Contig Sequence

Contig name: BC000032632 (Nimblegen Contig name: CONTIG34173)

Contains SNP BS00087757 at position 69 (ambiguity code highlighted in red in the sequence below).

CTCCTGTTACGGACTTGGAGCGGATCTCGAAAGCAAATTCTACATTTCTTTTGTGCTAACATTCAAAA[Y]ATTCTACAGCAGCCAGCTCTGGATGGATCACACCAATATGCTACATACAACTTCTCATCATGTTTACAGATGCTACAACAGATGCTACGTGCTGTTCAAAACTGAGGAAACCGCGAATCCGTCCATCCGTGGCGGCTAGGCTATCGCTTGTCCGTCGTCTTCACTGGCACCCCCTTGTACATGCCCACGCGCGACTTGAGGTCGTCTCGGCGCGGCCTTGCCACCTTGTTGTTTGGATCAAAGAGCAATACCTCCTCGAACGCCCTGAGCGCCGACGCGAGGTCCTTCTGCTGCTCATATGCGTCGCCGAGGTTGTTCCACGCCGTCACATAGCCTGGTTGGAGCTCCACGGCCTTCTCGAATTGCTTGATTGCCTTGTCCAGTTTGTTCTCCCGCTTGTAGCTCACCCCGAGGGCGTTGTACACCTGTGCAAGATCTTGCTCATCTCTGTCCCATTTTTGGATTGCTTGCTGTAGATATTTGATAGCTGCAGGGTAAAACTTTCTCCGGAGCATCACTGCTCCAAGCTCAAAAAGTTCAGTAGCGCTTCCCTCACCACTTCTCACTTGTTCCTGCAAGTCTTTCGCAGAAAGATCGAGCTCTCTGCGGACAAGAACCTGGCGGATGACAAAAAATGTACCAGTTCCAAGCAGACCAAGCAGTATGAGCAGATACGAAAGCTGAATTCCCAGCTCAAACAGCTCCCCAACCTCGTAAACCATATTTAACTTTGCTCCTTCACTAGACTGTGCTGACTGTGCAAAACTCAACCATGCCGTAGCACCACAAGGAAGTATACCAAGTTGCTGCAGCAAGTTCATATTTCTCTTTAGATCCGTGTCAGAAGGGAGATCGGAAGTTTCTTTTACTTGTGTTGAAAGAAAAACCTCCTCTGCTCTCTTGATAATCTGCCTTCCTACGCCGGTGCAGCAGAGGGGGCCGACGGTCTCCGGCGTCTCCTCGCCGCCGGACGTCCCGGTTGCCGCCTTCATCGCGAGCCCCGTGGAGCGGCCTTGGCGGAGCCCACCGAGAAAGCGATTCTCTTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACGTCCGTCC

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 28 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
BS00087754 48
BS00087756 65
BS00087757 69
BS00087764 78
BS00087743 225
BS00087744 234
BS00087745 317
BS00087746 327
BS00087747 342
BS00087748 345
BS00087749 346
BS00087750 348
BS00087751 378
BS00087752 391
BS00087753 420
BS00087755 482
BS00087758 700
BS00087759 729
BS00087760 744
BS00087761 756
BS00087762 765
BS00087763 774
BS00087765 792
BS00087766 822
BS00087767 825
BS00087768 827
BS00087769 907
BS00087770 922

This contig has been mapped provisionally to chromosome 4BL.



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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