Contig Sequence

Contig name: BC000002157 (Nimblegen Contig name: CONTIG45082)

Contains SNP BS00021052 at position 771 (ambiguity code highlighted in red in the sequence below).

GCATATTGGCCCTCGCGTAGTCATTAGAAGGACTTCATTTCTAATTTTTGCACTGTAGCATCCCTTTGTTTCAACGGGGCGCACCCGATAGAAATTGTCCGTTGGTCAAAATACTTGGCCTAGCACAAAAATCTGTTTTAATTGTTGTCTGTGGGCCACATATGTAAATTTCATAGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTATACATACACAATGCACCACACAATATGCATTTTATTGCTTTTATGTAGTCTTGATTACCAACGTTCAATAGTAGATTTACAATAGATATTCCGGCATGTGACCTAACAAAACACATAGCTTTACTTTGCTTTGTTCGCAGCCCTCTGACCCTCCAATGCTTTGTATACTTTGTCAATCTCAGGCTGATAATATTTTAGCATGTAGTTTCTTCTCTTCTTCATTGTTGCAGTGACCAAATCCCTTTCAATGTCAAAAGGTACAGGATCCAACACTACGCCTTTGATGTACTCAAAACCTCGTAGCTTGTTCTTCTGTGCAGCCGCTGCGAGCTCTTTAAGGACATGCTCTTTAAGGCCTTCAGATTTGCATATTTCACTGAAAGAACCTTTGTAGCCATTTGACCCTGCCCACTTCATGGTGTTTTCTTCATGTGGGTTAACTACTGCGACTAACATTGATTTGTAGCTGTCCCCGTACACCCAGATATCTTCAATAATTGGAGGGAAGACATATACTTTCTCCAGATACTCAACTGCGACATACTCCCCTTG[Y]GATAGCTTAAATATGTTCTTCTTTCGGTCAATAACCTTCAGGATTCCATCTGGGCTCATCTCTCCAATATCTCCTGTATGAAACCATCCATCAACCATGACCTCGTTTGTGAGCTCAGGATTTTTGTAGTACCCAGTGAAGACAGTGGACCCTCTAATGAGGATTTCACCACGAGAAGGAACACCAAGTGGATCATAACCCATCTCAGGTACTTCTTCCAGTCGCAGTTCAGTGAAGGTGGCGGCAACACCGGCAGTTCCAACCAGGGACATATCATCAGGGTAACCGACTGTGCTAGGTCCCAATGTTTCTGTTAAACCATAGCCTTGGATAAAGTATGCACAGCTGGTCACTCTCATGAACTCTTCAATTTCAGTACTTAAGGGTGCACCACCGGAGATTAGTAGGCGAAGACGGCCACCGAGCCTTGCCTTGACCTTGCGAAAAGCCAGCATGTCAGCGAAAGGTGAAGCAGTTTTTTGTGTGTAGCCTGCTTTCATGCTTGCTAGTTTGCGG

Note: The ambiguity code Y, highlighted in red, translates to C or T).

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 15 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
BS00018665 510
BS00004794 537
BS00004796 560
BS00003819 666
BS00021052 771 1B 51.67
BS00009846 834
BS00010070 840
BS00004793 920
BS00015084 1006
BS00016057 1044
BS00004795 1076
BS00003747 1083
BS00014413 1113 1B 51.67
BS00004390 1251
BS00004391 1253



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.