Contig Sequence

Contig name: BC000007191 (Nimblegen Contig name: CONTIG81904)

Contains SNP BS00012321 at position 736 (ambiguity code highlighted in red in the sequence below).

GGTGGAGATCATTAGCCGCGTGCATCACCGGCATTTGGTGTCTCTCGTGGGGTACTGCATTGCCAATAGCCAGAGGCTGCTCGTCTACGATTTCGTGTCCAATGACACCCTGCATTATCACCTTCACGGACAGGGAAGGCCTGTTTTAGAGTGGTCGGCTAGGGTTAAAATCGCCGCCGGTGCTGCTCGTGGAATAGCATACCTACACGAAGATTGCCATCCAAGGATAATCCACCGAGACATAAAATCCTCAAACATTTTATTGGATAATAACTTTGACGCACTGGTGGCTGATTTTGGTCTTGCAAGATTGGCTCTGGATGCTGTAACACATGTAACTACCCGTGTTATGGGGACATTTGGATACATGGCTCCAGAGTATGCATCGAGTGGCAAACTGACTGAGAAATCTGATGTGTTCTCTTTTGGTGTTGTACTCTTAGAGCTTATGACTGGTCGAAAGCCTGTTGATTCATCCAGACCATTGGGTGATGAGAGCCTTGTTGAGTGGGCTAGACCATTGCTTAGTCGAGCTCTTGAGACAGGAAAGCTGGAAGGGTTAGTCGACCCCAGGCTTGAGAAGAATTTCAATGAGGTCGAAATGTTCCGTATGATTGAATCTGCAGCAGCCTGCATTCGACACTCGTCATCAAAGAGGCCCAGAATGAGCCAGGTGGTGCGGGTCCTCGATAGCTTAGCGGATATTGACCTAACGAACGGTGTCCAGCCAGGGCA[R]AGCGAGCTCTTCAACGTGGCAAACACGGCGGATATCAGGATGTTCCAGCAGATGGTGCAGGGCAACCAGGACGACAGTTCCGCCTTCAGCCAATATAGTTGGATCAGTCGCAGTAGGGCCGACGCCGAGGCAACCTCCTCAAACTCCAGGATCTTGTGATCGTCTTTGTTTCTGTGCTCCATGTGTGCGTAGCTATTCTTCTCGACCCACTGATTCGGCCGGGCTGTATCGACCATCGAAAAAGTCTGGTGTAATTCTTGCCTTGTTACGATGATTGCTCCTGTGTAGATCACATGAGGAAGATGTACTCTTGTTTGACAAATTATTAA

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 23 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
BS00021470 49
BS00013763 61
BS00016863 83
BS00018772 109
BS00018889 283
BS00012696 343
BS00019333 418
BS00015774 421
BS00021220 439
BS00018321 598
BS00021189 601
BS00015165 706
BS00013612 715
BS00016696 721
BS00012321 736
BS00021135 769
BS00017538 829
BS00014133 868
BS00014562 892
BS00015954 896
BS00014511 919
BS00017001 959
BS00014836 962

This contig has been mapped provisionally to chromosome 1DS.



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.