Multiple sequence alignment - TraesCS1B01G137900

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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 TraesCS1B01G137900 chr1B 100.000 3718 0 0 1 3718 176999479 176995762 0.000000e+00 6866.0
1 TraesCS1B01G137900 chr1B 90.280 535 42 3 3194 3718 288437075 288437609 0.000000e+00 691.0
2 TraesCS1B01G137900 chr1A 93.566 3124 112 26 1 3049 126855918 126852809 0.000000e+00 4573.0
3 TraesCS1B01G137900 chr1A 94.340 53 2 1 1296 1348 291252819 291252768 3.080000e-11 80.5
4 TraesCS1B01G137900 chr1D 94.161 2312 73 9 1 2259 115575432 115573130 0.000000e+00 3465.0
5 TraesCS1B01G137900 chr1D 92.361 576 27 7 2564 3124 115571316 115570743 0.000000e+00 804.0
6 TraesCS1B01G137900 chr1D 97.436 273 5 1 2246 2518 115573115 115572845 7.270000e-127 464.0
7 TraesCS1B01G137900 chr4A 91.963 535 33 7 3194 3718 588601650 588601116 0.000000e+00 741.0
8 TraesCS1B01G137900 chr4A 82.418 91 9 6 2634 2719 667174470 667174382 5.150000e-09 73.1
9 TraesCS1B01G137900 chr4A 88.136 59 4 3 2656 2711 667063313 667063371 2.400000e-07 67.6
10 TraesCS1B01G137900 chr5B 91.264 538 37 7 3191 3718 248682526 248683063 0.000000e+00 725.0
11 TraesCS1B01G137900 chr5A 86.965 537 58 5 3191 3716 584597577 584598112 8.890000e-166 593.0
12 TraesCS1B01G137900 chr2B 84.340 530 73 1 3194 3713 31412575 31413104 9.210000e-141 510.0
13 TraesCS1B01G137900 chrUn 96.078 51 2 0 1298 1348 42338336 42338386 2.380000e-12 84.2
14 TraesCS1B01G137900 chrUn 96.078 51 2 0 1298 1348 42530613 42530563 2.380000e-12 84.2
15 TraesCS1B01G137900 chrUn 96.078 51 2 0 1298 1348 474064266 474064216 2.380000e-12 84.2
16 TraesCS1B01G137900 chr7A 84.615 91 7 6 2634 2719 54961810 54961722 2.380000e-12 84.2
17 TraesCS1B01G137900 chr7A 84.524 84 6 6 2634 2712 54997025 54997106 3.980000e-10 76.8
18 TraesCS1B01G137900 chr7D 83.516 91 8 6 2634 2719 52526546 52526634 1.110000e-10 78.7
19 TraesCS1B01G137900 chr7D 82.609 92 9 6 2634 2720 52664317 52664406 1.430000e-09 75.0
20 TraesCS1B01G137900 chr7D 87.931 58 6 1 1292 1348 105246728 105246671 2.400000e-07 67.6
21 TraesCS1B01G137900 chr2D 97.727 44 1 0 1305 1348 76820551 76820508 3.980000e-10 76.8
22 TraesCS1B01G137900 chr2A 97.727 44 1 0 1305 1348 668446455 668446498 3.980000e-10 76.8


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 TraesCS1B01G137900 chr1B 176995762 176999479 3717 True 6866.000000 6866 100.000000 1 3718 1 chr1B.!!$R1 3717
1 TraesCS1B01G137900 chr1B 288437075 288437609 534 False 691.000000 691 90.280000 3194 3718 1 chr1B.!!$F1 524
2 TraesCS1B01G137900 chr1A 126852809 126855918 3109 True 4573.000000 4573 93.566000 1 3049 1 chr1A.!!$R1 3048
