ELF>`@@ H@ #=@ @@ @$@(@@ @@ @0 @,P@4@8@<HffffffSHD$* $YD$*f5кYd$ =4Y*Y^f $X\f.vH[øfffffffffAWIA1AVE1AUE1ATIUSHE9HT$3fff9€ Шt Az1AƉAEt)E9A}OHD$Ic\wLL$LD$LL$L$ATD$|$pffIcAEtAH[]A\A]DA^A_ffffffffAWAAVIAUMATE1USHI|$,1HL$ D$HD$0I@HD$8I@HD$@I@HD$HI@ HD$PI@(HD$XI@0HD$`I@8HD$h(fffffIcHT$ HHD %9OAE9uAM. ~|$Pt$T9}|$TT$XHL$0E1A}0HD$HcA}0H$HcE9H$HDŽ$HDŽ$vIcHt$ HHA}4H0HSHH!CXc"CPcXC0HT$pHCHC8HD$xs %;D$H$I>^s H$HT$xI~?AM. s A}09L9D$`H$E19LL$0H$LOHD$HT$pLAHD$HC0H$H;HC8H{H{H{HHCHCHCE9H$H$H$H$H|$HĨ[]A\A]A^A_fCp;D$, At)H$HcHT$pI>S Au0I~H$)HcHT$xA}0s { ZfD$PPD$H$H,HH$HH$H$H1H$H$H1HT$ps E9D} A$D9+ ZfljD$PjHCp fffff9~ċt$,‰0HD9|fffffffHHwHO WLG(?1HfffffffffffH@ HtC1@@E@HHEDHfffHHffAWAVAUIATIUSHhz D$LH$Hx LHHHH.bwtDLHHD$PHH.rbwfDtHHD$XH @LfffAM EEfffIcH HHJ0H{0C0upAD;d$ |WL)H=H*^Z|$ LT$H=1fffffH{8H HcоAsT$ Ht$PML1H|$PH|$XH<$Hh[]A\A]A^A_ffffffAV1IAUATUSHIźL0D$H5 H -AZMH=fAU$H=1H UAUH=1AUH=1AU0H=1AU,H=1AUH=1AU4H=1AUH=1AUH=1AUH=1AU8H=1AM $ >  I : ;  : ;I8  &I : ; : ; I8 I !I/ <  : ;  : ;  : ; I8  : ; I 8  : ; I 8 .? : ; I@4: ; I.? : ; ' I@: ; I: ; I4: ; I 4: ; I 4: ; I.: ; ' I@ U.? : ; ' @4: ; I U! " #4I4  $1X Y%1&1X Y'1(4: ;I)1X Y *1X Y +.? : ;' I ,: ;I-.? : ;' I@.: ;I/4: ;I04: ;I 14: ; I? <  8int i i iq. b##### #(#0#8#@#H#P#X#` #h"b#p&b#t(p#x,F#-T#.#2#;{#Dq#Eq#Fq#Gq#H-#Jb#L#y  # # b#  ~  M T Ub#D  i# b# #OU8 * +b# ,b# -# .b# /b# 0-# 1b# 2q#( 3-#0 4[  W( ] Xb# Yb# ZD# [b# \# ] 8<2F4M88&?(?86 +#L2,?# -# .#bwt/O# 1U#( 3b# 4#sa5e# O  e 6 w#bidb# v&######a##k$#l$# %b# &(7pos4#5#gap5 #mm5#5# 6# 7+R :#seq;# ;# ;#len< # < # < # <# <# =#$=#$=#$=#$ >b#( ?b#, Ab#0alnB#8 Db#@ E#HsaG#PposG#Tc1H$#Xc2H#XseQH#X Ib#` J#htidLb#pbcN#tP #nmP #mdQ#R @h _b# _b# _b# `b# ab# ab# ab#fnrb # cb# cb#$ cb#( db#, db#0 eb#4 fb#8 gb#<hv b ei cb#j cb# d?# e   # # # # # #k #l #  b#   b# b#  #    b# b# b#  #  q 0tidb#bwtq # b#  # opt #( k "   o  e (bl'berr'')fsum*cy*dk+bx+bQ) 7b6) len6bstr64 6? k8l8ok8@ol8Di9bbid9bc=/ k: OQtidPbbwtPOPbP optP iRbRbwRbSZwT`T`seqUpV ~ ;pc jhbU  p?  4 qqd 44bsks4P!b gssopt ibbbw ks4wttbwtq  str"Stidg~ͽjbp b~bb~cbbopt # $E %&'%% k(i>b(k>b$ %&'%%)%&'%%)b%&'$%0$%&'%%$%&'%%$d%&'%%$%&'%%$%&'%%$f%&'%%$ %&'%%$%&'%%$h%&'%%$%&'%%$%&'%% ,(l@b*%&'%% y  +b,s+Li,Js,J~,Jb+,s+=F,Es,E~-M.L.Lb.L /NO0OT(iPb 1111;1IbW + /usr/include/usr/include/sys/usr/include/bits/usr/lib/gcc/x86_64-redhat-linux/3.4.6/includebwtaln.cstdlib.hbwtaln.hbwt.hstdint.hbwtgap.htypes.htime.htypes.hpthreadtypes.hsched.hstddef.hstdaln.hstdio.hlibio.hgetopt.h