Contig Sequence

Contig name: BC000016558 (Nimblegen Contig name: CONTIG44564)

Contains SNP BS00036635 at position 930 (ambiguity code highlighted in red in the sequence below).

CGAACCTCCACCACGTACTGCTCCATATCCACCTCTACCTCTAGCTCTTACCCATTTCCTTTCCTTCCCCACGCTCTCAGCAATCCAAGCTACCTAGCTAAGGGTAGCGAGGAGGATGCCGAGGCCATGGAGGCAGGTGCTGGCGTCGGCGACCAAGTGCTGGAGCGCGGAGGAGGACGAGGAGGCCGCGGACGCCCGGAACTACCGCCCGCCCAACTCCGAGTTCTCGCGCCGGCTCGCCTCCTTCCGGCGCCTATCCGCCATGGCCAACAGCCCCGCCACGCCCACGGACGGCAAGGATGACGAGGACAACGCCGACGGTGCGGGGGAGATGGGGGCGGCACCATGCAGCAGCTGCACTCTTTCAGCCTCAGCGAGCTCCGTGGCGTCACGCATGACTTCTCCAGCGGATACCTCCTCGGCGAAGGAGGGTTCGGCGCCGTGCACAAAGGCTTCGTCGACGCCGGCATGCGGCCCGGCCTCGAGCCCCAGCCCGTTGCCGTCAAGCAGCTCAACATCGCCGGCCACCAAGGCCACAGGGAGTGGCTGGCCGAGGTGATCTTCCTTGGGCAGTTCCGGCACCAGCACCTGTTGAAGCTACTTGGGTACTGCTATGAGGACGAGGAGCGCCTCCTCGTCTATGAGTTCATGCCGCGCGGCAGCCTCGACAACCACCTCTTTAAAAGGATATCCGCGACGCTGCCGTGGAACACTAGGCTCAAGGTCGCCATCAGCACCGCCAAGGGCGTCGCCTTCCTCCATGGCGGCAAGCAGCCTGTCATCTACAGAGACTTGAAGGCGTCCAACATCCTCCTAGACTCGGTAAGTTCACTGGCGAAGCTATCGGACTTCGGACTGGCCAAGATGGGCCCCGAGGGGGATGAGACACACGTAAGCACCCGTGTGATGGGCACCCACGGTTATGCGGC[K]CCTGAGTACGTGCAGGCGGGCCACCTCACGGTGAAGAGCGATGTCTACAGCTTCGGCGTGGTGCTACTGGAGCTCCTAACGGGCCGTCGCGCCATGGAGCACGTCCCCGGCCGGACCGCGCGCGCCGAGCAGACCATCAAGCTCGTGGAGTGGACCCGGCCCTACCTCGCTAGCAGCCGCCGCCTGCGCTGCATCATGGACCAGAAGCTCTCGGGGCACTACTCCGTCAAGGGCGCCCGCGCCATGGCGCACCTGGCCGTGCAGTGCACGAGCCCGCAGCCCCGAGACAGGCCAAGTATGGCCGCTATC

Note: The ambiguity code K, highlighted in red, translates to ).

The highlighted SNP has not been mapped. Any other SNPs on the same contig are reported in the table below.



All SNPs on contig

There are 13 putative SNPs on this contig. If mapping information obtained from varietal crosses is available, it is shown in the table. When the SNP has NOT been mapped, the corresponding fields in the table are left blank and, if available, a putaive location for the contig, based on our extensive NGS of various wheat lines, is given below the table.

SNPs id Position Map Location AxC cM Map Location SxR cM
BS00036630 444
BS00036631 457
BS00036632 657
BS00036633 733
BS00036634 813
BS00036635 930
BS00036623 1007
BS00036624 1056
BS00036625 1077
BS00036626 1193
BS00036627 1194
BS00036628 1215
BS00036629 1227

This contig has been mapped provisionally to chromosome 6DS.




BLAST information

To BLAST the above sequence against our SNP database click on the 'Query' button below. You may select an e-value cut-off for this search.

e-value cutoff 


Alternatively, if you wish to perform a BLASTN search with this sequence, please use the drop-down fields below to select the parameters (database and e-value cutoff value) you wish to use and then click the grey 'BLAST' button.   At present your search can only be performed against Brachypodium distachyon, rice ( Oryza sativa ) or rye ( Secale cereale ) libraries.   However, this site is actively being worked on and we hope to be able to add additional libraries.

BLAST input parameters Database: 


e-value cutoff: 








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

Maintained by Mark Winfield.