Multiple sequence alignment - TraesCS5A01G283000

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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 TraesCS5A01G283000 chr5A 100.000 2833 0 0 1 2833 491382148 491379316 0.000000e+00 5232.0
1 TraesCS5A01G283000 chr5B 93.779 1913 91 16 1 1910 466996062 466994175 0.000000e+00 2848.0
2 TraesCS5A01G283000 chr5B 86.806 144 15 2 2086 2228 466994032 466993892 1.050000e-34 158.0
3 TraesCS5A01G283000 chr5B 78.836 189 29 9 2457 2636 466992906 466992720 1.780000e-22 117.0
4 TraesCS5A01G283000 chr5B 82.979 94 8 4 2747 2832 689103394 689103487 8.410000e-11 78.7
5 TraesCS5A01G283000 chr5B 85.000 80 6 1 2745 2824 681824143 681824216 3.030000e-10 76.8
6 TraesCS5A01G283000 chr5D 94.595 999 29 12 818 1816 388347579 388346606 0.000000e+00 1522.0
7 TraesCS5A01G283000 chr5D 86.475 976 102 18 1883 2833 388343649 388342679 0.000000e+00 1044.0
8 TraesCS5A01G283000 chr5D 84.680 359 46 5 455 808 388347995 388347641 1.620000e-92 350.0
9 TraesCS5A01G283000 chr5D 96.512 86 2 1 1807 1891 388345652 388345567 1.060000e-29 141.0
10 TraesCS5A01G283000 chr4D 87.342 79 7 3 2750 2825 287544088 287544166 1.400000e-13 87.9
11 TraesCS5A01G283000 chr4D 83.516 91 7 2 2746 2828 70112953 70112863 8.410000e-11 78.7
12 TraesCS5A01G283000 chr4D 81.522 92 9 1 2746 2829 23978731 23978640 5.060000e-08 69.4
13 TraesCS5A01G283000 chr6B 82.759 87 7 4 2747 2825 20393346 20393432 1.410000e-08 71.3
14 TraesCS5A01G283000 chr6A 82.759 87 7 2 2747 2825 48554688 48554774 1.410000e-08 71.3
15 TraesCS5A01G283000 chr3B 81.818 88 8 5 2747 2826 766989725 766989812 1.820000e-07 67.6
16 TraesCS5A01G283000 chr3A 81.395 86 13 1 2745 2830 168836750 168836668 1.820000e-07 67.6


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 TraesCS5A01G283000 chr5A 491379316 491382148 2832 True 5232.00 5232 100.000000 1 2833 1 chr5A.!!$R1 2832
1 TraesCS5A01G283000 chr5B 466992720 466996062 3342 True 1041.00 2848 86.473667 1 2636 3 chr5B.!!$R1 2635
2 TraesCS5A01G283000 chr5D 388342679 388347995 5316 True 764.25 1522 90.565500 455 2833 4 chr5D.!!$R1 2378

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
397 398 0.324645 GTCTTGGCATCCCCCAATGT 60.325 55.0 0.0 0.0 43.51 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2278 5460 0.034756 TTCGCCTTGTTGCTGCTCTA 59.965 50.0 0.0 0.0 0.0 2.43 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
