Params: ./cmzasha --no-stderr --filter 150 23 Rfam/cm/RF00055.cm @/projects/bio/zasha/seqs/embl_release76/full-embl.list 1 hmm data/TryAllCm/RF00055_greedy_forwardinf_cfsqp_cycling_Saureus_0MM.bin Build: release Host: tricycle.cs.washington.edu pid: 15779 ----hmm-from-cmFileName: Rfam/cm/RF00055.cm ----hmm-build-info: ;(default construction of HMM) Params: ./cmzasha --no-stderr --set-input-mm-file data/Ecoli_0mm.mm --cm2hmm-set-greedy-node 150 23.00 Rfam/cm/RF00055.cm forward-alg-inf 100000 cycling-node cfsqp-elim-gauss 0 1 Build: release Host: recycle.cs.washington.edu ;Params: ./cmzasha --no-stderr --set-input-mm-file data/Saureus_0mm.mm --cm2hmm-set-greedy-node 150 23.00 Rfam/cm/RF00055.cm forward-alg-inf 100000 cycling-node cfsqp-elim-gauss 0 1 Build: release Host: recycle.cs.washington.edu ----cmFile: Rfam/cm/RF00055.cm (global) ----fastaFile: /projects/bio/zasha/seqs/embl/fun.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/inv01.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/inv02.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/inv03.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/mam.dat.fasta.gz ----sequence: #13518,sp|AF146043.1|AF146043 Sus scrofa RACK1 (RACK1) gene, complete cds. ----isReversed: 0 ----hitSequence: GAUCCUGGUGAUGACCAAUGACAUUGUCAGCCAAUCCCCACAUGGGAAUGUGGACAUGUCCUGCAAUUCUGAAGGGAUU hit 0 : 3911 3989 (fwd) 31.54 bits <<<<<.______________________________________________________ 1 gagcc.gGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggGGccAUG 59 GA:CC GGUGAUGA+ A++GA+AUU+++A C C+AUC+ +C+++ ++GA+UG GG+CAUG 3911 GAUCCuGGUGAUGACCAAUGACAUUGUCAGC-CAAUCC-CCACAUGGGAAUGUGGACAUG 3968 ______________..>>>>> 60 UUCUGCAAUUCUGA..ggcuu 78 U+CUGCAAUUCUGA GG:UU 3969 UCCUGCAAUUCUGAagGGAUU 3989 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----sequence: #18031,sp|AF295529.1|AF295529 Mus musculus activated protein kinase C receptor (Rack1) gene, exons 1 through 7 and partial cds. ----isReversed: 0 ----hitSequence: GAUCCUAGUGAUGACAAGACGACAUUGUCAACCAAUCCCCCACAAGGGAAUGAGGACAUGUCCUGCAAUUCUGAAUGGGUU hit 1 : 5361 5441 (fwd) 36.95 bits <<<<<.___________.__________________________________________ 1 gagcc.gGUGAuGAaAa.CcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggGGccAU 58 GA+CC +GUGAUGA+AA +CGA+AUU+++AAC C+AUC+ +C+++A++GA+UG+GG+CAU 5361 GAUCCuAGUGAUGACAAgACGACAUUGUCAAC-CAAUCCCCCACAAGGGAAUGAGGACAU 5419 _______________..>>>>> 59 GUUCUGCAAUUCUGA..ggcuu 78 GU+CUGCAAUUCUGA GG+UU 5420 GUCCUGCAAUUCUGAauGGGUU 5441 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----sequence: #24590,sp|AL645849.17|AL645849 Mouse DNA sequence from clone RP23-14F5 on chromosome 11 ----isReversed: 0 ----hitSequence: GAUCCUAGUGAUGACAAGACGACAUUGUCAACCAAUCCCCCACAAGGGAAUGAGGACAUGUCCUGCAAUUCUGAAUGGGUU hit 2 : 61755 61835 (fwd) 36.95 bits <<<<<.___________.