Multiple sequence alignment - TraesCS5A01G230400

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 TraesCS5A01G230400 chr5A 100.000 3226 0 0 1 3226 445285626 445288851 0.000000e+00 5958.0
1 TraesCS5A01G230400 chr5D 90.828 2464 162 33 766 3211 345928108 345925691 0.000000e+00 3240.0
2 TraesCS5A01G230400 chr5D 80.480 625 81 24 1 601 356086582 356087189 1.060000e-119 440.0
3 TraesCS5A01G230400 chr5D 89.130 92 7 3 596 685 345930835 345930745 9.460000e-21 111.0
4 TraesCS5A01G230400 chr5B 90.762 1851 93 32 1 1822 405723638 405725439 0.000000e+00 2399.0
5 TraesCS5A01G230400 chr5B 90.249 1323 97 13 1927 3226 405725535 405726848 0.000000e+00 1700.0
6 TraesCS5A01G230400 chr3B 81.476 637 80 22 3 614 365107600 365108223 3.740000e-134 488.0
7 TraesCS5A01G230400 chr7A 81.270 630 76 28 1 604 150911958 150912571 3.770000e-129 472.0
8 TraesCS5A01G230400 chr7A 100.000 45 0 0 1848 1892 518767133 518767089 2.060000e-12 84.2
9 TraesCS5A01G230400 chr3A 81.834 589 75 24 36 604 44809230 44808654 1.750000e-127 466.0
10 TraesCS5A01G230400 chr3A 100.000 45 0 0 1848 1892 732763883 732763927 2.060000e-12 84.2
11 TraesCS5A01G230400 chr1B 80.727 633 86 23 1 610 643069941 643070560 8.150000e-126 460.0
12 TraesCS5A01G230400 chr2B 80.824 631 78 30 1 606 784697683 784698295 3.790000e-124 455.0
13 TraesCS5A01G230400 chr2B 100.000 30 0 0 3197 3226 367726281 367726252 4.500000e-04 56.5
14 TraesCS5A01G230400 chr7D 82.149 549 66 17 52 581 179630066 179630601 2.950000e-120 442.0
15 TraesCS5A01G230400 chr7D 81.731 416 46 11 185 581 179630998 179631402 1.440000e-83 320.0
16 TraesCS5A01G230400 chr7D 95.652 46 2 0 1850 1895 20446206 20446161 1.240000e-09 75.0
17 TraesCS5A01G230400 chr6A 80.678 590 84 23 36 607 599979439 599978862 6.390000e-117 431.0
18 TraesCS5A01G230400 chr6A 80.640 594 78 25 36 607 508761146 508760568 2.970000e-115 425.0
19 TraesCS5A01G230400 chr2A 79.564 597 84 27 36 609 692851881 692851300 3.020000e-105 392.0
20 TraesCS5A01G230400 chr4B 79.705 271 27 15 342 592 10506153 10505891 1.540000e-38 171.0
21 TraesCS5A01G230400 chr3D 100.000 44 0 0 1848 1891 164997052 164997009 7.420000e-12 82.4
22 TraesCS5A01G230400 chr3D 97.826 46 1 0 1847 1892 310717476 310717521 2.670000e-11 80.5
23 TraesCS5A01G230400 chr1D 97.826 46 1 0 1846 1891 313661441 313661486 2.670000e-11 80.5
24 TraesCS5A01G230400 chrUn 94.000 50 1 2 1845 1892 60932628 60932677 1.240000e-09 75.0
25 TraesCS5A01G230400 chr1A 94.000 50 1 2 1848 1897 365531976 365531929 1.240000e-09 75.0
