAAAACGAATGC 59.382 41.667 0.00 0.00 0.00 3.56
2194 3759 7.305190 CGTTTTTACCAATCACAGAAGAAAACG 60.305 37.037 13.39 13.39 45.21 3.60
2195 3760 7.514591 GCGTTTTTACCAATCACAGAAGAAAAC 60.515 37.037 0.00 0.00 33.49 2.43
2204 3769 4.592485 AATGGCGTTTTTACCAATCACA 57.408 36.364 0.00 0.00 39.96 3.58
2211 3776 8.245701 TGAATTATGAAAATGGCGTTTTTACC 57.754 30.769 17.81 6.96 40.04 2.85
2219 3784 7.167968 CACCACTTATGAATTATGAAAATGGCG 59.832 37.037 0.00 0.00 0.00 5.69
2221 3786 9.874205 AACACCACTTATGAATTATGAAAATGG 57.126 29.630 0.00 0.00 0.00 3.16
2228 3793 9.734620 CCACAATAACACCACTTATGAATTATG 57.265 33.333 0.00 0.00 0.00 1.90
2236 3801 7.775053 AAACATCCACAATAACACCACTTAT 57.225 32.000 0.00 0.00 0.00 1.73
2248 3813 9.396022 CTGTACCTTATCTAAAACATCCACAAT 57.604 33.333 0.00 0.00 0.00 2.71
2310 3875 9.592196 TCCTTTACTTTACCTACTCAGAAACTA 57.408 33.333 0.00 0.00 0.00 2.24
2311 3876 8.488308 TCCTTTACTTTACCTACTCAGAAACT 57.512 34.615 0.00 0.00 0.00 2.66
2312 3877 9.722184 ATTCCTTTACTTTACCTACTCAGAAAC 57.278 33.333 0.00 0.00 0.00 2.78
2315 3880 9.720769 CAAATTCCTTTACTTTACCTACTCAGA 57.279 33.333 0.00 0.00 0.00 3.27
2316 3881 8.947115 CCAAATTCCTTTACTTTACCTACTCAG 58.053 37.037 0.00 0.00 0.00 3.35
2318 3883 7.610692 AGCCAAATTCCTTTACTTTACCTACTC 59.389 37.037 0.00 0.00 0.00 2.59
2319 3884 7.393515 CAGCCAAATTCCTTTACTTTACCTACT 59.606 37.037 0.00 0.00 0.00 2.57
2320 3885 7.176165 ACAGCCAAATTCCTTTACTTTACCTAC 59.824 37.037 0.00 0.00 0.00 3.18
2343 3916 3.149196 AGCAATGTAACAGGTCCAACAG 58.851 45.455 0.00 0.00 0.00 3.16
2424 4000 3.003275 CACGGATTAATGCCCATGTGTAC 59.997 47.826 0.90 0.00 0.00 2.90
2427 4003 2.296792 TCACGGATTAATGCCCATGTG 58.703 47.619 0.90 4.18 0.00 3.21
2428 4004 2.727123 TCACGGATTAATGCCCATGT 57.273 45.000 0.90 0.00 0.00 3.21
2470 4046 4.450419 AGAAGCAGAATCAAACTGTTCTCG 59.550 41.667 0.00 0.00 34.31 4.04
2482 4058 6.983307 TCAGAGCTACAATAAGAAGCAGAATC 59.017 38.462 0.00 0.00 38.75 2.52
2483 4059 6.760770 GTCAGAGCTACAATAAGAAGCAGAAT 59.239 38.462 0.00 0.00 38.75 2.40
2508 4084 3.897325 TGCACAAGAGTACTTAGACACG 58.103 45.455 0.00 0.00 34.70 4.49
2588 4198 5.048224 CAGTCAAAGCATCTTCTTTCCATGT 60.048 40.000 0.00 0.00 34.31 3.21
2623 4233 9.834628 ACCATTCTATTAAAAACATGTGTAACG 57.165 29.630 0.00 0.00 42.39 3.18
2638 4249 8.875803 GTTACACAACATCGAACCATTCTATTA 58.124 33.333 0.00 0.00 34.60 0.98
2640 4251 6.876789 TGTTACACAACATCGAACCATTCTAT 59.123 34.615 0.00 0.00 39.75 1.98
2641 4252 6.224584 TGTTACACAACATCGAACCATTCTA 58.775 36.000 0.00 0.00 39.75 2.10
2643 4254 5.351233 TGTTACACAACATCGAACCATTC 57.649 39.130 0.00 0.00 39.75 2.67


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

AutoCloner maintained by Alex Coulton.