[quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S12M_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S12M_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 30,108,061 reads, 3,680,414 reads pseudoaligned [quant] estimated average fragment length: 101.464 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 963 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S13M_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S13M_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 22,371,935 reads, 2,824,234 reads pseudoaligned [quant] estimated average fragment length: 95.1184 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 988 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S16F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S16F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 23,656,670 reads, 1,090,396 reads pseudoaligned [quant] estimated average fragment length: 120.867 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,104 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S19F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S19F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 23,837,247 reads, 1,036,461 reads pseudoaligned [quant] estimated average fragment length: 109.547 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,114 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S22F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S22F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 27,978,813 reads, 1,270,361 reads pseudoaligned [quant] estimated average fragment length: 107.28 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,145 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S23M_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S23M_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 34,776,112 reads, 3,790,737 reads pseudoaligned [quant] estimated average fragment length: 86.863 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 851 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S29F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S29F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 22,122,242 reads, 1,379,397 reads pseudoaligned [quant] estimated average fragment length: 108.085 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,187 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S31M_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S31M_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 19,811,268 reads, 2,625,177 reads pseudoaligned [quant] estimated average fragment length: 115.612 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 929 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S35F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S35F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 19,868,657 reads, 924,987 reads pseudoaligned [quant] estimated average fragment length: 104.262 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,085 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S36F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S36F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 21,276,094 reads, 1,146,588 reads pseudoaligned [quant] estimated average fragment length: 103.917 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 853 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S39F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S39F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 24,052,010 reads, 1,034,062 reads pseudoaligned [quant] estimated average fragment length: 108.652 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,107 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S3F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S3F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 21,622,598 reads, 954,305 reads pseudoaligned [quant] estimated average fragment length: 108.581 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,082 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S41F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S41F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 22,128,716 reads, 1,307,067 reads pseudoaligned [quant] estimated average fragment length: 105.579 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,140 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S44F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S44F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 24,493,586 reads, 1,332,041 reads pseudoaligned [quant] estimated average fragment length: 110.51 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,129 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S48M_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S48M_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 52,086,454 reads, 5,997,425 reads pseudoaligned [quant] estimated average fragment length: 93.9379 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,067 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S50F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S50F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 19,912,778 reads, 881,312 reads pseudoaligned [quant] estimated average fragment length: 110.69 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,135 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S52F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S52F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 23,241,491 reads, 1,452,384 reads pseudoaligned [quant] estimated average fragment length: 115.949 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,185 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S53F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S53F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 22,661,909 reads, 1,068,912 reads pseudoaligned [quant] estimated average fragment length: 104.606 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,158 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S54F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S54F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 22,715,760 reads, 1,283,406 reads pseudoaligned [quant] estimated average fragment length: 102.484 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,179 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S59M_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S59M_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 21,243,397 reads, 1,733,582 reads pseudoaligned [quant] estimated average fragment length: 100.853 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 863 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S64M_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S64M_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 23,302,647 reads, 3,256,905 reads pseudoaligned [quant] estimated average fragment length: 89.8294 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,009 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S6M_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S6M_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 34,301,843 reads, 3,728,107 reads pseudoaligned [quant] estimated average fragment length: 97.3899 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 983 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S76F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S76F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 25,550,076 reads, 1,181,341 reads pseudoaligned [quant] estimated average fragment length: 104.086 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 963 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S77F_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S77F_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 27,376,995 reads, 1,099,339 reads pseudoaligned [quant] estimated average fragment length: 106.421 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,103 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S7M_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S7M_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 25,556,368 reads, 3,049,533 reads pseudoaligned [quant] estimated average fragment length: 103.961 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,285 rounds [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 4,750 [index] number of k-mers: 11,624,803 [index] number of equivalence classes: 49,741 [quant] running in paired-end mode [quant] will process pair 1: ../data/S9M_R1.fastp-trim.20bp-5prime.20220224.fq.gz ../data/S9M_R2.fastp-trim.20bp-5prime.20220224.fq.gz [quant] finding pseudoalignments for the reads ... done [quant] processed 31,008,604 reads, 3,557,237 reads pseudoaligned [quant] estimated average fragment length: 99.9996 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,130 rounds