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June 1, 2018 14:17
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| Program call: | |
| uniref90_subsample.fasta uniref90 mmseqs2_results.m8 tmp -s 4 --max-seqs 4000 | |
| MMseqs Version: be8f616d7cfd406880608e470a6c7fda45b04c50 | |
| Sub Matrix blosum62.out | |
| Add backtrace false | |
| Alignment mode 3 | |
| E-value threshold 0.001 | |
| Seq. Id Threshold 0 | |
| Coverage threshold 0 | |
| Coverage Mode 0 | |
| Max. sequence length 32000 | |
| Max. results per query 4000 | |
| Compositional bias 1 | |
| Realign hit false | |
| Max Reject 2147483647 | |
| Max Accept 2147483647 | |
| Include identical Seq. Id. false | |
| No preload false | |
| Early exit false | |
| Pseudo count a 1 | |
| Pseudo count b 1.5 | |
| Threads 36 | |
| Verbosity 3 | |
| Sensitivity 4 | |
| K-mer size 0 | |
| K-score 2147483647 | |
| Alphabet size 21 | |
| Offset result 0 | |
| Split DB 0 | |
| Split mode 2 | |
| Split Memory Limit 0 | |
| Diagonal Scoring 1 | |
| Exact k-mer matching 0 | |
| Mask Residues 1 | |
| Minimum Diagonal score 15 | |
| Spaced Kmer 1 | |
| Mask profile 1 | |
| Profile e-value threshold 0.001 | |
| Use global sequence weighting false | |
| Filter MSA 1 | |
| Maximum sequence identity threshold 0.9 | |
| Minimum seq. id. 0 | |
| Minimum score per column -20 | |
| Minimum coverage 0 | |
| Select n most diverse seqs 1000 | |
| Omit Consensus false | |
| Min codons in orf 1 | |
| Max codons in length 2147483647 | |
| Max orf gaps 2147483647 | |
| Contig start mode 2 | |
| Contig end mode 2 | |
| Orf start mode 0 | |
| Forward Frames 1,2,3 | |
| Reverse Frames 1,2,3 | |
| Translation Table 1 | |
| Use all table starts false | |
| Offset of numeric ids 0 | |
| Add Orf Stop false | |
| Number search iterations 1 | |
| Start sensitivity 4 | |
| Search steps 1 | |
| Sets the MPI runner | |
| Remove Temporary Files true | |
| Alignment Format 0 | |
| Database Output false | |
| Overlap 0 | |
| Greedy best hits false | |
| Program call: | |
| tmp/3547433198223285186/query uniref90 tmp/3547433198223285186/result tmp/3547433198223285186/search_tmp --sub-mat blosum62.out --alignment-mode 3 -e 0.001 --min-seq-id 0 -c 0 --cov-mode 0 --max-seq-len 32000 --max-seqs 4000 --comp-bias-corr 1 --max-rejected 2147483647 --max-accept 2147483647 --pca 1 --pcb 1.5 --threads 36 -v 3 -s 4 -k 0 --k-score 2147483647 --alph-size 21 --offset-result 0 --split 0 --split-mode 2 --split-memory-limit 0 --diag-score 1 --exact-kmer-matching 0 --mask 1 --min-ungapped-score 15 --spaced-kmer-mode 1 --mask-profile 1 --e-profile 0.001 --filter-msa 1 --max-seq-id 0.9 --qid 0 --qsc -20 --cov 0 --diff 1000 --min-length 1 --max-length 2147483647 --max-gaps 2147483647 --contig-start-mode 2 --contig-end-mode 2 --orf-start-mode 0 --forward-frames 1,2,3 --reverse-frames 1,2,3 --translation-table 1 --id-offset 0 --num-iterations 1 --start-sens 4 --sens-steps 1 --remove-tmp-files | |
| MMseqs Version: be8f616d7cfd406880608e470a6c7fda45b04c50 | |
| Sub Matrix blosum62.out | |
| Add backtrace false | |
| Alignment mode 3 | |
| E-value threshold 0.001 | |
| Seq. Id Threshold 0 | |
| Coverage threshold 0 | |
| Coverage Mode 0 | |
| Max. sequence length 32000 | |
| Max. results per query 4000 | |
| Compositional bias 1 | |
| Realign hit false | |
| Max Reject 2147483647 | |
| Max Accept 2147483647 | |
| Include identical Seq. Id. false | |
| No preload false | |
| Early exit false | |
| Pseudo count a 1 | |
| Pseudo count b 1.5 | |
| Threads 36 | |
| Verbosity 3 | |
| Sensitivity 4 | |
| K-mer size 0 | |
| K-score 2147483647 | |
| Alphabet size 21 | |
| Offset result 0 | |
| Split DB 0 | |
| Split mode 2 | |
| Split Memory Limit 0 | |
| Diagonal Scoring 1 | |
| Exact k-mer matching 0 | |
| Mask Residues 1 | |
| Minimum Diagonal score 15 | |
| Spaced Kmer 1 | |
| Mask profile 1 | |
| Profile e-value threshold 0.001 | |
| Use global sequence weighting false | |
| Filter MSA 1 | |
| Maximum sequence identity threshold 0.9 | |
| Minimum seq. id. 0 | |
| Minimum score per column -20 | |
| Minimum coverage 0 | |
