Contig Sequence

Contig name: BC000014150 (Nimblegen Contig name: CONTIG14190)

Contains SNP BS00030361 at position 197 (ambiguity code highlighted in red in the sequence below).

CAATCTGGTTGCTCAACATTTATGTGTATCTCATAATGGCCTACGATGCGACCGTCGGCGTGAAGCATGGCAGACTCGAGTGGCTTGGGGTCTATAGAATGCTGCGGACGAAGGGTGGCCTGATGAAGGTGCTGAAGCATACCTTTCTTGATATTTTGGGAGGGAACAAGAAGCCAGTCTCGATAAAAAGAAGGCA[Y]AGAAAGGGCCAGTAAGGGGGGATGCAAATAGGGTTCTCACTTGTGTCAGCTGGTGGCAATTAGTAGTAGAATCACTTACCATATCTAGGCAAGGTTAAGCTGGTTGGCTCAATGGGTTCTTCACACCGTACCGTATGCTTGTGGTGTGGCTTCGCACTGAAGAAGATAGCCTGTTCTGCGCTTGGATGGAACGCTGGAGTTACCTTTTGTTGATACGGTTTCAGCGAAGTCGGTGAACTGAATCGTGTTTATATCGAATGNNNNNNNGCTGAAGATGGTGTGTTCTTCTTTGGTTGTAGCAGAAAAGTCTCAAGGTTAAGTGCGAACAGTTGACAGTGAAGTGATGGGCTAAGATGGGTCTTTGGCTGTAGCAGAAAAGTCTGAAGGTTAAGTGCAAAAAGAGTTAAGATGGGCCTAAACTAGAAAATGTGCCAGGATTATCAAAGGACTTCCCAATCATCATCCGGGCGCTCTTTTATTTATTTATTATTATTGATCAAGTCCACACTTTTGACATCCATCGTACTGCATACACGACGCCGACGGACGCAACGTGCTGCTCACACGGCGATGCTGTTGGGAATCCCGCCGACGTGGGGTACCGTAGGGTCGGCCCTCGGCGCGAGCAGCGTGTAGGGCACCTCCACGGGCCCGTTCCGGTTCCGCAGCGCGCCGTCAGCGTTCCTCTTCTTGACGGCCTCCGCGATCGCGTCCAGCTTCGAGTTGAACTCGAGCAGCGCCTTGGCCGCCCGCTGCTCGCTCGTCCACTGCTCCGTGTCTGGCCGCTCCCCCATGAGCGGCTCTCCGGGCTTCACCGGCGGGTTCATGGTGAGCGCCATGAGGCCGAACGTCTCGGTCTTTGGGGTGATGCTGCCGAGGAACTCGGCCTCGGTCACCGCCGCTTTGGCGTCGGCCGGCATCTCTCCGGAGGTGATGGTGGGGCGGTTGGGGACGAAGCCGTTGTACGCGTACTGCCCGAAGCTGACGGCCGAGTGGTAAGCCGATCCGAGCCAGATGATGGTGGAGCAGGTCTCCACGAGGTCGTCGACGGAGTCCATCGCCGGCCACCACGGCGCGTCGCGCAGGTCGCCGTGGCCCACGTTTCGCACCTCGCTCCACCACGCCTGCAGCTCGCTGTCGCCCGCGACGGCGCCGTCGCCGTCGGCGTAGTATATCGCGCAGTAGTCCGTGACCCATTCCTTGATGGCGGTCCAGATCTCCAGCCCGTCCACCGCGTACGGGTAGTCCTTTATCAGCAGCTCCAGCTCCTCAGCCTTCTTCGGATCGCCTCTCGCCACACCTC

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 11 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
BS00030363 47
BS00030361 197
BS00030362 218
BS00030364 546
BS00030354 1300
BS00030355 1310
BS00030356 1316
BS00030357 1317
BS00030358 1320
BS00030359 1362
BS00030360 1471

This contig has been mapped provisionally to chromosome 2BL.




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: 








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