26 TraesCS5A01G230400 chr2D 96.970 33 1 0 3194 3226 274821278 274821310 4.500000e-04 56.5


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 TraesCS5A01G230400 chr5A 445285626 445288851 3225 False 5958.0 5958 100.0000 1 3226 1 chr5A.!!$F1 3225
1 TraesCS5A01G230400 chr5D 345925691 345930835 5144 True 1675.5 3240 89.9790 596 3211 2 chr5D.!!$R1 2615
2 TraesCS5A01G230400 chr5D 356086582 356087189 607 False 440.0 440 80.4800 1 601 1 chr5D.!!$F1 600
3 TraesCS5A01G230400 chr5B 405723638 405726848 3210 False 2049.5 2399 90.5055 1 3226 2 chr5B.!!$F1 3225
4 TraesCS5A01G230400 chr3B 365107600 365108223 623 False 488.0 488 81.4760 3 614 1 chr3B.!!$F1 611
5 TraesCS5A01G230400 chr7A 150911958 150912571 613 False 472.0 472 81.2700 1 604 1 chr7A.!!$F1 603
6 TraesCS5A01G230400 chr3A 44808654 44809230 576 True 466.0 466 81.8340 36 604 1 chr3A.!!$R1 568
7 TraesCS5A01G230400 chr1B 643069941 643070560 619 False 460.0 460 80.7270 1 610 1 chr1B.!!$F1 609
8 TraesCS5A01G230400 chr2B 784697683 784698295 612 False 455.0 455 80.8240 1 606 1 chr2B.!!$F1 605
9 TraesCS5A01G230400 chr7D 179630066 179631402 1336 False 381.0 442 81.9400 52 581 2 chr7D.!!$F1 529
10 TraesCS5A01G230400 chr6A 599978862 599979439 577 True 431.0 431 80.6780 36 607 1 chr6A.!!$R2 571
11 TraesCS5A01G230400 chr6A 508760568 508761146 578 True 425.0 425 80.6400 36 607 1 chr6A.!!$R1 571
12 TraesCS5A01G230400 chr2A 692851300 692851881 581 True 392.0 392 79.5640 36 609 1 chr2A.!!$R1 573

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
964 4382 0.17902 CCATCCAGATAAGGCGCCAA 60.179 55.0 31.54 17.45 0.0 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2334 5762 0.185901 GGCCCCAGAATATGCTTGGA 59.814 55.0 2.11 0.0 0.0 3.53 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
274 296 9.151471 CCGATTCAAAAGTCTTTTATGTCTAGA 57.849 33.333 10.22 0.00 0.00 2.43
328 350 1.822990 CTAGGCGTTGGGAGTAGTTCA 59.177 52.381 0.00 0.00 0.00 3.18
347 1171 6.917533 AGTTCATGGTTGATGAGATTTGTTC 58.082 36.000 0.00 0.00 42.24 3.18
439 1283 1.075542 GATTGCGATCACGTGGACAA 58.924 50.000 17.00 14.62 41.98 3.18
442 1286 0.320334 TGCGATCACGTGGACAACAT 60.320 50.000 17.00 0.00 41.98 2.71
466 1311 0.620410 ATCATCGGTGAGGGTGGGAA 60.620 55.000 3.97 0.00 37.87 3.97
467 1312 1.221840 CATCGGTGAGGGTGGGAAG 59.778 63.158 0.00 0.00 0.00 3.46
468 1313 1.080354 ATCGGTGAGGGTGGGAAGA 59.920 57.895 0.00 0.00 0.00 2.87
469 1314 0.546747 ATCGGTGAGGGTGGGAAGAA 60.547 55.000 0.00 0.00 0.00 2.52
