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= EMBOSS_001_1
(289 letters)
Database: cds.fa
5106 sequences; 11,140,562 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Plasmodium_knowlesi_strain_H|chr02|PKH_020960|Annotation|Plasmod... 553 e-158
Plasmodium_knowlesi_strain_H|PK4.chr09|PKH_090990|Annotation|Pla... 29 1.3
Plasmodium_knowlesi_strain_H|PK4.chr06|PKH_060360|Annotation|Pla... 28 2.9
Plasmodium_knowlesi_strain_H|chr14|PKH_145930|Annotation|Plasmod... 28 3.2
Plasmodium_knowlesi_strain_H|chr02|PKH_021190|Annotation|Plasmod... 27 5.8
Plasmodium_knowlesi_strain_H|PK4.chr08|PKH_083220|Annotation|Pla... 26 8.6
Plasmodium_knowlesi_strain_H|PK4.chr07|PKH_070230|Annotation|Pla... 26 8.9
Plasmodium_knowlesi_strain_H|PK4.chr09|PKH_093260|Annotation|Pla... 26 10.0
>Plasmodium_knowlesi_strain_H|chr02|PKH_020960|Annotation|Plasmodium
_knowlesi_Sanger|(protein coding) hypothetical protein,
conserved in Plasmodium species
Length = 1551
Score = 553 bits (1425), Expect = e-158, Method: Composition-based stats.
Identities = 288/288 (100%), Positives = 288/288 (100%)
Frame = +1
Query: 1 MKCAFLFYGKPCSGKDTFINLLLTKRRQLELFLYLFNNLIHKNESNVRLREKIFFIQLIK 60
MKCAFLFYGKPCSGKDTFINLLLTKRRQLELFLYLFNNLIHKNESNVRLREKIFFIQLIK
Sbjct: 1 MKCAFLFYGKPCSGKDTFINLLLTKRRQLELFLYLFNNLIHKNESNVRLREKIFFIQLIK 180
Query: 61 YYYRIEKRRRKTSIFCGHGGETDQKVSFRFLVQLTSHLLHIGRSSGWDRGAGSKGVKNGK 120
YYYRIEKRRRKTSIFCGHGGETDQKVSFRFLVQLTSHLLHIGRSSGWDRGAGSKGVKNGK
Sbjct: 181 YYYRIEKRRRKTSIFCGHGGETDQKVSFRFLVQLTSHLLHIGRSSGWDRGAGSKGVKNGK 360
Query: 121 TKEQLRRGLPPRGITHQLYPTLRKVVQRKPLRRTTLTNQSDDFHLICYLYRHKDEWMYHY 180
TKEQLRRGLPPRGITHQLYPTLRKVVQRKPLRRTTLTNQSDDFHLICYLYRHKDEWMYHY
Sbjct: 361 TKEQLRRGLPPRGITHQLYPTLRKVVQRKPLRRTTLTNQSDDFHLICYLYRHKDEWMYHY 540
Query: 181 HSYLRRNKIKTFNVSLDFIEKQLYRGHLPEVTSLNPSKIVQRNLHLLLNRTYTVYGREKH 240
HSYLRRNKIKTFNVSLDFIEKQLYRGHLPEVTSLNPSKIVQRNLHLLLNRTYTVYGREKH
Sbjct: 541 HSYLRRNKIKTFNVSLDFIEKQLYRGHLPEVTSLNPSKIVQRNLHLLLNRTYTVYGREKH 720
Query: 241 YRGVYYPIVKKTTIKGGHVMLIRALNHKKEKGPNMTEAVNIAMKPTSA 288
YRGVYYPIVKKTTIKGGHVMLIRALNHKKEKGPNMTEAVNIAMKPTSA
Sbjct: 721 YRGVYYPIVKKTTIKGGHVMLIRALNHKKEKGPNMTEAVNIAMKPTSA 864
>Plasmodium_knowlesi_strain_H|PK4.chr09|PKH_090990|Annotation|Plasmo
dium_knowlesi_Sanger|(protein coding) hypothetical
protein, conserved in Plasmodium species
Length = 1968
Score = 28.9 bits (63), Expect = 1.3, Method: Composition-based stats.
