Multiple sequence alignment - TraesCS4D01G243400

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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 TraesCS4D01G243400 chr4D 100.000 2369 0 0 1 2369 406200626 406202994 0.000000e+00 4375
1 TraesCS4D01G243400 chr4B 90.479 1712 114 16 1 1691 505497129 505498812 0.000000e+00 2213
2 TraesCS4D01G243400 chr4B 91.797 512 18 6 1705 2206 505498874 505499371 0.000000e+00 691
3 TraesCS4D01G243400 chr4B 81.757 148 7 12 2232 2360 505499365 505499511 3.220000e-19 106
4 TraesCS4D01G243400 chr4A 93.353 1038 38 15 682 1691 63813774 63814808 0.000000e+00 1506
5 TraesCS4D01G243400 chr4A 89.201 676 30 17 1705 2356 63814870 63815526 0.000000e+00 804
6 TraesCS4D01G243400 chr4A 89.308 477 46 3 1 474 63799719 63800193 5.640000e-166 593
7 TraesCS4D01G243400 chr4A 91.329 173 13 2 527 697 63800192 63800364 3.940000e-58 235
8 TraesCS4D01G243400 chr3B 85.042 361 49 4 140 496 794589470 794589829 1.730000e-96 363
9 TraesCS4D01G243400 chr3B 81.564 358 55 7 141 496 275659677 275660025 3.850000e-73 285
10 TraesCS4D01G243400 chr1D 83.889 360 53 3 141 496 67387180 67387538 2.920000e-89 339
11 TraesCS4D01G243400 chr1D 81.232 357 59 4 141 496 23394923 23395272 4.990000e-72 281
12 TraesCS4D01G243400 chr6B 83.380 361 54 5 140 496 146669562 146669920 1.760000e-86 329
13 TraesCS4D01G243400 chr7D 82.645 363 57 4 140 496 175443033 175442671 1.370000e-82 316
14 TraesCS4D01G243400 chr3D 83.008 359 50 9 140 496 192151866 192151517 4.920000e-82 315
15 TraesCS4D01G243400 chr5D 89.796 98 9 1 2114 2211 219452693 219452789 8.890000e-25 124


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 TraesCS4D01G243400 chr4D 406200626 406202994 2368 False 4375.000000 4375 100.0000 1 2369 1 chr4D.!!$F1 2368
1 TraesCS4D01G243400 chr4B 505497129 505499511 2382 False 1003.333333 2213 88.0110 1 2360 3 chr4B.!!$F1 2359
2 TraesCS4D01G243400 chr4A 63813774 63815526 1752 False 1155.000000 1506 91.2770 682 2356 2 chr4A.!!$F2 1674
3 TraesCS4D01G243400 chr4A 63799719 63800364 645 False 414.000000 593 90.3185 1 697 2 chr4A.!!$F1 696

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
20 21 0.323999 TCCTAAGTGGACGCCTGCTA 60.324 55.0 0.0 0.0 40.56 3.49 F
118 119 0.883833 GCCATCTGGACCACAACAAG 59.116 55.0 0.0 0.0 37.39 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1149 1195 0.827368 CCCTCTTCTTTCCTCCTCCG 59.173 60.0 0.0 0.0 0.00 4.63 R
1672 1718 0.955178 ACTCGTCAGTCAGGTCTGTG 59.045 55.0 0.0 0.0 36.85 3.66 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