27 28 3.851955 GCAGCATATGGGCAGCTT 58.148 55.556 4.56 0.00 42.30 3.74
49 50 0.907704 ACATGCTAGGTGGGTTCGGA 60.908 55.000 0.00 0.00 0.00 4.55
95 96 5.053978 AGACTCATTTGGGAAACTCAAGT 57.946 39.130 0.00 0.00 0.00 3.16
121 122 3.013921 GTTGAAGAAGTGACAACCACCA 58.986 45.455 0.00 0.00 46.87 4.17
127 128 1.961277 GTGACAACCACCAGAGCCG 60.961 63.158 0.00 0.00 39.86 5.52
174 175 2.002586 CTCGTGCGAGTTCCAAATGAT 58.997 47.619 12.87 0.00 37.47 2.45
175 176 2.416547 CTCGTGCGAGTTCCAAATGATT 59.583 45.455 12.87 0.00 37.47 2.57
186 187 7.108841 AGTTCCAAATGATTGATTCTCATGG 57.891 36.000 0.00 0.00 38.94 3.66
194 195 7.987750 ATGATTGATTCTCATGGAAGATCTG 57.012 36.000 0.00 0.00 37.36 2.90
199 200 3.815856 TCTCATGGAAGATCTGAGTGC 57.184 47.619 0.00 0.00 38.05 4.40
238 239 2.760374 GTGAAGGAGGAACAGACACTG 58.240 52.381 0.00 0.00 37.52 3.66
249 250 0.610687 CAGACACTGGGAGGGACTTC 59.389 60.000 0.00 0.00 41.55 3.01
253 254 1.920835 ACTGGGAGGGACTTCAGCC 60.921 63.158 0.00 0.00 41.55 4.85
256 257 2.726351 GGGAGGGACTTCAGCCTCG 61.726 68.421 0.00 0.00 41.55 4.63
315 316 2.146342 GGCCATGATGTAGGTGAATCG 58.854 52.381 0.00 0.00 0.00 3.34
317 318 2.808202 GCCATGATGTAGGTGAATCGCT 60.808 50.000 0.00 0.00 0.00 4.93
387 388 1.899814 TCGTGTAGGAAGTCTTGGCAT 59.100 47.619 0.00 0.00 0.00 4.40
397 398 0.324645 GTCTTGGCATCCCCCAATGT 60.325 55.000 0.00 0.00 43.51 2.71
410 411 1.162698 CCAATGTGAGTCAGGCAGTG 58.837 55.000 0.00 0.00 0.00 3.66
530 532 4.980805 GAGCGTGCGGGTTCACCA 62.981 66.667 0.00 0.00 40.22 4.17
727 733 7.383687 TCCTCGTGAATTATGTAACTTCAAGT 58.616 34.615 0.00 0.00 32.52 3.16
812 818 6.732896 AACCACCCTGAACTATACTAGATG 57.267 41.667 0.00 0.00 0.00 2.90
954 1012 7.329746 ACTGGCCTAAATTGGATATAGCTAA 57.670 36.000 3.32 0.00 0.00 3.09
1004 1062 6.652205 ACCTACCTCCAAATCCAAAAGATA 57.348 37.500 0.00 0.00 33.66 1.98
1236 1294 3.681789 GCTCGTCAGCTAGTTCGC 58.318 61.111 0.00 0.00 43.09 4.70
1248 1306 1.338337 CTAGTTCGCCGATCATGGACT 59.662 52.381 0.00 0.00 0.00 3.85
1659 1717 0.105964 ATGCGCCGAAACCTATGCTA 59.894 50.000 4.18 0.00 0.00 3.49
1704 1762 2.283529 GGGAGCGTTCCTGGACTGA 61.284 63.158 18.44 0.00 43.49 3.41
1916 4871 4.864916 AAAATCGACCAACTCATCATCG 57.135 40.909 0.00 0.00 0.00 3.84
1924 4879 4.637276 ACCAACTCATCATCGTTACAACA 58.363 39.130 0.00 0.00 0.00 3.33
