# tfastx36 -m 10 -E 0.05 four_human_proteins.fasta rhodopsin_nucs.fasta
TFASTX compares a protein to a translated DNA data bank
 version 36.3.4 Apr, 2011
Please cite:
 Pearson et al, Genomics (1997) 46:24-36

Query: four_human_proteins.fasta
  1>>>sp|Q9BS26|ERP44_HUMAN Endoplasmic reticulum resident protein 44 OS=Homo sapiens GN=ERP44 - 406 aa
Library: rhodopsin_nucs.fasta
    10296 residues in     6 sequences

Statistics: (shuffled3 [282]) Expectation_n fit: rho(ln(x))= 4.4103+/-0.0124; mu= 10.6753+/- 0.892
 mean_var=54.1224+/-24.831, 0's: 0 Z-trim(-1.0): 0  B-trim: 0 in 0/5
 Lambda= 0.174335
 statistics sampled from 1 (1) to 282 sequences
Algorithm: TFASTX (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -12/-2, shift: -20
 ktup: 2, E-join: 0.5 (0.583), E-opt: 0.1 (0.0833), width:  16
 Scan time:  0.170
!! No sequences with E() < 0.05
>>><<<
  2>>>sp|Q9NSY1|BMP2K_HUMAN BMP-2-inducible protein kinase OS=Homo sapiens GN=BMP2K - 1161 aa
Library: rhodopsin_nucs.fasta
    10296 residues in     6 sequences

Statistics: (shuffled3 [413]) Expectation_n fit: rho(ln(x))= 0.1869+/-0.00911; mu= 49.2907+/- 0.667
 mean_var=82.3490+/-39.486, 0's: 0 Z-trim(-1.0): 0  B-trim: 0 in 0/5
 Lambda= 0.141334
 statistics sampled from 3 (3) to 413 sequences
Algorithm: TFASTX (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -12/-2, shift: -20
 ktup: 2, E-join: 0.5 (0.792), E-opt: 0.1 (0.167), width:  16
 Scan time:  0.320

The best scores are:                             initn opt bits E(6)
gi|283855822|gb|GQ290312.1| Myotis ri ( 983) [f]   53   70 28.0   0.026
gi|57163782|ref|NM_001009242.1| Felis (1047) [f]   88   68 27.7   0.034

>>>sp|Q9NSY1|BMP2K_HUMAN, 1161 aa vs rhodopsin_nucs.fasta library
; pg_name: tfastx36
; pg_ver: 36.3.4 Apr, 2011
; pg_argv: tfastx36 -m 10 -E 0.05 four_human_proteins.fasta rhodopsin_nucs.fasta
; pg_name_alg: TFASTX
; pg_ver_rel: 3.7 Nov 2010
; pg_matrix: BL50 (15:-5)
; pg_open_ext: -12 -2
; pg_ktup: 2
; pg_join_E(): 0.5 (0.792)
; pg_optcut_E(): 0.1 (0.167)
; mp_extrap: 60000 413
; mp_stats: (shuffled3 [413]) Expectation_n fit: rho(ln(x))= 0.1869+/-0.00911; mu= 49.2907+/- 0.667  mean_var=82.3490+/-39.486, 0's: 0 Z-trim(-1.0): 0  B-trim: 0 in 0/5  Lambda= 0.141334
; mp_KS: -0.0000 (N=0) at   0
; mp_Algorithm: TFASTX (3.7 Nov 2010) [optimized]
; mp_Parameters: BL50 matrix (15:-5), open/ext: -12/-2, shift: -20  ktup: 2, E-join: 0.5 (0.792), E-opt: 0.1 (0.167), width:  16
>>gi|283855822|gb|GQ290312.1| Myotis ricketti voucher GQX10 rhodopsin (RHO) mRNA, partial cds
; tfx_frame: f
; tfx_initn: 106
; tfx_init1:  53
; tfx_opt:  70
; tfx_z-score: 88.0
; tfx_bits: 28.0
; tfx_expect:  0.026
; sw_score: 70
; sw_ident: 0.231
; sw_sim: 0.462
; sw_overlap: 65
>sp|Q9NSY1|BM ..