__________________________________________ 1 gagcc.gGUGAuGAaAa.CcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggGGccAU 58 GA+CC +GUGAUGA+AA +CGA+AUU+++AAC C+AUC+ +C+++A++GA+UG+GG+CAU 61755 GAUCCuAGUGAUGACAAgACGACAUUGUCAAC-CAAUCCCCCACAAGGGAAUGAGGACAU 61813 _______________..>>>>> 59 GUUCUGCAAUUCUGA..ggcuu 78 GU+CUGCAAUUCUGA GG+UU 61814 GUCCUGCAAUUCUGAauGGGUU 61835 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/mus.dat.fasta.gz ----sequence: #71391,sp|AJ132685.1|MMU132685 Mus musculus mRNA for Z37 snoRNA ----isReversed: 0 ----hitSequence: AUCCUAGUGAUGACAAGACGACAUUGUCAACCAAUCCCCCACAAGGGAAUGAGGACAUGUCCUGCAAUUCUGAAUGG hit 3 : 1 77 (fwd) 28.64 bits <<<<<.___________.__________________________________________ 1 gagcc.gGUGAuGAaAa.CcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggGGccAU 58 A+CC +GUGAUGA+AA +CGA+AUU+++AAC C+AUC+ +C+++A++GA+UG+GG+CAU 1 -AUCCuAGUGAUGACAAgACGACAUUGUCAAC-CAAUCCCCCACAAGGGAAUGAGGACAU 58 _______________..>>>>> 59 GUUCUGCAAUUCUGA..ggcuu 78 GU+CUGCAAUUCUGA GG 59 GUCCUGCAAUUCUGAauGG--- 77 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/org.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/phg.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #8732,sp|AC006068.4|AC006068 Arabidopsis thaliana chromosome 2 clone T20F21 map ve016, complete sequence. ----isReversed: 0 ----hitSequence: UAGCCAAUGAGGACAUCAGAUUAUAAAAGAACACCAUCUUUCGGGACUGAUUAACAUUGAUGAUACUUCUGCAAUUCUGAGGCUA hit 4 : 14224 14308 (fwd) 44.88 bits <<<<<________________.________._____________________________ 1 gagccgGUGAuGAaAaCcGaa.AUuAAAAA.CACCAUCUUUCGGGaCUGAUUggGGccAU 58 :AGCC+ UGA GA+A+C GA AU+AAA A CACCAUCUUUCGGGACUGAUU + C+ U 14224 UAGCCAAUGAGGACAUCAGAUuAUAAAAGAaCACCAUCUUUCGGGACUGAUUAA--CAUU 14281 _.......______________>>>>> 59 G.......UUCUGCAAUUCUGAggcuu 78 G UUCUGCAAUUCUGAGGCU: 14282 GaugauacUUCUGCAAUUCUGAGGCUA 14308 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #8732,sp|AC006068.4|AC006068 Arabidopsis thaliana chromosome 2 clone T20F21 map ve016, complete sequence. ----isReversed: 0 ----hitSequence: UAGCCGAUGUGGAUAUCAGAUUAUAAAAGAACACCAUCUUUCGGGACUGAUUGACUUCUUUUGAAGUUUUGCUGAUACUUCUGCAAUUCUGAGGCUU hit 5 : 16331 16427 (fwd) 39.87 bits <<<<<________________.________.________________________..... 1 gagccgGUGAuGAaAaCcGaa.AUuAAAAA.CACCAUCUUUCGGGaCUGAUUggG..... 53 AGCCG UG GA A+C GA AU+AAA A CACCAUCUUUCGGGACUGAUUG++ 16331 UAGCCGAUGUGGAUAUCAGAUuAUAAAAGAaCACCAUCUUUCGGGACUGAUUGACuucuu 16390 .....______.......______________>>>>> 54 .....GccAUG.......UUCUGCAAUUCUGAggcuu 78 G UG UUCUGCAAUUCUGAGGCU 16391 uugaaGUUUUGcugauacUUCUGCAAUUCUGAGGCUU 16427 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #9543,sp|AC096691.6|AC096691 Oryza sativa chromosome 10 BAC OSJNBa0083M08 genomic sequence, complete sequence. ----isReversed: 1 ----hitSequence: ACGACGGUGAUGAAAAACCGCAAGAAAAACACACCAUCUUUCGGGGCUGAUUUGGCGCCGCCGCGCGUGCAAUGAUGCUAAUUCUGCAAUUCUGAUGUCC hit 6 : 4323 4224 (rev) 43.49 bits <<<<<___________._____________.