Contig Sequence

Contig name: BC000036056 (Nimblegen Contig name: CONTIG88573)

Contains SNP BS00101972 at position 1762 (ambiguity code highlighted in red in the sequence below).

GTTCCTTTGACCTTCGGGCGTAACCTCGCTGTTTCTTTGGATGCCAAGGCTGGTCAGATTGGTGAAGTATCTGAACACAGAACTGGCATGGAGAGAGTGGCCTGTGGCTCACAGGGAGGAGGTATGCTGTCATTTGACCGTGGATTTTGGAAGGGGGCTGTTGGAGACAAGAATCAGTTTTTCAGGATGGAAGGATGTCATGAAAATGGGGGCTTGTCAGATCTGGGGAGGCATGGCACTGAGAAATTTCCACGAGGTGCTGATGGTCTGAGTTTGATCGATGATAATCATGAGCTGGGAAGGGATGTTTTCTGGCAAATATTGATGAAGAGGTGTCCTTCCCCGTTGATGAAGCTTTGGTCCCTTCCTTCTACCAGAAGAGCCATATGGATGTTTTTGTAGAAGATAGCAAGTCATGCATAGAGAAATTAACTCAAGATTCACTGGAAGGAGATATGCTTTCATGTGAGCGCGATGCCAGATTTCGTACTGAGGCTTCTGGAGACGAGAATCAACATAGGATGGTGGTGTCGAAGGGTCAGGTTTCATCTATTTGTGAAGATGCAAATAGTCCGAGTTTAAATGCTTGTGGTCTTTTTCCTGAAATAGAAGTTCTACGCCAACAGGCTGACAAAGAATACAAGGTCTTTGAACTACCCCCAGAGATATACCTGGCTAGATCTTCCTATAACCCACCTTGCCTAGATGGACTTTGTCGTAGTGGCAAGGAATCATCTGCCTGTGTGCCTGGGCCATCAAGATTCTTCTGGTGTCAAATCACGTCGTCCAGATCATTTGGTACAAGAGCTCAATGCATATAACTCTTCCATTGACAAACCTTGCTCTGCCAATTTTGTTGAAAATGCCAATGATGAAGAATCACAAAATAAAATTTCGGAGTCATTAAATGCCTCCAAGCGTAGGAATCCAAGAAGAGCCGCCTCATCAAGAAATCGCGCTCCTGCAGAACATGATCATCAAATAAACAAAGGAAGCAGTAGCACATGCAAATCTAAGAAGGTCGAGAGTTCATGCTCTTTAGTTGAAAGCACCTTGATTAAGTTCCCAAACAAAACTACCAAGGTAAGAAGTACATCAACAGACCAGTGAATTCGACTGCCTGGGGCAGTCTAGAAAAGCTAGCAGATGGTTTTGGTCAGAACTGTGAACCTTCTACCTCTAATTCTCATCTGATTTCCCTTGAAAATGGTGGGAGATCAAACAAAAGATCTGGGAAGAAAGAGCAGCCAATTGTTCGAAAGGCTCGAAGTTCAAGATGTCCAAAAAATAAGTTCCCTGCCTTTTCTGTTACCAGATATGCACCGGATGAATTGAATGGCGAACCTACCTTTTCAGTCATGGATGGTGCTTATGGCTCCGCAGAAGGTTACATAGGAAACTTCCCTAAGTTGGCTCCTCGTGCATTTCTCAATGTTTCTGATGATGCTCACAGATCTGTGCAACATATGTCTATCCAGACTGACATGCAGCAGTTAGACAGGTGCTTGGATAGTGTTGCTCAAGAAACATGTCCTGCGTACATGTGTGGAGAGTTTGCTAAATCAATTTCCGAACCTTCTCTTAATAATGGCGGTGTTGGATTTTCACCCGACTCTGTTTTGGAGGTAGCCTCTGTTACATGTGAAAACAACACCTCTGCAAGCCATGATGTTAAACTGCGTGGAAACCCATCTTATCCTGCTGCATTGACTGGAAGTGATCTTCATGCATCTGATTTATGTACTTCTGACTTTGGAAAAA[R]TCATGCGTCATCATCAACAGATTTTGAGCAGCAGCCCAAAACTGTGAGGGGTGATGAAACTGATGATAACACAAGAAGTGAAGAGATTAACCAGTCTCACGCCATAATTGGTTATGTTGGTGAGGGAAAAGTGCAAGGCTTAGAGAAGTCCAATGCAGTGAGGAAAACTAAGATGTTGGAGAAGCAGAAAGAGCGAAAGAAAGATGGAATAAAGGGAAATAACATAAGAGATGGAAGTTCCACCAAAATTTCATCAAGTGAAGCTTCAA

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 25 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
BS00101979 95
BS00101963 158
BS00101974 558
BS00101975 784
BS00101976 866
BS00101977 897
BS00101978 901
BS00101955 1225
BS00101956 1336
BS00101957 1392
BS00101958 1393
BS00101959 1412
BS00101960 1450
BS00101961 1456
BS00101962 1571
BS00101964 1625
BS00101965 1640
BS00101966 1653
BS00101967 1659
BS00101968 1701
BS00101969 1702
BS00101970 1715
BS00101971 1749
BS00101972 1762 2B2 6.65
BS00101973 1768



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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Maintained by Mark Winfield.