20 21 0.323999 TCCTAAGTGGACGCCTGCTA 60.324 55.000 0.00 0.00 40.56 3.49
115 116 4.002797 GGCCATCTGGACCACAAC 57.997 61.111 0.00 0.00 37.19 3.32
118 119 0.883833 GCCATCTGGACCACAACAAG 59.116 55.000 0.00 0.00 37.39 3.16
197 199 2.441532 AGTGATGCATGCAGCCCC 60.442 61.111 31.30 21.66 44.83 5.80
212 214 3.785486 CAGCCCCTTTATTAAGCAAAGC 58.215 45.455 6.77 0.00 32.69 3.51
232 234 2.927014 GCGACCGAAAAGTCTGTGATCT 60.927 50.000 0.00 0.00 34.46 2.75
240 242 6.423905 CCGAAAAGTCTGTGATCTAGAACAAA 59.576 38.462 4.01 0.00 0.00 2.83
244 246 6.031751 AGTCTGTGATCTAGAACAAACTCC 57.968 41.667 4.01 0.00 0.00 3.85
247 249 5.544176 TCTGTGATCTAGAACAAACTCCCTT 59.456 40.000 4.01 0.00 0.00 3.95
302 308 0.928229 CCGGCGAAAATAGAACGAGG 59.072 55.000 9.30 0.00 0.00 4.63
362 368 2.236766 CCGGTTGTAGATATCCCGAGT 58.763 52.381 16.17 0.00 41.08 4.18
365 371 4.461781 CCGGTTGTAGATATCCCGAGTTAT 59.538 45.833 16.17 0.00 41.08 1.89
366 372 5.399858 CGGTTGTAGATATCCCGAGTTATG 58.600 45.833 10.76 0.00 41.08 1.90
369 375 7.577046 CGGTTGTAGATATCCCGAGTTATGATT 60.577 40.741 10.76 0.00 41.08 2.57
397 403 2.290071 CGGACAGACCCAGTAACCAAAT 60.290 50.000 0.00 0.00 34.64 2.32
400 406 1.468520 CAGACCCAGTAACCAAATGCG 59.531 52.381 0.00 0.00 0.00 4.73
415 421 2.046314 GCGCCCTAGCTTCCACAA 60.046 61.111 0.00 0.00 36.60 3.33
427 433 3.560068 AGCTTCCACAAAAGTGAGTAACG 59.440 43.478 0.00 0.00 0.00 3.18
432 438 3.623960 CCACAAAAGTGAGTAACGACCAA 59.376 43.478 0.00 0.00 0.00 3.67
442 448 4.158209 TGAGTAACGACCAAATACGGATCA 59.842 41.667 0.00 0.00 0.00 2.92
450 456 5.349270 CGACCAAATACGGATCAAAACAGTA 59.651 40.000 0.00 0.00 0.00 2.74
468 474 3.961408 CAGTAGCCCTGTAGATAACCAGT 59.039 47.826 0.00 0.00 36.37 4.00
497 503 7.878477 AAATCATGCAAGTTTGTCTGTTATG 57.122 32.000 0.00 0.00 0.00 1.90
501 507 4.548494 TGCAAGTTTGTCTGTTATGCATG 58.452 39.130 10.16 0.00 37.40 4.06
518 524 2.675889 GCATGCAACATCTTCAAAGGGG 60.676 50.000 14.21 0.00 0.00 4.79
566 572 1.661463 ATGGTTCAAGGAGGAGCTCA 58.339 50.000 17.19 0.00 31.08 4.26
576 582 4.657814 AGGAGGAGCTCAATTGGTTTAA 57.342 40.909 17.19 0.00 31.08 1.52
637 643 7.072263 AGATTGGGTTCAGAGATTCGATTAT 57.928 36.000 0.00 0.00 0.00 1.28
639 645 7.995488 AGATTGGGTTCAGAGATTCGATTATTT 59.005 33.333 0.00 0.00 0.00 1.40
755 781 6.699575 TTTTCTTTTAAAGCAGCAGAGTCT 57.300 33.333 0.00 0.00 0.00 3.24
813 847 8.918202 TTGACCAAGTTGTACAAAATATCTCT 57.082 30.769 10.51 0.00 0.00 3.10
869 903 1.535028 CTTGCCGCTAAATGACACACA 59.465 47.619 0.00 0.00 0.00 3.72
956 990 5.099042 AGAACTCCACATAACACCATACC 57.901 43.478 0.00 0.00 0.00 2.73