1932 4910 7.817478 ACTCATCATCGTTACAACAGTGAAATA 59.183 33.333 0.00 0.00 0.00 1.40
1939 4917 5.400188 CGTTACAACAGTGAAATAGACGACA 59.600 40.000 0.00 0.00 0.00 4.35
1995 4973 9.936759 TCATCTTTACAACAATATCTGTGTGTA 57.063 29.630 0.00 0.00 38.67 2.90
1996 4974 9.973246 CATCTTTACAACAATATCTGTGTGTAC 57.027 33.333 0.00 0.00 38.67 2.90
2003 4981 7.492669 ACAACAATATCTGTGTGTACTATGAGC 59.507 37.037 0.00 0.00 38.67 4.26
2004 4982 7.112452 ACAATATCTGTGTGTACTATGAGCA 57.888 36.000 0.00 0.00 36.69 4.26
2021 4999 2.125106 AAAGCTCGATGTCGCCCC 60.125 61.111 0.00 0.00 39.60 5.80
2023 5001 1.327690 AAAGCTCGATGTCGCCCCTA 61.328 55.000 0.00 0.00 39.60 3.53
2025 5003 1.591863 GCTCGATGTCGCCCCTAAC 60.592 63.158 0.00 0.00 39.60 2.34
2029 5007 1.672854 CGATGTCGCCCCTAACCTCA 61.673 60.000 0.00 0.00 0.00 3.86
2045 5023 3.845860 ACCTCAGAAACACTACCAGAGA 58.154 45.455 0.00 0.00 0.00 3.10
2049 5027 4.470602 TCAGAAACACTACCAGAGACAGA 58.529 43.478 0.00 0.00 0.00 3.41
2063 5041 5.207768 CAGAGACAGAAAAATGTTGTTCCG 58.792 41.667 0.00 0.00 32.25 4.30
2069 5047 6.811954 ACAGAAAAATGTTGTTCCGGTAAAT 58.188 32.000 0.00 0.00 0.00 1.40
2085 5063 5.068460 CCGGTAAATATTGGAAATGGCTGAA 59.932 40.000 0.00 0.00 0.00 3.02
2086 5064 6.239289 CCGGTAAATATTGGAAATGGCTGAAT 60.239 38.462 0.00 0.00 0.00 2.57
2087 5065 7.040062 CCGGTAAATATTGGAAATGGCTGAATA 60.040 37.037 0.00 0.00 0.00 1.75
2088 5066 8.522830 CGGTAAATATTGGAAATGGCTGAATAT 58.477 33.333 0.00 0.00 0.00 1.28
2156 5149 1.004862 GGCCTAACCTCAAAAGCTCCT 59.995 52.381 0.00 0.00 34.51 3.69
2160 5153 2.755952 AACCTCAAAAGCTCCTTGGT 57.244 45.000 8.26 1.54 0.00 3.67
2162 5155 1.251251 CCTCAAAAGCTCCTTGGTGG 58.749 55.000 8.26 7.49 37.10 4.61
2164 5157 0.106268 TCAAAAGCTCCTTGGTGGCA 60.106 50.000 8.26 0.00 35.26 4.92
2187 5180 5.164620 TCAAAGTTGGCTAGATGTCATCA 57.835 39.130 15.20 0.85 0.00 3.07
2211 5204 6.538742 CAGTTGAAGAAGGAAACTAAGACACA 59.461 38.462 0.00 0.00 42.68 3.72
2221 5214 1.270147 ACTAAGACACAAGGCACCGTC 60.270 52.381 0.00 0.00 0.00 4.79
2225 5218 3.041940 CACAAGGCACCGTCGTCC 61.042 66.667 0.00 0.00 0.00 4.79
2228 5221 4.309950 AAGGCACCGTCGTCCACC 62.310 66.667 0.00 0.00 0.00 4.61
2238 5420 1.608542 CGTCGTCCACCCCATTTGTAA 60.609 52.381 0.00 0.00 0.00 2.41
2263 5445 2.672961 TTCGAAGACCACCTGCATAG 57.327 50.000 0.00 0.00 34.32 2.23
2277 5459 1.089920 GCATAGCACAACCACTCCAG 58.910 55.000 0.00 0.00 0.00 3.86
