########################################
# Program: needle
# Rundate: Wed 12 Mar 2008 16:47:15
# Commandline: needle
#    -asequence choler_gen.fasta
#    -bsequence pyrb_gen.fasta
#    -outfile nucleot.txt
# Align_format: srspair
# Report_file: nucleot.txt
########################################

#=======================================
#
# Aligned_sequences: 2
# 1: cholera
# 2: PyrB
# Matrix: EDNAFULL
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 988
# Identity:     656/988 (66.4%)
# Similarity:   656/988 (66.4%)
# Gaps:         110/988 (11.1%)
# Score: 2061.5
# 
#
#=======================================

cholera            1 atggcgaattcgctttaccaaaagcacatcatctccat------------     38
                     |||||.|||.||||.||.||.||.||.|||||.|||||            
PyrB               1 atggctaatccgctatatcagaaacatatcatttccataaacgaccttag     50

cholera           39 ------tg--ctgaactctcacgcgcggagttggagttgattgtgaaaac     80
                           ||  ||.|| |||       ||.|.|||.|            ||
PyrB              51 tcgcgatgaccttaa-tct-------ggtgctggcg------------ac     80

cholera           81 cgcaggc-caactgaaggcacaaccgaatccagagctgatcaagcacaag    129
                     .|| ||| .|||||||.|||.|.|||.|.|||||||||.|.||||||||.
PyrB              81 agc-ggcgaaactgaaagcaaacccgcaaccagagctgttgaagcacaaa    129

cholera          130 gtcgtggccagctgtttctttgaaccttccacccgtactcgcctctcatt    179
                     |||.|.||||||||||||||.|||.|.||.||||||||.||||||||.||
PyrB             130 gtcattgccagctgtttcttcgaagcctctacccgtacccgcctctcttt    179

cholera          180 cgagacagcaatccaacgtatcggtggcagcgtgattggctttgataacg    229
                     ..|.|||.|.||.||.||..|.||.|.|||||||.|.|||||.....||.
PyrB             180 tcaaacatctatgcaccgcctgggggccagcgtggtgggcttctccgaca    229

cholera          230 gcggcaacacgtcactagcgaagaaaggcgaaaccctagccga------t    273
                     |||.|||.||.|||||.|..||.|||||||||||.||.|||||      |
PyrB             230 gcgccaatacatcactgggtaaaaaaggcgaaacgcttgccgataccatt    279

cholera          274 tcagtacgcgtcatctcctcttatgttgatgcttttgtgatgcgtcatcc    323
                     |||      ||.|||..|.||||.||.|||||..|.||||||||||||||
PyrB             280 tca------gttatcagcacttacgtcgatgcgatagtgatgcgtcatcc    323

cholera          324 gcaagaaggtgccgcgcgtttagcgtctgaattttctaacggc---gtcc    370
                     |||.||||||||.|||||..|.||..|.||.|||||   ||||   ||.|
PyrB             324 gcaggaaggtgcggcgcgcctggccaccgagttttc---cggcaatgtac    370

cholera          371 cagtgattaacgccggtgatggttcaaaccaacacccatcgcaaaccctg    420
                     |.||..|.||.|||||||||||.||.||||||||.||..||||||||.||
PyrB             371 cggtactgaatgccggtgatggctccaaccaacatccgacgcaaaccttg    420

cholera          421 ctcgatctctactccattttc--gaaacccaaggccgtctcgataacctc    468
                     ||.|| || ||.||..|.|||  ||||||||.||.|||||.||.||.|||
PyrB             421 ctgga-ct-tattcactattcaggaaacccaggggcgtctggacaatctc    468

cholera          469 gatgtcgcgttcgtcggtgatttaaaatatggtcgcaccgtgcattcgct    518
                     .|.|||||..|.||.|||||..|.|||||||||||||||||.||.||.||
PyrB             469 cacgtcgcaatggttggtgacctgaaatatggtcgcaccgttcactccct    518

cholera          519 ggcacaagctctggctaaatttgataacaaccgcttctactttgtggcac    568
                     |.|.||.||..|.|||||.||.||...||||||.||.|||||..|.||.|
PyrB             519 gactcaggcgttagctaagttcgacggcaaccgtttttacttcatcgcgc    568

cholera          569 cggaagccctagcgatgccagactaca-tctgtgaagagctggatgaagc    617
                     ||||.||.||.||.|||||..|.|||| |||| ||...|||.||||||..
PyrB             569 cggacgcgctggcaatgccgcaatacattctg-gatatgctcgatgaaaa    617

cholera          618 aggtgtgaaataccaag-----tgttcagcgatatggaaagcgtgatccc    662
                     |||     .||..||.|     ||..||||..|||.|||...|||||...
PyrB             618 agg-----gatcgcatggagtctgcacagctctattgaagaagtgatggt    662

cholera          663 agagctggatattctgtacatgacgcgtgtacagaaagaacgttttgatg    712
                     .||..|.||.||.|||||||||||.||.||.||.|||||.|||.|.||..
PyrB             663 ggaagtagacatcctgtacatgacccgcgtgcaaaaagagcgtctggacc    712

cholera          713 agtcggaatacgcacatatcaaatcg--gcctatatcttgacg-gcc---    756
                     .|||.||.|||||..|..|.|||.||  |..|.| ||||  || |||   
PyrB             713 cgtccgagtacgccaacgtgaaagcgcagtttgt-tctt--cgcgccagt    759

cholera          757 gctcacctgagcg---atgcgcgcagcaatctgaaagtgctgcacccact    803
                     |.||.||..|.||   |.||      ||||.|||||||||||||.||..|
PyrB             760 gatctccacaacgccaaagc------caatatgaaagtgctgcatccgtt    803

cholera          804 gccacgggtggatgagatcaccactgatgtcgataaaaccccacacgctt    853
                     |||.||.||.||||||||..|.||.|||||.||||||||.||||||||.|
PyrB             804 gccgcgtgttgatgagattgcgacggatgttgataaaacgccacacgcct    853

cholera          854 actatttcgagcaagttgaaaacggagtttatgcccgtg-aagccttgct    902
                     ..||.|||.||||.|..|..|||||..|||..||.| || ||||.||.||
PyrB             854 ggtacttccagcaggcaggcaacgggattttcgctc-tgcaagcgttact    902

cholera          903 ggctctagttttgaacgaatcg----------ctgtaa    930
                     |||.||.|||.|    ||||||          ||||||
PyrB             903 ggcactggttct----gaatcgcgatctggtactgtaa    936


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