| Select n most diverse seqs 1000 | |
| Omit Consensus false | |
| Min codons in orf 1 | |
| Max codons in length 2147483647 | |
| Max orf gaps 2147483647 | |
| Contig start mode 2 | |
| Contig end mode 2 | |
| Orf start mode 0 | |
| Forward Frames 1,2,3 | |
| Reverse Frames 1,2,3 | |
| Translation Table 1 | |
| Use all table starts false | |
| Offset of numeric ids 0 | |
| Add Orf Stop false | |
| Number search iterations 1 | |
| Start sensitivity 4 | |
| Search steps 1 | |
| Sets the MPI runner | |
| Remove Temporary Files true | |
| Program call: | |
| tmp/3547433198223285186/query uniref90 tmp/3547433198223285186/search_tmp/8996867756161290383/pref_4.0 --sub-mat blosum62.out -k 0 --k-score 2147483647 --alph-size 21 --max-seq-len 32000 --max-seqs 4000 --offset-result 0 --split 0 --split-mode 2 --split-memory-limit 0 -c 0 --cov-mode 0 --comp-bias-corr 1 --diag-score 1 --exact-kmer-matching 0 --mask 1 --min-ungapped-score 15 --spaced-kmer-mode 1 --pca 1 --pcb 1.5 --threads 36 -v 3 -s 4.0 | |
| MMseqs Version: be8f616d7cfd406880608e470a6c7fda45b04c50 | |
| Sub Matrix blosum62.out | |
| Sensitivity 4 | |
| K-mer size 0 | |
| K-score 2147483647 | |
| Alphabet size 21 | |
| Max. sequence length 32000 | |
| Max. results per query 4000 | |
| Offset result 0 | |
| Split DB 0 | |
| Split mode 2 | |
| Split Memory Limit 0 | |
| Coverage threshold 0 | |
| Coverage Mode 0 | |
| Compositional bias 1 | |
| Diagonal Scoring 1 | |
| Exact k-mer matching 0 | |
| Mask Residues 1 | |
| Minimum Diagonal score 15 | |
| Include identical Seq. Id. false | |
| Spaced Kmer 1 | |
| No preload false | |
| Early exit false | |
| Pseudo count a 1 | |
| Pseudo count b 1.5 | |
| Threads 36 | |
| Verbosity 3 | |
| Initialising data structures... | |
| Using 36 threads. | |
| Could not find precomputed index. Compute index. | |
| Substitution matrices... | |
| Use kmer size 7 and split 7 using Target split mode. | |
| Needed memory (54986246185 byte) of total memory (66386257920 byte) | |
| Target database: uniref90(Size: 73222973) | |
| Query database type: Aminoacid | |
| Target database type: Aminoacid | |
| Time for init: 0 h 2 m 36s | |
| Query database: tmp/3547433198223285186/query(size=10000) | |
| Process prefiltering step 1 of 7 | |
| Index table: counting k-mers... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ........................................................................................ | |
| Index table: Masked residues: 117498303 | |
| Index table: fill... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ........................................................................................ | |
| Index table: removing duplicate entries... | |
| Index table init done. | |
| DB statistic | |
| Entries: 3229333637 | |
| DB Size: 29616001822 (byte) | |
| Avg Kmer Size: 2.52292 | |
| Top 10 Kmers | |
| LLGPGKT 12785 | |
| GPGGKLL 9404 | |
| ILDMGKT 7541 | |
| FSHAGSI 5590 | |
| IHDKPIL 5578 | |
| TMLDRNT 5141 | |
| SLVAGTM 4882 | |
| AFRNNFW 4796 | |
| LSPLAIT 4735 | |
| IFLLASS 4247 | |
| Min Kmer Size: 0 | |
| Empty list: 595300087 | |
| Time for index table init: 0h 1m 46s. | |
| k-mer similarity threshold: 115 | |
| k-mer match probability: 0 | |
| Starting prefiltering scores calculation (step 1 of 7) | |
| Query db start 1 to 10000 | |
| Target db start 1 to 8880646 | |
| 568 k-mers per position. | |
| 256862 DB matches per sequence. | |
| 0 Overflows. | |
| 516 sequences passed prefiltering per query sequence. | |
| Median result list size: 572 | |
| 6 sequences with 0 size result lists. | |
| Time for prefiltering scores calculation: 0 h 0 m 9s | |
| Time for merging files: 0 h 0 m 0 s | |
| Sorting the results... tmp/3547433198223285186/search_tmp/8996867756161290383/pref_4.0_tmp_0_tmp .. Done | |
| Time for merging files: 0 h 0 m 0 s | |
| Process prefiltering step 2 of 7 | |
| Index table: counting k-mers... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ................................................................................................... 9 Mio. sequences processed | |
