TBLASTN 2.2.17 [Aug-26-2007]
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.
Reference for composition-based statistics:
Schaffer, Alejandro A., L. Aravind, Thomas L. Madden,
Sergei Shavirin, John L. Spouge, Yuri I. Wolf,
Eugene V. Koonin, and Stephen F. Altschul (2001),
"Improving the accuracy of PSI-BLAST protein database searches with
composition-based statistics and other refinements", Nucleic Acids Res. 29:2994-3005.
Query= Sel2
(135 letters)
Database: genoma.fa
14 sequences; 23,462,190 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Plasmodium_knowlesi_strain_H|PK4.chr13|2007-02-22|ds-DNA|Plasmod... 90 4e-19
Plasmodium_knowlesi_strain_H|PK4.chr11.pseudo.embl|2007-02-22|ds... 28 1.6
Plasmodium_knowlesi_strain_H|chr10|2007-02-22|ds-DNA|Plasmodium_... 27 3.8
>Plasmodium_knowlesi_strain_H|PK4.chr13|2007-02-22|ds-
DNA|Plasmodium_knowlesi_Sanger
Length = 2200295
Score = 89.7 bits (221), Expect = 4e-19, Method: Composition-based stats.
Identities = 65/127 (51%), Positives = 87/127 (68%)
Frame = -2
Query: 1 MDTNENMKNVKDMMSFTTKNIIYIFIGISLLIFIYKILKKNKKDAEVKRNNEISIKMKLS 60
MD N K + + KN+I + +G++ I IYK +K KK +E +R N+I KMK+S
Sbjct: 1129870 MDREGNNAPTKGVDLLSVKNVILLVLGVTSFILIYKFMKYRKKVSEFERKNKIDEKMKMS 1129691
Query: 61 REKQLQELDKEMMINKEKMKEQNIKKNEEKKKDADQAKPKLGSKDNSSFNHLNDYSNYYR 120
REK+LQEL+KEM++NKEKM+EQ K N++K K D K K SKDNSSF+H D SNYYR
Sbjct: 1129690 REKRLQELEKEMIVNKEKMREQMNKGNDKKDKALDSDKAKPDSKDNSSFSHFRDLSNYYR 1129511
Query: 121 PSLKNRF 127
PS++NR
Sbjct: 1129510 PSIRNRL 1129490
>Plasmodium_knowlesi_strain_H|PK4.chr11.pseudo.embl|2007-02-22|ds-
DNA|Plasmodium_knowlesi_Sanger
Length = 2372884
Score = 28.1 bits (61), Expect = 1.6, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Frame = +1
Query: 28 ISLLIFIYKILKKNKKDAEVKRNNEISIKMKLSR 61
+S++IF+YK L K + RNNE S+ + L R
Sbjct: 554800 LSVIIFLYKFLLFPKIKHSLARNNEQSVFLFLPR 554901
>Plasmodium_knowlesi_strain_H|chr10|2007-02-22|ds-
DNA|Plasmodium_knowlesi_Sanger
Length = 1486039
Score = 26.6 bits (57), Expect = 3.8, Method: Composition-based stats.
Identities = 22/94 (23%), Positives = 45/94 (47%), Gaps = 2/94 (2%)
Frame = -3
Query: 26 IGISLLIFIYKILKKNKKDAEVKRNNEISIKMKLSREKQLQELDKEMMINKEKMKEQNIK 85
+GIS+ + IY N+K+ +V + + K+ +E+D++ M E M + ++
Sbjct: 707783 LGISVPLDIY-----NRKENKVSHSPPNTPHAKIWDSNHFEEMDRQTMRTSESMHVKGLE 707619
Query: 86 K--NEEKKKDADQAKPKLGSKDNSSFNHLNDYSN 117
+ NE+ + + P++GS + ND N
Sbjct: 707618 ETHNEQPFSNVNNNAPRVGSNGTQQIHLPNDEMN 707517
Database: genoma.fa
Posted date: Feb 29, 2008 11:22 AM
Number of letters in database: 23,462,190
Number of sequences in database: 14
Lambda K H
0.316 0.132 0.353
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 14
Number of Hits to DB: 3,682,479
Number of extensions: 69544
Number of successful extensions: 3595
Number of sequences better than 10.0: 14
Number of HSP's gapped: 3536
Number of HSP's successfully gapped: 678
Length of query: 135
Length of database: 7,820,730
Length adjustment: 87
Effective length of query: 48
Effective length of database: 7,819,512
Effective search space: 375336576
Effective search space used: 375336576
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)
# TBLASTN 2.2.17 [Aug-26-2007]
# Query: Sel2
# Database: genoma.fa
# Fields: Query id, Subject id, % identity, alignment length, mismatches, gap openings, q. start, q. end, s. start, s. end, e-value, bit score
Sel2 Plasmodium_knowlesi_strain_H|PK4.chr13|2007-02-22|ds-DNA|Plasmodium_knowlesi_Sanger 51.18 127 62 0 1 127 1129870 1129490 4e-19 89.7
Sel2 Plasmodium_knowlesi_strain_H|PK4.chr11.pseudo.embl|2007-02-22|ds-DNA|Plasmodium_knowlesi_Sanger 41.18 34 20 0 28 61 554800 554901 1.6 28.1
Sel2 Plasmodium_knowlesi_strain_H|chr10|2007-02-22|ds-DNA|Plasmodium_knowlesi_Sanger 23.40 94 70 2 26 117 707783 707517 3.8 26.6