; sq_len: 1161
; sq_offset: 1
; sq_type: p
; al_start: 453
; al_stop: 514
; al_display_start: 453
LQHRHPHQQQQQQQQQQQQQQQQQQQQQQQQQQQH---HHHHHHHLLQDA
YMQQYQHATQQQQML
>gi|283855822|gb|GQ290312.1| ..
; sq_len: 983
; sq_offset: 1
; sq_type: p
; al_start: 123
; al_stop: 317
; al_display_start: 123
IPHQLPHALRHRPAQEAAHASQLHPAQPGCGQPLHGLWRLHHHPVYLYAW
ILRLRGHGMQSGGLL
; al_cons:
. :. ::  ...  :.  . .: .  :    :  :---. :::   :   
 ..   :. :.  .:
>>gi|57163782|ref|NM_001009242.1| Felis catus rhodopsin (RHO), mRNA
; tfx_frame: f
; tfx_initn: 105
; tfx_init1:  57
; tfx_opt:  68
; tfx_z-score: 85.8
; tfx_bits: 27.7
; tfx_expect:  0.034
; sw_score: 72
; sw_ident: 0.235
; sw_sim: 0.450
; sw_overlap: 200
>sp|Q9NSY1|BM ..
; sq_len: 1161
; sq_offset: 1
; sq_type: p
; al_start: 418
; al_stop: 599
; al_display_start: 418
GPEIL---LGQ-GPPQQPPQQHRVLQQLQQGDWRLQQLH-------LQHR
HPHQQQQQQQQQQQQQQQQQQQQQQQQQQQH-----HHHHHH-HLLQDAY
MQQYQHATQQQQMLQQQF-LMHSVYQPQPSASQYPTMMPQYQQAFFQQQM
LAQHQPSQQQASPEYLTSPQEFSPALVSYTSSLPA-QVGTIMDSSYSANR
S
>gi|57163782|ref|NM_001009242.1| ..
; sq_len: 1047
; sq_offset: 1
; sq_type: p
; al_start: 15
; al_stop: 595
; al_display_start: 15
GPELLRALLQQNGCGTQPLRVPTVLPG*AMAVLHAGRLHVPAHRAWLPHQ
LPHALRHGPAQEAAHASQLHPAQPGRG*PLHGLRWLHHHPLH/PLCMDTL
SLGPQDAIWRASLPHWAVKLPCGLWWSWPLSGTWWCVSP*ATSA------
LGRTMP*WASLSPGSWHWPALHPPSLVGPGTSLKACSVHAGSTTTHSSQK
S
; al_cons:
:::.:---: :-:   :: .   ::    ..  .  .::-------: :.
 ::  ..   :.  . .: .  :  .    :-----:::  :- : .:. 
    : :  . .. .   -:  ...   : .. .  . :   .:------
:.. .:   . ::     :    :.::.  .:: :-.: .   ...:...
