########################################
# Program: needle
# Rundate: Wed 30 May 2018 11:42:55
# Commandline: needle
#    -outfile /Users/teresatavella/Documents/models_new/seqid60_90/sp_Q59622_RPOB_NEIMB_4ljz_I/needle.txt
#    -asequence /Users/teresatavella/Documents/models_new/seqid60_90/sp_Q59622_RPOB_NEIMB_4ljz_I/sp_Q59622_RPOB_NEIMB_DNA-directed_RNA_polymerase_subunit_beta_OS_Neisseria_meningitidis_serogroup_B_strain_MC58_OX_122586_GN_rpoB_PE_3_SV_2.fa
#    -bsequence /Users/teresatavella/Documents/models_new/seqid60_90/sp_Q59622_RPOB_NEIMB_4ljz_I/4ljz_I.fa
#    -gapopen 10
#    -gapextend 0.5
# Align_format: srspair
# Report_file: /Users/teresatavella/Documents/models_new/seqid60_90/sp_Q59622_RPOB_NEIMB_4ljz_I/needle.txt
########################################

#=======================================
#
# Aligned_sequences: 2
# 1: sp_Q59622_RPOB_NEIMB_DNA-directed_RNA_polymerase_subunit_beta_OS_Neisseria_meningitidis_serogroup_B_strain_MC58_OX_122586_GN_rpoB_PE_3_SV_2
# 2: 4ljz_I_mol_protein_length_1342__DNA-directed_RNA_polymerase_subunit_beta
# Matrix: EBLOSUM62
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 1395
# Identity:     897/1395 (64.3%)
# Similarity:  1100/1395 (78.9%)
# Gaps:          58/1395 ( 4.2%)
# Score: 4622.0
# 
#
#=======================================

sp_Q59622_RPO      1 MNYSFTEKKRIRKSFAKRENVLEVPFLLATQIDSYAKFLQLENAFDKRTD     50
                       ||:||||||||.|.||..||:||:||:.|:||:.||::.    |....
4ljz_I_mol_pr      1 --YSYTEKKRIRKDFGKRPQVLDVPYLLSIQLDSFQKFIEQ----DPEGQ     44

sp_Q59622_RPO     51 DGLQAAFNSIFPIVSHNGYARLEFVHYTLGEPLFDIPECQLRGITYAAPL    100
                     .||:|||.|:|||.|::|.:.|::|.|.||||:||:.|||:||:||:|||
4ljz_I_mol_pr     45 YGLEAAFRSVFPIQSYSGNSELQYVSYRLGEPVFDVQECQIRGVTYSAPL     94

sp_Q59622_RPO    101 RARIRLVILDKEASKPTVKEVRENEVYMGEIPLMTPSGSFVINGTERVIV    150
                     |.::||||.::||.:.|||:::|.|||||||||||.:|:|||||||||||
4ljz_I_mol_pr     95 RVKLRLVIYEREAPEGTVKDIKEQEVYMGEIPLMTDNGTFVINGTERVIV    144

sp_Q59622_RPO    151 SQLHRSPGVFFEHDKGKTHSSGKLLFSARIIPYRGSWLDFEFDPKDLLYF    200
                     |||||||||||:.||||||||||:|::|||||||||||||||||||.|:.
4ljz_I_mol_pr    145 SQLHRSPGVFFDSDKGKTHSSGKVLYNARIIPYRGSWLDFEFDPKDNLFV    194

sp_Q59622_RPO    201 RIDRRRKMPVTILLKALGYNNEQILDIFYDKETFYLSSNGVQTDLVADRL    250
                     |||||||:|.||:|:||.|..|||||:|::|..|.:..|.:|.:||.:||
4ljz_I_mol_pr    195 RIDRRRKLPATIILRALNYTTEQILDLFFEKVIFEIRDNKLQMELVPERL    244

sp_Q59622_RPO    251 KGETAKVDILDKEGNVLVAKGKRITAKNIRDITNAGLTRLDVEPESLLGK    300
                     :||||..|| :..|.|.|.||:||||::||.:....:..::|..|.:.||
4ljz_I_mol_pr    245 RGETASFDI-EANGKVYVEKGRRITARHIRQLEKDDVKLIEVPVEYIAGK    293