________________________..... 1 gagccgGUGAuGAaAa.CcGaaAUuAAAAA.CACCAUCUUUCGGGaCUGAUUggG..... 53 :::::GGUGAUGAAAA CCG+AA +AAAA CACCAUCUUUCGGG+CUGAUU+GG 101788 ACGACGGUGAUGAAAAaCCGCAAGAAAAACaCACCAUCUUUCGGGGCUGAUUUGGcgccg 101847 ........______.......______________>>>>> 54 ........GccAUG.......UUCUGCAAUUCUGAggcuu 78 GC+AUG UUCUGCAAUUCUGA::::: 101848 ccgcgcguGCAAUGaugcuaaUUCUGCAAUUCUGAUGUCC 101887 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #9543,sp|AC096691.6|AC096691 Oryza sativa chromosome 10 BAC OSJNBa0083M08 genomic sequence, complete sequence. ----isReversed: 1 ----hitSequence: GGACCUGUGAUGAAAUCUGGAACCAAAAAUACCAUCUUUCGGGACUGAUUUGGCUUUCAGCAGCCAUGUUGUCACUUCCAAGAUCCUGAGGUCU hit 7 : 3905 3812 (rev) 43.05 bits <<<<<________________________________________________....... 1 gagccgGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggG....... 53 G::CC GUGAUGAAA+C+G AA AAAAA ACCAUCUUUCGGGACUGAUU+GG 102206 GGACCUGUGAUGAAAUCUGGAACCAAAAAUACCAUCUUUCGGGACUGAUUUGGcuuucag 102265 ..______.......______________>>>>> 54 ..GccAUG.......UUCUGCAAUUCUGAggcuu 78 GCCAUG UUC AU CUGAGG::U 102266 caGCCAUGuugucacUUCCAAGAUCCUGAGGUCU 102299 ----endhit ----hitSequence: UGGCCGGUGAAGAAAACCUCGAUUAAAAACACCAUCUUUCGGGGCUGAUCGGCCGCCGCUCGGCGGCCAUGCUGCCAUUCUGCAAUUCUGAGGCCA hit 8 : 4089 3994 (rev) 50.51 bits <<<<<________________________________________________....... 1 gagccgGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggG....... 53 ::GCCGGUGA GAAAACC + AUUAAAAACACCAUCUUUCGGG+CUGAU GG+ 102022 UGGCCGGUGAAGAAAACCUCGAUUAAAAACACCAUCUUUCGGGGCUGAUCGGCcgccgcu 102081 .....______......______________>>>>> 54 .....GccAUG......UUCUGCAAUUCUGAggcuu 78 GCCAUG UUCUGCAAUUCUGAGGC:: 102082 cggcgGCCAUGcugccaUUCUGCAAUUCUGAGGCCA 102117 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #9627,sp|AC113335.1|AC113335 Genomic sequence for Oryza sativa (japonica cultivar-group) cultivar Nipponbare clone OJ1003C07, from chromosome 10, complete sequence. ----isReversed: 1 ----hitSequence: ACGACGGUGAUGAAAAACCGCAAGAAAAACACACCAUCUUUCGGGGCUGAUUUGGCGCCGCCGCGCGUGCAAUGAUGCUAAUUCUGCAAUUCUGAUGUCC hit 9 : 95144 95045 (rev) 43.49 bits <<<<<___________._____________.________________________..... 1 gagccgGUGAuGAaAa.CcGaaAUuAAAAA.CACCAUCUUUCGGGaCUGAUUggG..... 53 :::::GGUGAUGAAAA CCG+AA +AAAA CACCAUCUUUCGGG+CUGAUU+GG 20045 ACGACGGUGAUGAAAAaCCGCAAGAAAAACaCACCAUCUUUCGGGGCUGAUUUGGcgccg 20104 ........______.......______________>>>>> 54 ........GccAUG.......UUCUGCAAUUCUGAggcuu 78 GC+AUG UUCUGCAAUUCUGA::::: 20105 ccgcgcguGCAAUGaugcuaaUUCUGCAAUUCUGAUGUCC 20144 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #9627,sp|AC113335.1|AC113335 Genomic sequence for Oryza sativa (japonica cultivar-group) cultivar Nipponbare clone OJ1003C07, from chromosome 10, complete sequence. ----isReversed: 1 ----hitSequence: GGACCUGUGAUGAAAUCUGGAACCAAAAAUACCAUCUUUCGGGACUGAUUUGGCUUUCAGCAGCCAUGUUGUCACUUCCAAGAUCCUGAGGUCU hit 10 : 94726 94633 (rev) 43.05 bits <<<<<________________________________________________....... 