1181 1227 4.394712 GAGGGCGTGGTGGGTGAG 62.395 72.222 0.00 0.00 0.00 3.51
1392 1438 7.598278 AGCTCAAATTCCTAGATGTATAGTCG 58.402 38.462 0.00 0.00 0.00 4.18
1393 1439 6.309251 GCTCAAATTCCTAGATGTATAGTCGC 59.691 42.308 0.00 0.00 0.00 5.19
1497 1543 4.435253 CGTGCAAGACATGATTCTGAGTTC 60.435 45.833 0.00 0.00 37.49 3.01
1499 1545 5.049198 GTGCAAGACATGATTCTGAGTTCAA 60.049 40.000 0.00 0.00 0.00 2.69
1507 1553 4.847633 TGATTCTGAGTTCAAAAGTTGCG 58.152 39.130 0.00 0.00 0.00 4.85
1512 1558 3.271729 TGAGTTCAAAAGTTGCGTACCA 58.728 40.909 0.00 0.00 0.00 3.25
1533 1579 2.983229 TCAGATCTTGGAAGAAGCAGC 58.017 47.619 0.00 0.00 38.77 5.25
1614 1660 0.753262 ACTGATCGCGCCTATTCCTT 59.247 50.000 0.00 0.00 0.00 3.36
1695 1792 3.275143 CAGACCTGACTGACGAGTAGAT 58.725 50.000 0.00 0.00 39.94 1.98
1705 1802 6.121613 ACTGACGAGTAGATGCTAAACTAC 57.878 41.667 0.00 0.00 39.15 2.73
1707 1804 7.046652 ACTGACGAGTAGATGCTAAACTACTA 58.953 38.462 0.00 0.00 45.89 1.82
1708 1805 7.551974 ACTGACGAGTAGATGCTAAACTACTAA 59.448 37.037 0.00 0.00 45.89 2.24
1710 1807 8.396390 TGACGAGTAGATGCTAAACTACTAAAG 58.604 37.037 0.00 0.00 45.89 1.85
1711 1808 7.194962 ACGAGTAGATGCTAAACTACTAAAGC 58.805 38.462 0.00 0.00 45.89 3.51
1712 1809 6.357503 CGAGTAGATGCTAAACTACTAAAGCG 59.642 42.308 0.00 0.00 45.89 4.68
1715 1812 8.414778 AGTAGATGCTAAACTACTAAAGCGAAT 58.585 33.333 0.00 0.00 44.66 3.34
1727 1824 4.691216 ACTAAAGCGAATTGACAGAGTTCC 59.309 41.667 0.00 0.00 0.00 3.62
1730 1827 2.003301 GCGAATTGACAGAGTTCCTCC 58.997 52.381 0.00 0.00 0.00 4.30
1735 1832 0.487325 TGACAGAGTTCCTCCCTCCA 59.513 55.000 0.00 0.00 0.00 3.86
1748 1845 2.997315 CTCCACACTCCTGCCGGA 60.997 66.667 5.05 0.00 37.82 5.14
1764 1861 0.313987 CGGAAAACCTTGGTTCCAGC 59.686 55.000 5.43 0.00 43.02 4.85
1772 1869 1.407989 CCTTGGTTCCAGCAGAGGATC 60.408 57.143 2.12 0.00 37.56 3.36
1773 1870 0.250234 TTGGTTCCAGCAGAGGATCG 59.750 55.000 0.00 0.00 42.67 3.69
1774 1871 0.614697 TGGTTCCAGCAGAGGATCGA 60.615 55.000 0.00 0.00 42.67 3.59
1775 1872 0.179097 GGTTCCAGCAGAGGATCGAC 60.179 60.000 0.00 0.00 42.67 4.20
1776 1873 0.179097 GTTCCAGCAGAGGATCGACC 60.179 60.000 0.00 0.00 42.67 4.79
1777 1874 1.330655 TTCCAGCAGAGGATCGACCC 61.331 60.000 0.00 0.00 42.67 4.46
1778 1875 2.801631 CCAGCAGAGGATCGACCCC 61.802 68.421 0.00 0.00 42.67 4.95
1779 1876 2.444895 AGCAGAGGATCGACCCCC 60.445 66.667 0.00 0.00 42.67 5.40
1780 1877 2.764128 GCAGAGGATCGACCCCCA 60.764 66.667 0.00 0.00 42.67 4.96
1781 1878 3.095347 GCAGAGGATCGACCCCCAC 62.095 68.421 0.00 0.00 42.67 4.61
1782 1879 2.442272 AGAGGATCGACCCCCACG 60.442 66.667 0.00 0.00 42.67 4.94