:
>>><<<
  3>>>sp|P06213|INSR_HUMAN Insulin receptor OS=Homo sapiens GN=INSR - 1382 aa
Library: rhodopsin_nucs.fasta
    10296 residues in     6 sequences

Statistics: (shuffled3 [404]) Expectation_n fit: rho(ln(x))= 0.7256+/-0.00716; mu= 45.3358+/- 0.538
 mean_var=73.5676+/-40.275, 0's: 0 Z-trim(-1.0): 0  B-trim: 0 in 0/5
 Lambda= 0.149531
 statistics sampled from 1 (1) to 403 sequences
Algorithm: TFASTX (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -12/-2, shift: -20
 ktup: 2, E-join: 0.5 (0.722), E-opt: 0.1 (0.139), width:  16
 Scan time:  0.340
!! No sequences with E() < 0.05
>>><<<
  4>>>sp|P08100|OPSD_HUMAN Rhodopsin OS=Homo sapiens GN=RHO - 348 aa
Library: rhodopsin_nucs.fasta
    10296 residues in     6 sequences

Statistics: (shuffled3 [357]) Expectation_n fit: rho(ln(x))= 2.8576+/-0.0153; mu= 21.1891+/- 1.097
 mean_var=53.5574+/-26.427, 0's: 0 Z-trim(81.7): 0  B-trim: 0 in 0/5
 Lambda= 0.175253
 statistics sampled from 6 (6) to 357 sequences
Algorithm: TFASTX (3.7 Nov 2010) [optimized]
Parameters: BL50 matrix (15:-5), open/ext: -12/-2, shift: -20
 ktup: 2, E-join: 0.5 (0.771), E-opt: 0.1 (0.292), width:  16
 Scan time:  0.180

The best scores are:                             initn opt bits E(6)
gi|57163782|ref|NM_001009242.1| Felis (1047) [f] 2298 2298 593.0 6.7e-173
gi|18148870|dbj|AB062417.1| Synthetic (1047) [f] 2237 2237 577.6 2.9e-168
gi|283855822|gb|GQ290312.1| Myotis ri ( 983) [f] 2138 2143 553.8 4.1e-161
gi|2734705|gb|U59921.1|BBU59921 Bufo  (1574) [f] 2063 2057 532.4 1.8e-154
gi|12583664|dbj|AB043817.1| Conger my (1344) [f] 1975 1993 516.1 1.2e-149
gi|283855845|gb|GQ290303.1| Cynopteru (4301) [f] 2094  723 195.8   1e-52
gi|283855822|gb|GQ290312.1| Myotis ri ( 983) [r]   58   59 26.9   0.017

>>>sp|P08100|OPSD_HUMAN, 348 aa vs rhodopsin_nucs.fasta library
; pg_name: tfastx36
; pg_ver: 36.3.4 Apr, 2011
; pg_argv: tfastx36 -m 10 -E 0.05 four_human_proteins.fasta rhodopsin_nucs.fasta
; pg_name_alg: TFASTX
; pg_ver_rel: 3.7 Nov 2010
; pg_matrix: BL50 (15:-5)
; pg_open_ext: -12 -2
; pg_ktup: 2
; pg_join_E(): 0.5 (0.771)
; pg_optcut_E(): 0.1 (0.292)
; mp_extrap: 60000 357
; mp_stats: (shuffled3 [357]) Expectation_n fit: rho(ln(x))= 2.8576+/-0.0153; mu= 21.1891+/- 1.097  mean_var=53.5574+/-26.427, 0's: 0 Z-trim(81.7): 0  B-trim: 0 in 0/5  Lambda= 0.175253
; mp_KS: -0.0000 (N=0) at   0
; mp_Algorithm: TFASTX (3.7 Nov 2010) [optimized]
; mp_Parameters: BL50 matrix (15:-5), open/ext: -12/-2, shift: -20  ktup: 2, E-join: 0.5 (0.771), E-opt: 0.1 (0.292), width:  16
>>gi|57163782|ref|NM_001009242.1| Felis catus rhodopsin (RHO), mRNA
; tfx_frame: f
; tfx_initn: 2298
; tfx_init1: 2298
; tfx_opt: 2298
; tfx_z-score: 3150.5
; tfx_bits: 593.0
; tfx_expect: 6.7e-173
; sw_score: 2298
; sw_ident: 0.966
; sw_sim: 0.994
; sw_overlap: 348
>sp|P08100|OP ..
; sq_len: 348
; sq_offset: 1
; sq_type: p
; al_start: 1
; al_stop: 348
; al_display_start: 1
MNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVL
GFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLH
GYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGE
NHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNN
ESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEV
TRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAI
YNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA
>gi|57163782|ref|NM_001009242.1| ..
