matcher.output

emboss的linux版本的源代码

<a name="output.1"></a>
<h3>Output files for usage example </h3>
<p><h3>File: hba_human.matcher</h3>
<table width="90%"><tr><td bgcolor="#CCFFCC">
<pre>
########################################
# Program: matcher
# Rundate: Sat 15 Jul 2006 12:00:00
# Commandline: matcher
#    [-asequence] tsw:hba_human
#    [-bsequence] tsw:hbb_human
# Align_format: markx0
# Report_file: hba_human.matcher
########################################

#=======================================
#
# Aligned_sequences: 2
# 1: HBA_HUMAN
# 2: HBB_HUMAN
# Matrix: EBLOSUM62
# Gap_penalty: 14
# Extend_penalty: 4
#
# Length: 145
# Identity:      63/145 (43.4%)
# Similarity:    88/145 (60.7%)
# Gaps:           8/145 ( 5.5%)
# Score: 264
# 
#
#=======================================

              10        20        30        40         50
HBA_HU LSPADKTNVKAAWGKVGAHAGEYGAEALERMFLSFPTTKTYFPHF-DLSH
       :.: .:. : : ::::  .  : : ::: :. . .: :. .:  : ::: 
HBB_HU LTPEEKSAVTALWGKV--NVDEVGGEALGRLLVVYPWTQRFFESFGDLST
             10          20        30        40        50

                    60        70        80        90     
HBA_HU -----GSAQVKGHGKKVADALTNAVAHVDDMPNALSALSDLHAHKLRVDP
            :. .:: :::::  : .. .::.:..    . ::.::  :: :::
HBB_HU PDAVMGNPKVKAHGKKVLGAFSDGLAHLDNLKGTFATLSELHCDKLHVDP
               60        70        80        90       100

         100       110       120       130       140
HBA_HU VNFKLLSHCLLVTLAAHLPAEFTPAVHASLDKFLASVSTVLTSKY
        ::.:: . :.  :: :   :::: : :.  : .: :.  :  ::
HBB_HU ENFRLLGNVLVCVLAHHFGKEFTPPVQAAYQKVVAGVANALAHKY
              110       120       130       140     


#---------------------------------------
#---------------------------------------
</pre>
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<a name="output.2"></a>
<h3>Output files for usage example 2</h3>
<p><h3>File: hba_human.matcher</h3>
<table width="90%"><tr><td bgcolor="#CCFFCC">
<pre>
########################################
# Program: matcher
# Rundate: Sat 15 Jul 2006 12:00:00
# Commandline: matcher
#    [-asequence] tsw:hba_human
#    [-bsequence] tsw:hbb_human
#    -alternatives 10
# Align_format: markx0
# Report_file: hba_human.matcher
########################################

#=======================================
#
# Aligned_sequences: 2
# 1: HBA_HUMAN
# 2: HBB_HUMAN
# Matrix: EBLOSUM62
# Gap_penalty: 14
# Extend_penalty: 4
#
# Length: 145
# Identity:      63/145 (43.4%)
# Similarity:    88/145 (60.7%)
# Gaps:           8/145 ( 5.5%)
# Score: 264
# 
#
#=======================================

              10        20        30        40         50
HBA_HU LSPADKTNVKAAWGKVGAHAGEYGAEALERMFLSFPTTKTYFPHF-DLSH
       :.: .:. : : ::::  .  : : ::: :. . .: :. .:  : ::: 
HBB_HU LTPEEKSAVTALWGKV--NVDEVGGEALGRLLVVYPWTQRFFESFGDLST
             10          20        30        40        50

                    60        70        80        90     
HBA_HU -----GSAQVKGHGKKVADALTNAVAHVDDMPNALSALSDLHAHKLRVDP
            :. .:: :::::  : .. .::.:..    . ::.::  :: :::
HBB_HU PDAVMGNPKVKAHGKKVLGAFSDGLAHLDNLKGTFATLSELHCDKLHVDP
               60        70        80        90       100

         100       110       120       130       140
HBA_HU VNFKLLSHCLLVTLAAHLPAEFTPAVHASLDKFLASVSTVLTSKY
        ::.:: . :.  :: :   :::: : :.  : .: :.  :  ::
HBB_HU ENFRLLGNVLVCVLAHHFGKEFTPPVQAAYQKVVAGVANALAHKY
              110       120       130       140     


#=======================================
#


<font color=red>  [Part of this file has been deleted for brevity]</font>

#
# Aligned_sequences: 2
# 1: HBA_HUMAN
# 2: HBB_HUMAN
# Matrix: EBLOSUM62
# Gap_penalty: 14
# Extend_penalty: 4
#
# Length: 12
# Identity:       6/12 (50.0%)
# Similarity:     6/12 (50.0%)
# Gaps:           0/12 ( 0.0%)
# Score: 20
# 
#
#=======================================

             120   
HBA_HU HLPAEFTPAVHA
       ::  :   :: :
HBB_HU HLTPEEKSAVTA
              10   


#=======================================
#
# Aligned_sequences: 2
# 1: HBA_HUMAN
# 2: HBB_HUMAN
# Matrix: EBLOSUM62
# Gap_penalty: 14
# Extend_penalty: 4
#
# Length: 21
# Identity:       6/21 (28.6%)
# Similarity:     7/21 (33.3%)
# Gaps:           0/21 ( 0.0%)
# Score: 19
# 
#
#=======================================

            10        20    
HBA_HU PADKTNVKAAWGKVGAHAGEY
       :      :   :   : : .:
HBB_HU PVQAAYQKVVAGVANALAHKY
          130       140     


#---------------------------------------
#---------------------------------------
</pre>
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