Identities = 23/68 (33%), Positives = 33/68 (48%)
Frame = +1
Query: 9 GKPCSGKDTFINLLLTKRRQLELFLYLFNNLIHKNESNVRLREKIFFIQLIKYYYRIEKR 68
G P SGK + +N++ K L + L+ NNL N LR KI+ +I Y K
Sbjct: 691 GPPGSGKSSLVNVIKNKTNNLFISLFHLNNL------NNELR-KIYDQSVINY-----KL 834
Query: 69 RRKTSIFC 76
+K +I C
Sbjct: 835 SKKRTILC 858
>Plasmodium_knowlesi_strain_H|PK4.chr06|PKH_060360|Annotation|Plasmo
dium_knowlesi_Sanger|(protein coding) hypothetical
protein, conserved in Plasmodium species
Length = 2967
Score = 27.7 bits (60), Expect = 2.9, Method: Composition-based stats.
Identities = 25/109 (22%), Positives = 44/109 (40%), Gaps = 4/109 (3%)
Frame = +1
Query: 167 CYLYRHKDEWMYHYHSYLRRNKIK--TFNVSLDFIEKQLYRGHLPEVTSLNPSKIVQRNL 224
C L+ ++YH+ + R +++ N ++ ++ Y L + N K ++N+
Sbjct: 775 CRLWWEDKPFIYHWERGMNRKEVQRCVHNFCINIAKEDFYLARLERLAEDNLFKEKEKNI 954
Query: 225 H--LLLNRTYTVYGREKHYRGVYYPIVKKTTIKGGHVMLIRALNHKKEK 271
L TY Y + Y +KG LI+ NH KEK
Sbjct: 955 QKIQLKGNTYAYYKICERYEKD-----SLGDVKGNEEYLIKRKNHVKEK 1086
>Plasmodium_knowlesi_strain_H|chr14|PKH_145930|Annotation|Plasmodium_k
nowlesi_Sanger|(protein coding) queuine
trna-ribosyltransferase, putative
Length = 2118
Score = 27.7 bits (60), Expect = 3.2, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 31/57 (54%)
Frame = +1
Query: 146 VQRKPLRRTTLTNQSDDFHLICYLYRHKDEWMYHYHSYLRRNKIKTFNVSLDFIEKQ 202
++R+ R+ ++S +++ C L K M +YHSYL K +NV +IE++
Sbjct: 1285 IEREYTERSM--HRSHRWYIRCLLEFKKAMSMPNYHSYLNELHNKKYNVKHKWIERE 1449
>Plasmodium_knowlesi_strain_H|chr02|PKH_021190|Annotation|Plasmodium_k
nowlesi_Sanger|(protein coding) hypothetical protein,
conserved in Apicomplexan species
Length = 2106
Score = 26.9 bits (58), Expect = 5.8, Method: Composition-based stats.
Identities = 34/138 (24%), Positives = 56/138 (40%), Gaps = 14/138 (10%)
Frame = +1
Query: 131 PRGITHQLYPTLRKVV------QRKPLRRTTLTNQ--SDDFHL------ICYLYRHKDEW 176
PR T+ +Y T+R + K R T Q S F L + Y+ + D +
Sbjct: 1705 PRIFTYNVYRTIRPKLLYLIRHMNKTFRDTLSFPQYFSYSFRLRIIPRHVAYMNIYYDNY 1884
Query: 177 MYHYHSYLRRNKIKTFNVSLDFIEKQLYRGHLPEVTSLNPSKIVQRNLHLLLNRTYTVYG 236
+ +Y LR + FN + + +Y+ +P + NL +LL + +
Sbjct: 1885 ISYYKELLRTHNYDDFNRKFN---ELVYKPDIPPI-----------NLKMLLQTSNKDF- 2019
Query: 237 REKHYRGVYYPIVKKTTI 254
KHY+ YY VK T +
Sbjct: 2020 -MKHYKISYYDFVKSTQV 2070
>Plasmodium_knowlesi_strain_H|PK4.chr08|PKH_083220|Annotation|Plasmo
dium_knowlesi_Sanger|(protein coding) hypothetical
protein, conserved in Plasmodium species
Length = 1899
Score = 26.2 bits (56), Expect = 8.6, Method: Composition-based stats.
Identities = 25/86 (29%), Positives = 36/86 (41%), Gaps = 5/86 (5%)
Frame = +1
Query: 193 NVSLDFIEKQLYRGHLPEVTSLNPSKIVQ-----RNLHLLLNRTYTVYGREKHYRGVYYP 247
N+ L E Q R P+ ++P K + RN+ + T YGR KH R Y
Sbjct: 85 NLVLRSAEGQAIRA--PQRYYIHPRKAKRTERRGRNVPPCYHNTLRNYGRNKHTRLFYRS 258
Query: 248 IVKKTTIKGGHVMLIRALNHKKEKGP 273
+K + G++ L KK K P
Sbjct: 259 KKEKDIQESGYMYPFDHLEKKKTKFP 336
>Plasmodium_knowlesi_strain_H|PK4.chr07|PKH_070230|Annotation|Plasmodi
um_knowlesi_Sanger|(protein coding) hypothetical protein,
conserved in Plasmodium species
Length = 6249
Score = 26.2 bits (56), Expect = 8.9, Method: Composition-based stats.