3 TraesCS1B01G137900 chr1D 115570743 115575432 4689 True 1577.666667 3465 94.652667 1 3124 3 chr1D.!!$R1 3123
4 TraesCS1B01G137900 chr4A 588601116 588601650 534 True 741.000000 741 91.963000 3194 3718 1 chr4A.!!$R1 524
5 TraesCS1B01G137900 chr5B 248682526 248683063 537 False 725.000000 725 91.264000 3191 3718 1 chr5B.!!$F1 527
6 TraesCS1B01G137900 chr5A 584597577 584598112 535 False 593.000000 593 86.965000 3191 3716 1 chr5A.!!$F1 525
7 TraesCS1B01G137900 chr2B 31412575 31413104 529 False 510.000000 510 84.340000 3194 3713 1 chr2B.!!$F1 519

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
454 455 2.407090 TCAGTGCACATTTCTCAGTCG 58.593 47.619 21.04 0.0 0.00 4.18 F
1536 1581 2.102588 CTCATATTTCCCGAGTCCCGTT 59.897 50.000 0.00 0.0 36.31 4.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1945 1991 1.527736 TGTACCAAATGCGTGACGTTC 59.472 47.619 6.91 0.0 0.0 3.95 R
3068 4659 0.099259 CCGAAGCGACATACACCGTA 59.901 55.000 0.00 0.0 0.0 4.02 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
63 64 5.352293 CAGTAAGCATTGCTACATGTTCTGA 59.648 40.000 12.39 0.00 39.72 3.27
69 70 6.544931 AGCATTGCTACATGTTCTGATATTGT 59.455 34.615 10.00 0.00 36.99 2.71
71 72 8.509690 GCATTGCTACATGTTCTGATATTGTAT 58.490 33.333 2.30 0.00 0.00 2.29
133 134 3.449737 AGGATGATTTGCCTTTGACATGG 59.550 43.478 0.00 0.00 0.00 3.66
140 141 7.319646 TGATTTGCCTTTGACATGGTAAATAC 58.680 34.615 17.46 13.42 44.53 1.89
409 410 9.696917 CCTAATTTCACCTAAATATTCAATGGC 57.303 33.333 0.00 0.00 36.76 4.40
454 455 2.407090 TCAGTGCACATTTCTCAGTCG 58.593 47.619 21.04 0.00 0.00 4.18
568 569 7.563724 AAAGATACTCTTACAGGGTTTGGTA 57.436 36.000 0.00 0.00 35.27 3.25
569 570 7.563724 AAGATACTCTTACAGGGTTTGGTAA 57.436 36.000 0.00 0.00 34.42 2.85
585 586 6.038714 GGTTTGGTAAGATAAGCTTGATGGAG 59.961 42.308 9.86 0.00 37.42 3.86
812 832 4.165372 AGTCCTTTTTGTTCCTACTGGTGA 59.835 41.667 0.00 0.00 34.23 4.02
893 913 4.592485 GGTCTCACACCCATACAGATAG 57.408 50.000 0.00 0.00 39.69 2.08
894 914 3.243907 GGTCTCACACCCATACAGATAGC 60.244 52.174 0.00 0.00 39.69 2.97
895 915 2.965831 TCTCACACCCATACAGATAGCC 59.034 50.000 0.00 0.00 0.00 3.93
896 916 2.700371 CTCACACCCATACAGATAGCCA 59.300 50.000 0.00 0.00 0.00 4.75
897 917 2.700371 TCACACCCATACAGATAGCCAG 59.300 50.000 0.00 0.00 0.00 4.85
898 918 2.435805 CACACCCATACAGATAGCCAGT 59.564 50.000 0.00 0.00 0.00 4.00
899 919 3.115390 ACACCCATACAGATAGCCAGTT 58.885 45.455 0.00 0.00 0.00 3.16
900 920 4.100963 CACACCCATACAGATAGCCAGTTA 59.899 45.833 0.00 0.00 0.00 2.24
1116 1136 9.099454 CCTTTCTGTTCTGTTATAGTTATGGAC 57.901 37.037 0.00 0.00 0.00 4.02