502 1353 2.191908 TGGCGAGCCACTGTGTTT 59.808 55.556 13.49 0.00 41.89 2.83
513 1364 6.067217 AGCCACTGTGTTTAAATAGAGGAT 57.933 37.500 12.68 6.35 0.00 3.24
586 1441 0.393132 TTCTCCCGTTGCAACACACA 60.393 50.000 28.01 8.63 0.00 3.72
631 1488 8.815565 TTAACATGGGTAATGCTTTCTTGATA 57.184 30.769 0.00 0.00 40.22 2.15
780 4194 5.432885 AAGGTAAACAGGACACAAATTCG 57.567 39.130 0.00 0.00 0.00 3.34
796 4210 5.949354 ACAAATTCGAAGGATTGTCCCAATA 59.051 36.000 16.51 0.00 37.19 1.90
814 4228 4.214971 CCAATATTGCTTTGATCCTCCTCG 59.785 45.833 10.11 0.00 0.00 4.63
817 4231 2.386661 TGCTTTGATCCTCCTCGAAC 57.613 50.000 0.00 0.00 0.00 3.95
944 4362 3.085296 TTAGCCACCCCCGCCTAC 61.085 66.667 0.00 0.00 0.00 3.18
964 4382 0.179020 CCATCCAGATAAGGCGCCAA 60.179 55.000 31.54 17.45 0.00 4.52
1244 4668 2.444140 CGTAGCCTGCCCCTACCT 60.444 66.667 0.00 0.00 33.30 3.08
1247 4671 3.751049 TAGCCTGCCCCTACCTCCG 62.751 68.421 0.00 0.00 0.00 4.63
1339 4763 7.651704 ACGGACACCTTTAAAATTTCATTTGAG 59.348 33.333 0.00 0.00 31.77 3.02
1351 4775 7.662604 AATTTCATTTGAGCTTGAATGAACC 57.337 32.000 25.58 0.00 46.27 3.62
1352 4776 4.424061 TCATTTGAGCTTGAATGAACCG 57.576 40.909 18.05 0.00 38.82 4.44
1353 4777 3.191162 TCATTTGAGCTTGAATGAACCGG 59.809 43.478 18.05 0.00 38.82 5.28
1354 4778 0.881118 TTGAGCTTGAATGAACCGGC 59.119 50.000 0.00 0.00 0.00 6.13
1355 4779 0.960364 TGAGCTTGAATGAACCGGCC 60.960 55.000 0.00 0.00 0.00 6.13
1356 4780 1.982073 GAGCTTGAATGAACCGGCCG 61.982 60.000 21.04 21.04 0.00 6.13
1357 4781 2.332654 GCTTGAATGAACCGGCCGT 61.333 57.895 26.12 6.07 0.00 5.68
1358 4782 1.501741 CTTGAATGAACCGGCCGTG 59.498 57.895 26.12 18.04 0.00 4.94
1359 4783 2.527547 CTTGAATGAACCGGCCGTGC 62.528 60.000 26.12 13.27 0.00 5.34
1360 4784 4.160635 GAATGAACCGGCCGTGCG 62.161 66.667 26.12 11.78 0.00 5.34
1382 4808 2.223641 GCAGTTCACATACATGCATGGG 60.224 50.000 29.41 20.01 36.88 4.00
1424 4850 1.595976 CGGCGAATTCGTGTGTGTTTT 60.596 47.619 27.24 0.00 42.22 2.43
1426 4852 1.778591 GCGAATTCGTGTGTGTTTTGG 59.221 47.619 27.24 0.00 42.22 3.28
1429 4855 2.861462 ATTCGTGTGTGTTTTGGGTG 57.139 45.000 0.00 0.00 0.00 4.61
1432 4858 0.800300 CGTGTGTGTTTTGGGTGCAC 60.800 55.000 8.80 8.80 0.00 4.57
1500 4926 1.229529 GGACCTTGACCTCCTGGGA 60.230 63.158 0.00 0.00 38.76 4.37
1503 4929 2.478292 GACCTTGACCTCCTGGGAATA 58.522 52.381 0.00 0.00 38.76 1.75
1609 5035 4.414182 TGGGGAATAGTAATGGGTGGTTAG 59.586 45.833 0.00 0.00 0.00 2.34
1667 5093 5.787380 CCGATTATCATGAACTGGATGAGA 58.213 41.667 0.00 0.00 33.38 3.27
1747 5173 2.995574 CTTCCCCGGGTGAGTCGT 60.996 66.667 21.85 0.00 0.00 4.34
