########################################
# Program: needle
# Rundate: Wed 30 May 2018 15:05:44
# Commandline: needle
#    -outfile /Users/teresatavella/Documents/models_new/seqid30_85/gb_YP_039997.1_ARO_3003291_Staphylococcus_1hqm_D/needle.txt
#    -asequence /Users/teresatavella/Documents/models_new/seqid30_85/gb_YP_039997.1_ARO_3003291_Staphylococcus_1hqm_D/gb_YP_039997.1_ARO_3003291_Staphylococcus_aureus_rpoC_conferring_resistance_to_daptomycin__Staphylococcus_aureus_subsp._aureus_MRSA252.fa
#    -bsequence /Users/teresatavella/Documents/models_new/seqid30_85/gb_YP_039997.1_ARO_3003291_Staphylococcus_1hqm_D/1hqm_D.fa
#    -gapopen 10
#    -gapextend 0.5
# Align_format: srspair
# Report_file: /Users/teresatavella/Documents/models_new/seqid30_85/gb_YP_039997.1_ARO_3003291_Staphylococcus_1hqm_D/needle.txt
########################################

#=======================================
#
# Aligned_sequences: 2
# 1: gb_YP_039997.1_ARO_3003291_Staphylococcus_aureus_rpoC_conferring_resistance_to_daptomycin__Staphylococcus_aureus_subsp._aureus_MRSA252
# 2: 1hqm_D_mol_protein_length_1265__DNA-directed_RNA_polymerase_subunit_beta'
# Matrix: EBLOSUM62
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 1301
# Identity:     582/1301 (44.7%)
# Similarity:   792/1301 (60.9%)
# Gaps:         220/1301 (16.9%)
# Score: 2717.0
# 
#
#=======================================

gb_YP_039997.      1 MIDVNNFHYMKIGLASPEKIRSWSFGEVKKPETINYRTLKPEKDGLFCER     50
                         .....::|.|||||||||||:|||:||||                 
1hqm_D_mol_pr      1 ----KEVRKVRIALASPEKIRSWSYGEVEKPET-----------------     29

gb_YP_039997.     51 IFGPTKDWECSCGKYKRVRYKGMVCDRCGVEVTKSKVRRERMGHIELAAP    100
                                         :|.||:|||||||:|.|||.||||||||.|
1hqm_D_mol_pr     30 --------------------EGKVCERCGVEVTRSIVRRYRMGHIELATP     59

gb_YP_039997.    101 VSHIWYFKGIPSRMGLLLDMSPRALEEVIYFASYVVVDPGPTGL-----E    145
                     .:|||:.|.:||::|.|||:....||:|:||..|:|:||....|     |
1hqm_D_mol_pr     60 AAHIWFVKDVPSKIGTLLDLFATELEQVLYFNKYIVLDPKGAVLDGVPVE    109

gb_YP_039997.    146 KKTLLSEAEFRDYYDKYPGQFV-----------------------AKMGA    172
                     |:.||::...............                       |:|||
1hqm_D_mol_pr    110 KRQLLTDXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIDARMGA    159

gb_YP_039997.    173 EGIKDLLEEIDLDEELKLLRDELESATGQRLTRAIKRLEVVESFRNSGNK    222
                     |.|::||:|:||::..:.|.:|::..:..|..:|.||||||.:|.:|||:
1hqm_D_mol_pr    160 EAIQELLKELDLEKLERELLEEMKHPSRARRAKARKRLEVVRAFLDSGNR    209

gb_YP_039997.    223 PSWMILDVLPIIPPEIRPMVQLDGGRFATSDLNDLYRRVINRNNRLKRLL    272
                     |.||||:.:|::||:            |||||||||||:||||||||:||
1hqm_D_mol_pr    210 PEWMILEAVPVLPPD------------ATSDLNDLYRRLINRNNRLKKLL    247