1177 1221 4.019950 TCTGCAATGAGGAATCACTCTGAA 60.020 41.667 0.00 0.00 38.32 3.02
1189 1233 6.294397 GGAATCACTCTGAATTTGAACTTGCT 60.294 38.462 0.00 0.00 0.00 3.91
1469 1514 7.495934 GCCAGAATACTAGTTTATGTGTCACAT 59.504 37.037 21.70 21.70 42.35 3.21
1536 1581 2.102588 CTCATATTTCCCGAGTCCCGTT 59.897 50.000 0.00 0.00 36.31 4.44
1573 1618 5.655974 ACCTAAGAGTTAGCAGTACCTAACC 59.344 44.000 14.71 9.03 45.20 2.85
1852 1898 6.163135 ACCTGAGCTACACTACATATTTCC 57.837 41.667 0.00 0.00 0.00 3.13
1854 1900 4.617959 TGAGCTACACTACATATTTCCGC 58.382 43.478 0.00 0.00 0.00 5.54
1861 1907 5.387279 ACACTACATATTTCCGCGTTTTTG 58.613 37.500 4.92 0.00 0.00 2.44
1911 1957 6.146673 GGCATCCAGTTTCTTCATTTTTCTTG 59.853 38.462 0.00 0.00 0.00 3.02
1945 1991 0.755686 AAATCAGAGAGGCCCTAGCG 59.244 55.000 0.00 0.00 41.24 4.26
2001 2047 9.724839 CAAGTTTTTAATCGAACTTTTCCTGTA 57.275 29.630 8.54 0.00 42.47 2.74
2031 2092 4.551388 GTGAAAATGATGCGGGTACAAAA 58.449 39.130 0.00 0.00 0.00 2.44
2035 2096 4.637483 AATGATGCGGGTACAAAATCTG 57.363 40.909 0.00 0.00 0.00 2.90
2036 2097 2.364632 TGATGCGGGTACAAAATCTGG 58.635 47.619 0.00 0.00 0.00 3.86
2043 2104 5.221541 TGCGGGTACAAAATCTGGAAATTTT 60.222 36.000 0.00 0.00 38.95 1.82
2068 2129 1.214424 GGCCTCCTTAACAATAGCCCA 59.786 52.381 0.00 0.00 32.68 5.36
2133 2195 5.359194 TCCCAGAGAAACTAATTAGCCTG 57.641 43.478 12.54 11.03 0.00 4.85
2137 2199 5.762218 CCAGAGAAACTAATTAGCCTGATGG 59.238 44.000 12.54 9.89 0.00 3.51
2233 2295 6.424812 GCTTTCTTACAAAACATTTCCAGCAT 59.575 34.615 0.00 0.00 0.00 3.79
2386 2476 3.631686 TGGAAAATGATATCCTGTTGGCG 59.368 43.478 0.00 0.00 36.64 5.69
2446 2536 2.670414 CTGGATCTTGTCTTTCGCACTC 59.330 50.000 0.00 0.00 0.00 3.51
2453 2543 1.079503 GTCTTTCGCACTCCATCACC 58.920 55.000 0.00 0.00 0.00 4.02
2718 4292 1.855213 CTTGTGCTGCTGCGGCTAAA 61.855 55.000 31.19 23.10 43.34 1.85
2779 4353 1.817740 GCTGGGCTGTACTGTGGAAAA 60.818 52.381 1.46 0.00 0.00 2.29
2797 4371 4.322424 GGAAAACCCATATCGTTTTGCCTT 60.322 41.667 12.68 0.00 42.39 4.35
2804 4378 0.598065 ATCGTTTTGCCTTGGTGAGC 59.402 50.000 0.00 0.00 0.00 4.26
2812 4386 0.610232 GCCTTGGTGAGCTGGTGAAT 60.610 55.000 0.00 0.00 0.00 2.57
2824 4398 2.816087 GCTGGTGAATAGGCATATGTGG 59.184 50.000 4.29 0.00 0.00 4.17
2830 4404 5.127031 GGTGAATAGGCATATGTGGTTGTTT 59.873 40.000 4.29 0.00 0.00 2.83
2891 4467 5.221342 TGTTGTTGGTCGCCAAAAATAAGAT 60.221 36.000 14.61 0.00 45.73 2.40
2892 4468 6.016192 TGTTGTTGGTCGCCAAAAATAAGATA 60.016 34.615 14.61 0.00 45.73 1.98
2898 4474 7.051623 TGGTCGCCAAAAATAAGATAGTATGT 58.948 34.615 0.00 0.00 0.00 2.29
3041 4632 0.180406 AGTTGCGAAGACCCAACACT 59.820 50.000 6.32 0.00 42.77 3.55
