########################################
# Program: needle
# Rundate: Wed 30 May 2018 14:33:30
# Commandline: needle
#    -outfile /Users/teresatavella/Documents/models_new/seqid30_85/gb_YP_039996.1_ARO_3003287_Staphylococcus_3iyd_C/needle.txt
#    -asequence /Users/teresatavella/Documents/models_new/seqid30_85/gb_YP_039996.1_ARO_3003287_Staphylococcus_3iyd_C/gb_YP_039996.1_ARO_3003287_Staphylococcus_aureus_rpoB_mutants_conferring_resistance_to_daptomycin__Staphylococcus_aureus_subsp._aureus_MRSA252.fa
#    -bsequence /Users/teresatavella/Documents/models_new/seqid30_85/gb_YP_039996.1_ARO_3003287_Staphylococcus_3iyd_C/3iyd_C.fa
#    -gapopen 10
#    -gapextend 0.5
# Align_format: srspair
# Report_file: /Users/teresatavella/Documents/models_new/seqid30_85/gb_YP_039996.1_ARO_3003287_Staphylococcus_3iyd_C/needle.txt
########################################

#=======================================
#
# Aligned_sequences: 2
# 1: gb_YP_039996.1_ARO_3003287_Staphylococcus_aureus_rpoB_mutants_conferring_resistance_to_daptomycin__Staphylococcus_aureus_subsp._aureus_MRSA252
# 2: 3iyd_C_mol_protein_length_1342__DNA-directed_RNA_polymerase_subunit_beta
# Matrix: EBLOSUM62
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 1224
# Identity:     623/1224 (50.9%)
# Similarity:   813/1224 (66.4%)
# Gaps:         176/1224 (14.4%)
# Score: 3151.5
# 
#
#=======================================

gb_YP_039996.      1 MAGQVVQYGRHRKRRNYARISEVLELPNLIEIQTKSYEWFLRE------G     44
                                |.|:::.:..:||::|.|:.||..|::.|:.:      |
3iyd_C_mol_pr      1 -----------RIRKDFGKRPQVLDVPYLLSIQLDSFQKFIEQDPEGQYG     39

gb_YP_039996.     45 LIEMFRDISPIEDFTGNLSLEFVDYRLGEPKYDLEESKNRDATYAAPLRV     94
                     |...||.:.||:.::||..|::|.||||||.:|::|.:.|..||:|||||
3iyd_C_mol_pr     40 LEAAFRSVFPIQSYSGNSELQYVSYRLGEPVFDVQECQIRGVTYSAPLRV     89

gb_YP_039996.     95 KVRLIIKE-------TGEVKEQEVFMGDFPLMTDTGTFVINGAERVIVSQ    137
                     |:||:|.|       ..::|||||:||:.|||||.|||||||.|||||||
3iyd_C_mol_pr     90 KLRLVIYEREAPEGTVKDIKEQEVYMGEIPLMTDNGTFVINGTERVIVSQ    139

gb_YP_039996.    138 LVRSPSVYFNE---KIDKNGRENYDATIIPNRGAWLEYETDAKDVVYVRI    184
                     |.|||.|:|:.   |...:|:..|:|.|||.||:||::|.|.||.::|||
3iyd_C_mol_pr    140 LHRSPGVFFDSDKGKTHSSGKVLYNARIIPYRGSWLDFEFDPKDNLFVRI    189

gb_YP_039996.    185 DRTRKLPLTVLLRALGFSSDQ------EIVDLLG----------------    212
                     ||.||||.|::||||.::::|      |.||||.                
3iyd_C_mol_pr    190 DRRRKLPATIILRALNYTTEQILDLFFEKVDLLAKLSQSGHKRIETLFTN    239

gb_YP_039996.    213 ---DNEYLRNTLEKDGTENTEQALLEIYERLRPGEPPTVENAKSLLYSRF    259
                        ...|:..||..|.|.:...||:|||..:|||||||.|.|:||..:.|
3iyd_C_mol_pr    240 DLDHGPYISETLRVDPTNDRLSALVEIYRMMRPGEPPTREAAESLFENLF    289

gb_YP_039996.    260 FDPKRYDLASVGRYKTNKKLHLKHRLFNQKLAEPIVNTETGEIVVEEGTV    309
                     |...||||::|||.|.|:.|          |.|                 
3iyd_C_mol_pr    290 FSEDRYDLSAVGRMKFNRSL----------LRE-----------------    312

gb_YP_039996.    310 LDRRKIDEIMDVLESNANSEVFELHGSVIDEPVEIQSIKVYVPNDDEGRT    359
                                           |:.||.|                     
3iyd_C_mol_pr    313 ----------------------EIEGSGI---------------------    319

gb_YP_039996.    360 TTVIGNAFPDSEVKCITPADIIASMSYFFNLLSGIGYTDDIDHLGNRRLR    409
                                    ::..|||..|....::.:|.|..||||||||||:|
3iyd_C_mol_pr    320 ---------------LSKDDIIDVMKKLIDIRNGKGEVDDIDHLGNRRIR    354

gb_YP_039996.    410 SVGELLQNQFRIGLSRMERVVRERMSIQDTESITPQQLINIRPVIASIKE    459
                     ||||:.:||||:||.|:||.|:||:|:.|.:::.||.:||.:|:.|::||
3iyd_C_mol_pr    355 SVGEMAENQFRVGLVRVERAVKERLSLGDLDTLMPQDMINAKPISAAVKE    404