1785 5211 4.882671 GCTGCTGCTTAATTAGTGCTTA 57.117 40.909 8.53 1.50 36.03 3.09
1818 5244 4.677673 AAAAACAATCAAGGCAAGCTCT 57.322 36.364 0.00 0.00 0.00 4.09
1834 5260 6.308675 GCAAGCTCTATATACTACTGTCGAC 58.691 44.000 9.11 9.11 0.00 4.20
1847 5273 3.305964 ACTGTCGACGTAATCACACTTG 58.694 45.455 11.62 0.00 0.00 3.16
1848 5274 3.243301 ACTGTCGACGTAATCACACTTGT 60.243 43.478 11.62 0.00 0.00 3.16
1899 5325 2.416972 GCCTGTTTCGAGAGGTAATCGT 60.417 50.000 8.52 0.00 40.95 3.73
1911 5337 4.024218 AGAGGTAATCGTGCGTACAGTATC 60.024 45.833 4.09 0.00 0.00 2.24
1915 5341 3.710326 ATCGTGCGTACAGTATCATGT 57.290 42.857 4.09 0.00 37.19 3.21
1932 5358 0.530744 TGTGGCACCTAGCTAGTTCG 59.469 55.000 19.31 6.95 44.79 3.95
1946 5372 2.100605 AGTTCGGTTGAGAATCTGGC 57.899 50.000 0.00 0.00 34.92 4.85
1955 5381 0.737715 GAGAATCTGGCGCGACAGTT 60.738 55.000 38.90 30.50 39.48 3.16
1956 5382 0.320771 AGAATCTGGCGCGACAGTTT 60.321 50.000 38.90 35.61 39.48 2.66
1964 5390 0.645868 GCGCGACAGTTTGTATCCTC 59.354 55.000 12.10 0.00 0.00 3.71
1975 5401 5.642063 CAGTTTGTATCCTCGTACAACCATT 59.358 40.000 0.00 0.00 42.49 3.16
1978 5404 6.730960 TTGTATCCTCGTACAACCATTTTC 57.269 37.500 0.00 0.00 39.08 2.29
1981 5407 4.610605 TCCTCGTACAACCATTTTCTCA 57.389 40.909 0.00 0.00 0.00 3.27
1990 5416 9.030301 CGTACAACCATTTTCTCATTTTCTTTT 57.970 29.630 0.00 0.00 0.00 2.27
2038 5466 8.973182 AGAAATTAAGTAGTCTTCTACCCTCAG 58.027 37.037 2.36 0.00 45.36 3.35
2288 5716 3.678548 AGCGACGTTTCTTTTACAGATCC 59.321 43.478 0.00 0.00 0.00 3.36
2334 5762 3.402628 AACATGTTCTACTTGGACGCT 57.597 42.857 4.92 0.00 0.00 5.07
2348 5776 1.869767 GGACGCTCCAAGCATATTCTG 59.130 52.381 0.00 0.00 42.58 3.02
2355 5783 0.106066 CAAGCATATTCTGGGGCCCA 60.106 55.000 26.87 26.87 0.00 5.36
2378 5806 3.447229 CCATGAGCCCGTAAAGGAAAATT 59.553 43.478 0.00 0.00 45.00 1.82
2390 5818 5.435686 AAAGGAAAATTTAGGGGAATGGC 57.564 39.130 0.00 0.00 0.00 4.40
2442 5871 1.170290 ACCGTTTTTGGCCTCTTCCG 61.170 55.000 3.32 0.56 0.00 4.30
2447 5885 2.391724 TTTTGGCCTCTTCCGCTCGT 62.392 55.000 3.32 0.00 0.00 4.18
2448 5886 3.589654 TTGGCCTCTTCCGCTCGTG 62.590 63.158 3.32 0.00 0.00 4.35
2472 5910 3.106986 GCGGGGAATGCAGGCTCTA 62.107 63.158 0.00 0.00 0.00 2.43
2492 5931 2.825205 AGGTCATGTTTTGCAACTTGC 58.175 42.857 6.82 6.82 45.29 4.01
2521 5960 2.027192 TCCACAAATCCCTAGTCTGCAC 60.027 50.000 0.00 0.00 0.00 4.57
2522 5961 2.002586 CACAAATCCCTAGTCTGCACG 58.997 52.381 0.00 0.00 0.00 5.34
2523 5962 1.899814 ACAAATCCCTAGTCTGCACGA 59.100 47.619 0.00 0.00 0.00 4.35
