[quant] fragment length distribution will be estimated from the data
[index] k-mer length: 31
[index] number of targets: 114
[index] number of k-mers: 18,039
[index] number of equivalence classes: 517
[quant] running in paired-end mode
[quant] will process pair 1: ../data/trimmed/LA122_S3_L001_R1_001_trim.fastq
                             ../data/trimmed/LA122_S3_L001_R2_001_trim.fastq
[quant] finding pseudoalignments for the reads ... done
[quant] processed 85,603 reads, 41,685 reads pseudoaligned
[quant] estimated average fragment length: 0
[   em] quantifying the abundances ... done
[   em] the Expectation-Maximization algorithm ran for 575 rounds