1783 1880 4.222847 GAGGATCGACCCCCACGC 62.223 72.222 0.00 0.00 40.05 5.34
1784 1881 4.779733 AGGATCGACCCCCACGCT 62.780 66.667 0.00 0.00 40.05 5.07
1785 1882 4.222847 GGATCGACCCCCACGCTC 62.223 72.222 0.00 0.00 0.00 5.03
1935 2032 4.717313 TCCTGCTGCTGCTGCTGG 62.717 66.667 35.27 35.27 44.29 4.85
2190 2305 5.505173 AACAACATCACTGGCTATAATGC 57.495 39.130 0.00 0.00 0.00 3.56
2220 2335 4.503910 TGAAAATGTGTAGGTCTGGATCG 58.496 43.478 0.00 0.00 0.00 3.69
2232 2347 1.136110 TCTGGATCGCAAGCAATACGA 59.864 47.619 0.00 0.00 40.53 3.43
2265 2380 7.541783 TGTGTTCAACTCATTCTGAAACTTTTG 59.458 33.333 0.00 0.00 33.52 2.44
2267 2385 7.754924 TGTTCAACTCATTCTGAAACTTTTGTC 59.245 33.333 0.00 0.00 33.52 3.18
2306 2440 5.006552 GTCTGAAACTAGAGATTCATGCAGC 59.993 44.000 0.00 0.00 36.48 5.25
2308 2442 4.080695 TGAAACTAGAGATTCATGCAGCCT 60.081 41.667 0.00 0.00 32.92 4.58
2356 2490 5.582269 GTGTGTCTGAACATGCACTGTATAT 59.418 40.000 0.00 0.00 36.98 0.86
2357 2491 6.756542 GTGTGTCTGAACATGCACTGTATATA 59.243 38.462 0.00 0.00 36.98 0.86
2358 2492 7.439356 GTGTGTCTGAACATGCACTGTATATAT 59.561 37.037 0.00 0.00 36.98 0.86
2359 2493 8.637986 TGTGTCTGAACATGCACTGTATATATA 58.362 33.333 0.00 0.00 36.98 0.86
2360 2494 9.133627 GTGTCTGAACATGCACTGTATATATAG 57.866 37.037 5.04 5.04 36.98 1.31
2361 2495 8.860088 TGTCTGAACATGCACTGTATATATAGT 58.140 33.333 6.33 6.33 36.98 2.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 1.009829 CTTCATTAGCAGGCGTCCAC 58.990 55.000 0.00 0.00 0.00 4.02
17 18 3.696051 TCAACCTGCAATCCTTCATTAGC 59.304 43.478 0.00 0.00 0.00 3.09
20 21 5.622914 CGATTTCAACCTGCAATCCTTCATT 60.623 40.000 0.00 0.00 28.31 2.57
115 116 4.580167 TCCCTTTGAAGATGTTGTCACTTG 59.420 41.667 0.00 0.00 0.00 3.16
118 119 5.712152 AATCCCTTTGAAGATGTTGTCAC 57.288 39.130 0.00 0.00 0.00 3.67
155 156 2.070039 CAGAGGCCGGGGTAATCCA 61.070 63.158 2.18 0.00 37.22 3.41
197 199 4.593597 TCGGTCGCTTTGCTTAATAAAG 57.406 40.909 7.59 7.59 38.00 1.85
212 214 2.947852 AGATCACAGACTTTTCGGTCG 58.052 47.619 0.00 0.00 40.76 4.79
232 234 4.223032 CCAGCTCTAAGGGAGTTTGTTCTA 59.777 45.833 0.00 0.00 43.62 2.10
240 242 2.930109 TTCTCCAGCTCTAAGGGAGT 57.070 50.000 14.81 0.00 46.61 3.85
270 276 2.483288 GCCGGTTGTGGCGTATTG 59.517 61.111 1.90 0.00 46.75 1.90
302 308 3.963428 ATAGGACAGGTGTTGAGTCAC 57.037 47.619 0.00 0.00 37.57 3.67
362 368 5.588648 GGGTCTGTCCGATGAAAAATCATAA 59.411 40.000 0.00 0.00 37.00 1.90
365 371 3.244735 TGGGTCTGTCCGATGAAAAATCA 60.245 43.478 0.00 0.00 37.00 2.57
366 372 3.343617 TGGGTCTGTCCGATGAAAAATC 58.656 45.455 0.00 0.00 37.00 2.17