2543 5982 4.883354 GGGCCTCAATGCTCCCCG 62.883 72.222 0.84 0.00 32.60 5.73
2564 6003 0.608640 TGTTTGGTTGCCCGTGTTTT 59.391 45.000 0.00 0.00 0.00 2.43
2695 6142 7.095523 TGTCATCGCATTGTACTTATGATCATG 60.096 37.037 18.72 4.96 0.00 3.07
2698 6145 5.702209 TCGCATTGTACTTATGATCATGCAT 59.298 36.000 18.72 5.64 33.25 3.96
2752 6199 9.483916 ACGACATATTGGACGAATATTATGAAA 57.516 29.630 0.32 0.00 35.39 2.69
2790 6239 0.250038 CCGATATGACCTGCACCCTG 60.250 60.000 0.00 0.00 0.00 4.45
2852 6301 5.715921 TGGAGTAATCATCATCTACCTCCA 58.284 41.667 0.00 0.00 35.25 3.86
2855 6304 6.268847 GGAGTAATCATCATCTACCTCCACTT 59.731 42.308 0.00 0.00 0.00 3.16
2893 6342 8.258007 CCTCTATGACAACTATTCTTGTAACCA 58.742 37.037 0.00 0.00 34.40 3.67
2894 6343 8.997621 TCTATGACAACTATTCTTGTAACCAC 57.002 34.615 0.00 0.00 34.40 4.16
2905 6354 2.148916 TGTAACCACTCACTTGCTCG 57.851 50.000 0.00 0.00 0.00 5.03
2914 6363 2.364324 ACTCACTTGCTCGTGGAAAGTA 59.636 45.455 4.69 0.00 41.65 2.24
2925 6374 4.250464 TCGTGGAAAGTATGTCATGAACC 58.750 43.478 0.00 0.00 0.00 3.62
2936 6385 5.543507 ATGTCATGAACCATAGACTCCTC 57.456 43.478 0.00 0.00 32.41 3.71
2963 6412 3.509967 CCTCACTGAGTACACCACATACA 59.490 47.826 5.32 0.00 0.00 2.29
2975 6424 5.168569 ACACCACATACAACTTCATCTACG 58.831 41.667 0.00 0.00 0.00 3.51
2988 6437 4.377839 TCATCTACGAAGGCAGAAGAAG 57.622 45.455 0.00 0.00 0.00 2.85
3048 6497 0.323629 TAAGGCTGGGTTTCCGACAG 59.676 55.000 0.00 0.00 35.24 3.51
3056 6505 2.014857 GGGTTTCCGACAGAATTAGGC 58.985 52.381 0.00 0.00 33.44 3.93
3075 6524 3.259876 AGGCCATGACTAAACTCAACGTA 59.740 43.478 5.01 0.00 0.00 3.57
3119 6568 8.562892 GTTAGCATCAGTAATAGCAATGTGAAT 58.437 33.333 0.00 0.00 0.00 2.57
3141 6590 8.236586 TGAATAAGAACAATGCATCACTACAAC 58.763 33.333 0.00 0.00 0.00 3.32
3156 6605 0.690762 ACAACGGTAAGCATCAGGGT 59.309 50.000 0.00 0.00 0.00 4.34
3177 6627 5.170021 GGTAAAAATGTTGAGCATGCATCA 58.830 37.500 21.98 17.04 37.96 3.07
3189 6639 2.033372 CATGCATCATTGGGTAAGGCA 58.967 47.619 0.00 0.00 0.00 4.75
3195 6645 4.523943 GCATCATTGGGTAAGGCATGAATA 59.476 41.667 0.00 0.00 0.00 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
222 244 1.811359 AGTTTCTCGAATCGACGGACT 59.189 47.619 0.00 2.84 0.00 3.85
225 247 1.978542 ACAGTTTCTCGAATCGACGG 58.021 50.000 0.00 0.00 0.00 4.79
237 259 7.415229 AGACTTTTGAATCGGTAAACAGTTTC 58.585 34.615 0.48 0.00 0.00 2.78
291 313 8.304596 CAACGCCTAGATATATAAAGACTTCCA 58.695 37.037 0.00 0.00 0.00 3.53
306 328 2.456073 ACTACTCCCAACGCCTAGAT 57.544 50.000 0.00 0.00 0.00 1.98