gb_YP_039997.    273 DLGAPGIIVQNEKRMLQEAVDALIDNGRRGRPVTGPGN-RPLKSLSHMLK    321
                     ..|||.||::||||||||||||:|||||||.|||.||: |||:||:.:|.
1hqm_D_mol_pr    248 AQGAPEIIIRNEKRMLQEAVDAVIDNGRRGSPVTNPGSERPLRSLTDILS    297

gb_YP_039997.    322 GKQGRFRQNLLGKRVDYSGRSVIAVGPSLKMYQCGLPKEMALELFKPFVM    371
                     |||||||||||||||||||||||.|||.||::||||||.|||||||||::
1hqm_D_mol_pr    298 GKQGRFRQNLLGKRVDYSGRSVIVVGPQLKLHQCGLPKRMALELFKPFLL    347

gb_YP_039997.    372 KELVQREIATNIKNAKSKIER---MDDEVWDVLEEVIREHPVLLNRAPTL    418
                     |::.::..|.|:|.|:..:||   :.|||||.|||||....|||||||||
1hqm_D_mol_pr    348 KKMEEKAFAPNVKAARRMLERQRDIKDEVWDALEEVIHGKVVLLNRAPTL    397

gb_YP_039997.    419 HRLGIQAFEPTLVEGRAIRLHPLVTTAYNADFDGDQMAVHVPLSKEAQAE    468
                     ||||||||:|.||||::|:|||||..|:||||||||||||||||..||||
1hqm_D_mol_pr    398 HRLGIQAFQPVLVEGQSIQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAE    447

gb_YP_039997.    469 ARMLMLAAQNILNPKDGKPVVTPSQDMVLGNYYLTLERKDAVNTGAIFNN    518
                     ||:.||:|.|:|:|..|:|:..||:|::||.||:|..||:....|..|..
1hqm_D_mol_pr    448 ARIQMLSAHNLLSPASGEPLAKPSRDIILGLYYITQVRKEKKGAGMAFAT    497

gb_YP_039997.    519 TNEVLKAYANGFVHLH---------TRIGVHASSFNNP------------    547
                     ..|.|.||..|.|.|:         |.:|.....|.||            
1hqm_D_mol_pr    498 PEEALAAYERGEVALNAPIVVAGRETSVGRLKFVFANPDEALLAVAHGLL    547

gb_YP_039997.    548 ----TFTEEQNKKILATSVGKIIFNEIIPDSFAYINEPTQENLERKTPNR    593
                         |.|.....:.|.|:.|:|:|..|:.::..          :.|..  
1hqm_D_mol_pr    548 DLQDTVTTRYLGRRLETNPGRILFARIVGEAVG----------DEKVA--    585

gb_YP_039997.    594 YFIDPTTLGEGGLKEYFENEELIE---PFNKKFLGNIIAEVFNRFSITDT    640
                                        :|||:   |..|..|.:::.:.|.|..:..|
1hqm_D_mol_pr    586 -------------------QELIQMDVPQEKNSLKDLVYQAFLRLGMEKT    616

gb_YP_039997.    641 SMMLDRMKDLGFKFSSKAG-ITVGVADIVVLPDKQQILDEHEKLVDRITK    689
                     :.:||.:|..||..|:.:| ||:|:.|.|:..:||:.|:|.::.:.:|.:
1hqm_D_mol_pr    617 ARLLDALKYYGFTLSTTSGIITIGIDDAVIPEEKQRYLEEADRKLRQIEQ    666

gb_YP_039997.    690 QFNRGLITEEERYNAVVEIWTDAKDQIQGELMQSLDKT---NPIFMMSDS    736
                     .:..|.:|:.|||:.|:::||:..:::...:..:.::.   ||:::|:.|
1hqm_D_mol_pr    667 AYEMGFLTDRERYDQVIQLWTETTEKVTQAVFNNFEENYPFNPLYVMAQS    716