1 gagccgGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggG....... 53 G::CC GUGAUGAAA+C+G AA AAAAA ACCAUCUUUCGGGACUGAUU+GG 20463 GGACCUGUGAUGAAAUCUGGAACCAAAAAUACCAUCUUUCGGGACUGAUUUGGcuuucag 20522 ..______.......______________>>>>> 54 ..GccAUG.......UUCUGCAAUUCUGAggcuu 78 GCCAUG UUC AU CUGAGG::U 20523 caGCCAUGuugucacUUCCAAGAUCCUGAGGUCU 20556 ----endhit ----hitSequence: UGGCCGGUGAAGAAAACCUCGAUUAAAAACACCAUCUUUCGGGGCUGAUCGGCCGCCGCUCGGCGGCCAUGCUGCCAUUCUGCAAUUCUGAGGCCA hit 11 : 94910 94815 (rev) 50.51 bits <<<<<________________________________________________....... 1 gagccgGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggG....... 53 ::GCCGGUGA GAAAACC + AUUAAAAACACCAUCUUUCGGG+CUGAU GG+ 20279 UGGCCGGUGAAGAAAACCUCGAUUAAAAACACCAUCUUUCGGGGCUGAUCGGCcgccgcu 20338 .....______......______________>>>>> 54 .....GccAUG......UUCUGCAAUUCUGAggcuu 78 GCCAUG UUCUGCAAUUCUGAGGC:: 20339 cggcgGCCAUGcugccaUUCUGCAAUUCUGAGGCCA 20374 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #10364,sp|AE017084.1|AE017084 Oryza sativa (japonica cultivar-group) chromosome 10, section 38 of 77 of the complete sequence. ----isReversed: 0 ----hitSequence: ACGACGGUGAUGAAAAACCGCAAGAAAAACACACCAUCUUUCGGGGCUGAUUUGGCGCCGCCGCGCGUGCAAUGAUGCUAAUUCUGCAAUUCUGAUGUCC hit 12 : 189632 189731 (fwd) 43.49 bits <<<<<___________._____________.________________________..... 1 gagccgGUGAuGAaAa.CcGaaAUuAAAAA.CACCAUCUUUCGGGaCUGAUUggG..... 53 :::::GGUGAUGAAAA CCG+AA +AAAA CACCAUCUUUCGGG+CUGAUU+GG 189632 ACGACGGUGAUGAAAAaCCGCAAGAAAAACaCACCAUCUUUCGGGGCUGAUUUGGcgccg 189691 ........______.......______________>>>>> 54 ........GccAUG.......UUCUGCAAUUCUGAggcuu 78 GC+AUG UUCUGCAAUUCUGA::::: 189692 ccgcgcguGCAAUGaugcuaaUUCUGCAAUUCUGAUGUCC 189731 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #10364,sp|AE017084.1|AE017084 Oryza sativa (japonica cultivar-group) chromosome 10, section 38 of 77 of the complete sequence. ----isReversed: 0 ----hitSequence: GGACCUGUGAUGAAAUCUGGAACCAAAAAUACCAUCUUUCGGGACUGAUUUGGCUUUCAGCAGCCAUGUUGUCACUUCCAAGAUCCUGAGGUCU hit 13 : 190050 190143 (fwd) 43.05 bits <<<<<________________________________________________....... 1 gagccgGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggG....... 53 G::CC GUGAUGAAA+C+G AA AAAAA ACCAUCUUUCGGGACUGAUU+GG 190050 GGACCUGUGAUGAAAUCUGGAACCAAAAAUACCAUCUUUCGGGACUGAUUUGGcuuucag 190109 ..______.......______________>>>>> 54 ..GccAUG.......UUCUGCAAUUCUGAggcuu 78 GCCAUG UUC AU CUGAGG::U 190110 caGCCAUGuugucacUUCCAAGAUCCUGAGGUCU 190143 ----endhit ----hitSequence: UGGCCGGUGAAGAAAACCUCGAUUAAAAACACCAUCUUUCGGGGCUGAUCGGCCGCCGCUCGGCGGCCAUGCUGCCAUUCUGCAAUUCUGAGGCCA hit 14 : 189866 189961 (fwd) 50.51 bits <<<<<________________________________________________....... 