3049 4640 1.807814 AGACCCAACACTTCTCACCT 58.192 50.000 0.00 0.00 0.00 4.00
3068 4659 3.007614 ACCTGTTTAACCGTGTCTATGCT 59.992 43.478 0.00 0.00 0.00 3.79
3081 4672 3.002965 TGTCTATGCTACGGTGTATGTCG 59.997 47.826 0.00 0.00 0.00 4.35
3131 4722 2.415697 GCCATGCGTGTTAAAGTGTT 57.584 45.000 4.96 0.00 0.00 3.32
3132 4723 2.738135 GCCATGCGTGTTAAAGTGTTT 58.262 42.857 4.96 0.00 0.00 2.83
3133 4724 3.891324 GCCATGCGTGTTAAAGTGTTTA 58.109 40.909 4.96 0.00 0.00 2.01
3134 4725 3.911964 GCCATGCGTGTTAAAGTGTTTAG 59.088 43.478 4.96 0.00 0.00 1.85
3135 4726 3.911964 CCATGCGTGTTAAAGTGTTTAGC 59.088 43.478 4.96 0.00 0.00 3.09
3136 4727 3.241783 TGCGTGTTAAAGTGTTTAGCG 57.758 42.857 0.00 0.00 0.00 4.26
3137 4728 1.967235 GCGTGTTAAAGTGTTTAGCGC 59.033 47.619 0.00 0.00 36.39 5.92
3138 4729 2.349155 GCGTGTTAAAGTGTTTAGCGCT 60.349 45.455 17.26 17.26 38.39 5.92
3139 4730 3.120923 GCGTGTTAAAGTGTTTAGCGCTA 60.121 43.478 14.45 14.45 38.39 4.26
3140 4731 4.608890 GCGTGTTAAAGTGTTTAGCGCTAA 60.609 41.667 25.53 25.53 38.39 3.09
3141 4732 5.433855 CGTGTTAAAGTGTTTAGCGCTAAA 58.566 37.500 33.05 33.05 36.85 1.85
3142 4733 6.075280 CGTGTTAAAGTGTTTAGCGCTAAAT 58.925 36.000 37.14 25.87 37.37 1.40
3143 4734 7.228840 CGTGTTAAAGTGTTTAGCGCTAAATA 58.771 34.615 37.14 32.90 37.37 1.40
3144 4735 7.901377 CGTGTTAAAGTGTTTAGCGCTAAATAT 59.099 33.333 37.14 24.64 37.37 1.28
3145 4736 8.995906 GTGTTAAAGTGTTTAGCGCTAAATATG 58.004 33.333 37.14 0.00 37.37 1.78
3146 4737 8.723311 TGTTAAAGTGTTTAGCGCTAAATATGT 58.277 29.630 37.14 25.06 37.37 2.29
3147 4738 9.550811 GTTAAAGTGTTTAGCGCTAAATATGTT 57.449 29.630 37.14 30.50 37.37 2.71
3150 4741 9.769093 AAAGTGTTTAGCGCTAAATATGTTTAG 57.231 29.630 37.14 15.53 46.20 1.85
3174 4765 6.419090 CACAATGCGTGTTAAAGTGTTTAG 57.581 37.500 0.00 0.00 38.92 1.85
3175 4766 5.968848 CACAATGCGTGTTAAAGTGTTTAGT 59.031 36.000 0.00 0.00 38.92 2.24
3176 4767 5.968848 ACAATGCGTGTTAAAGTGTTTAGTG 59.031 36.000 0.00 0.00 37.01 2.74
3177 4768 3.942739 TGCGTGTTAAAGTGTTTAGTGC 58.057 40.909 0.00 0.00 0.00 4.40
3178 4769 3.623960 TGCGTGTTAAAGTGTTTAGTGCT 59.376 39.130 0.00 0.00 0.00 4.40
3179 4770 4.809958 TGCGTGTTAAAGTGTTTAGTGCTA 59.190 37.500 0.00 0.00 0.00 3.49
3180 4771 5.293814 TGCGTGTTAAAGTGTTTAGTGCTAA 59.706 36.000 0.00 0.00 0.00 3.09
3181 4772 6.183360 TGCGTGTTAAAGTGTTTAGTGCTAAA 60.183 34.615 0.68 0.68 33.10 1.85
3243 4834 1.448893 GTGGGATCGCGCCAAGTTA 60.449 57.895 12.05 0.00 0.00 2.24
3246 4837 0.876342 GGGATCGCGCCAAGTTAGAG 60.876 60.000 0.00 0.00 0.00 2.43
3259 4850 5.391629 GCCAAGTTAGAGGTAATGTTTTCCG 60.392 44.000 0.00 0.00 0.00 4.30
