Contig Sequence

Contig name: BC000024470 (Nimblegen Contig name: F0Z7V0F01BGDUJ)

Contains SNP BS00063729 at position 219 (ambiguity code highlighted in red in the sequence below).

AAGCAGTGGTATCAACGCAGAGTACCTTGCACCACAANNNNNNNNNNNACTTTACTGTTCACTGGGTGCATCTGAGAGCTCGGGTTCCGGATTGAACTATCGCGAGTGAATCGTATGATGCAGCAAGGAAGGTCTTGATGAGCTCCATGACACCCAACTTGTGAATCAACATCAGAATCGATATAATGCAGATCCGCCTGTAGTCCAGAAGCAAATTA[R]TCATCCTTTTGAGGTCATTAGATGAGACGAATAACAGCAGAACTGACTGGAAGAATGCCCGTTGACTGCTTTCAGTTGATATGAGAGGAAGTCCATTTCTTAACTCCTGCCAACCGCTTTCCATTTCTTATATTCCAGAGGGGGAAAATAGAACTGGTGCAAGGAAGAAAAATGACACCTAAGCTCTTGGCCTTCCAAACATAAGCTTGTGATGCAGACAAAAACAGTAATTTGACACTGAACACTGT

Note: The ambiguity code R, highlighted in red, translates to A or G).

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 10 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 Map Location SxO cM
BS00063730 81
BS00063731 118
BS00063726 202
BS00063727 208
BS00063728 210
BS00063729 219 2B 87.20
BS00063722 328
BS00063723 381
BS00063724 408
BS00063725 424



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.