| ......................................... | |
| Index table: Masked residues: 152138715 | |
| Index table: fill... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ................................................................................................... 9 Mio. sequences processed | |
| ......................................... | |
| Index table: removing duplicate entries... | |
| Index table init done. | |
| DB statistic | |
| Entries: 3176203476 | |
| DB Size: 29297220856 (byte) | |
| Avg Kmer Size: 2.48141 | |
| Top 10 Kmers | |
| DVSGVLE 22747 | |
| LGGFGYK 14182 | |
| LLGPGKT 11406 | |
| AFRNNFW 9735 | |
| TMLDRNT 9387 | |
| NNSWLPS 9086 | |
| LSPLAIT 9062 | |
| IFLLASS 8229 | |
| VLGITLT 7716 | |
| MPMGGNW 7386 | |
| Min Kmer Size: 0 | |
| Empty list: 593486678 | |
| Time for index table init: 0h 1m 42s. | |
| k-mer similarity threshold: 115 | |
| k-mer match probability: 0 | |
| Starting prefiltering scores calculation (step 2 of 7) | |
| Query db start 1 to 10000 | |
| Target db start 8880647 to 18293060 | |
| 568 k-mers per position. | |
| 244425 DB matches per sequence. | |
| 0 Overflows. | |
| 516 sequences passed prefiltering per query sequence. | |
| Median result list size: 572 | |
| 4 sequences with 0 size result lists. | |
| Time for prefiltering scores calculation: 0 h 0 m 8s | |
| Time for merging files: 0 h 0 m 0 s | |
| Sorting the results... tmp/3547433198223285186/search_tmp/8996867756161290383/pref_4.0_tmp_1_tmp .. Done | |
| Time for merging files: 0 h 0 m 0 s | |
| Process prefiltering step 3 of 7 | |
| Index table: counting k-mers... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ................................................................................................... 9 Mio. sequences processed | |
| ................................................................................................... 10 Mio. sequences processed | |
| ................................................................................................... 11 Mio. sequences processed | |
| ...................................................... | |
| Index table: Masked residues: 42915436 | |
| Index table: fill... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ................................................................................................... 9 Mio. sequences processed | |
| ................................................................................................... 10 Mio. sequences processed | |
| ................................................................................................... 11 Mio. sequences processed | |
| ...................................................... | |
| Index table: removing duplicate entries... | |
| Index table init done. | |
| DB statistic | |
| Entries: 3295390338 | |
| DB Size: 30012342028 (byte) | |
| Avg Kmer Size: 2.57452 | |
| Top 10 Kmers | |
| SGQQRIA 31249 | |
| GPGGKLL 28899 | |
| GQQVARA 19184 | |
| YTGTGKG 19029 | |
| GGQRVAR 17741 | |
| LSGQQAI 12209 | |
| GPGGKTL 11216 | |
| GGRRVAR 10561 | |
| GLGNGKT 9908 | |
| GRFVVEV 9836 | |
| Min Kmer Size: 0 | |
| Empty list: 608521653 | |
| Time for index table init: 0h 1m 44s. | |
| k-mer similarity threshold: 115 | |
| k-mer match probability: 0 | |
| Starting prefiltering scores calculation (step 3 of 7) | |
| Query db start 1 to 10000 | |
| Target db start 18293061 to 29841450 | |
| 568 k-mers per position. | |
| 267756 DB matches per sequence. | |
| 0 Overflows. | |
| 522 sequences passed prefiltering per query sequence. | |
| Median result list size: 572 | |
| 6 sequences with 0 size result lists. | |
| Time for prefiltering scores calculation: 0 h 0 m 9s | |
| Time for merging files: 0 h 0 m 0 s | |
| Sorting the results... tmp/3547433198223285186/search_tmp/8996867756161290383/pref_4.0_tmp_2_tmp .. Done | |
| Time for merging files: 0 h 0 m 0 s | |
| Process prefiltering step 4 of 7 | |
| Index table: counting k-mers... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ................................................................................................... 9 Mio. sequences processed | |
