Difference between revisions of "Reference Alignment BCKDHA"

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(→‎Alignment NP000700.1 and Uniprot)
(→‎Alignment NP000700.1 and NP_064543.3)
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== Alignment NP000700.1 and NP_064543.3 ==
  
== Alignment NP000700.1 and NP_064543.3 ==
  +
<pre>
 
# Program: needle
  
# Program: needle
 
# Rundate: Sat 18 Jun 2011 15:33:48
  
# Rundate: Sat 18 Jun 2011 15:33:48
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#---------------------------------------
  
#---------------------------------------
 
#---------------------------------------
  
#---------------------------------------
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</pre>
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== Alignment NM_000709.3 NP000700.1 (translated) ==
  
== Alignment NM_000709.3 NP000700.1 (translated) ==

Revision as of 00:29, 19 June 2011

Alignment NP000700.1 and Uniprot

########################################
# Program: needle
# Rundate: Sat 18 Jun 2011 15:40:24
# Commandline: needle
#    -auto
#    -stdout
#    -asequence emboss_needle-I20110618-154022-0862-15396676-pg.asequence
#    -bsequence emboss_needle-I20110618-154022-0862-15396676-pg.bsequence
#    -datafile EBLOSUM62
#    -gapopen 10.0
#    -gapextend 0.5
#    -endopen 10.0
#    -endextend 0.5
#    -aformat3 pair
#    -sprotein1
#    -sprotein2
# Align_format: pair
# Report_file: stdout
########################################

#=======================================
#
# Aligned_sequences: 2
# 1: ODBA_HUMAN
# 2: NP_000700.1
# Matrix: EBLOSUM62
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 445
# Identity:     445/445 (100.0%)
# Similarity:   445/445 (100.0%)
# Gaps:           0/445 ( 0.0%)
# Score: 2348.0
# 
#
#=======================================

ODBA_HUMAN         1 MAVAIAAARVWRLNRGLSQAALLLLRQPGARGLARSHPPRQQQQFSSLDD     50
                     ||||||||||||||||||||||||||||||||||||||||||||||||||
NP_000700.1        1 MAVAIAAARVWRLNRGLSQAALLLLRQPGARGLARSHPPRQQQQFSSLDD     50

ODBA_HUMAN        51 KPQFPGASAEFIDKLEFIQPNVISGIPIYRVMDRQGQIINPSEDPHLPKE    100
                     ||||||||||||||||||||||||||||||||||||||||||||||||||
NP_000700.1       51 KPQFPGASAEFIDKLEFIQPNVISGIPIYRVMDRQGQIINPSEDPHLPKE    100

ODBA_HUMAN       101 KVLKLYKSMTLLNTMDRILYESQRQGRISFYMTNYGEEGTHVGSAAALDN    150
                     ||||||||||||||||||||||||||||||||||||||||||||||||||
NP_000700.1      101 KVLKLYKSMTLLNTMDRILYESQRQGRISFYMTNYGEEGTHVGSAAALDN    150

ODBA_HUMAN       151 TDLVFGQYREAGVLMYRDYPLELFMAQCYGNISDLGKGRQMPVHYGCKER    200
                     ||||||||||||||||||||||||||||||||||||||||||||||||||
NP_000700.1      151 TDLVFGQYREAGVLMYRDYPLELFMAQCYGNISDLGKGRQMPVHYGCKER    200

ODBA_HUMAN       201 HFVTISSPLATQIPQAVGAAYAAKRANANRVVICYFGEGAASEGDAHAGF    250
                     ||||||||||||||||||||||||||||||||||||||||||||||||||
NP_000700.1      201 HFVTISSPLATQIPQAVGAAYAAKRANANRVVICYFGEGAASEGDAHAGF    250

ODBA_HUMAN       251 NFAATLECPIIFFCRNNGYAISTPTSEQYRGDGIAARGPGYGIMSIRVDG    300
                     ||||||||||||||||||||||||||||||||||||||||||||||||||
NP_000700.1      251 NFAATLECPIIFFCRNNGYAISTPTSEQYRGDGIAARGPGYGIMSIRVDG    300

ODBA_HUMAN       301 NDVFAVYNATKEARRRAVAENQPFLIEAMTYRIGHHSTSDDSSAYRSVDE    350
                     ||||||||||||||||||||||||||||||||||||||||||||||||||
NP_000700.1      301 NDVFAVYNATKEARRRAVAENQPFLIEAMTYRIGHHSTSDDSSAYRSVDE    350