gb_YP_039997.    737 GARGNASNFTQLAGMRGLMAAPSGKIIELPITSSFREGLTVLEYFISTHG    786
                     |||||.....||.||||||..|||:..|:|:.|||||||||||||||:||
1hqm_D_mol_pr    717 GARGNPQQIRQLCGMRGLMQKPSGETFEVPVRSSFREGLTVLEYFISSHG    766

gb_YP_039997.    787 ARKGLADTALKTADSGYLTRRLVDVAQDVIVREEDCGTDRGLLV------    830
                     ||||.|||||:|||||||||:|||||.:::|||.||||.:.:.|      
1hqm_D_mol_pr    767 ARKGGADTALRTADSGYLTRKLVDVAHEIVVREADCGTTKYISVPLFQMD    816

gb_YP_039997.    831 -----------SDIKEG------TEMIEPFIERI-EGRY-SKETIRHPET    861
                                |||:.|      ...:|....|: |||| |.|.:..   
1hqm_D_mol_pr    817 EVTRTLRLRKRSDIESGLYGRVLAREVEALGRRLEEGRYLSLEDVHF---    863

gb_YP_039997.    862 DEVIIRPDELITPEIAKKITDAG-IEQMYIRSAFTCNARHGVCEKCYGKN    910
                              ||      |..:|| :.::.:||..||..|:|||:||||.:
1hqm_D_mol_pr    864 ---------LI------KAAEAGEVREVPVRSPLTCQTRYGVCQKCYGYD    898

gb_YP_039997.    911 LATGEKVEVGEAVGTIAAQSIGEPGTQLTMRTFHTGGVAGSDITQGLPRI    960
                     |:....|.:|||||.:||:|||||||||||||       |:||||||||:
1hqm_D_mol_pr    899 LSMARPVSIGEAVGVVAAESIGEPGTQLTMRT-------GTDITQGLPRV    941

gb_YP_039997.    961 QEIFEARNPKGQAVITEIEGVVEDIKLAKDRQQEIVVKGANETRSYLASG   1010
                     .|:||||.||.:|||:||:|||. |:..:|| ..:.|:....::.|....
1hqm_D_mol_pr    942 IELFEARRPKAKAVISEIDGVVR-IEEGEDR-LSVFVESEGFSKEYKLPK    989

gb_YP_039997.   1011 TSRIIVEIGQPVQRGEVLTEGSIEPKNYLSVAGLNATESYLLKEVQKVYR   1060
                     .:|::|:.|..|:.|:.||.|:|:|...|...|..|.|.||:.|:|||||
1hqm_D_mol_pr    990 DARLLVKDGDYVEAGQPLTRGAIDPHQLLEAKGPEAVERYLVDEIQKVYR   1039

gb_YP_039997.   1061 MQGVEIDDKHVEVMVRQMLRKVRIIEAGDTKLLPGSLVDIHNFTDANREA   1110
                     .|||::.|||:|::|||||:.|.:.:.||:.||.|.:::..:.     ||
1hqm_D_mol_pr   1040 AQGVKLHDKHIEIVVRQMLKYVEVTDPGDSPLLEGQVLEKWDV-----EA   1084

gb_YP_039997.   1111 FKHR--KRPATAKPVLLGITKASLETESFLSAASFQETTRVLTDAAIKGK   1158
                     ...|  ..|...||:|:|:||::|.|:|:|||||||.||.|||:|||.||
1hqm_D_mol_pr   1085 LNERLIAVPVAWKPLLMGVTKSALSTKSWLSAASFQNTTHVLTEAAIAGK   1134

gb_YP_039997.   1159 RDDLLGLKENVIIGKLIPAGTG--MRRYSDVKYEKTAKPVAEVESQTEVT   1206
                     :|:|:|||||||:|:|||||||  ..|::.|..::|.|.:.         
1hqm_D_mol_pr   1135 KDELIGLKENVILGRLIPAGTGSDFVRFTQVVDQRTLKAIE---------   1175

gb_YP_039997.   1207 E   1207
                      
1hqm_D_mol_pr   1175 -   1175


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