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# Program: MUSTANG-Lite v0.1: A  Multiple structural alignment algorithm
# Authors: A. S. Konagurthu, A. M. Lesk, J. C. Whisstock, and P. J. Stuckey
# Rundate: Fri Jul 22 23:07:24 2005
# Report_file: /mnt/EXTRA_STORAGE/MUSTANG_RESULTS/HOMSTRAD_Datasets/results/RNA_pol_A_bac.html
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#====================================
# Aligned_structures: 2
#   1: 1bdfa.pdb
#   2: 1i6va.pdb
#
# Length:        240
# Identity:      100/240 ( 41.7%)  (Calculated as the percentage of conserved columns in the alignment.)
# Similarity:    100/240 ( 41.7%)  (Calculated as the percentage of semi-conserved columns in the alignment)
# Gaps:           30/240 ( 12.5%)  (Calculated as the percentage of columns with atleast one gap.)

#===========================================ALIGNMENT START=========================================


1bdfa.pdb               1  QGSVTEFLKPRLVDIEQVS--STHAKVTLEPLERGFGHTLGNALRAILLSSMPGCAVTEV   58
1i6va.pdb               1  ----LKAPV---FTAT-TQGDH-YGEFVLEPLERGFGVTLGNPLRRILLSSIPGTAVTSV   51
                                                       LEPLERGFG TLGN LR ILLSS PG AVT V

1bdfa.pdb              59  EIDGVLHEYSTKEGVQEDILEILLNLKGLAVRVQG--KDEVILTLNKSGIGPVTAADITH  116
1i6va.pdb              52  YIEDVLHEFSTIPGVKEDVVEIILNLKELVVRFLDPKMASTTLILRAEGPKEVRAVDFTP  111
                            I  VLHE ST  GV ED  EI LNLK L VR          L L   G   V A D T 

1bdfa.pdb             117  DGDVEIVKPQHVICHLTDENA-SISMRIKVQRGRGYVPASTRIERP-----IGRLLVDAC  170
1i6va.pdb             112  SADVEIMNPDLHIATLE-E-GGKLYMEVRVDRGVGYVPAERH----GIKDRINAIPVDAI  165
                             DVEI  P   I  L  E      M   V RG GYVPA            I    VDA 

1bdfa.pdb             171  YSPVERIAYNVEAARVEQRTDLDKLVIEME-TNGTIDPEEAIRRAATILAEQLEAFV---  226
1i6va.pdb             166  FSPVRRVAFQVEDTRLGQRTDLDKLTLRIWTD-GSVTPLEALNQAVAILKEHLNYFANPE  224
                            SPV R A  VE  R  QRTDLDKL        G   P EA   A  IL E L  F    


#=========================================ALIGNMENT END=============================================
#LEGEND:
#
# Colours indicate the chemical nature of the amino acid;
# Red         = small hydrophobic including aromatic,{A,F,I,L,M,P,V,W}
# Blue        = Acidic,{D,E}
# Magenta     = Basic,{K,R} and
# Green       = Basic amino acids with hydroxyl groups and/or amine groups {C,G,H,N,Q,S,T,Y}.
#
# The "markup row" below each stretch of the multiple alignment is used to mark completely conserved
# residue (denoted in UPPERCASE) and semi-conserved reside ( denoted in lowercase) in a column of the alignment.
#
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