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TBLASTN 2.2.10 [Oct-19-2004]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.

Query= aroE description
(272 letters)

Database: vc
344 sequences; 4,053,984 total letters

Searching.done

Score E
Sequences producing significant alignments: (bits) Value

embl|AE004096|AE004096 Vibrio cholerae O1 biovar eltor str. N169... 245 4e-66
embl|AE004120|AE004120 Vibrio cholerae O1 biovar eltor str. N169... 28 0.73
embl|AE004246|AE004246 Vibrio cholerae O1 biovar eltor str. N169... 26 4.7

>embl|AE004096|AE004096 Vibrio cholerae O1 biovar eltor str. N16961
chromosome I, section 4 of 251 of the complete
chromosome.
Length = 10846

Score = 245 bits (625), Expect = 4e-66
Identities = 126/271 (46%), Positives = 171/271 (63%), Gaps = 1/271 (0%)
Frame = +2

Query: 1 METYAVFGNPIAHSKSPFIHQQFAQQLNIEHPYGRVLAPINDFINTLNAFFSAGGKGANV 60
++ YAVFGNPI HSKSPFIH FA+Q Y P++ F FF+ GG+G NV
Sbjct: 6857 IDQYAVFGNPINHSKSPFIHTLFARQTQQSMIYTAQCVPVDGFTEAAKHFFAQGGRGCNV 7036

Query: 61 TVPFKEEAFARADELTERAALAGAVNTLMRLEDGRLLGDNTDGVGLLSDLERLSFXXXXX 120
TVPFKEEA+ AD LTERA LAGAVNTL +L+DG +LGDNTDG GL+ DL
Sbjct: 7037 TVPFKEEAYRFADRLTERARLAGAVNTLKKLDDGEILGDNTDGEGLVQDLLAQQVLLKGA 7216

Query: 121 XXXXXXXXXXSRGVLLPLLSLD-CAVTITNRTVSRAEELAKLFAHTGSIQALSMDELEGH 179
+RGVL PLL ++T+TNRT ++AE+LA+L A G ++A + ++L+
Sbjct: 7217 TILLIGAGGAARGVLKPLLDQQPASITVTNRTFAKAEQLAELVAAYGEVKAQAFEQLK-Q 7393

Query: 180 EFDLIINATSSGISGDIPAIPSSLIHPGIYCYDMFYQKGKTPFLAWCEQRGSKRNADGLG 239
+D+IIN+TS+ + G++PAI + CYDM Y KG T F W Q G + DGLG
Sbjct: 7394 SYDVIINSTSASLDGELPAIDPVIFSSRSVCYDMMYGKGYTVFNQWARQHGCAQAIDGLG 7573

Query: 240 MLVAQAAHAFLLWHGVLPDVEPVIKQLQEEL 270
MLV QAA +F+LW G+ P + ++++L++ L
Sbjct: 7574 MLVGQAAESFMLWRGLRPGTKQILRELRKNL 7666


>embl|AE004120|AE004120 Vibrio cholerae O1 biovar eltor str. N16961
chromosome I, section 28 of 251 of the complete
chromosome.
Length = 9995

Score = 28.5 bits (62), Expect = 0.73
Identities = 14/28 (50%), Positives = 17/28 (60%)
Frame = +3

Query: 5 AVFGNPIAHSKSPFIHQQFAQQLNIEHP 32
AV GN + K+P I QQ +L IEHP
Sbjct: 3195 AVMGNAGSFFKNPVISQQAFARLQIEHP 3278


>embl|AE004246|AE004246 Vibrio cholerae O1 biovar eltor str. N16961
chromosome I, section 154 of 251 of the complete
chromosome.
Length = 10332

Score = 25.8 bits (55), Expect = 4.7
Identities = 7/15 (46%), Positives = 12/15 (80%)
Frame = +3

Query: 249 FLLWHGVLPDVEPVI 263
+LLWH + P++ P+I
Sbjct: 5925 YLLWHSIFPNILPII 5969


Database: vc
Posted date: Oct 1, 2006 1:34 PM
Number of letters in database: 4,053,984
Number of sequences in database: 344

Lambda K H
0.320 0.136 0.401

Gapped
Lambda K H
0.267 0.0410 0.140


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,084,232
Number of Sequences: 344
Number of extensions: 14208
Number of successful extensions: 70
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 46
Number of HSP's gapped (non-prelim): 26
length of query: 272
length of database: 1,351,328
effective HSP length: 84
effective length of query: 188
effective length of database: 1,322,432
effective search space: 248617216
effective search space used: 248617216
frameshift window, decay const: 40, 0.1
T: 13
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)