sp_Q59622_RPO    301 ALAADLIDSETGEVLASANDEITEELLAKFDINGVKEITTLYINELDQGA    350
                     .:|.|.||..|||::.:||.|::.:||||...:|.|.|.||:.|:||.|.
4ljz_I_mol_pr    294 VVAKDYIDESTGELICAANMELSLDLLAKLSQSGHKRIETLFTNDLDHGP    343

sp_Q59622_RPO    351 YISNTLRTDETAGRQAARVAIYRMMRPGEPPTEEAVEQLFNRLFFSEDSY    400
                     |||.|||.|.|..|.:|.|.||||||||||||.||.|.||..||||||.|
4ljz_I_mol_pr    344 YISETLRVDPTNDRLSALVEIYRMMRPGEPPTREAAESLFENLFFSEDRY    393

sp_Q59622_RPO    401 DLSRVGRMKFNTRTYEQKLSEAQQNSWYGRLLNETFAGAADKGGYVLSVE    450
                     |||.|||||||.                 .||.|...|:.     :||.:
4ljz_I_mol_pr    394 DLSAVGRMKFNR-----------------SLLREEIEGSG-----ILSKD    421

sp_Q59622_RPO    451 DIVASIATLVELRNGHGEVDDIDHLGNRRVRSVGELTENQFRSGLARVER    500
                     ||:..:..|:::|||.|||||||||||||:|||||:.|||||.||.||||
4ljz_I_mol_pr    422 DIIDVMKKLIDIRNGKGEVDDIDHLGNRRIRSVGEMAENQFRVGLVRVER    471

sp_Q59622_RPO    501 AVKERLNQAESENLMPHDLINAKPVSAAIKEFFGSSQLSQFMDQTNPLSE    550
                     ||||||:..:.:.|||.|:|||||:|||:|||||||||||||||.|||||
4ljz_I_mol_pr    472 AVKERLSLGDLDTLMPQDMINAKPISAAVKEFFGSSQLSQFMDQNNPLSE    521

sp_Q59622_RPO    551 VTHKRRVSALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLIN    600
                     :|||||:|||||||||||||||||||||||||||||||||||||||||||
4ljz_I_mol_pr    522 ITHKRRISALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPEGPNIGLIN    571

sp_Q59622_RPO    601 SLSVYARTNDYGFLETPYRRVIDGKVTEEIDYLSAIEEGRYVIAQANADL    650
                     ||||||:||:|||||||||:|.||.||:||.||||||||.|||||||::|
4ljz_I_mol_pr    572 SLSVYAQTNEYGFLETPYRKVTDGVVTDEIHYLSAIEEGNYVIAQANSNL    621

sp_Q59622_RPO    651 DSDGNLIGDLVTCREKGETIMATPDRVQYMDVATGQVVSVAASLIPFLEH    700
                     |.:|:.:.||||||.|||:.:.:.|:|.||||:|.|||||.|||||||||
4ljz_I_mol_pr    622 DEEGHFVEDLVTCRSKGESSLFSRDQVDYMDVSTQQVVSVGASLIPFLEH    671

sp_Q59622_RPO    701 DDANRALMGANMQRQAVPCLRPEKPMVGTGIERSVAVDSATAIVARRGGV    750
                     ||||||||||||||||||.||.:||:||||:||:|||||....||:||||
4ljz_I_mol_pr    672 DDANRALMGANMQRQAVPTLRADKPLVGTGMERAVAVDSGVTAVAKRGGV    721

sp_Q59622_RPO    751 VEYVDANRVVIRVHDDEATAGEVGVDIYNLVKFTRSNQSTNINQRPAVKA    800
                     |:||||:|:||:|::||...||.|:|||||.|:|||||:|.|||.|.|..
4ljz_I_mol_pr    722 VQYVDASRIVIKVNEDEMYPGEAGIDIYNLTKYTRSNQNTCINQMPCVSL    771

sp_Q59622_RPO    801 GDVLQRGDLVADGASTDFGELALGQNMTIAFMPWNGYNYEDSILISEKVA    850
                     |:.::|||::|||.|||.|||||||||.:|||||||||:|||||:||:|.
4ljz_I_mol_pr    772 GEPVERGDVLADGPSTDLGELALGQNMRVAFMPWNGYNFEDSILVSERVV    821

