########################################
# Program: needle
# Rundate: Sun 17 Feb 2008 21:07:29
# Commandline: needle
#    [-asequence] nucecoli.fasta
#    [-bsequence] nuchol.fasta
#    [-outfile] nucaligvar
#    -gapopen 30
#    -gapextend 1
# Align_format: srspair
# Report_file: nucaligvar
########################################

#=======================================
#
# Aligned_sequences: 2
# 1: V00262
# 2: AAF95184
# Matrix: EDNAFULL
# Gap_penalty: 30.0
# Extend_penalty: 1.0
#
# Length: 1120
# Identity:     702/1120 (62.7%)
# Similarity:   702/1120 (62.7%)
# Gaps:          23/1120 ( 2.1%)
# Score: 1830.0
# 
#
#=======================================

V00262             1 atgaaaaatgttggttttatcggctggcgcggtatggtcggctccgttct     50
                        |..|..||.|||||..|.||.|||||.||.||||||||.||.||.||
AAF95184           1 ---atgagagtaggtttagtaggttggcgtggcatggtcggttctgtcct     47

V00262            51 catgcaacgcatggttgaagagcgcgacttcgacgccattcgccctgtct    100
                     |||||||||||||||.|||||||||||.||.||....|||...||.||.|
AAF95184          48 catgcaacgcatggtagaagagcgcgattttgatctgattgaaccggttt     97

V00262           101 tcttttctacttctcagcttggccaggctgcgccgtcttttggcggaacc    150
                     ||||...|||.||.||..||||.....||||.||...||||||...|...
AAF95184          98 tcttcagtacatcgcaaattggtgttcctgcccctaattttggtaaagat    147

V00262           151 actggcacacttcaggatgcctttgatctggaggcgctaaaggccctcga    200
                     .|.||||...|.||.|||||.||.||..|.|||...||.|||...||.||
AAF95184         148 gcaggcatgttgcacgatgcgttcgacattgagagcctcaagcagcttga    197

V00262           201 tatcattgtgacctgtcagggcggcgattataccaacgaaatctatccaa    250
                     |....|..|.|||||.||.|||||...|||||||.|..|..||||.|||.
AAF95184         198 tgctgtcattacctgccaaggcggtagttataccgaaaaggtctacccag    247

V00262           251 agcttcgtgaaagcggatggcaaggttactggattgacgcagcatcgtct    300
                     ..||.|||.||...||.|||.|||||||||||||.||.||.||||||.|.
AAF95184         248 cactgcgtcaagcgggttggaaaggttactggatcgatgctgcatcgaca    297

V00262           301 ctgcgcatgaaagatgacgccatcatcattcttgaccccgtcaatcagga    350
                     .||||.|||.|..|.||.||.|||||||.|||.||.|||||.||.|...|
AAF95184         298 ttgcgtatggataaagaggcgatcatcactctggatcccgttaaccttaa    347

V00262           351 cgtcattaccgacggattaaataatggcatcaggacttttgttggcggta    400
                     ....|||....|.||..|..||.||||.|..|..||.|||||.||.||||
AAF95184         348 acaaattctgcatggtattcatcatggtacaaaaacctttgtcggtggta    397

V00262           401 actgtaccgtaagcctgatgttgatgtcgttgggtggtttattcgccaat    450
                     |||||||.||.|||.|||||||.|||.|..|.|||||..|.|..|....|
AAF95184         398 actgtactgtgagcttgatgttaatggcacttggtggcctgtatgagcgt    447

V00262           451 gatcttgttgattgggtgtccgttgcaacctaccaggccgcttccggcgg    500
                     |...|.||.||.|||.||..||.|...||.|||||.||.||.|||||.|.
AAF95184         448 ggcttggtggaatggatgagcgctatgacttaccaagcagcatccggagc    497

V00262           501 tggtgcgcgacatatgcgtgagttattaacccagatgggccatctgtatg    550
                     .||.||.|.|.|||||||||||.|..|..|.||.|||||.....|..|||
AAF95184         498 gggcgcacaaaatatgcgtgagctgatttcacaaatgggtgtgattaatg    547

V00262           551 gccatgtggcagatgaactcgcgaccccgtcctctgctattctcgatatc    600
                     .....||.......||.||.||.|..||..||....|.|||.|.|||||.
AAF95184         548 atgccgtcagctcagagcttgccaatcctgccagctccattttggatatt    597

V00262           601 gaacgcaaagtcacaaccttaacccgtagcggtgagctgccggtggataa    650
                     ||....|||||..|.......|..|||...|||....|.||....|||||
AAF95184         598 gataagaaagtggctgaaaccatgcgttcgggttctttcccaaccgataa    647

V00262           651 ctttggcgtgccgctggcgggtagcctgattccgtggatcgacaaacagc    700
                     ||||||.||.||||||||.|||...|||||.||.|||||.|||....|.|
AAF95184         648 ctttggggttccgctggcaggttcactgatcccttggattgacgtgaaac    697

V00262           701 tcgataacggtcagagccgcgaagagtggaaagggcaggcggaaaccaac    750
                     .||||||.||.||.|||...|||||||||||||.|...|..|||.|||||
AAF95184         698 gcgataatggccaaagcaaagaagagtggaaagcgggtgtagaagccaac    747

V00262           751 aagatcct-------caacacatcttccgtaattccggtagatggtttat    793
                     ||.||.||       |||.|    |||...|.|.|||.|.||||||...|
AAF95184         748 aaaattctgggtttgcaaga----ttctccagtaccgattgatggtacgt    793

V00262           794 gtgtgcgtgtcggggcattgcgctgccacagccaggcattcactattaaa    843
                     ||||||||.||||.|||.||||.||||||...||||||||.||.||.|||
AAF95184         794 gtgtgcgtatcggcgcaatgcgttgccactctcaggcattgaccatcaaa    843

V00262           844 ttgaaaaaagatgtgtctattccgaccgtggaagaactgctggctgcgca    893
                     .||||..|..|..|..||.|........|.||.||..||.|.|||.|.||
AAF95184         844 ctgaagcagaacattcctctcgatgaaatcgaggagatgattgctactca    893

V00262           894 caatccgtgggcgaaagtcgttccgaacgatcgggaaatcactatgcgtg    943
                     .||....||||..|||||..|.|||||.||.||.||.||.||....||||
AAF95184         894 taacgattgggtcaaagtgatcccgaatgagcgtgacattaccgcacgtg    943

V00262           944 agctaaccccagctgccgttaccggcacgctgaccacgccggtaggccgc    993
                     |.||.||.||.|||...||.||||||||||||.|....||.||.||||||
AAF95184         944 aactgacacccgctaaagtaaccggcacgctgtctgtccccgtcggccgc    993

V00262           994 ctgcgtaagctgaatatgggaccagagttcctgtcagcctttaccgtggg   1043
                     .|.||.||..||...|||||....||.|||||....|||||.||.||.||
AAF95184         994 ttacgcaaaatggcgatgggcgatgatttcctcaatgccttcacggttgg   1043

V00262          1044 cgaccagctgctgtggggggccgcggagccgctgcgtcggatgcttcg--   1091
                     |||||||||..||||||||||.||.||||||.||||.||.|.|||.||  
AAF95184        1044 cgaccagctcttgtggggggctgctgagccgttgcgccgtacgctgcgca   1093

V00262          1092 tcaactggcgtaa-------   1104
                     |||..|.|....|       
AAF95184        1094 tcattttggccgagaaataa   1113


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