gb_YP_039996.    460 FFGSSQLSQFMDQANPLAELTHKRRLSALGPGGLTRERAQMEVRDVHYSH    509
                     |||||||||||||.|||:|:|||||:|||||||||||||..||||||.:|
3iyd_C_mol_pr    405 FFGSSQLSQFMDQNNPLSEITHKRRISALGPGGLTRERAGFEVRDVHPTH    454

gb_YP_039996.    510 YGRMCPIETPEGPNIGLINSLSSYARVNEFGFIETPYRKVDLDTHAITDQ    559
                     |||:||||||||||||||||||.||:.||:||:|||||||  ....:||:
3iyd_C_mol_pr    455 YGRVCPIETPEGPNIGLINSLSVYAQTNEYGFLETPYRKV--TDGVVTDE    502

gb_YP_039996.    560 IDYLTADEEDSYVVAQANSKLDENGRFMDDEVVCRFRGNNTVMAKEKMDY    609
                     |.||:|.||.:||:|||||.|||.|.|::|.|.||.:|.:::.:::::||
3iyd_C_mol_pr    503 IHYLSAIEEGNYVIAQANSNLDEEGHFVEDLVTCRSKGESSLFSRDQVDY    552

gb_YP_039996.    610 MDVSPKQVVSAATACIPFLENDDSNRALMGANMQRQAVPLMNPEAPFVGT    659
                     ||||.:||||...:.|||||:||:|||||||||||||||.:..:.|.|||
3iyd_C_mol_pr    553 MDVSTQQVVSVGASLIPFLEHDDANRALMGANMQRQAVPTLRADKPLVGT    602

gb_YP_039996.    660 GMEHVAARDSGAAITAKHRGRVEHVESNEILVRRLVEENGVEHEGELDRY    709
                     |||...|.|||....||..|.|::|:::.|:: ::.|:.....|..:|.|
3iyd_C_mol_pr    603 GMERAVAVDSGVTAVAKRGGVVQYVDASRIVI-KVNEDEMYPGEAGIDIY    651

gb_YP_039996.    710 PLAKFKRSNSGTCYNQRPIVAVGDVVEFNEILADGPSMELGEMALGRNVV    759
                     .|.|:.|||..||.||.|.|::|:.||..::||||||.:|||:|||:|:.
3iyd_C_mol_pr    652 NLTKYTRSNQNTCINQMPCVSLGEPVERGDVLADGPSTDLGELALGQNMR    701

gb_YP_039996.    760 VGFMTWDGYNYEDAVIMSERLVKDDVYTSIHIEEYESEARDTKLGPEEIT    809
                     |.||.|:|||:||::::|||:|::|.:|:|||:|....:|||||||||||
3iyd_C_mol_pr    702 VAFMPWNGYNFEDSILVSERVVQEDRFTTIHIQELACVSRDTKLGPEEIT    751

gb_YP_039996.    810 RDIPNVSESALKNLDDRGIVYIGAEVKDGDILVGKVTPKGVTELTAEERL    859
                     .|||||.|:||..||:.|||||||||..||||||||||||.|:||.||:|
3iyd_C_mol_pr    752 ADIPNVGEAALSKLDESGIVYIGAEVTGGDILVGKVTPKGETQLTPEEKL    801

gb_YP_039996.    860 LHAIFGEKAREVRDTSLRVPHGAGGIVLDVKVFNREEGDDTLSPGVNQLV    909
                     |.|||||||.:|:|:|||||:|..|.|:||:||.|:..:..|:|||.::|
3iyd_C_mol_pr    802 LRAIFGEKASDVKDSSLRVPNGVSGTVIDVQVFTRDGVEKDLAPGVLKIV    851

gb_YP_039996.    910 RVYIVQKRKIHVGDKMCGRHGNKGVISKIVPEEDMPYLPDGRPIDIMLNP    959
                     :||:..||:|..||||.||||||||||||.|.|||||..:|.|:||:|||
3iyd_C_mol_pr    852 KVYLAVKRRIQPGDKMAGRHGNKGVISKINPIEDMPYDENGTPVDIVLNP    901

gb_YP_039996.    960 LGVPSRMNIGQVLELHLGMAAKNLGIHVASPVFDGANDDDVWSTIEEAGM   1009
                     |||||||||||:||.|||||||.:|:.:|:||||||.:.::...::...:
3iyd_C_mol_pr    902 LGVPSRMNIGQILETHLGMAAKGIGMPIATPVFDGAKEAEIKELLKLGDL    951

gb_YP_039996.   1010 ARDGKTVLYDGRTGEPFDNRISVGVMYMLKLAHMVDDKLHARSTGPYSLV   1059
                     ...|:..||||||||.|:..::||.||||||.|:||||:||||||.||||
3iyd_C_mol_pr    952 PTSGQIRLYDGRTGEQFERPVTVGYMYMLKLNHLVDDKMHARSTGSYSLV   1001

gb_YP_039996.   1060 TQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEILTYKSDDTVGRVKT   1109
                     |||||||||||||||||||||||||||||||||||:||.||||..||.|.
3iyd_C_mol_pr   1002 TQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDDVNGRTKM   1051

gb_YP_039996.   1110 YEAIVKGENISRPSVPESFRVLMKELQSLGLDVKVMDEQDNEIEMTDVDD   1159
                     |:.||.|.:...|.:||||.||:||::|||:::::.||            
3iyd_C_mol_pr   1052 YKNIVDGNHQMEPGMPESFNVLLKEIRSLGINIELEDE------------   1089

gb_YP_039996.   1160 DDVVERKVDLQQNDAPETQKEVTD   1183
                                             
3iyd_C_mol_pr   1089 ------------------------   1089


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