The effects of read length, quality and quantity on microsatellite discovery and primer development: from Illumina to PacBio
Version of Record online: 24 MAR 2014
© 2014 John Wiley & Sons Ltd
Molecular Ecology Resources
Volume 14, Issue 5, pages 953–965, September 2014
How to Cite
Wei, N., Bemmels, J. B. and Dick, C. W. (2014), The effects of read length, quality and quantity on microsatellite discovery and primer development: from Illumina to PacBio. Molecular Ecology Resources, 14: 953–965. doi: 10.1111/1755-0998.12245
- Issue online: 12 AUG 2014
- Version of Record online: 24 MAR 2014
- Accepted manuscript online: 27 FEB 2014 10:31AM EST
- Manuscript Accepted: 24 FEB 2014
- Manuscript Revised: 19 FEB 2014
- Manuscript Received: 7 OCT 2013
- Rackham Graduate Student Research Grant
- University of Michigan
Fig. S1 Frequency distribution of mean quality score of individual CCS reads before (untrimmed) and after quality control (trimmed).
Fig. S2 Homopolymer lengths of CCS reads.
Fig. S3 The number of CCS reads generated by a single SMRT cell.
Fig. S4 Negative correlation between sequence quality and sequence length in raw CCS reads.
Fig. S5 Positive correlation between sequence quality and sequence length in post-QC CCS reads.
Fig. S6 Positive correlation between homopolymer length and raw CCS read length.
Fig. S7 Base position GC content of CCS reads before (black) and after quality control (grey).
Table S1 Simulations of microsatellite detection effectiveness in relation to read length when sequencing errors were not introduced.
Table S2 Simulations of microsatellite detection effectiveness in relation to read length when PacBio CCS error profiles (Ono et al. 2013) were used.
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