2278 5460 1.611673 GCATAGCACAACCACTCCAGT 60.612 52.381 0.00 0.00 0.00 4.00
2297 5479 0.034756 TAGAGCAGCAACAAGGCGAA 59.965 50.000 0.00 0.00 39.27 4.70
2302 5484 2.909965 GCAACAAGGCGAACCCCA 60.910 61.111 0.00 0.00 36.11 4.96
2328 5510 2.552743 CCTCTATGTCGCCGATGAAGTA 59.447 50.000 0.00 0.00 0.00 2.24
2332 5514 1.141019 GTCGCCGATGAAGTAGCCA 59.859 57.895 0.00 0.00 0.00 4.75
2335 5517 1.148157 CGCCGATGAAGTAGCCACTG 61.148 60.000 0.00 0.00 34.36 3.66
2343 5525 3.617284 TGAAGTAGCCACTGACGAGATA 58.383 45.455 0.00 0.00 34.36 1.98
2370 5552 2.630580 GGGGCCAAGTAAACATTGTTCA 59.369 45.455 4.39 0.00 0.00 3.18
2374 5556 5.337491 GGGCCAAGTAAACATTGTTCATGAT 60.337 40.000 4.39 0.00 36.24 2.45
2403 5585 2.035469 TGCCATCGCCACCACAAT 59.965 55.556 0.00 0.00 0.00 2.71
2454 6226 8.389366 TCTAAACCTAAGAGACCTAACTACACT 58.611 37.037 0.00 0.00 0.00 3.55
2467 6239 5.470098 CCTAACTACACTGCAACACAAATCT 59.530 40.000 0.00 0.00 0.00 2.40
2497 6270 3.307906 CCTCCCACCGTCGGAACA 61.308 66.667 20.51 0.00 0.00 3.18
2541 6314 0.531200 CCTAGTCGGTTGGGAGTGAC 59.469 60.000 0.00 0.00 0.00 3.67
2565 6338 4.040339 TGAAGCAGTGACAATTGTCTAGGA 59.960 41.667 32.57 14.89 44.99 2.94
2569 6342 4.095483 GCAGTGACAATTGTCTAGGATTGG 59.905 45.833 32.57 17.11 44.99 3.16
2585 6366 0.104356 TTGGGAGGGAGGTGGTTGTA 60.104 55.000 0.00 0.00 0.00 2.41
2666 6447 0.813184 CTTTGCTCCGTGGCATCATT 59.187 50.000 0.00 0.00 42.09 2.57
2690 6471 4.314961 CAAACAACTTTAATGAAGGGGCC 58.685 43.478 0.00 0.00 39.79 5.80
2707 6488 2.070262 GCCTGAGCCAAATTCACAAC 57.930 50.000 0.00 0.00 0.00 3.32
2717 6498 3.305608 CCAAATTCACAACAGAGAAGCCC 60.306 47.826 0.00 0.00 0.00 5.19
2725 6506 1.377994 CAGAGAAGCCCTGCAACCT 59.622 57.895 0.00 0.00 0.00 3.50
2732 6513 1.823899 GCCCTGCAACCTTATCCCG 60.824 63.158 0.00 0.00 0.00 5.14
2740 6521 0.394352 AACCTTATCCCGCTTGCCTG 60.394 55.000 0.00 0.00 0.00 4.85
2760 6541 1.479021 GCACTATACTCCCTCCGTCCT 60.479 57.143 0.00 0.00 0.00 3.85
2763 6544 3.327172 CACTATACTCCCTCCGTCCTAGA 59.673 52.174 0.00 0.00 0.00 2.43
2764 6545 3.979347 ACTATACTCCCTCCGTCCTAGAA 59.021 47.826 0.00 0.00 0.00 2.10
2772 6553 6.068735 ACTCCCTCCGTCCTAGAATATATGAT 60.069 42.308 0.00 0.00 0.00 2.45
2820 6601 4.347000 TCTTATATTTTGGGACGGAGGGAG 59.653 45.833 0.00 0.00 0.00 4.30
2827 6608 3.119009 TGGGACGGAGGGAGTATAAAA 57.881 47.619 0.00 0.00 0.00 1.52