3291 4882 5.363580 TGTGCAAGATATACTCCAGATCACA 59.636 40.000 0.00 0.00 0.00 3.58
3416 5017 4.831307 CCGGGCTCTTCGTCGTCG 62.831 72.222 0.00 0.00 38.55 5.12
3572 5173 3.565214 TTCTGCCCGGCTTGTGGA 61.565 61.111 11.61 0.00 0.00 4.02
3629 5230 0.534203 GGCACTCGGTGAGGTTTTGA 60.534 55.000 8.04 0.00 35.23 2.69
3632 5233 2.287009 GCACTCGGTGAGGTTTTGAAAG 60.287 50.000 8.04 0.00 35.23 2.62
3708 5309 1.132844 CAGAGTCGACTCACGGACG 59.867 63.158 39.05 20.08 45.21 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
239 240 0.524862 CACTGCTGACAATGAAGGGC 59.475 55.000 0.00 0.00 0.00 5.19
409 410 4.929819 TGCAGATGGATGGAATTGATTG 57.070 40.909 0.00 0.00 0.00 2.67
454 455 7.953005 TCAGATCTCTTATGAGTATCCATCC 57.047 40.000 5.60 0.00 40.98 3.51
525 526 6.945636 TCTTTTCTGGGGATAACTAGACAA 57.054 37.500 0.00 0.00 0.00 3.18
812 832 4.695455 CGAACCAAGTGTCCAACTATCAAT 59.305 41.667 0.00 0.00 38.56 2.57
896 916 0.977395 GGAGTGGACAGTGGCTAACT 59.023 55.000 4.74 4.74 40.93 2.24
897 917 0.685097 TGGAGTGGACAGTGGCTAAC 59.315 55.000 0.00 0.00 0.00 2.34
898 918 1.656587 ATGGAGTGGACAGTGGCTAA 58.343 50.000 0.00 0.00 0.00 3.09
899 919 2.543037 TATGGAGTGGACAGTGGCTA 57.457 50.000 0.00 0.00 0.00 3.93
900 920 1.885049 ATATGGAGTGGACAGTGGCT 58.115 50.000 0.00 0.00 0.00 4.75
997 1017 0.461961 CTCGGAGGGTTGTCCATCTC 59.538 60.000 0.00 0.00 43.24 2.75
1116 1136 6.300354 ACTCGACCAAAATAACAAGAGTTG 57.700 37.500 0.00 0.00 38.69 3.16
1303 1348 9.566331 TCAATTAATATGGATCAGAGGGAGTAT 57.434 33.333 0.00 0.00 0.00 2.12
1313 1358 5.308014 AGCAGCGTCAATTAATATGGATCA 58.692 37.500 0.00 0.00 0.00 2.92
1469 1514 7.093068 TGCCTACCTAGTTTGTTAGAATGATCA 60.093 37.037 0.00 0.00 0.00 2.92
1834 1880 3.067742 ACGCGGAAATATGTAGTGTAGCT 59.932 43.478 12.47 0.00 0.00 3.32
1852 1898 2.112475 TCACATGAACCAAAAACGCG 57.888 45.000 3.53 3.53 0.00 6.01
1854 1900 6.035435 TGTTGAATTCACATGAACCAAAAACG 59.965 34.615 7.89 0.00 36.80 3.60
1861 1907 3.928375 GCCATGTTGAATTCACATGAACC 59.072 43.478 31.18 21.85 42.60 3.62
1911 1957 7.148171 CCTCTCTGATTTGTAGGATTTCAAACC 60.148 40.741 0.00 0.00 36.58 3.27
1945 1991 1.527736 TGTACCAAATGCGTGACGTTC 59.472 47.619 6.91 0.00 0.00 3.95
1975 2021 8.628882 ACAGGAAAAGTTCGATTAAAAACTTG 57.371 30.769 12.16 5.75 43.14 3.16
1987 2033 4.082787 ACCATGCAATACAGGAAAAGTTCG 60.083 41.667 0.00 0.00 29.21 3.95
1996 2042 5.327616 TCATTTTCACCATGCAATACAGG 57.672 39.130 0.00 0.00 0.00 4.00
1997 2043 5.233476 GCATCATTTTCACCATGCAATACAG 59.767 40.000 0.00 0.00 41.16 2.74
2001 2047 3.191669 CGCATCATTTTCACCATGCAAT 58.808 40.909 0.00 0.00 41.51 3.56
2004 2050 1.563111 CCGCATCATTTTCACCATGC 58.437 50.000 0.00 0.00 38.64 4.06