ODBA_HUMAN       351 VNYWDKQDHPISRLRHYLLSQGWWDEEQEKAWRKQSRRKVMEAFEQAERK    400
                     ||||||||||||||||||||||||||||||||||||||||||||||||||
NP_000700.1      351 VNYWDKQDHPISRLRHYLLSQGWWDEEQEKAWRKQSRRKVMEAFEQAERK    400

ODBA_HUMAN       401 PKPNPNLLFSDVYQEMPAQLRKQQESLARHLQTYGEHYPLDHFDK    445
                     |||||||||||||||||||||||||||||||||||||||||||||
NP_000700.1      401 PKPNPNLLFSDVYQEMPAQLRKQQESLARHLQTYGEHYPLDHFDK    445


#---------------------------------------
#---------------------------------------

Alignment NP000700.1 and NP_064543.3

# Program: needle
# Rundate: Sat 18 Jun 2011 15:33:48
# Commandline: needle
#    -auto
#    -stdout
#    -asequence emboss_needle-I20110618-153347-0476-45685691-pg.asequence
#    -bsequence emboss_needle-I20110618-153347-0476-45685691-pg.bsequence
#    -datafile EBLOSUM62
#    -gapopen 10.0
#    -gapextend 0.5
#    -endopen 10.0
#    -endextend 0.5
#    -aformat3 pair
#    -sprotein1
#    -sprotein2
# Align_format: pair
# Report_file: stdout
########################################

#=======================================
#
# Aligned_sequences: 2
# 1: NP_064543.3
# 2: NP_000700.1
# Matrix: EBLOSUM62
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 497
# Identity:      49/497 ( 9.9%)
# Similarity:    86/497 (17.3%)
# Gaps:         314/497 (63.2%)
# Score: 30.0
# 
#
#=======================================

NP_064543.3        1 --------------------------------------------------      0
                                                                       
NP_000700.1        1 MAVAIAAARVWRLNRGLSQAALLLLRQPGARGLARSHPPRQQQQFSSLDD     50

NP_064543.3        1 --------------------------------------------------      0
                                                                       
NP_000700.1       51 KPQFPGASAEFIDKLEFIQPNVISGIPIYRVMDRQGQIINPSEDPHLPKE    100

NP_064543.3        1 -----------------------------------MEEETHTDAKIRAEN     15
                                                        .||.||.        
NP_000700.1      101 KVLKLYKSMTLLNTMDRILYESQRQGRISFYMTNYGEEGTHV--------    142

NP_064543.3       16 GTGSSPRGPGCSLRHFACEQNLLSRPDGSASFLQGDTSVLAGVYGPAEVK     65
                                                |||:.|. :|.::.|.|..|.|.
NP_000700.1      143 ---------------------------GSAAALD-NTDLVFGQYREAGVL    164

NP_064543.3       66 VSKEIFNKATLEVILRPKIGLPGVAEKSRERLIRNTCE-------AVVLG    108
                     :.::.    .||:.:....|......|.|:..:...|:       :..|.
NP_000700.1      165 MYRDY----PLELFMAQCYGNISDLGKGRQMPVHYGCKERHFVTISSPLA    210

NP_064543.3      109 TLHPRTSITVVLQVVSDAGSLLACCL--NAACMALVDAGVPMRA-LFCGV    155
                     |..|:..........::|..::.|..  .||......||....| |.|.:
NP_000700.1      211 TQIPQAVGAAYAAKRANANRVVICYFGEGAASEGDAHAGFNFAATLECPI    260

NP_064543.3      156 ACALDSDGTLVLDPTSKQEK----EAR----AVLTFALDSVERKLLMSST    197
                     .....::|..:..|||:|.:    .||    .:::..:|..:...:.::|
NP_000700.1      261 IFFCRNNGYAISTPTSEQYRGDGIAARGPGYGIMSIRVDGNDVFAVYNAT    310

NP_064543.3      198 KGLYSDTELQQCLAAAQAASQHVFRFYRESLQRR---YSKS---------    235
                     |         :....|.|.:|   .|..|::..|   :|.|         
NP_000700.1      311 K---------EARRRAVAENQ---PFLIEAMTYRIGHHSTSDDSSAYRSV    348

NP_064543.3      236 --------------------------------------------------    235
                                                                       
NP_000700.1      349 DEVNYWDKQDHPISRLRHYLLSQGWWDEEQEKAWRKQSRRKVMEAFEQAE    398

NP_064543.3      236 -----------------------------------------------    235
                                                                    
NP_000700.1      399 RKPKPNPNLLFSDVYQEMPAQLRKQQESLARHLQTYGEHYPLDHFDK    445


#---------------------------------------
#---------------------------------------

Alignment NM_000709.3 NP000700.1 (translated)