2828 6609 2.767960 TGGGACGGAGGGAGTATAAAAC 59.232 50.000 0.00 0.00 0.00 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 1.338674 CGAACCCACCTAGCATGTTCA 60.339 52.381 0.00 0.00 36.07 3.18
49 50 0.745845 GCATGAGCAGATTGTCCCGT 60.746 55.000 0.00 0.00 41.58 5.28
118 119 2.982130 GTGGATGTCGGCTCTGGT 59.018 61.111 0.00 0.00 0.00 4.00
119 120 2.202797 CGTGGATGTCGGCTCTGG 60.203 66.667 0.00 0.00 0.00 3.86
127 128 4.166011 GCGCTTGCCGTGGATGTC 62.166 66.667 0.00 0.00 39.71 3.06
232 233 0.610687 CTGAAGTCCCTCCCAGTGTC 59.389 60.000 0.00 0.00 0.00 3.67
238 239 2.726351 CGAGGCTGAAGTCCCTCCC 61.726 68.421 0.00 0.00 43.78 4.30
315 316 1.075659 GCCATCCCTCCCCATAAGC 59.924 63.158 0.00 0.00 0.00 3.09
317 318 1.006766 TGGCCATCCCTCCCCATAA 59.993 57.895 0.00 0.00 0.00 1.90
354 355 3.074412 CCTACACGATTGTCTTTGCCTT 58.926 45.455 0.00 0.00 37.15 4.35
362 363 3.927142 CCAAGACTTCCTACACGATTGTC 59.073 47.826 0.00 0.00 37.15 3.18
387 388 1.852157 GCCTGACTCACATTGGGGGA 61.852 60.000 0.00 0.00 0.00 4.81
397 398 0.394192 CAACCTCACTGCCTGACTCA 59.606 55.000 0.00 0.00 0.00 3.41
410 411 0.394899 CCTTGGCCCATCTCAACCTC 60.395 60.000 0.00 0.00 0.00 3.85
530 532 1.787112 AGGAGCTCCCTCAGGACTT 59.213 57.895 29.54 4.11 43.31 3.01
551 553 4.074970 AGGGTCTTTGTTGTGATGATGAC 58.925 43.478 0.00 0.00 0.00 3.06
622 624 1.426598 CCCACTATGAGCCCATGGAAT 59.573 52.381 15.22 0.00 35.51 3.01
727 733 8.617809 GTTGTAAACCATCTCAAAACTGACTAA 58.382 33.333 0.00 0.00 42.21 2.24
812 818 4.689612 TCCCAGTAGCTTTACCATCATC 57.310 45.455 0.00 0.00 0.00 2.92
874 932 8.053355 TGTACTAAGTCTCTGGTGATATCAAGA 58.947 37.037 7.07 6.95 0.00 3.02
1110 1168 2.202743 ATCATCGTGTCGTGGGCG 60.203 61.111 0.00 0.00 39.92 6.13
1231 1289 1.369625 AAAGTCCATGATCGGCGAAC 58.630 50.000 15.93 12.91 0.00 3.95
1236 1294 3.001330 GCGTAGAAAAAGTCCATGATCGG 59.999 47.826 0.00 0.00 0.00 4.18
1248 1306 2.635915 TGAGAAGGAGGGCGTAGAAAAA 59.364 45.455 0.00 0.00 0.00 1.94
1916 4871 6.758593 TGTCGTCTATTTCACTGTTGTAAC 57.241 37.500 0.00 0.00 0.00 2.50
1924 4879 6.969828 GAGGAAAATGTCGTCTATTTCACT 57.030 37.500 10.73 7.00 38.00 3.41
1939 4917 2.569404 AGCTTCGAGGTCAGAGGAAAAT 59.431 45.455 0.00 0.00 0.00 1.82
1987 4965 4.248859 AGCTTTGCTCATAGTACACACAG 58.751 43.478 0.00 0.00 30.62 3.66
2001 4979 2.103042 GGCGACATCGAGCTTTGCT 61.103 57.895 5.26 0.00 43.88 3.91