IP:HHr:rrs*,*GdFV,FVSǏ8ITHb0'.604:4 F-;t+ 9TtG 9tG,Vb :~x94Ox+VMādԒ4WW7rdSIcF'V@V,*Hh^1"97I['[ŜvU 94 x#HVĀVpMl)HF,~[)IWYIE;,,7:XAy9X6J,8:$bV#8VY+W'WS;XY5VԌ:SIS;TV|g5VT:V:HTn7# (<c&:/'Tudc%G$dddddddddddsG UqIUG ITKe7sSk:F,q~qhqq~qq~ q/G,8,}.6+qc=WS;d8,:F.?{Gz?{Gz?$tI[bwa_aln_core] calculate SA coordinate... [bwa_aln_core] write to the disk... [bwa_aln_core] %d sequences have been processed. n:o:e:i:d:l:k:cLR:m:t:NM:O:E:q:f:b012IB:Usage: bwa aln [options] Options: -n NUM max #diff (int) or missing prob under %.2f err rate (float) [%.2f] -o INT maximum number or fraction of gap opens [%d] -e INT maximum number of gap extensions, -1 for disabling long gaps [-1] -i INT do not put an indel within INT bp towards the ends [%d] -d INT maximum occurrences for extending a long deletion [%d] -l INT seed length [%d] -k INT maximum differences in the seed [%d] -m INT maximum entries in the queue [%d] -t INT number of threads [%d] -M INT mismatch penalty [%d] -O INT gap open penalty [%d] -E INT gap extension penalty [%d] -R INT stop searching when there are >INT equally best hits [%d] -q INT quality threshold for read trimming down to %dbp [%d] -f FILE file to write output to instead of stdout -B INT length of barcode -c input sequences are in the color space -L log-scaled gap penalty for long deletions -N non-iterative mode: search for all n-difference hits (slooow) -I the input is in the Illumina 1.3+ FASTQ-like format -b the input read file is in the BAM format -0 use single-end reads only (effective with -b) -1 use the 1st read in a pair (effective with -b) -2 use the 2nd read in a pair (effective with -b) [bwa_aln] %dbp reads: max_diff = %d %.2f sec wbbwa_alnx DAJ <BJE E(D0A8DP<BEE E(D0A8G!D]D<WBBB E(D0A8D4`BGB A(F0F@7Ax D<AJ <\BJE E(D0A8DP<BEE E(D0A8G!D]D<WBBB E(D0A8D4\`BGB A(F0F@7Awwww$w US$Sa$hb$`P"P02w2<w<AwAFw FJw(JKw0KOw8Ow0RURZUZ0:T:_P0\Q\0\R\\R:TTRUQUD\]\V]V]?^\SRSPSwww!w !%w(%&w0&-w8-w6U6~T ^^Q __R~X ]]$\PK\KTPg\7#\&\6UGXUG~c~HSGScS)BQcQwwUw-wU#UTQ(QT02w24w46w6;w ;?w(?