369 375 1.697432 ACTGGGTCTGTCCGATGAAAA 59.303 47.619 0.00 0.00 37.00 2.29
372 378 1.822990 GTTACTGGGTCTGTCCGATGA 59.177 52.381 0.00 0.00 37.00 2.92
397 403 2.404566 TTTGTGGAAGCTAGGGCGCA 62.405 55.000 10.83 0.00 44.37 6.09
400 406 1.541588 CACTTTTGTGGAAGCTAGGGC 59.458 52.381 0.00 0.00 46.16 5.19
415 421 4.687483 CCGTATTTGGTCGTTACTCACTTT 59.313 41.667 0.00 0.00 0.00 2.66
427 433 5.622770 ACTGTTTTGATCCGTATTTGGTC 57.377 39.130 0.00 0.00 0.00 4.02
432 438 4.080526 AGGGCTACTGTTTTGATCCGTATT 60.081 41.667 0.00 0.00 0.00 1.89
450 456 6.382919 TTTTTACTGGTTATCTACAGGGCT 57.617 37.500 0.00 0.00 39.00 5.19
477 483 4.548494 TGCATAACAGACAAACTTGCATG 58.452 39.130 0.00 0.00 34.86 4.06
480 486 3.365820 GCATGCATAACAGACAAACTTGC 59.634 43.478 14.21 0.00 31.57 4.01
497 503 2.613691 CCCTTTGAAGATGTTGCATGC 58.386 47.619 11.82 11.82 0.00 4.06
501 507 2.029918 GTCACCCCTTTGAAGATGTTGC 60.030 50.000 0.00 0.00 0.00 4.17
518 524 0.106149 CGGTATAGGCTTGGGGTCAC 59.894 60.000 0.00 0.00 0.00 3.67
531 537 6.879276 TGAACCATTTTTGACAACGGTATA 57.121 33.333 0.00 0.00 0.00 1.47
566 572 7.280205 CCTCGTAGCTCTGTATTTAAACCAATT 59.720 37.037 0.00 0.00 0.00 2.32
576 582 5.401531 TTGTTTCCTCGTAGCTCTGTATT 57.598 39.130 0.00 0.00 0.00 1.89
637 643 6.119240 ACAAGTGAGAGAATCCATCTGAAA 57.881 37.500 0.00 0.00 38.96 2.69
639 645 6.608808 TCATACAAGTGAGAGAATCCATCTGA 59.391 38.462 0.00 0.00 38.96 3.27
704 723 6.256757 AGACAAAAGAGAAGAGTTCAACGAAG 59.743 38.462 0.00 0.00 0.00 3.79
736 755 4.225208 GCAAGACTCTGCTGCTTTAAAAG 58.775 43.478 0.00 0.00 39.34 2.27
748 774 6.377327 TTTTAAGGAAACAGCAAGACTCTG 57.623 37.500 0.00 0.00 37.56 3.35
813 847 2.158900 GCCCAAGCAAGCTCATACTCTA 60.159 50.000 0.00 0.00 39.53 2.43
869 903 2.057922 AGGGAAGACAGTGACAACCAT 58.942 47.619 0.00 0.00 0.00 3.55
949 983 2.119495 GAGGTGTGATCAGGGTATGGT 58.881 52.381 0.00 0.00 0.00 3.55
950 984 1.417890 GGAGGTGTGATCAGGGTATGG 59.582 57.143 0.00 0.00 0.00 2.74
952 986 2.293184 ACTGGAGGTGTGATCAGGGTAT 60.293 50.000 0.00 0.00 0.00 2.73
953 987 1.078823 ACTGGAGGTGTGATCAGGGTA 59.921 52.381 0.00 0.00 0.00 3.69
955 989 1.482593 GTACTGGAGGTGTGATCAGGG 59.517 57.143 0.00 0.00 0.00 4.45
956 990 2.428890 GAGTACTGGAGGTGTGATCAGG 59.571 54.545 0.00 0.00 0.00 3.86
1074 1120 2.134933 GGAGGGTCTTCGCCTAGGG 61.135 68.421 11.72 0.44 0.00 3.53
1149 1195 0.827368 CCCTCTTCTTTCCTCCTCCG 59.173 60.000 0.00 0.00 0.00 4.63
1392 1438 2.535574 GCTTTGTTGGCGCTAAATATGC 59.464 45.455 8.12 9.21 0.00 3.14
1393 1439 3.768406 TGCTTTGTTGGCGCTAAATATG 58.232 40.909 8.12 2.93 0.00 1.78