1 gagccgGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggG....... 53 ::GCCGGUGA GAAAACC + AUUAAAAACACCAUCUUUCGGG+CUGAU GG+ 189866 UGGCCGGUGAAGAAAACCUCGAUUAAAAACACCAUCUUUCGGGGCUGAUCGGCcgccgcu 189925 .....______......______________>>>>> 54 .....GccAUG......UUCUGCAAUUCUGAggcuu 78 GCCAUG UUCUGCAAUUCUGAGGC:: 189926 cggcgGCCAUGcugccaUUCUGCAAUUCUGAGGCCA 189961 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #102622,sp|AJ240068.1|ATH240068 Arabidopsis thaliana mRNA for Z37 snoRNA. ----isReversed: 0 ----hitSequence: UAGCCAAUGAGGACAUCAGAUUAUAAAAGAACACCAUCUUUCGGGACUGAUUAACAUUGAUGAUACUUCUGCAAUUCUGAGGCUA hit 15 : 1 85 (fwd) 44.88 bits <<<<<________________.________._____________________________ 1 gagccgGUGAuGAaAaCcGaa.AUuAAAAA.CACCAUCUUUCGGGaCUGAUUggGGccAU 58 :AGCC+ UGA GA+A+C GA AU+AAA A CACCAUCUUUCGGGACUGAUU + C+ U 1 UAGCCAAUGAGGACAUCAGAUuAUAAAAGAaCACCAUCUUUCGGGACUGAUUAA--CAUU 58 _.......______________>>>>> 59 G.......UUCUGCAAUUCUGAggcuu 78 G UUCUGCAAUUCUGAGGCU: 59 GaugauacUUCUGCAAUUCUGAGGCUA 85 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #102640,sp|AJ242537.1|ATH242537 Arabidopsis thaliana Z37b gene for small nucleolar RNA ----isReversed: 0 ----hitSequence: AGCCGAUGUGGAUAUCAGAUUAUAAAAGAACACCAUCUUUCGGGACUGAUUGACUUCUUUUGAAGUUUUGCUGAUACUUCUGCAAUUCUGAGGCU hit 16 : 1 95 (fwd) 37.56 bits <<<<<________________.________.________________________..... 1 gagccgGUGAuGAaAaCcGaa.AUuAAAAA.CACCAUCUUUCGGGaCUGAUUggG..... 53 AGCCG UG GA A+C GA AU+AAA A CACCAUCUUUCGGGACUGAUUG++ 1 -AGCCGAUGUGGAUAUCAGAUuAUAAAAGAaCACCAUCUUUCGGGACUGAUUGACuucuu 59 .....______.......______________>>>>> 54 .....GccAUG.......UUCUGCAAUUCUGAggcuu 78 G UG UUCUGCAAUUCUGAGGCU 60 uugaaGUUUUGcugauacUUCUGCAAUUCUGAGGCU- 95 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #197735,sp|AJ458936.2|OSA458936 Oryza sativa snoRNA gene cluster X ----isReversed: 0 ----hitSequence: ACGACGGUGAUGAAAAACCGCAAGAAAAACACACCAUCUUUCGGGGCUGAUUUGGCGCCGCCGCGCGUGCAAUGAUGCUAAUUCUGCAAUUCUGAUGUCC hit 17 : 3 102 (fwd) 43.49 bits <<<<<___________._____________.________________________..... 1 gagccgGUGAuGAaAa.CcGaaAUuAAAAA.CACCAUCUUUCGGGaCUGAUUggG..... 53 :::::GGUGAUGAAAA CCG+AA +AAAA CACCAUCUUUCGGG+CUGAUU+GG 3 ACGACGGUGAUGAAAAaCCGCAAGAAAAACaCACCAUCUUUCGGGGCUGAUUUGGcgccg 62 ........______.......______________>>>>> 54 ........GccAUG.......UUCUGCAAUUCUGAggcuu 78 GC+AUG UUCUGCAAUUCUGA::::: 63 ccgcgcguGCAAUGaugcuaaUUCUGCAAUUCUGAUGUCC 102 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #197735,sp|AJ458936.2|OSA458936 Oryza sativa snoRNA gene cluster X ----isReversed: 0 ----hitSequence: GGACCUGUGAUGAAAUCUGGAACCAAAAAUACCAUCUUUCGGGACUGAUUUGGCUUUCAGCAGCCAUGUUGUCACUUCCAAGAUCCUGAGGUCU hit 18 : 422 515 (fwd) 43.05 bits <<<<<________________________________________________....... 1 gagccgGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggG....... 53 G::CC GUGAUGAAA+C+G AA AAAAA ACCAUCUUUCGGGACUGAUU+GG 422 GGACCUGUGAUGAAAUCUGGAACCAAAAAUACCAUCUUUCGGGACUGAUUUGGcuuucag 481 ..