| ................................................................................................... 10 Mio. sequences processed | |
| ................................................................................................... 11 Mio. sequences processed | |
| .................................................... | |
| Index table: Masked residues: 49191879 | |
| Index table: fill... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ................................................................................................... 9 Mio. sequences processed | |
| ................................................................................................... 10 Mio. sequences processed | |
| ................................................................................................... 11 Mio. sequences processed | |
| .................................................... | |
| Index table: removing duplicate entries... | |
| Index table init done. | |
| DB statistic | |
| Entries: 3294157665 | |
| DB Size: 30004945990 (byte) | |
| Avg Kmer Size: 2.57356 | |
| Top 10 Kmers | |
| SGQQRIA 36499 | |
| GPGGKLL 31546 | |
| YTGTGKG 20486 | |
| GGQRVAR 19333 | |
| LNAEAAG 13477 | |
| GRFVVEV 13080 | |
| GGRRVAR 12119 | |
| RGAVAVR 11053 | |
| RAEGRAV 10833 | |
| AIGSGKS 10122 | |
| Min Kmer Size: 0 | |
| Empty list: 626185950 | |
| Time for index table init: 0h 1m 43s. | |
| k-mer similarity threshold: 115 | |
| k-mer match probability: 0 | |
| Starting prefiltering scores calculation (step 4 of 7) | |
| Query db start 1 to 10000 | |
| Target db start 29841451 to 41368150 | |
| 568 k-mers per position. | |
| 272849 DB matches per sequence. | |
| 0 Overflows. | |
| 522 sequences passed prefiltering per query sequence. | |
| Median result list size: 572 | |
| 7 sequences with 0 size result lists. | |
| Time for prefiltering scores calculation: 0 h 0 m 8s | |
| Time for merging files: 0 h 0 m 1 s | |
| Sorting the results... tmp/3547433198223285186/search_tmp/8996867756161290383/pref_4.0_tmp_3_tmp .. Done | |
| Time for merging files: 0 h 0 m 0 s | |
| Process prefiltering step 5 of 7 | |
| Index table: counting k-mers... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ................................................................................................... 9 Mio. sequences processed | |
| ................................................................................................... 10 Mio. sequences processed | |
| ................................................................................................... 11 Mio. sequences processed | |
| ................................................ | |
| Index table: Masked residues: 48401646 | |
| Index table: fill... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ................................................................................................... 9 Mio. sequences processed | |
| ................................................................................................... 10 Mio. sequences processed | |
| ................................................................................................... 11 Mio. sequences processed | |
| ................................................ | |
| Index table: removing duplicate entries... | |
| Index table init done. | |
| DB statistic | |
| Entries: 3296412290 | |
| DB Size: 30018473740 (byte) | |
| Avg Kmer Size: 2.57532 | |
| Top 10 Kmers | |
| SGQQRIA 36590 | |
| GPGGKLL 30867 | |
| YTGTGKG 19238 | |
| GGQRVAR 18954 | |
| LNAEAAG 14048 | |
| GKTLRAG 13673 | |
| GRFVVEV 13305 | |
| GGRRVAR 11755 | |
| RAEGRAV 11205 | |
| ALGSGKS 10781 | |
| Min Kmer Size: 0 | |
| Empty list: 624953983 | |
| Time for index table init: 0h 1m 43s. | |
| k-mer similarity threshold: 115 | |
| k-mer match probability: 0 | |
| Starting prefiltering scores calculation (step 5 of 7) | |
| Query db start 1 to 10000 | |
| Target db start 41368151 to 52852476 | |
| 568 k-mers per position. | |
| 271058 DB matches per sequence. | |