2003 4981 2.464459 GGGGCGACATCGAGCTTTG 61.464 63.158 5.26 0.00 43.02 2.77
2004 4982 1.327690 TAGGGGCGACATCGAGCTTT 61.328 55.000 5.26 0.00 43.02 3.51
2021 4999 5.477291 TCTCTGGTAGTGTTTCTGAGGTTAG 59.523 44.000 0.00 0.00 0.00 2.34
2023 5001 4.039366 GTCTCTGGTAGTGTTTCTGAGGTT 59.961 45.833 0.00 0.00 0.00 3.50
2025 5003 3.574396 TGTCTCTGGTAGTGTTTCTGAGG 59.426 47.826 0.00 0.00 0.00 3.86
2029 5007 5.871396 TTTCTGTCTCTGGTAGTGTTTCT 57.129 39.130 0.00 0.00 0.00 2.52
2045 5023 5.838531 TTACCGGAACAACATTTTTCTGT 57.161 34.783 9.46 0.00 0.00 3.41
2049 5027 8.368668 TCCAATATTTACCGGAACAACATTTTT 58.631 29.630 9.46 0.00 0.00 1.94
2069 5047 6.728089 TGCAATATTCAGCCATTTCCAATA 57.272 33.333 0.00 0.00 0.00 1.90
2085 5063 2.290641 TGTCGTCCAACCCTTGCAATAT 60.291 45.455 0.00 0.00 0.00 1.28
2086 5064 1.072489 TGTCGTCCAACCCTTGCAATA 59.928 47.619 0.00 0.00 0.00 1.90
2087 5065 0.179004 TGTCGTCCAACCCTTGCAAT 60.179 50.000 0.00 0.00 0.00 3.56
2088 5066 0.394488 TTGTCGTCCAACCCTTGCAA 60.394 50.000 0.00 0.00 0.00 4.08
2089 5067 1.098712 GTTGTCGTCCAACCCTTGCA 61.099 55.000 8.81 0.00 46.39 4.08
2156 5149 0.392336 GCCAACTTTGATGCCACCAA 59.608 50.000 0.00 0.00 0.00 3.67
2160 5153 2.877097 TCTAGCCAACTTTGATGCCA 57.123 45.000 0.00 0.00 0.00 4.92
2162 5155 3.691118 TGACATCTAGCCAACTTTGATGC 59.309 43.478 0.00 0.00 38.31 3.91
2164 5157 5.748402 TGATGACATCTAGCCAACTTTGAT 58.252 37.500 16.25 0.00 0.00 2.57
2187 5180 6.650120 TGTGTCTTAGTTTCCTTCTTCAACT 58.350 36.000 0.00 0.00 35.00 3.16
2211 5204 4.309950 GGTGGACGACGGTGCCTT 62.310 66.667 0.00 0.00 32.82 4.35
2221 5214 1.198178 CGTTTACAAATGGGGTGGACG 59.802 52.381 0.00 0.00 0.00 4.79
2225 5218 4.392445 TCGAATACGTTTACAAATGGGGTG 59.608 41.667 0.00 0.00 40.69 4.61
2228 5221 6.245724 GTCTTCGAATACGTTTACAAATGGG 58.754 40.000 0.00 0.00 40.69 4.00
2238 5420 2.929592 GCAGGTGGTCTTCGAATACGTT 60.930 50.000 0.00 0.00 40.69 3.99
2263 5445 1.941668 GCTCTACTGGAGTGGTTGTGC 60.942 57.143 0.00 0.00 43.62 4.57
2277 5459 0.670546 TCGCCTTGTTGCTGCTCTAC 60.671 55.000 0.00 0.00 0.00 2.59
2278 5460 0.034756 TTCGCCTTGTTGCTGCTCTA 59.965 50.000 0.00 0.00 0.00 2.43
2297 5479 1.807814 GACATAGAGGATGGTGGGGT 58.192 55.000 0.00 0.00 40.18 4.95
2302 5484 0.467474 TCGGCGACATAGAGGATGGT 60.467 55.000 4.99 0.00 40.18 3.55
2328 5510 1.341089 TGGTCTATCTCGTCAGTGGCT 60.341 52.381 0.00 0.00 0.00 4.75