328 350 9.082313 ACTTTAAGAACAAATCTCATCAACCAT 57.918 29.630 0.00 0.00 37.42 3.55
347 1171 6.364976 CGCAAGGGAATGGTTAAAACTTTAAG 59.635 38.462 0.00 0.00 33.66 1.85
439 1283 2.630098 CCCTCACCGATGATAGTCATGT 59.370 50.000 0.00 0.00 37.20 3.21
442 1286 2.031870 CACCCTCACCGATGATAGTCA 58.968 52.381 0.00 0.00 33.22 3.41
466 1311 4.630940 CGCCATGTTGCCATTTATTTTTCT 59.369 37.500 0.00 0.00 0.00 2.52
467 1312 4.629200 TCGCCATGTTGCCATTTATTTTTC 59.371 37.500 0.00 0.00 0.00 2.29
468 1313 4.573900 TCGCCATGTTGCCATTTATTTTT 58.426 34.783 0.00 0.00 0.00 1.94
469 1314 4.183101 CTCGCCATGTTGCCATTTATTTT 58.817 39.130 0.00 0.00 0.00 1.82
502 1353 8.355913 CGCTGATATATGAGCATCCTCTATTTA 58.644 37.037 21.76 0.00 36.81 1.40
513 1364 6.071952 TGACTCAATACGCTGATATATGAGCA 60.072 38.462 21.76 5.90 36.81 4.26
527 1378 6.150318 AGCCGAATAAGTATGACTCAATACG 58.850 40.000 0.00 0.00 37.96 3.06
612 1469 7.775053 AACTTTATCAAGAAAGCATTACCCA 57.225 32.000 0.00 0.00 39.60 4.51
674 1531 3.708563 AACCCTGTTTGTTTGTCGATG 57.291 42.857 0.00 0.00 0.00 3.84
796 4210 3.274288 GTTCGAGGAGGATCAAAGCAAT 58.726 45.455 0.00 0.00 36.25 3.56
814 4228 5.719627 GCCTCGTTCGTCTATTTTTACGTTC 60.720 44.000 0.00 0.00 39.99 3.95
817 4231 3.609373 TGCCTCGTTCGTCTATTTTTACG 59.391 43.478 0.00 0.00 40.40 3.18
944 4362 1.302832 GGCGCCTTATCTGGATGGG 60.303 63.158 22.15 0.00 0.00 4.00
945 4363 0.179020 TTGGCGCCTTATCTGGATGG 60.179 55.000 29.70 0.00 0.00 3.51
946 4364 1.233019 CTTGGCGCCTTATCTGGATG 58.767 55.000 29.70 2.60 0.00 3.51
947 4365 0.109342 CCTTGGCGCCTTATCTGGAT 59.891 55.000 29.70 0.00 0.00 3.41
1339 4763 2.332654 ACGGCCGGTTCATTCAAGC 61.333 57.895 31.76 0.00 0.00 4.01
1354 4778 1.739929 TATGTGAACTGCCGCACGG 60.740 57.895 4.30 4.30 37.83 4.94
1355 4779 1.288419 TGTATGTGAACTGCCGCACG 61.288 55.000 0.00 0.00 37.83 5.34
1356 4780 1.086696 ATGTATGTGAACTGCCGCAC 58.913 50.000 0.00 0.00 35.63 5.34
1357 4781 1.085893 CATGTATGTGAACTGCCGCA 58.914 50.000 0.00 0.00 0.00 5.69
1358 4782 0.248215 GCATGTATGTGAACTGCCGC 60.248 55.000 0.00 0.00 0.00 6.53
1359 4783 1.085893 TGCATGTATGTGAACTGCCG 58.914 50.000 0.00 0.00 31.89 5.69
1360 4784 2.223641 CCATGCATGTATGTGAACTGCC 60.224 50.000 24.58 0.00 31.89 4.85
1361 4785 2.223641 CCCATGCATGTATGTGAACTGC 60.224 50.000 24.58 0.00 0.00 4.40
1362 4786 3.018856 ACCCATGCATGTATGTGAACTG 58.981 45.455 24.58 5.69 0.00 3.16
1363 4787 3.370840 ACCCATGCATGTATGTGAACT 57.629 42.857 24.58 0.00 0.00 3.01
1364 4788 5.772825 AATACCCATGCATGTATGTGAAC 57.227 39.130 24.58 0.00 0.00 3.18