sp_Q59622_RPO    851 ADDRYTSIHIEELNVVARDTKLGAEDITRDIPNLSERMQNRLDESGIVYI    900
                     .:||:|:|||:||..|:||||||.|:||.||||:.|...::|||||||||
4ljz_I_mol_pr    822 QEDRFTTIHIQELACVSRDTKLGPEEITADIPNVGEAALSKLDESGIVYI    871

sp_Q59622_RPO    901 GAEVEAGDVLVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDTSLRMPTG    950
                     ||||..||:|||||||||||||||||||||||||||||||||:|||:|.|
4ljz_I_mol_pr    872 GAEVTGGDILVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDSSLRVPNG    921

sp_Q59622_RPO    951 MSGTVIDVQVFTREGIQRDKRAQSIIDSELKRYRLDLNDQLRIFDNDAFD   1000
                     :||||||||||||:|:::||||..|.:.:||:.:.||:::|:|.:...|.
4ljz_I_mol_pr    922 VSGTVIDVQVFTRDGVEKDKRALEIEEMQLKQAKKDLSEELQILEAGLFS    971

sp_Q59622_RPO   1001 RIERMIVGQKANGGPMKLAKGSEITTEYLAGLPSRHDWFDIRLTDEDLAK   1050
                     ||..::|.    ||         :..|.|..|| |..|.::.||||:...
4ljz_I_mol_pr    972 RIRAVLVA----GG---------VEAEKLDKLP-RDRWLELGLTDEEKQN   1007

sp_Q59622_RPO   1051 QLELIKVSLQQKREEADELYEIKKKKLTQGDELQPGVQKMVKVFIAIKRR   1100
                     |||.:.....:.:.|.::..|.|::|:||||:|.|||.|:|||::|:|||
4ljz_I_mol_pr   1008 QLEQLAEQYDELKHEFEKKLEAKRRKITQGDDLAPGVLKIVKVYLAVKRR   1057

sp_Q59622_RPO   1101 LQAGDKMAGRHGNKGVVSRILPVEDMPYMADGRPVDIVLNPLGVPSRMNI   1150
                     :|.|||||||||||||:|:|.|:|||||..:|.|||||||||||||||||
4ljz_I_mol_pr   1058 IQPGDKMAGRHGNKGVISKINPIEDMPYDENGTPVDIVLNPLGVPSRMNI   1107

sp_Q59622_RPO   1151 GQILEVHLGWAAKGIGERIDRMLKEQRKAGELREFLNRLYN-GSG--KKE   1197
                     |||||.|||.||||||::|:.|||:|::..:||||:.|.|: |:.  :|.
4ljz_I_mol_pr   1108 GQILETHLGMAAKGIGDKINAMLKQQQEVAKLREFIQRAYDLGADVRQKV   1157

sp_Q59622_RPO   1198 DLDALTDEEIIELASNLRKGASFASPVFDGAKESEIREMLNLAYPSDDPE   1247
                     ||...:|||::.||.|||||...|:||||||||:||:|:|          
4ljz_I_mol_pr   1158 DLSTFSDEEVMRLAENLRKGMPIATPVFDGAKEAEIKELL----------   1197

sp_Q59622_RPO   1248 VEKLGFNDSKTQITLYDGRSGEAFDRKVTVGVMHYLKLHHLVDEKMHARS   1297
                       |||...:..||.|||||:||.|:|.||||.|:.|||:||||:||||||
4ljz_I_mol_pr   1198 --KLGDLPTSGQIRLYDGRTGEQFERPVTVGYMYMLKLNHLVDDKMHARS   1245

sp_Q59622_RPO   1298 TGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDD   1347
                     ||.|||||||||||||||||||||||||||||||||||||||||||||||
4ljz_I_mol_pr   1246 TGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEMLTVKSDD   1295

sp_Q59622_RPO   1348 VNGRTKMYENIVKGEHKIDAGMPESFNVLVKEIRSLGLDIDLERY   1392
                     ||||||||:|||.|.|:::.|||||||||:|||||||::|:||..
4ljz_I_mol_pr   1296 VNGRTKMYKNIVDGNHQMEPGMPESFNVLLKEIRSLGINIELEDE   1340


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