1432 1478 6.800543 TCATCTAGAGTGATGAACTACAAGC 58.199 40.000 0.00 0.00 46.60 4.01
1469 1515 3.681897 AGAATCATGTCTTGCACGAGAAC 59.318 43.478 0.00 0.00 0.00 3.01
1497 1543 4.393062 AGATCTGATGGTACGCAACTTTTG 59.607 41.667 0.00 0.00 0.00 2.44
1499 1545 4.207891 AGATCTGATGGTACGCAACTTT 57.792 40.909 0.00 0.00 0.00 2.66
1507 1553 4.813697 GCTTCTTCCAAGATCTGATGGTAC 59.186 45.833 12.27 0.00 37.94 3.34
1512 1558 3.054582 TGCTGCTTCTTCCAAGATCTGAT 60.055 43.478 0.00 0.00 34.49 2.90
1533 1579 8.231837 CCTGAGATTAATTGGCAATTTTGTTTG 58.768 33.333 28.56 14.12 32.38 2.93
1570 1616 3.531538 AGGTGTATGTAAGGCGAATGTG 58.468 45.455 0.00 0.00 0.00 3.21
1571 1617 3.451178 AGAGGTGTATGTAAGGCGAATGT 59.549 43.478 0.00 0.00 0.00 2.71
1614 1660 3.720949 ACTTTGCGTAGTACAGTGTCA 57.279 42.857 0.00 0.00 0.00 3.58
1672 1718 0.955178 ACTCGTCAGTCAGGTCTGTG 59.045 55.000 0.00 0.00 36.85 3.66
1695 1792 6.647481 TGTCAATTCGCTTTAGTAGTTTAGCA 59.353 34.615 0.00 0.00 33.29 3.49
1705 1802 4.932200 AGGAACTCTGTCAATTCGCTTTAG 59.068 41.667 0.00 0.00 0.00 1.85
1706 1803 4.894784 AGGAACTCTGTCAATTCGCTTTA 58.105 39.130 0.00 0.00 0.00 1.85
1707 1804 3.744660 AGGAACTCTGTCAATTCGCTTT 58.255 40.909 0.00 0.00 0.00 3.51
1708 1805 3.409026 AGGAACTCTGTCAATTCGCTT 57.591 42.857 0.00 0.00 0.00 4.68
1727 1824 2.664081 GGCAGGAGTGTGGAGGGAG 61.664 68.421 0.00 0.00 0.00 4.30
1730 1827 4.087892 CCGGCAGGAGTGTGGAGG 62.088 72.222 0.00 0.00 41.02 4.30
1748 1845 2.310538 CTCTGCTGGAACCAAGGTTTT 58.689 47.619 5.87 0.00 38.60 2.43
1764 1861 2.786495 CGTGGGGGTCGATCCTCTG 61.786 68.421 17.44 4.40 36.78 3.35
1773 1870 4.436998 CTGACGAGCGTGGGGGTC 62.437 72.222 0.00 0.00 39.80 4.46
2024 2130 1.756538 CCTTCAAATCCCATTTCCCCG 59.243 52.381 0.00 0.00 0.00 5.73
2190 2305 5.639506 AGACCTACACATTTTCAGATGTTCG 59.360 40.000 0.00 0.00 38.15 3.95
2220 2335 2.030274 ACACCCTTTTCGTATTGCTTGC 60.030 45.455 0.00 0.00 0.00 4.01
2232 2347 4.956075 AGAATGAGTTGAACACACCCTTTT 59.044 37.500 0.00 0.00 0.00 2.27
2265 2380 6.910536 TTCAGACTGAGTTTCTCTTTTGAC 57.089 37.500 5.10 0.00 0.00 3.18
2267 2385 7.313951 AGTTTCAGACTGAGTTTCTCTTTTG 57.686 36.000 5.10 0.00 37.17 2.44
2272 2390 7.209471 TCTCTAGTTTCAGACTGAGTTTCTC 57.791 40.000 5.10 0.00 39.48 2.87
2273 2391 7.775053 ATCTCTAGTTTCAGACTGAGTTTCT 57.225 36.000 5.10 5.81 39.48 2.52
2274 2392 8.085296 TGAATCTCTAGTTTCAGACTGAGTTTC 58.915 37.037 5.10 4.37 39.28 2.78
2306 2440 6.873076 TGCTTTGCAGTTTTATTTGGAATAGG 59.127 34.615 0.00 0.00 33.32 2.57


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

AutoCloner maintained by Alex Coulton.