______.......______________>>>>> 54 ..GccAUG.......UUCUGCAAUUCUGAggcuu 78 GCCAUG UUC AU CUGAGG::U 482 caGCCAUGuugucacUUCCAAGAUCCUGAGGUCU 515 ----endhit ----hitSequence: UGGCCGGUGAAGAAAACCUCGAUUAAAAACACCAUCUUUCGGGGCUGAUCGGCCGCCGCUCGGCGGCCAUGCUGCCAUUCUGCAAUUCUGAGGCCA hit 19 : 238 333 (fwd) 50.51 bits <<<<<________________________________________________....... 1 gagccgGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggG....... 53 ::GCCGGUGA GAAAACC + AUUAAAAACACCAUCUUUCGGG+CUGAU GG+ 238 UGGCCGGUGAAGAAAACCUCGAUUAAAAACACCAUCUUUCGGGGCUGAUCGGCcgccgcu 297 .....______......______________>>>>> 54 .....GccAUG......UUCUGCAAUUCUGAggcuu 78 GCCAUG UUCUGCAAUUCUGAGGC:: 298 cggcgGCCAUGcugccaUUCUGCAAUUCUGAGGCCA 333 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #197936,sp|AJ490494.1|OSA490494 Oryza sativa z125a snoRNA gene ----isReversed: 0 ----hitSequence: ACGACGGUGAUGAAAAACCGCAAGAAAAACACACCAUCUUUCGGGGCUGAUUUGGCGCCGCCGCGCGUGCAAUGAUGCUAAUUCUGCAAUUCUGAUGUCC hit 20 : 3 102 (fwd) 43.49 bits <<<<<___________._____________.________________________..... 1 gagccgGUGAuGAaAa.CcGaaAUuAAAAA.CACCAUCUUUCGGGaCUGAUUggG..... 53 :::::GGUGAUGAAAA CCG+AA +AAAA CACCAUCUUUCGGG+CUGAUU+GG 3 ACGACGGUGAUGAAAAaCCGCAAGAAAAACaCACCAUCUUUCGGGGCUGAUUUGGcgccg 62 ........______.......______________>>>>> 54 ........GccAUG.......UUCUGCAAUUCUGAggcuu 78 GC+AUG UUCUGCAAUUCUGA::::: 63 ccgcgcguGCAAUGaugcuaaUUCUGCAAUUCUGAUGUCC 102 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #197937,sp|AJ490495.1|OSA490495 Oryza sativa z125b snoRNA gene ----isReversed: 0 ----hitSequence: UGGCCGGUGAAGAAAACCUCGAUUAAAAACACCAUCUUUCGGGGCUGAUCGGCCGCCGCUCGGCGGCCAUGCUGCCAUUCUGCAAUUCUGAGGCCA hit 21 : 3 98 (fwd) 50.51 bits <<<<<________________________________________________....... 1 gagccgGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggG....... 53 ::GCCGGUGA GAAAACC + AUUAAAAACACCAUCUUUCGGG+CUGAU GG+ 3 UGGCCGGUGAAGAAAACCUCGAUUAAAAACACCAUCUUUCGGGGCUGAUCGGCcgccgcu 62 .....______......______________>>>>> 54 .....GccAUG......UUCUGCAAUUCUGAggcuu 78 GCCAUG UUCUGCAAUUCUGAGGC:: 63 cggcgGCCAUGcugccaUUCUGCAAUUCUGAGGCCA 98 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #197938,sp|AJ490496.1|OSA490496 Oryza sativa z125c snoRNA gene ----isReversed: 0 ----hitSequence: GGACCUGUGAUGAAAUCUGGAACCAAAAAUACCAUCUUUCGGGACUGAUUUGGCUUUCAGCAGCCAUGUUGUCACUUCCAAGAUCCUGAGGUCU hit 22 : 2 95 (fwd) 43.05 bits <<<<<________________________________________________....... 1 gagccgGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggG....... 53 G::CC GUGAUGAAA+C+G AA AAAAA ACCAUCUUUCGGGACUGAUU+GG 2 GGACCUGUGAUGAAAUCUGGAACCAAAAAUACCAUCUUUCGGGACUGAUUUGGcuuucag 61 ..______.......