@w0@Dw8D w0GUGU\ 2 \@ \0TT0TQT ]U\ \ P  \6 \P UD V Q ^ _w|UUUUU~ V S  S@ } SU\U\P2 \S } S w w w w w( w0 w U S S%uS{SS T ^ $^%^ P P V V%uVV ] "]%] U T Q VuV \u\,:U5:T3:QJXUSXTQXQUTUTQUTQUTQU T QCQULQTJQQ_mUhmTfmQUTQUTQUTQ"U"T"Q2@U;@T9@Q SuSUTQw'wUTQ#S U  P 'U gap_init_opt bwa_cal_maxdiffE bwa_cal_sa_reg_gapbwa_open_reads:bwa_aln_corembwa_aln=bwa_aln_path2cigar,'`|HZp7G4]#8pTW[ 6 @ 3 { {size_tbwtint_t__basemax_llast_diff_pos__spinlockbwt_t__func__pathlocal_opt_IO_write_basestate_lock__bwa_seqio_targv_IO_save_endgap_entry_t_IO_save_baseatoi__statusbwt_multi1_t_chain__stackaddr_cur_column__sched_prioritybwt_width_tbwa_aln_path2cigar_modeatof__nptrlong int_IO_markerthread_aux_tshort unsigned intmax_del_occrseqn_entriesbwa_cigar_tn_seed_mmsigned charbwa_aln_core_IO_FILEuint64_textra_flagunsigned char__scopeworker_sbuf__schedpolicy__m_countscores_mmcigarcharqualname_IO_lock_tattr_IO_read_ptrdouble__inheritsched_posstdin_markersbwa_open_readsbwt_aln1_tbwa_seqio_telambdamax_entriestot_seqsprefixseq_lencnt_tablemapQn_mm_pthread_descrmultiseed_woptindn_cigarlong unsigned intbwtaln.cpthread_t_flags2max_len__stackaddr_setfull_len_IO_read_base_unused2max_gapewhichmax_gapo_old_offsetpath_tlong long intwidthbwt_cal_widthstack_IO_write_endn_gapo_pthread_fastlockn_stacksn_multi_IO_buf_base__endptr_nextunsigned intopte__detachstatepthread_mutex_t__pad1__pad2__pad3__pad5_pthread_descr_structseqsn_sa_flagsmax_diff__clock_t__m_kindubyte_ttypen_threadsmax_seed_diff__sched_paramstacks_offsetinforbwtcigar32long long unsigned int__pthread_attr_sclock_tuint16_t__off_tgap_opt_ts_gapes_gapoindel_end_skip__m_ownerbwa_seq_tn_aln_IO_backup_basebest_shortbufbwa_cal_sa_reg_gapbwt_sizeargc__off64_tdummygap_init_optbwa_cal_maxdiff_IO_buf_endthresseed_lenstrtodmax_top2strtolstderrshort intu_int32_tmodebwa_alngap_stack1_t_vtable_offset__guardsizetrim_qualfn_fasa_intvGNU C 3.4.6 20060404 (Red Hat 3.4.6-8)_IO_read_endn_seqsg_seq_lockuint32_t_filenoprimary__m_reserved__stacksizefloatstdoutctype_IO_write_ptrstrandoptargm_entriesclip_len__schedparampthread_attr_t__m_lock/home/pubseq/BioSw/bwa/bwa-0.5.9datan_gape__pad4path_lengap_stack_tGCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-8).symtab.strtab.shstrtab.rela.text.data.bss.debug_abbrev.rela.debug_info.rela.debug_line.rodata.cst8.rodata.cst4.rodata.str1.8.rodata.str1.1.rela.rodata.rela.debug_frame.rela.eh_frame.debug_loc.rela.debug_pubnames.rela.debug_aranges.debug_ranges.debug_str.note.GNU-stack.comment @'rx&h,( 1D@? 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