2031 2092 3.708121 GAGGCCATCCAAAATTTCCAGAT 59.292 43.478 5.01 0.00 33.74 2.90
2106 2168 6.127703 GGCTAATTAGTTTCTCTGGGAAAACC 60.128 42.308 13.91 0.00 44.34 3.27
2133 2195 4.021102 TGAGGAAGGAAGTTGAACCATC 57.979 45.455 0.00 0.00 0.00 3.51
2137 2199 5.532779 ACTGAAATGAGGAAGGAAGTTGAAC 59.467 40.000 0.00 0.00 0.00 3.18
2233 2295 2.632996 CTGGGGCCTTAATGACGATAGA 59.367 50.000 0.84 0.00 41.38 1.98
2386 2476 5.887035 AGATGACCAGTAACTACTACCACTC 59.113 44.000 0.00 0.00 34.13 3.51
2446 2536 8.615878 TGGTATAATTAAATTCTCGGTGATGG 57.384 34.615 0.00 0.00 0.00 3.51
2530 4018 6.883217 ACTTGAACTGAGATTCACTGCATAAT 59.117 34.615 0.00 0.00 38.31 1.28
2718 4292 3.508793 ACAGCAGAAATGTGCAGCTAAAT 59.491 39.130 5.29 0.00 46.60 1.40
2779 4353 2.099405 CCAAGGCAAAACGATATGGGT 58.901 47.619 0.00 0.00 0.00 4.51
2792 4366 1.993701 TTCACCAGCTCACCAAGGCA 61.994 55.000 0.00 0.00 0.00 4.75
2797 4371 0.253044 GCCTATTCACCAGCTCACCA 59.747 55.000 0.00 0.00 0.00 4.17
2804 4378 4.090761 ACCACATATGCCTATTCACCAG 57.909 45.455 1.58 0.00 0.00 4.00
2812 4386 7.946381 TTATTCAAACAACCACATATGCCTA 57.054 32.000 1.58 0.00 0.00 3.93
2891 4467 5.449314 GCAAACACACACCAACAACATACTA 60.449 40.000 0.00 0.00 0.00 1.82
2892 4468 4.676723 GCAAACACACACCAACAACATACT 60.677 41.667 0.00 0.00 0.00 2.12
2898 4474 1.261480 AGGCAAACACACACCAACAA 58.739 45.000 0.00 0.00 0.00 2.83
3017 4608 1.668151 GGGTCTTCGCAACTCGCTT 60.668 57.895 0.00 0.00 39.08 4.68
3033 4624 2.348411 AACAGGTGAGAAGTGTTGGG 57.652 50.000 0.00 0.00 33.16 4.12
3041 4632 3.133362 AGACACGGTTAAACAGGTGAGAA 59.867 43.478 5.65 0.00 34.59 2.87
3049 4640 4.168014 CGTAGCATAGACACGGTTAAACA 58.832 43.478 0.00 0.00 32.19 2.83
3068 4659 0.099259 CCGAAGCGACATACACCGTA 59.901 55.000 0.00 0.00 0.00 4.02
3074 4665 2.028883 GCTAAACACCGAAGCGACATAC 59.971 50.000 0.00 0.00 0.00 2.39
3081 4672 1.073177 TTAGCGCTAAACACCGAAGC 58.927 50.000 26.95 0.00 0.00 3.86
3112 4703 2.415697 AACACTTTAACACGCATGGC 57.584 45.000 0.00 0.00 0.00 4.40
3124 4715 9.769093 CTAAACATATTTAGCGCTAAACACTTT 57.231 29.630 37.40 29.72 40.60 2.66
3137 4728 7.367458 CACGCATTGTGCTAAACATATTTAG 57.633 36.000 0.00 0.00 46.95 1.85
3152 4743 5.968848 CACTAAACACTTTAACACGCATTGT 59.031 36.000 0.00 0.00 41.74 2.71
3153 4744 5.108405 GCACTAAACACTTTAACACGCATTG 60.108 40.000 0.00 0.00 0.00 2.82
3154 4745 4.973663 GCACTAAACACTTTAACACGCATT 59.026 37.500 0.00 0.00 0.00 3.56
3155 4746 4.274950 AGCACTAAACACTTTAACACGCAT 59.725 37.500 0.00 0.00 0.00 4.73
3156 4747 3.623960 AGCACTAAACACTTTAACACGCA 59.376 39.130 0.00 0.00 0.00 5.24
3157 4748 4.205323 AGCACTAAACACTTTAACACGC 57.795 40.909 0.00 0.00 0.00 5.34
