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This is in contrast to most other studies of gene-based microsatellites which in using the more commonly available 5' ESTs, may not give a complete picture of the frequency of microsatellites in expressed sequences, precisely because they rely on partial sequencing of the cDNA (ESTs).
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Additionally, one of the exonic microsatellites, which vary in the samples from individual-1, is also indicated to vary in individual-2 (BCAGB, CAG).
Perfect microsatellites which occurred in the contigs greater than 200 bp and with coverage above 10x could be recovered using Phobos.
Seedlings were screened by flow cytometry to ascertain ploidy, and fingerprinted, using a kit of seven previously identified variable microsatellites which occurred in the parents.
This cluster is very rich in B1 retrotransposons and microsatellites, which are ordered in a regular manner.
This is a distinct advantage over most microsatellites which are found in anonymous, non-coding regions and are associated with specific proteins only by virtue of physical proximity.
The other half was represented by two classes: (i) low-complexity repetitive DNA (e.g. microsatellites) which is present in almost all genomes and thus cannot be assigned unequivocally; and (ii) un-assignable reads which either did not match an entry in the chosen database or did not meet the stringent MEGAN criteria applied.
More robust tests would require co-dominant markers such as microsatellites, which are not available in sufficient number in Lepomis.
This in turn leads to frameshift mutations in microsatellites, which might contribute to the malignant transformation of tumor cells when located in the coding sequences of tumor suppressor genes like the TGFBR2 (TGF-β receptor type 2) [ 4].
This was in contrast to the GA and CA microsatellites which were ten times more frequent in the 5'end than in the 3'end of the cDNA.
For example the genomes of C. briggsae and C. brenneri contain many AG and AAG microsatellites, which are less abundant in the other two species.
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