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Figure S1 Length (A) and average quality score (B) distribution of total number of high-quality reads generated for Cicer reticulatum.

Figure S2 Length distribution (A) and read depth distribution (B) of C.  reticulatum transcripts generated from optimized assembly.

Figure S3 GC content of C.  arietinum and C.  reticulatum transcripts. The average GC content of each transcript was calculated and percentage of transcripts with GC content within a range are represented.

Figure S4 Functional annotation of C.  arietinum and C.  reticulatum transcripts. GOSlim term assignment to the transcripts in different categories of biological process, molecular function and cellular component.

Figure S5 Distribution of polymorphic SSRs at various transcript positions.

Figure S6 Number of SNPs as a function of probability (A) and average Phred quality score (B) cut-off.

Figure S7 Number of SNPs and SNP containing transcripts as a function of read depth at base consensus ratio of 0.9 (A) and 1.0 (B).

Figure S8 Distribution of SNPs at various transcript positions.

Table S1 Statistics of SSRs identified in C.  reticulatum transcripts.

Table S2 Frequency of SSRs identified in C.  reticulatum transcripts.

Table S3 List of polymorphic SSRs identified between C.  arietinum and C.  reticulatum.

Table S4 List of SNPs identified between C.  arietinum and C.  reticulatum.

Table S5 Validation of 96 selected polymorphic SSRs between C.  arietinum and C.  reticulatum.

Table S6 Validation of 24 selected SNPs between C.  arietinum and C.  reticulatum using CAPS genotyping assay.

FilenameFormatSizeDescription
PBI_712_sm_FigS1-S8-TableS1-S3-S5-S6.pdf1758KSupporting info item
PBI_712_sm_TableS4.pdf3021KSupporting info item

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