; sq_len: 1047
; sq_offset: 1
; sq_type: p
; al_start: 1
; al_stop: 1044
; al_display_start: 1
MNGTEGPNFYVPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVL
GFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLH
GYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGE
NHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTLKPEVNN
ESFVIYMFVVHFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEV
TRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTLPAFFAKSSSI
YNPVIYIMMNKQFRNCMLTTLCCGKNPLGDDEASTTGSKTETSQVAPA
; al_cons:
::::::::::::::: ::::::::::::::::::::::::::::::::::
:::::::::::::::::::::::::::::::::::::.::::.:::::::
::::::::::::::::::::::::::::::::::::::::::::::::::
::::::::::::::::::::::.:::::::::.:::::::::::::::::
:::::::::::::::::.::::::::::::::::::::::::::::::::
:::::::::::::::::::::::::::::::::::::::.:::::::..:
::::::::::::::::::::.:::::::::::::.: :::::::::::
>>gi|18148870|dbj|AB062417.1| Synthetic construct Bos taurus gene for rhodopsin, complete cds
; tfx_frame: f
; tfx_initn: 2237
; tfx_init1: 2237
; tfx_opt: 2237
; tfx_z-score: 3067.2
; tfx_bits: 577.6
; tfx_expect: 2.9e-168
; sw_score: 2237
; sw_ident: 0.934
; sw_sim: 0.986
; sw_overlap: 348
>sp|P08100|OP ..
; sq_len: 348
; sq_offset: 1
; sq_type: p
; al_start: 1
; al_stop: 348
; al_display_start: 1
MNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVL
GFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLH
GYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGE
NHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNN
ESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEV
TRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAI
YNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEASATVSKTETSQVAPA
>gi|18148870|dbj|AB062417.1| ..
; sq_len: 1047
; sq_offset: 1
; sq_type: p
; al_start: 1
; al_stop: 1044
; al_display_start: 1
MNGTEGPNFYVPFSNKTGVVRSPFEAPQYYLAEPWQFSMLAAYMFLLIML
GFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLH
GYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGE
NHAIMGVAFTWVMALACAAPPLVGWSRYIPEGMQCSCGIDYYTPHEETNN
ESFVIYMFVVHFIIPLIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEV
TRMVIIMVIAFLICWLPYAGVAFYIFTHQGSDFGPIFMTIPAFFAKTSAV
YNPVIYIMMNKQFRNCMVTTLCCGKNPLGDDEASTTVSKTETSQVAPA
; al_cons:
::::::::::::::: ::::::::: ::::::::::::::::::::::.:
:::::::::::::::::::::::::::::::::::::.::::.:::::::
::::::::::::::::::::::::::::::::::::::::::::::::::
::::::::::::::::::::::.:::::::::.:::::::::: . :.::
:::::::::::: ::.:.::::::::::::::::::::::::::::::::
:::::::::::::::.:::.:::::::::::.::::::::::::::..:.
:::::::::::::::::.::.:::::::::::::.:::::::::::::
>>gi|283855822|gb|GQ290312.1| Myotis ricketti voucher GQX10 rhodopsin (RHO) mRNA, partial cds
; tfx_frame: f
; tfx_initn: 2138
; tfx_init1: 2138
; tfx_opt: 2143
; tfx_z-score: 2939.0
; tfx_bits: 553.8
; tfx_expect: 4.1e-161
; sw_score: 2143
; sw_ident: 0.951
; sw_sim: 0.994
; sw_overlap: 326
>sp|P08100|OP ..
; sq_len: 348
; sq_offset: 1
; sq_type: p
; al_start: 11
; al_stop: 336
; al_display_start: 11
VPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLY
VTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGC
NLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFT
WVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVV
HFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVIA
FLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAIYNPVIYIMMN
KQFRNCMLTTICCGKNPLGDDEASAT
>gi|283855822|gb|GQ290312.1| ..