1365 4789 7.723172 TGATTAATACCCATGCATGTATGTGAA 59.277 33.333 24.58 12.25 0.00 3.18
1382 4808 3.422343 GCAGCGCGATCACTGATTAATAC 60.422 47.826 12.10 0.00 35.90 1.89
1416 4842 1.876263 GCGTGCACCCAAAACACAC 60.876 57.895 12.15 0.00 33.89 3.82
1488 4914 1.204146 GCAGTATTCCCAGGAGGTCA 58.796 55.000 0.00 0.00 36.75 4.02
1518 4944 1.063649 GTAGACGAAGGCGATCGCA 59.936 57.895 38.00 15.22 46.51 5.10
1593 5019 5.190925 ACAATCAGCTAACCACCCATTACTA 59.809 40.000 0.00 0.00 0.00 1.82
1609 5035 2.480555 CGCCGGAACACAATCAGC 59.519 61.111 5.05 0.00 0.00 4.26
1667 5093 1.598130 GCGCTTGAACCACCTCAGT 60.598 57.895 0.00 0.00 0.00 3.41
1747 5173 1.881973 CAGCTAGCTGTTGAAAGGCAA 59.118 47.619 32.46 0.00 39.10 4.52
1818 5244 8.703336 GTGTGATTACGTCGACAGTAGTATATA 58.297 37.037 17.16 3.59 0.00 0.86
1834 5260 4.209452 AGCAACAACAAGTGTGATTACG 57.791 40.909 0.00 0.00 40.60 3.18
1867 5293 2.183858 GAAACAGGCTTTCGTCCCGC 62.184 60.000 0.00 0.00 0.00 6.13
1887 5313 2.097142 ACTGTACGCACGATTACCTCTC 59.903 50.000 0.00 0.00 0.00 3.20
1889 5315 2.556534 ACTGTACGCACGATTACCTC 57.443 50.000 0.00 0.00 0.00 3.85
1891 5317 3.956233 TGATACTGTACGCACGATTACC 58.044 45.455 0.00 0.00 0.00 2.85
1899 5325 1.205893 TGCCACATGATACTGTACGCA 59.794 47.619 0.00 0.00 33.58 5.24
1911 5337 2.555199 GAACTAGCTAGGTGCCACATG 58.445 52.381 24.35 0.00 44.23 3.21
1915 5341 0.613853 ACCGAACTAGCTAGGTGCCA 60.614 55.000 24.35 0.00 44.23 4.92
1932 5358 1.447838 TCGCGCCAGATTCTCAACC 60.448 57.895 0.00 0.00 0.00 3.77
1946 5372 0.914551 CGAGGATACAAACTGTCGCG 59.085 55.000 0.00 0.00 41.41 5.87
1955 5381 6.469410 AGAAAATGGTTGTACGAGGATACAA 58.531 36.000 0.00 0.00 41.63 2.41
1956 5382 6.045072 AGAAAATGGTTGTACGAGGATACA 57.955 37.500 0.00 0.00 41.41 2.29
1964 5390 8.574196 AAAGAAAATGAGAAAATGGTTGTACG 57.426 30.769 0.00 0.00 0.00 3.67
1975 5401 9.889128 ACTTCCATTTCAAAAGAAAATGAGAAA 57.111 25.926 9.52 0.00 43.60 2.52
1978 5404 8.652810 ACACTTCCATTTCAAAAGAAAATGAG 57.347 30.769 9.52 3.84 43.60 2.90
2071 5499 0.892358 CCACAGCATCAACCTGCAGT 60.892 55.000 13.81 0.00 44.77 4.40
2314 5742 3.326747 GAGCGTCCAAGTAGAACATGTT 58.673 45.455 11.78 11.78 0.00 2.71
2334 5762 0.185901 GGCCCCAGAATATGCTTGGA 59.814 55.000 2.11 0.00 0.00 3.53
2355 5783 0.988832 TTCCTTTACGGGCTCATGGT 59.011 50.000 0.00 0.00 0.00 3.55
2378 5806 3.181423 GGTGATTATGGCCATTCCCCTAA 60.181 47.826 26.37 11.49 0.00 2.69
2390 5818 2.343101 ACACGTCAACGGTGATTATGG 58.657 47.619 6.36 0.00 44.95 2.74
2472 5910 2.825205 GCAAGTTGCAAAACATGACCT 58.175 42.857 22.90 0.00 44.26 3.85