______________>>>>> 54 ..GccAUG.......UUCUGCAAUUCUGAggcuu 78 GCCAUG UUC AU CUGAGG::U 62 caGCCAUGuugucacUUCCAAGAUCCUGAGGUCU 95 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #197939,sp|AJ490497.1|OSA490497 Oryza sativa z125d snoRNA gene ----isReversed: 0 ----hitSequence: UGGCCGGUGAAGAAAACCUCGAUUAAAAACACCAUCUUUCGGGGCUGAUCGGCCGCCGCUCGGCGGCCAUGCUGCCAUUCUGCAAUUCUGAGGCCA hit 23 : 3 98 (fwd) 50.51 bits <<<<<________________________________________________....... 1 gagccgGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggG....... 53 ::GCCGGUGA GAAAACC + AUUAAAAACACCAUCUUUCGGG+CUGAU GG+ 3 UGGCCGGUGAAGAAAACCUCGAUUAAAAACACCAUCUUUCGGGGCUGAUCGGCcgccgcu 62 .....______......______________>>>>> 54 .....GccAUG......UUCUGCAAUUCUGAggcuu 78 GCCAUG UUCUGCAAUUCUGAGGC:: 63 cggcgGCCAUGcugccaUUCUGCAAUUCUGAGGCCA 98 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #197940,sp|AJ490498.1|OSA490498 Oryza sativa z125e snoRNA gene ----isReversed: 0 ----hitSequence: GGACCUGUGAUGAAAUCUGGAACCAAAAAUACCAUCUUUCGGGACUGAUUUGGCUUUCAGCAGCCAUGUUGUCACUUCCAAGAUCCUGAGGUCU hit 24 : 2 95 (fwd) 43.05 bits <<<<<________________________________________________....... 1 gagccgGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggG....... 53 G::CC GUGAUGAAA+C+G AA AAAAA ACCAUCUUUCGGGACUGAUU+GG 2 GGACCUGUGAUGAAAUCUGGAACCAAAAAUACCAUCUUUCGGGACUGAUUUGGcuuucag 61 ..______.......______________>>>>> 54 ..GccAUG.......UUCUGCAAUUCUGAggcuu 78 GCCAUG UUC AU CUGAGG::U 62 caGCCAUGuugucacUUCCAAGAUCCUGAGGUCU 95 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pln.dat.fasta.gz ----sequence: #197978,sp|AJ494939.1|OSA494939 Oryza sativa Z233 snoRNA gene ----isReversed: 0 ----hitSequence: UGGACGGUGAUGAAAAACUGCAAGAAAAAAACACCACCAUCUUUCGGGGUUGAUUGGCAUGGCCUUGGGCCAUGCUGCCAACUCUGCAAUUCUGAUGUCC hit 25 : 3 102 (fwd) 31.99 bits <<<<<___________._____________._..._______________________.. 1 gagccgGUGAuGAaAa.CcGaaAUuAAAAA.C...ACCAUCUUUCGGGaCUGAUUggG.. 53 ::::GGUGAUGAAAA C+G+AA +AAAAA C ACCAUCUUUCGGG+ UGAUUGG+ 3 UGGACGGUGAUGAAAAaCUGCAAGAAAAAAaCaccACCAUCUUUCGGGGUUGAUUGGCau 62 ........______.......______________>>>>> 54 ........GccAUG.......UUCUGCAAUUCUGAggcuu 78 GCCAUG UCUGCAAUUCUGA:::: 63 ggccuuggGCCAUGcugccaaCUCUGCAAUUCUGAUGUCC 102 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/pro01.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro02.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro03.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro04.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/pro05.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/rod.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/vrl.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/vrt.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum01.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum02.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum02.dat.fasta.gz ----sequence: #2147,sp|AC008443.10|AC008443 Homo sapiens chromosome 5 clone CTC-338M12, complete sequence. ----isReversed: 1 ----hitSequence: GGUCCUGGUGAUGACAGAUGGCAUUGUCAGCCAAUCCCCAAGUGGGAGUGAGGACAUGUCCUGCAAUUCUGAAGGGAU hit 26 : 62431 62354 (rev) 27.12 bits <<<<<.