; sq_len: 983
; sq_offset: 1
; sq_type: p
; al_start: 1
; al_stop: 978
; al_display_start: 1
VPFSNKTGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLY
VTVQHKKLRTPLNYILLNLAVANLFMVFGGFTTTLYTSMHGYFVFGATGC
NLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLAFT
WVMALACAAPPLAGWSRYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVV
HFTIPMIVIFFCYGQLVFTVKEAAAQQQESATTQKAEKEVTRMVIIMVVA
FLICWLPYASVAFYIFTHQGSNFGPVFMTIPAFFAKSSSIYNPVIYIMMN
KQFRNCMLTTLCCGKNPLGDDEASTT
; al_cons:
::::: ::::::::::::::::::::::::::::::::::::::::::::
::::::::::::::::::::::.::::.::::.:::::.::::::: :::
::::::::::::::::::::::::::::::::::::::::::::::.:::
::::::::::::::::::::::.:::::::::::::::::::::::::::
:::::::.::::::::::::::::::::::::::::::::::::::::.:
:::::.:::::::::::::::::::.:::::::::::..:::::::::::
::::::::::.:::::::::::::.:
>>gi|2734705|gb|U59921.1|BBU59921 Bufo bufo rhodopsin mRNA, complete cds
; tfx_frame: f
; tfx_initn: 2080
; tfx_init1: 2031
; tfx_opt: 2057
; tfx_z-score: 2819.6
; tfx_bits: 532.4
; tfx_expect: 1.8e-154
; sw_score: 2057
; sw_ident: 0.833
; sw_sim: 0.952
; sw_overlap: 354
>sp|P08100|OP ..
; sq_len: 348
; sq_offset: 1
; sq_type: p
; al_start: 1
; al_stop: 348
; al_display_start: 1
MNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVL
GFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLH
GYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGE
NHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNN
ESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEV
TRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAI
YNPVIYIMMNKQFRNCMLTTICCGKNPLGDDEAS-ATVSKTE-----TSQ
VAPA
>gi|2734705|gb|U59921.1|BBU59921 ..
; sq_len: 1574
; sq_offset: 1
; sq_type: p
; al_start: 42
; al_stop: 1103
; al_display_start: 42
MNGTEGPNFYIPMSNKTGVVRSPFEYPQYYLAEPWQYSILCAYMFLLILL
GFPINFMTLYVTIQHKKLRTPLNYILLNLAFANHFMVLCGFTVTMYSSMN
GYFILGATGCYVEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFSE
NHAVMGVAFTWIMALSCAVPPLLGWSRYIPEGMQCSCGVDYYTLKPEVNN
ESFVIYMFVVHFTIPLIIIFFCYGRLVCTVKEAAAQQQESATTQKAEKEV
TRMVIIMVVFFLICWVPYASVAFFIFSNQGSEFGPIFMTVPAFFAKSSSI
YNPVIYIMLNKQFRNCMITTLCCGKNPFGEDDASSAATSKTEASSVSSSQ
VSPA
; al_cons:
::::::::::.:.:: ::::::::::::::::::::.:.: :::::::.:
::::::.:::::.::::::::::::::::: :. :::: ::: :.:.:..
:::..: ::: .::::::::::::::::::::::::::::::::::::.:
:::.:::::::.:::.::.::: :::::::::.:::::.:::::::::::
:::::::::::::::.::::::::.:: ::::::::::::::::::::::
::::::::. :::::::::::::.::..:::.:::::::.:::::::..:
::::::::.::::::::.::.::::::.:.:.::-:..::::-----.::
:.::
>>gi|12583664|dbj|AB043817.1| Conger myriaster conf gene for fresh water form rod opsin, complete cds
; tfx_frame: f
; tfx_initn: 1975
; tfx_init1: 1951
; tfx_opt: 1993
; tfx_z-score: 2732.8
; tfx_bits: 516.1
; tfx_expect: 1.2e-149
; sw_score: 1993
; sw_ident: 0.816
; sw_sim: 0.939
; sw_overlap: 347
>sp|P08100|OP ..
; sq_len: 348
; sq_offset: 1
; sq_type: p
; al_start: 1
; al_stop: 346
; al_display_start: 1
MNGTEGPNFYVPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVL
GFPINFLTLYVTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLH
GYFVFGPTGCNLEGFFATLGGEIALWSLVVLAIERYVVVCKPMSNFRFGE
NHAIMGVAFTWVMALACAAPPLAGWSRYIPEGLQCSCGIDYYTLKPEVNN
ESFVIYMFVVHFTIPMIIIFFCYGQLVFTVKEAAAQQQESATTQKAEKEV
TRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTIPAFFAKSAAI
YNPVIYIMMNKQFRNCMLTTICCGKNPLGD-DEASATVSKTETSQVA
>gi|12583664|dbj|AB043817.1| ..