2521 5960 1.227497 GAGCATTGAGGCCCTCTCG 60.227 63.158 12.94 1.27 45.32 4.04
2522 5961 1.148048 GGAGCATTGAGGCCCTCTC 59.852 63.158 12.94 0.00 42.74 3.20
2523 5962 2.381941 GGGAGCATTGAGGCCCTCT 61.382 63.158 12.94 0.00 37.59 3.69
2564 6003 1.002069 ATCAGCCCAAGACAATCCCA 58.998 50.000 0.00 0.00 0.00 4.37
2571 6010 2.627515 TATCTGCATCAGCCCAAGAC 57.372 50.000 0.00 0.00 41.13 3.01
2573 6012 3.004419 CACAATATCTGCATCAGCCCAAG 59.996 47.826 0.00 0.00 41.13 3.61
2574 6013 2.953648 CACAATATCTGCATCAGCCCAA 59.046 45.455 0.00 0.00 41.13 4.12
2711 6158 8.332464 CCAATATGTCGTCGTTGTATATTTGTT 58.668 33.333 0.00 0.00 0.00 2.83
2768 6215 0.249911 GGTGCAGGTCATATCGGGTC 60.250 60.000 0.00 0.00 0.00 4.46
2852 6301 6.497259 TGTCATAGAGGGTTTGAGACTAAAGT 59.503 38.462 0.00 0.00 0.00 2.66
2855 6304 6.497259 AGTTGTCATAGAGGGTTTGAGACTAA 59.503 38.462 0.00 0.00 0.00 2.24
2893 6342 1.139058 ACTTTCCACGAGCAAGTGAGT 59.861 47.619 12.33 6.01 44.43 3.41
2894 6343 1.871080 ACTTTCCACGAGCAAGTGAG 58.129 50.000 12.33 5.47 44.43 3.51
2905 6354 7.011482 GTCTATGGTTCATGACATACTTTCCAC 59.989 40.741 0.00 0.00 0.00 4.02
2909 6358 7.126421 AGGAGTCTATGGTTCATGACATACTTT 59.874 37.037 0.00 0.00 30.35 2.66
2914 6363 4.964897 TGAGGAGTCTATGGTTCATGACAT 59.035 41.667 0.00 0.00 30.35 3.06
2925 6374 3.772025 AGTGAGGGTTTGAGGAGTCTATG 59.228 47.826 0.00 0.00 0.00 2.23
2936 6385 2.104111 TGGTGTACTCAGTGAGGGTTTG 59.896 50.000 23.79 0.00 33.35 2.93
2963 6412 4.220821 TCTTCTGCCTTCGTAGATGAAGTT 59.779 41.667 9.96 0.00 43.06 2.66
2975 6424 7.820648 TGTTGATATTTTCTTCTTCTGCCTTC 58.179 34.615 0.00 0.00 0.00 3.46
2988 6437 6.127647 TGCTTGTCCTCCATGTTGATATTTTC 60.128 38.462 0.00 0.00 0.00 2.29
3048 6497 6.456988 CGTTGAGTTTAGTCATGGCCTAATTC 60.457 42.308 3.32 0.00 0.00 2.17
3056 6505 7.359262 TGAAATACGTTGAGTTTAGTCATGG 57.641 36.000 0.00 0.00 0.00 3.66
3075 6524 5.421693 TGCTAACCATTGTAGGCATTGAAAT 59.578 36.000 0.00 0.00 30.62 2.17
3119 6568 5.121611 CCGTTGTAGTGATGCATTGTTCTTA 59.878 40.000 0.00 0.00 0.00 2.10
3141 6590 4.398044 ACATTTTTACCCTGATGCTTACCG 59.602 41.667 0.00 0.00 0.00 4.02
3156 6605 6.314152 CCAATGATGCATGCTCAACATTTTTA 59.686 34.615 20.33 0.00 37.35 1.52
3177 6627 7.014615 GTGAAGATTATTCATGCCTTACCCAAT 59.985 37.037 0.00 0.00 0.00 3.16
3189 6639 7.121611 TGACAACATGCAGTGAAGATTATTCAT 59.878 33.333 0.00 0.00 0.00 2.57
3195 6645 5.055642 CATGACAACATGCAGTGAAGATT 57.944 39.130 0.00 0.00 45.51 2.40


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

AutoCloner maintained by Alex Coulton.