______________________________________________________ 1 gagcc.gGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggGGccAUG 59 G +CC GGUGAUGA+A ++G +AUU+++A C C+AUC+ +C+ G ++GA UG+GG+CAUG 58085 GGUCCuGGUGAUGACAGAUGGCAUUGUCAGC-CAAUCC-CCAAGUGGGAGUGAGGACAUG 58142 ______________.>>>>> 60 UUCUGCAAUUCUGA.ggcuu 78 U+CUGCAAUUCUGA GG+ U 58143 UCCUGCAAUUCUGAaGGGAU 58162 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/hum03.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum04.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum05.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum06.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum07.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum08.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum09.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum10.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum11.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum12.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum13.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum14.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum15.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum16.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum17.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum18.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum19.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum20.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum21.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum22.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum22.dat.fasta.gz ----sequence: #3782,sp|AL079334.7|HSJ300O13 Human DNA sequence from clone RP1-300O13 on chromosome Xq22.1-24 Contains ESTs, STSs and GSSs. ----isReversed: 0 ----hitSequence: GAUCCUGGUGAUGACAGACGACAUUGUCAGCCAAUCCCCAUGUGGUAGUGAGGACAUGUCCUGCAGUUCUGAAGGGAUU hit 27 : 55769 55847 (fwd) 23.59 bits <<<<<.______________________________________________________ 1 gagcc.gGUGAuGAaAaCcGaaAUuAAAAACACCAUCUUUCGGGaCUGAUUggGGccAUG 59 GA:CC GGUGAUGA+A +CGA+AUU+++A C C+AUC+ +C+ G ++ A UG+GG+CAUG 55769 GAUCCuGGUGAUGACAGACGACAUUGUCAGC-CAAUCC-CCAUGUGGUAGUGAGGACAUG 55826 ______________..>>>>> 60 UUCUGCAAUUCUGA..ggcuu 78 U+CUGCA UUCUGA GG:UU 55827 UCCUGCAGUUCUGAagGGAUU 55847 ----endhit ----fastaFile: /projects/bio/zasha/seqs/embl/hum23.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum24.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum25.dat.fasta.gz ----fastaFile: /projects/bio/zasha/seqs/embl/hum26.dat.fasta.gz done 1.65905e+10 nucs (frac lets thru so far=2.52674e-07, 2d-fracLetsThru=1.52597e-07). Filter report: done 1.65905e+10 nucs (frac lets thru so far=2.52674e-07, 2d-fracLetsThru=1.52597e-07). done 1.65905e+10 nucs (frac lets thru so far=2.52674e-07, 2d-fracLetsThru=1.52597e-07). CPU time: 278457.73u 1120.79s 77:39:38.51 Elapsed: 81:18:06