; sq_len: 1344
; sq_offset: 1
; sq_type: p
; al_start: 23
; al_stop: 1063
; al_display_start: 23
MNGTEGPNFYIPMSNATGVVRSPFEYPQYYLAEPWAFSALSAYMFFLIIA
GFPINFLTLYVTIEHKKLRTPLNYILLNLAVADLFMVFGGFTTTMYTSMH
GYFVFGPTGCNIEGFFATLGGEIALWCLVVLAIERWMVVCKPVTNFRFGE
SHAIMGVMVTWTMALACALPPLFGWSRYIPEGLQCSCGIDYYTRAPGINN
ESFVIYMFTCHFSIPLAVISFCYGRLVCTVKEAAAQQQESETTQRAEREV
TRMVVIMVISFLVCWVPYASVAWYIFTHQGSTFGPIFMTIPSFFAKSSAL
YNPMIYICMNKQFRHCMITTLCCGKNPFEEEDGASATSSKTEASSVS
; al_cons:
::::::::::.:.:::::::::::::::::::::: :: :.::::.::. 
::::::::::::..:::::::::::::::::::::::.::::.:.:::.:
:::::::::::.:::::::::::::: ::::::::..:::::..::::::
.::::::  ::.:::::: ::: ::::::::::::::::::::  : .::
::::::::. ::.::. .: ::::.:: :::::::::::: :::.::.::
::::.::::.::.:::::::::.::::::::.:::::::::.:::::.:.
:::.::: ::::::.::.::.::::::. .-: :::: ::::.:.:.
>>gi|283855845|gb|GQ290303.1| Cynopterus brachyotis voucher 20020434 rhodopsin (RHO) gene, exons 1 through 5 and partial cds
; tfx_frame: f
; tfx_initn: 2094
; tfx_init1: 723
; tfx_opt: 723
; tfx_z-score: 992.9
; tfx_bits: 195.8
; tfx_expect:  1e-52
; sw_score: 723
; sw_ident: 0.964
; sw_sim: 0.991
; sw_overlap: 111
>sp|P08100|OP ..
; sq_len: 348
; sq_offset: 1
; sq_type: p
; al_start: 11
; al_stop: 121
; al_display_start: 11
VPFSNATGVVRSPFEYPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLY
VTVQHKKLRTPLNYILLNLAVADLFMVLGGFTSTLYTSLHGYFVFGPTGC
NLEGFFATLGG
>gi|283855845|gb|GQ290303.1| ..
; sq_len: 4301
; sq_offset: 1
; sq_type: p
; al_start: 1
; al_stop: 333
; al_display_start: 1
VPFSNKTGVVRSPFEHPQYYLAEPWQFSMLAAYMFLLIVLGFPINFLTLY
VTVQHKKLRTPLNYILLNLAVADLFMVFGGFTTTLYTSLHGYFVFGPTGC
NLEGFFATLGG
; al_cons:
::::: :::::::::.::::::::::::::::::::::::::::::::::
:::::::::::::::::::::::::::.::::.:::::::::::::::::
:::::::::::
>--
; tfx_frame: f
; tfx_initn: 1411
; tfx_init1: 499
; tfx_opt: 501
; tfx_z-score: 992.9
; tfx_bits: 195.8
; tfx_expect:  1e-52
; sw_score: 783
; sw_ident: 0.754
; sw_sim: 0.795
; sw_overlap: 171
>sp|P08100|OP ..
; sq_len: 348
; sq_offset: 1
; sq_type: p
; al_start: 177
; al_stop: 312
; al_display_start: 177
RYIPEGLQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIIIFFCYGQL
VFTVKE------------------------------------AAAQQQES
ATTQKAEKEVTRMVIIMVIAFLICWVPYASVAFYIFTHQGSNFGPIFMTI
PAFFAKSAAIYNPVIYIMMNKQ
>gi|283855845|gb|GQ290303.1| ..