Identities = 17/62 (27%), Positives = 30/62 (48%)
Frame = +1
Query: 28 QLELFLYLFNNLIHKNESNVRLREKIFFIQLIKYYYRIEKRRRKTSIFCGHGGETDQKVS 87
+L FL+LF KN+ +R K +F+ YY +K+ + C H E D++
Sbjct: 5416 KLHDFLFLF-----KNKVKMRKDTKCYFLM---YYVLYKKKLFHNNKLCKHKNENDEEYH 5571
Query: 88 FR 89
++
Sbjct: 5572 YK 5577
>Plasmodium_knowlesi_strain_H|PK4.chr09|PKH_093260|Annotation|Plasmodi
um_knowlesi_Sanger|(protein coding) dna-directed rna
polymerase, beta subunit, putative
Length = 4620
Score = 26.2 bits (56), Expect = 10.0, Method: Composition-based stats.
Identities = 11/20 (55%), Positives = 13/20 (65%)
Frame = +1
Query: 226 LLLNRTYTVYGREKHYRGVY 245
LLLN+ Y YG E Y G+Y
Sbjct: 4066 LLLNKGYDYYGTELLYSGIY 4125
Database: cds.fa
Posted date: Mar 10, 2008 1:57 PM
Number of letters in database: 11,140,562
Number of sequences in database: 5106
Lambda K H
0.324 0.140 0.426
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 5106
Number of Hits to DB: 4,618,567
Number of extensions: 87015
Number of successful extensions: 789
Number of sequences better than 10.0: 26
Number of HSP's gapped: 786
Number of HSP's successfully gapped: 26
Length of query: 289
Length of database: 3,713,520
Length adjustment: 91
Effective length of query: 198
Effective length of database: 3,248,874
Effective search space: 643277052
Effective search space used: 643277052
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 39 (19.6 bits)
# TBLASTN 2.2.17 [Aug-26-2007]
# Query: EMBOSS_001_1
# Database: cds.fa
# Fields: Query id, Subject id, % identity, alignment length, mismatches, gap openings, q. start, q. end, s. start, s. end, e-value, bit score
EMBOSS_001_1 Plasmodium_knowlesi_strain_H|chr02|PKH_020960|Annotation|Plasmodium_knowlesi_Sanger|(protein 100.00 288 0 0 1 288 1 864 2e-158 553
EMBOSS_001_1 Plasmodium_knowlesi_strain_H|PK4.chr09|PKH_090990|Annotation|Plasmodium_knowlesi_Sanger|(protein 33.82 68 45 3 9 76 691 858 1.3 28.9
EMBOSS_001_1 Plasmodium_knowlesi_strain_H|PK4.chr06|PKH_060360|Annotation|Plasmodium_knowlesi_Sanger|(protein 22.94 109 80 3 167 271 775 1086 2.9 27.7
EMBOSS_001_1 Plasmodium_knowlesi_strain_H|chr14|PKH_145930|Annotation|Plasmodium_knowlesi_Sanger|(protein 29.82 57 40 1 146 202 1285 1449 3.2 27.7
EMBOSS_001_1 Plasmodium_knowlesi_strain_H|chr02|PKH_021190|Annotation|Plasmodium_knowlesi_Sanger|(protein 24.64 138 90 6 131 254 1705 2070 5.8 26.9
EMBOSS_001_1 Plasmodium_knowlesi_strain_H|PK4.chr08|PKH_083220|Annotation|Plasmodium_knowlesi_Sanger|(protein 29.07 86 56 2 193 273 85 336 8.6 26.2
EMBOSS_001_1 Plasmodium_knowlesi_strain_H|PK4.chr07|PKH_070230|Annotation|Plasmodium_knowlesi_Sanger|(protein 27.42 62 45 2 28 89 5416 5577 8.9 26.2
EMBOSS_001_1 Plasmodium_knowlesi_strain_H|PK4.chr09|PKH_093260|Annotation|Plasmodium_knowlesi_Sanger|(protein 55.00 20 9 0 226 245 4066 4125 10.0 26.2