| 0 Overflows. | |
| 522 sequences passed prefiltering per query sequence. | |
| Median result list size: 572 | |
| 8 sequences with 0 size result lists. | |
| Time for prefiltering scores calculation: 0 h 0 m 9s | |
| Time for merging files: 0 h 0 m 0 s | |
| Sorting the results... tmp/3547433198223285186/search_tmp/8996867756161290383/pref_4.0_tmp_4_tmp .. Done | |
| Time for merging files: 0 h 0 m 0 s | |
| Process prefiltering step 6 of 7 | |
| Index table: counting k-mers... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ................................................................................................... 9 Mio. sequences processed | |
| ................................................................................................... 10 Mio. sequences processed | |
| ............................................................................ | |
| Index table: Masked residues: 88420229 | |
| Index table: fill... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ................................................................................................... 9 Mio. sequences processed | |
| ................................................................................................... 10 Mio. sequences processed | |
| ............................................................................ | |
| Index table: removing duplicate entries... | |
| Index table init done. | |
| DB statistic | |
| Entries: 3250754779 | |
| DB Size: 29744528674 (byte) | |
| Avg Kmer Size: 2.53965 | |
| Top 10 Kmers | |
| SGQQRIA 24447 | |
| GPGGKLL 21990 | |
| NNRSIGP 19659 | |
| VVTLLGS 19404 | |
| THIPVTQ 18164 | |
| NCGFFNT 18025 | |
| VQTGIVV 16682 | |
| CTPNNKS 16281 | |
| TVCHGPV 15220 | |
| SIIPGFY 13999 | |
| Min Kmer Size: 0 | |
| Empty list: 621550367 | |
| Time for index table init: 0h 1m 43s. | |
| k-mer similarity threshold: 115 | |
| k-mer match probability: 0 | |
| Starting prefiltering scores calculation (step 6 of 7) | |
| Query db start 1 to 10000 | |
| Target db start 52852477 to 63617023 | |
| 568 k-mers per position. | |
| 269112 DB matches per sequence. | |
| 0 Overflows. | |
| 523 sequences passed prefiltering per query sequence. | |
| Median result list size: 572 | |
| 6 sequences with 0 size result lists. | |
| Time for prefiltering scores calculation: 0 h 0 m 9s | |
| Time for merging files: 0 h 0 m 0 s | |
| Sorting the results... tmp/3547433198223285186/search_tmp/8996867756161290383/pref_4.0_tmp_5_tmp .. Done | |
| Time for merging files: 0 h 0 m 0 s | |
| Process prefiltering step 7 of 7 | |
| Index table: counting k-mers... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ................................................................................................... 9 Mio. sequences processed | |
| ............................................................ | |
| Index table: Masked residues: 131206124 | |
| Index table: fill... | |
| ................................................................................................... 1 Mio. sequences processed | |
| ................................................................................................... 2 Mio. sequences processed | |
| ................................................................................................... 3 Mio. sequences processed | |
| ................................................................................................... 4 Mio. sequences processed | |
| ................................................................................................... 5 Mio. sequences processed | |
| ................................................................................................... 6 Mio. sequences processed | |
| ................................................................................................... 7 Mio. sequences processed | |
| ................................................................................................... 8 Mio. sequences processed | |