; sq_len: 4301
; sq_offset: 1
; sq_type: p
; al_start: 2855
; al_stop: 3368
; al_display_start: 2855
RYIPEGMQCSCGIDYYTLKPEVNNESFVIYMFVVHFTIPMIVIFFCYGQL
VFTVKEVRSCVGHWGHAH*VNGAQLHSQSCHSLDT*PCVPA\AAAQQQES
ATTQKAEKEVTRMVIIMVIAFLICWLPYAGVAFYIFTHQGSNFGPIFMTL
PAFFAKSSSIYNPVIYIMMNKQ
; al_cons:
::::::.::::::::::::::::::::::::::::::::::.::::::::
::::::------------------------------------::::::::
:::::::::::::::::::::::::.:::.:::::::::::::::::::.
:::::::..:::::::::::::
>--
; tfx_frame: f
; tfx_initn: 431
; tfx_init1: 379
; tfx_opt: 388
; tfx_z-score: 992.9
; tfx_bits: 195.8
; tfx_expect:  1e-52
; sw_score: 388
; sw_ident: 0.808
; sw_sim: 0.904
; sw_overlap: 73
>sp|P08100|OP ..
; sq_len: 348
; sq_offset: 1
; sq_type: p
; al_start: 119
; al_stop: 189
; al_display_start: 119
LGGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGVAFTWVMALACA
APPLAGWSR--YIPEGLQCSCGI
>gi|283855845|gb|GQ290303.1| ..
; sq_len: 4301
; sq_offset: 1
; sq_type: p
; al_start: 1404
; al_stop: 1619
; al_display_start: 1404
LAGEIALWSLVVLAIERYVVVCKPMSNFRFGENHAIMGLALTWVMALACA
APPLVGWSR*WH*TEG-KCL*GL
; al_cons:
:.::::::::::::::::::::::::::::::::::::.:.:::::::::
::::.::::--.  ::-.:  :.
>--
; tfx_frame: f
; tfx_initn: 213
; tfx_init1: 171
; tfx_opt: 176
; tfx_z-score: 992.9
; tfx_bits: 195.8
; tfx_expect:  1e-52
; sw_score: 176
; sw_ident: 0.767
; sw_sim: 0.933
; sw_overlap: 30
>sp|P08100|OP ..
; sq_len: 348
; sq_offset: 1
; sq_type: p
; al_start: 307
; al_stop: 336
; al_display_start: 307
IMMNKQFRNCMLTTICCGKNPLGDDEASAT
>gi|283855845|gb|GQ290303.1| ..
; sq_len: 4301
; sq_offset: 1
; sq_type: p
; al_start: 4207
; al_stop: 4296
; al_display_start: 4207
MLLAFQFRNCMLTTLCCGKNPLGDDEASTT
; al_cons:
...  :::::::::.:::::::::::::.:
>>gi|283855822|gb|GQ290312.1| Myotis ricketti voucher GQX10 rhodopsin (RHO) mRNA, partial cds
; tfx_frame: r
; tfx_initn:  74
; tfx_init1:  58
; tfx_opt:  59
; tfx_z-score: 91.3
; tfx_bits: 26.9
; tfx_expect:  0.017
; sw_score: 59
; sw_ident: 0.355
; sw_sim: 0.613
; sw_overlap: 31
>sp|P08100|OP ..
; sq_len: 348
; sq_offset: 1
; sq_type: p
; al_start: 235
; al_stop: 265
; al_display_start: 235
AQQQESATTQKAEKEVTRMVIIMVIAFLICW
>gi|283855822|gb|GQ290312.1| ..
; sq_len: 983
; sq_offset: 984
; sq_type: p
; al_start: 767
; al_stop: 675
; al_display_start: 767
SQQIRNATTMMMTMRVTSFSAFWVVADSCCW
; al_cons:
.:: ..:::.    .:: .  . :.:   ::
>>><<<
>>>///


3297 residues in 4 query   sequences
10296 residues in 6 library sequences
 Tcomplib [36.3.4 Apr, 2011] (8 proc)
 start: Tue Apr 26 15:35:42 2011 done: Tue Apr 26 15:35:43 2011
 Total Scan time:  1.010 Total Display time:  0.420

Function used was TFASTX [36.3.4 Apr, 2011]