2332 5514 1.410365 CCCCTGGTCTATCTCGTCAGT 60.410 57.143 0.00 0.00 0.00 3.41
2335 5517 1.465200 GGCCCCTGGTCTATCTCGTC 61.465 65.000 0.00 0.00 0.00 4.20
2343 5525 0.404426 GTTTACTTGGCCCCTGGTCT 59.596 55.000 0.00 0.00 0.00 3.85
2370 5552 2.415825 GCAGTGCCATGCAGATCAT 58.584 52.632 2.85 0.00 45.77 2.45
2403 5585 0.970640 TTTGGTTCCTCGACGATGGA 59.029 50.000 10.73 10.73 0.00 3.41
2454 6226 3.559171 GGGGACTCTAGATTTGTGTTGCA 60.559 47.826 0.00 0.00 0.00 4.08
2467 6239 2.643808 GGGAGGGGTGGGGACTCTA 61.644 68.421 0.00 0.00 0.00 2.43
2490 6263 1.176619 TCCTTCGTCTGCTGTTCCGA 61.177 55.000 0.00 0.00 0.00 4.55
2495 6268 0.827925 TCCACTCCTTCGTCTGCTGT 60.828 55.000 0.00 0.00 0.00 4.40
2497 6270 1.536943 GGTCCACTCCTTCGTCTGCT 61.537 60.000 0.00 0.00 0.00 4.24
2565 6338 0.776080 ACAACCACCTCCCTCCCAAT 60.776 55.000 0.00 0.00 0.00 3.16
2569 6342 1.065418 CACATACAACCACCTCCCTCC 60.065 57.143 0.00 0.00 0.00 4.30
2585 6366 7.069578 AGTCCTATCTCGTAATTTGTACCACAT 59.930 37.037 0.00 0.00 0.00 3.21
2636 6417 5.504173 GCCACGGAGCAAAGTTTAATATCTC 60.504 44.000 0.00 0.00 0.00 2.75
2637 6418 4.335594 GCCACGGAGCAAAGTTTAATATCT 59.664 41.667 0.00 0.00 0.00 1.98
2644 6425 4.251246 TGCCACGGAGCAAAGTTT 57.749 50.000 0.00 0.00 40.56 2.66
2655 6436 2.030007 AGTTGTTTGGAATGATGCCACG 60.030 45.455 0.00 0.00 34.56 4.94
2666 6447 4.039852 GCCCCTTCATTAAAGTTGTTTGGA 59.960 41.667 0.00 0.00 32.69 3.53
2690 6471 3.817084 TCTCTGTTGTGAATTTGGCTCAG 59.183 43.478 0.00 0.00 0.00 3.35
2707 6488 0.251077 AAGGTTGCAGGGCTTCTCTG 60.251 55.000 0.00 0.00 35.49 3.35
2717 6498 0.734889 CAAGCGGGATAAGGTTGCAG 59.265 55.000 0.00 0.00 39.67 4.41
2725 6506 1.748879 GTGCAGGCAAGCGGGATAA 60.749 57.895 0.00 0.00 37.31 1.75
2732 6513 1.587547 GGAGTATAGTGCAGGCAAGC 58.412 55.000 0.00 0.00 0.00 4.01
2740 6521 0.960286 GGACGGAGGGAGTATAGTGC 59.040 60.000 0.00 0.00 0.00 4.40
2787 6568 8.247562 CGTCCCAAAATATAAGACCATTTTTGA 58.752 33.333 7.74 0.00 38.79 2.69
2788 6569 7.491048 CCGTCCCAAAATATAAGACCATTTTTG 59.509 37.037 0.00 0.00 37.14 2.44
2789 6570 7.397761 TCCGTCCCAAAATATAAGACCATTTTT 59.602 33.333 0.00 0.00 33.23 1.94
2799 6580 4.042174 ACTCCCTCCGTCCCAAAATATAA 58.958 43.478 0.00 0.00 0.00 0.98
2806 6587 2.852714 TTATACTCCCTCCGTCCCAA 57.147 50.000 0.00 0.00 0.00 4.12


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

AutoCloner maintained by Alex Coulton.