  2. Program: needle
  3. Rundate: Sat 18 Jun 2011 15:42:31
  4. Commandline: needle
  5. -auto
  6. -stdout
  7. -asequence emboss_needle-I20110618-154230-0254-14289745-pg.asequence
  8. -bsequence emboss_needle-I20110618-154230-0254-14289745-pg.bsequence
  9. -datafile EBLOSUM62
  10. -gapopen 10.0
  11. -gapextend 0.5
  12. -endopen 10.0
  13. -endextend 0.5
  14. -aformat3 pair
  15. -sprotein1
  16. -sprotein2
  17. Align_format: pair
  18. Report_file: stdout
  1. =======================================
  3. Aligned_sequences: 2
  4. 1: NP_000700.1
  5. 2: EMBOSS_001
  6. Matrix: EBLOSUM62
  7. Gap_penalty: 10.0
  8. Extend_penalty: 0.5
  10. Length: 458
  11. Identity: 445/458 (97.2%)
  12. Similarity: 445/458 (97.2%)
  13. Gaps: 13/458 ( 2.8%)
  14. Score: 2348.0
  17. =======================================

NP_000700.1 1 -------------MAVAIAAARVWRLNRGLSQAALLLLRQPGARGLARSH 37 

                                 |||||||||||||||||||||||||||||||||||||

EMBOSS_001 1 LRECRTAEWLLAKMAVAIAAARVWRLNRGLSQAALLLLRQPGARGLARSH 50

NP_000700.1 38 PPRQQQQFSSLDDKPQFPGASAEFIDKLEFIQPNVISGIPIYRVMDRQGQ 87 

                    ||||||||||||||||||||||||||||||||||||||||||||||||||

EMBOSS_001 51 PPRQQQQFSSLDDKPQFPGASAEFIDKLEFIQPNVISGIPIYRVMDRQGQ 100

NP_000700.1 88 IINPSEDPHLPKEKVLKLYKSMTLLNTMDRILYESQRQGRISFYMTNYGE 137 

                    ||||||||||||||||||||||||||||||||||||||||||||||||||

EMBOSS_001 101 IINPSEDPHLPKEKVLKLYKSMTLLNTMDRILYESQRQGRISFYMTNYGE 150

NP_000700.1 138 EGTHVGSAAALDNTDLVFGQYREAGVLMYRDYPLELFMAQCYGNISDLGK 187 

                    ||||||||||||||||||||||||||||||||||||||||||||||||||

EMBOSS_001 151 EGTHVGSAAALDNTDLVFGQYREAGVLMYRDYPLELFMAQCYGNISDLGK 200

NP_000700.1 188 GRQMPVHYGCKERHFVTISSPLATQIPQAVGAAYAAKRANANRVVICYFG 237 

                    ||||||||||||||||||||||||||||||||||||||||||||||||||

EMBOSS_001 201 GRQMPVHYGCKERHFVTISSPLATQIPQAVGAAYAAKRANANRVVICYFG 250

NP_000700.1 238 EGAASEGDAHAGFNFAATLECPIIFFCRNNGYAISTPTSEQYRGDGIAAR 287 

                    ||||||||||||||||||||||||||||||||||||||||||||||||||

EMBOSS_001 251 EGAASEGDAHAGFNFAATLECPIIFFCRNNGYAISTPTSEQYRGDGIAAR 300

NP_000700.1 288 GPGYGIMSIRVDGNDVFAVYNATKEARRRAVAENQPFLIEAMTYRIGHHS 337 

                    ||||||||||||||||||||||||||||||||||||||||||||||||||

EMBOSS_001 301 GPGYGIMSIRVDGNDVFAVYNATKEARRRAVAENQPFLIEAMTYRIGHHS 350

NP_000700.1 338 TSDDSSAYRSVDEVNYWDKQDHPISRLRHYLLSQGWWDEEQEKAWRKQSR 387 

                    ||||||||||||||||||||||||||||||||||||||||||||||||||

EMBOSS_001 351 TSDDSSAYRSVDEVNYWDKQDHPISRLRHYLLSQGWWDEEQEKAWRKQSR 400

NP_000700.1 388 RKVMEAFEQAERKPKPNPNLLFSDVYQEMPAQLRKQQESLARHLQTYGEH 437 

                    ||||||||||||||||||||||||||||||||||||||||||||||||||

EMBOSS_001 401 RKVMEAFEQAERKPKPNPNLLFSDVYQEMPAQLRKQQESLARHLQTYGEH 450

NP_000700.1 438 YPLDHFDK 445 

                    ||||||||

EMBOSS_001 451 YPLDHFDK 458


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