[vast align]: VAST-TOOLS v2.5.1
[vast align]: Species assembly: mm10, VASTDB Species key: Mm2
[vast align]: VASTDB Version: vastdb.mm2.23.06.20
[vast align]: Input RNA-seq file(s): /nfs/no_backup/jvalcarcel/emancini/anieto/SRR5264070_1.fastq.gz and /nfs/no_backup/jvalcarcel/emancini/anieto/SRR5264070_2.fastq.gz
[vast align]: Most common read lengths detected for fq1 & fq2: 101 (100.00%) and 101 (100.00%)
[vast align]: Sample name: SRR5264070_1 
[vast align]: Using VASTDB -> /nfs/users/mirimia/projects/vast-tools/VASTDB/Mm2
[vast align]: Setting output directory to vast_out
[vast align]: Setting tmp directory..
[vast align]: Set tmp directory to /nfs/no_backup/jvalcarcel/emancini/anieto/vast_out/tmp!
# reads processed: 500000
# reads with at least one reported alignment: 177563 (35.51%)
# reads that failed to align: 298356 (59.67%)
# reads with alignments suppressed due to -m: 24081 (4.82%)
Reported 177563 alignments to 1 output stream(s)
[vast align]:    fraction of first reads mapping to fwd / rev strand : 0.4907 / 0.5093
# reads processed: 500000
# reads with at least one reported alignment: 175385 (35.08%)
# reads that failed to align: 301061 (60.21%)
# reads with alignments suppressed due to -m: 23554 (4.71%)
Reported 175385 alignments to 1 output stream(s)
[vast align]:    fraction of second reads mapping to fwd / rev strand : 0.4991 / 0.5009
[vast align]: Mapping RNAseq reads against mRNA sequences
[vast align]: Calculating cRPKMs
[vast trim]: Total processed reads: 19797179
[vast trim]: Total valid fwd reads: 19797179
# reads processed: 19797179
# reads with at least one reported alignment: 9705871 (49.03%)
# reads that failed to align: 8471615 (42.79%)
# reads with alignments suppressed due to -m: 1619693 (8.18%)
Reported 9705871 alignments to 1 output stream(s)
[vast align]: Trimming RNAseq reads to 50 nt sequences
[vast trim]: Total processed reads: 19797179
[vast trim]: Total valid fwd reads: 19797179
[vast trim]: Total valid rev reads: 19797179
[vast align]: Doing genome subtraction
# reads processed: 118783074
# reads with at least one reported alignment: 65511006 (55.15%)
# reads that failed to align: 34678661 (29.19%)
# reads with alignments suppressed due to -m: 18593407 (15.65%)
Reported 65511006 alignments to 1 output stream(s)
[vast align]: Mapping reads to the "splice site-based" (aka "a posteriori") EEJ library and Analyzing...
# reads processed: 34678661
# reads with at least one reported alignment: 4528998 (13.06%)
# reads that failed to align: 29945510 (86.35%)
# reads with alignments suppressed due to -m: 204153 (0.59%)
Reported 4528998 alignments to 1 output stream(s)
[vast align]: Mapping reads to the "transcript-based" (aka "a priori") SIMPLE EEJ library and Analyzing...
# reads processed: 34678661
# reads with at least one reported alignment: 745820 (2.15%)
# reads that failed to align: 33924283 (97.82%)
# reads with alignments suppressed due to -m: 8558 (0.02%)
Reported 745820 alignments to 1 output stream(s)
[vast align]: Mapping reads to the "transcript-based" (aka "a priori") MULTI EEJ library and Analyzing...
# reads processed: 34678661
# reads with at least one reported alignment: 1040441 (3.00%)
# reads that failed to align: 33614319 (96.93%)
# reads with alignments suppressed due to -m: 23901 (0.07%)
Reported 1040441 alignments to 1 output stream(s)
[vast align]: Mapping reads to microexon EEJ library and Analyzing...
# reads processed: 34678661
# reads with at least one reported alignment: 91346 (0.26%)
# reads that failed to align: 34575376 (99.70%)
# reads with alignments suppressed due to -m: 11939 (0.03%)
Reported 91346 alignments to 1 output stream(s)
[vast align]: Mapping reads to intron retention library (version 2)...
# reads processed: 118783074
# reads with at least one reported alignment: 6579947 (5.54%)
# reads that failed to align: 111869204 (94.18%)
# reads with alignments suppressed due to -m: 333923 (0.28%)
Reported 6579947 alignments to 1 output stream(s)
# reads processed: 118783074
# reads with at least one reported alignment: 1486441 (1.25%)
# reads that failed to align: 116139022 (97.77%)
# reads with alignments suppressed due to -m: 1157611 (0.97%)
Reported 1486441 alignments to 1 output stream(s)
[vast align]: Cleaning SRR5264070_1-50.fa.gz files!
[vast align]: Cleaning up SRR5264070_1-50-e.fa.gz!
[vast align]: Deleting temporary files with reverse-complemented reads.
[vast align]: Completed Sat Jan 29 19:58:41 2022