3169 4760 7.182089 ACACTTTAACACGTTTAGCACTAAAC 58.818 34.615 18.98 18.98 46.85 2.01
3170 4761 7.306205 ACACTTTAACACGTTTAGCACTAAA 57.694 32.000 0.00 0.00 33.10 1.85
3171 4762 6.907206 ACACTTTAACACGTTTAGCACTAA 57.093 33.333 0.00 0.00 0.00 2.24
3172 4763 6.907206 AACACTTTAACACGTTTAGCACTA 57.093 33.333 0.00 0.00 0.00 2.74
3173 4764 5.806366 AACACTTTAACACGTTTAGCACT 57.194 34.783 0.00 0.00 0.00 4.40
3174 4765 5.275556 GCAAACACTTTAACACGTTTAGCAC 60.276 40.000 0.00 0.00 31.60 4.40
3175 4766 4.794246 GCAAACACTTTAACACGTTTAGCA 59.206 37.500 0.00 0.00 31.60 3.49
3176 4767 4.086478 CGCAAACACTTTAACACGTTTAGC 60.086 41.667 0.00 0.00 30.71 3.09
3177 4768 5.257108 TCGCAAACACTTTAACACGTTTAG 58.743 37.500 0.00 0.00 30.71 1.85
3178 4769 5.213913 TCGCAAACACTTTAACACGTTTA 57.786 34.783 0.00 0.00 30.71 2.01
3179 4770 4.080969 TCGCAAACACTTTAACACGTTT 57.919 36.364 0.00 0.00 31.96 3.60
3180 4771 3.743567 TCGCAAACACTTTAACACGTT 57.256 38.095 0.00 0.00 0.00 3.99
3181 4772 3.558418 AGATCGCAAACACTTTAACACGT 59.442 39.130 0.00 0.00 0.00 4.49
3182 4773 3.900116 CAGATCGCAAACACTTTAACACG 59.100 43.478 0.00 0.00 0.00 4.49
3183 4774 3.664025 GCAGATCGCAAACACTTTAACAC 59.336 43.478 4.93 0.00 41.79 3.32
3184 4775 3.563808 AGCAGATCGCAAACACTTTAACA 59.436 39.130 11.20 0.00 46.13 2.41
3185 4776 3.908382 CAGCAGATCGCAAACACTTTAAC 59.092 43.478 11.20 0.00 46.13 2.01
3186 4777 3.812609 TCAGCAGATCGCAAACACTTTAA 59.187 39.130 11.20 0.00 46.13 1.52
3187 4778 3.398406 TCAGCAGATCGCAAACACTTTA 58.602 40.909 11.20 0.00 46.13 1.85
3188 4779 2.221169 TCAGCAGATCGCAAACACTTT 58.779 42.857 11.20 0.00 46.13 2.66
3189 4780 1.882912 TCAGCAGATCGCAAACACTT 58.117 45.000 11.20 0.00 46.13 3.16
3192 4783 2.425539 TCATTCAGCAGATCGCAAACA 58.574 42.857 11.20 0.00 46.13 2.83
3243 4834 3.695830 TCTGCGGAAAACATTACCTCT 57.304 42.857 0.00 0.00 0.00 3.69
3246 4837 4.096382 ACATCATCTGCGGAAAACATTACC 59.904 41.667 0.00 0.00 0.00 2.85
3259 4850 5.350914 GGAGTATATCTTGCACATCATCTGC 59.649 44.000 0.00 0.00 35.03 4.26
3291 4882 0.401738 CCATACCATGGCCTCCGATT 59.598 55.000 13.04 0.00 44.70 3.34
3311 4902 2.285368 TCCAGGCGGGAACATCCT 60.285 61.111 3.10 0.00 44.80 3.24
3416 5017 2.125106 CCCTGGTGCTTCGCTACC 60.125 66.667 0.00 0.00 37.48 3.18
3473 5074 7.748677 TCATCATCCTCCACACATGTATAATT 58.251 34.615 0.00 0.00 0.00 1.40
3572 5173 4.499865 CGGTGATACAATGATTCCTCTCGT 60.500 45.833 0.00 0.00 0.00 4.18
3629 5230 1.073199 CACCGAGCCCAACTCCTTT 59.927 57.895 0.00 0.00 43.01 3.11
3632 5233 1.966451 CAACACCGAGCCCAACTCC 60.966 63.158 0.00 0.00 43.01 3.85


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

AutoCloner maintained by Alex Coulton.