Contig Sequence

Contig name: BC000036409 (Nimblegen Contig name: CONTIG90688)

Contains SNP BS00104640 at position 1139 (ambiguity code highlighted in red in the sequence below).


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 17 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
BS00104655 73
BS00104641 119
BS00104643 219
BS00104644 232
BS00104645 310
BS00104646 331
BS00104647 342
BS00104648 344
BS00104649 361
BS00104650 387
BS00104651 389
BS00104652 421
BS00104653 519
BS00104654 720
BS00104639 1113
BS00104640 1139
BS00104642 1190

This contig has been mapped provisionally to chromosome 4AL.

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