| ................................................................................................... 9 Mio. sequences processed | |
| ............................................................ | |
| Index table: removing duplicate entries... | |
| Index table init done. | |
| DB statistic | |
| Entries: 3208293492 | |
| DB Size: 29489760952 (byte) | |
| Avg Kmer Size: 2.50648 | |
| Top 10 Kmers | |
| SGQQRIA 18942 | |
| GPGGKLL 17581 | |
| GQQVARA 11269 | |
| GEGGFVA 9643 | |
| LLDPTLD 9106 | |
| GGQRVAR 8902 | |
| LNAEAAG 7477 | |
| YDYAIPL 7185 | |
| LLGPGKT 6908 | |
| GRFVVEV 6788 | |
| Min Kmer Size: 0 | |
| Empty list: 607245910 | |
| Time for index table init: 0h 1m 46s. | |
| k-mer similarity threshold: 115 | |
| k-mer match probability: 0 | |
| Starting prefiltering scores calculation (step 7 of 7) | |
| Query db start 1 to 10000 | |
| Target db start 63617024 to 73222973 | |
| 568 k-mers per position. | |
| 263578 DB matches per sequence. | |
| 0 Overflows. | |
| 521 sequences passed prefiltering per query sequence. | |
| Median result list size: 572 | |
| 5 sequences with 0 size result lists. | |
| Time for prefiltering scores calculation: 0 h 0 m 8s | |
| Time for merging files: 0 h 0 m 1 s | |
| Sorting the results... tmp/3547433198223285186/search_tmp/8996867756161290383/pref_4.0_tmp_6_tmp .. Done | |
| Time for merging files: 0 h 0 m 0 s | |
| Merge file tmp/3547433198223285186/search_tmp/8996867756161290383/pref_4.0_tmp_0 and tmp/3547433198223285186/search_tmp/8996867756161290383/pref_4.0.index_tmp_0 | |
| Time for merging files: 0 h 0 m 0 s | |
| tmp/3547433198223285186/search_tmp/8996867756161290383/pref_4.0_merged tmp/3547433198223285186/search_tmp/8996867756161290383/pref_4.0.index_merged | |
| Time for merging files: 0 h 0 m 1 s | |
| Time for merging results: 0 h 0 m 3s | |
| Overall time for prefiltering run: 0 h 16 m 9s | |
| Program call: | |
| tmp/3547433198223285186/query uniref90 tmp/3547433198223285186/search_tmp/8996867756161290383/pref_4.0 tmp/3547433198223285186/search_tmp/8996867756161290383/aln_4.0 --sub-mat blosum62.out --alignment-mode 3 -e 0.001 --min-seq-id 0 -c 0 --cov-mode 0 --max-seq-len 32000 --max-seqs 4000 --comp-bias-corr 1 --max-rejected 2147483647 --max-accept 2147483647 --pca 1 --pcb 1.5 --threads 36 -v 3 | |
| MMseqs Version: be8f616d7cfd406880608e470a6c7fda45b04c50 | |
| Sub Matrix blosum62.out | |
| Add backtrace false | |
| Alignment mode 3 | |
| E-value threshold 0.001 | |
| Seq. Id Threshold 0 | |
| Coverage threshold 0 | |
| Coverage Mode 0 | |
| Max. sequence length 32000 | |
| Max. results per query 4000 | |
| Compositional bias 1 | |
| Realign hit false | |
| Max Reject 2147483647 | |
| Max Accept 2147483647 | |
| Include identical Seq. Id. false | |
| No preload false | |
| Early exit false | |
| Pseudo count a 1 | |
| Pseudo count b 1.5 | |
| Threads 36 | |
| Verbosity 3 | |
| Init data structures... | |
| Compute score, coverage and sequence id. | |
| Using 36 threads. | |
| Query database type: Aminoacid | |
| Target database type: Aminoacid | |
| Calculation of Smith-Waterman alignments. | |
| Time for merging files: 0 h 0 m 0 s | |
| All sequences processed. | |
| 36461455 alignments calculated. | |
| 14420648 sequence pairs passed the thresholds (0.395504 of overall calculated). | |
| 1442.06 hits per query sequence. | |
| Time for alignments calculation: 0 h 13 m 41s | |
| Remove temporary files | |
| Program call: | |
| tmp/3547433198223285186/query uniref90 tmp/3547433198223285186/result tmp/3547433198223285186/alis --format-mode 0 --threads 36 -v 3 | |
| MMseqs Version: be8f616d7cfd406880608e470a6c7fda45b04c50 | |
| Alignment Format 0 | |
| No preload false | |
| Early exit false | |
| Database Output false | |
| Threads 36 | |
| Verbosity 3 | |
| Query Header file: tmp/3547433198223285186/query_h | |
| Target Header file: uniref90_h | |
| Alignment database: tmp/3547433198223285186/result | |
| Start writing file to tmp/3547433198223285186/alis | |
| Time for merging files: 0 h 0 m 1 s | |
| Done. | |
| Removing temporary files |
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