BLASTX 1.4.13-Paracel [2002-12-12]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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= PTA.CL.1.cl.172.Contig1
(1579 letters)
Database: BlastDB/NCBI/blast/db/2003_02_17_02_00_1/nr
1,339,046 sequences; 429,188,541 total letters
Searching...................................................done
Score E
Sequences producing significant alignments: (bits) Value
dbj|BAB09070.1| contains similarity to retroelement pol pol... 682 0.0
ref|NP_683674.1| similar to putative retroelement pol polyp... 407 e-115
pir||G86301 probable retroelement polyprotein [imported] - ... 309 4e-87
pir||T14517 hypothetical protein 1 - wild cabbage transposo... 302 9e-83
ref|NP_179636.1| putative retroelement pol polyprotein; pro... 295 1e-81
>dbj|BAB09070.1| contains similarity to retroelement pol polyprotein~gene_id:MNJ7.3
[Arabidopsis thaliana]|gi|26450382|dbj|BAC42306.1|
putative retroelement pol polyprotein [Arabidopsis
thaliana]
Length = 357
Score = 682 bits (1759), Expect = 0.0
Identities = 334/351 (95%), Positives = 334/351 (95%)
Frame = +3
Query: 183 MVSVEKLRRRTRKSSKISAEKTPDRTXXXXXXXXXXXXXXXXXNFATRSSVYPFPQFDFA 362
MVSVEKLRRRTRKSSKISAEKTPDRT NFATRSSVYPFPQFDFA
Sbjct: 1 MVSVEKLRRRTRKSSKISAEKTPDRTQSSPIPPVPPISSPIQQNFATRSSVYPFPQFDFA 60
Query: 363 DAHYSPYALSNGDNPGTTIVSEVLDGSNFSSWKIAMFVALDAKNKIAFVDGTLPRPPEFD 542
DAHYSPYALSNGDNPGTTIVSEVLDGSNFSSWKIAMFVALDAKNKIAFVDGTLPRPPEFD
Sbjct: 61 DAHYSPYALSNGDNPGTTIVSEVLDGSNFSSWKIAMFVALDAKNKIAFVDGTLPRPPEFD 120
Query: 543 PSFRVWSRCNSMVKSWILNSVTKQIYKSILRFNDAAEIWKDLDTRFHITNLPRSYQLTQQ 722
PSFRVWSRCNSMVKSWILNSVTKQIYKSILRFNDAAEIWKDLDTRFHITNLPRSYQLTQQ
Sbjct: 121 PSFRVWSRCNSMVKSWILNSVTKQIYKSILRFNDAAEIWKDLDTRFHITNLPRSYQLTQQ 180
Query: 723 IWSLQQGNMSLSDYYTTLKTLWDDLDGASCVNTCRNCKCCSATASVNEHSKIVKFLAGLN 902
IWSLQQGNMSLSDYYTTLKTLWDDLDGASCVNTCRNCKCCSATASVNEHSKIVKFLAGLN
Sbjct: 181 IWSLQQGNMSLSDYYTTLKTLWDDLDGASCVNTCRNCKCCSATASVNEHSKIVKFLAGLN 240
Query: 903 DFYSTIRSQIIMKKTIPDLAEIYNLLDQDHSQRNIVTNPTNASAFNVSILSNDQIAVNAT 1082
DFYSTIRSQIIMKKTIPDLAEIYNLLDQDHSQRNIVTNPTNASAFNVSILSNDQIAVNAT
Sbjct: 241 DFYSTIRSQIIMKKTIPDLAEIYNLLDQDHSQRNIVTNPTNASAFNVSILSNDQIAVNAT 300
Query: 1083 RSFQPNSKPKVQCSHCGYTGHTADTCYKIHGYPIGFKHKQKVVHHLRSQNR 1235
RSFQPNSKPKVQCSHCGYTGHTADTCYKIHGYPIGFKHKQKVVHHLRSQNR
Sbjct: 301 RSFQPNSKPKVQCSHCGYTGHTADTCYKIHGYPIGFKHKQKVVHHLRSQNR 351
>ref|NP_683674.1| similar to putative retroelement pol polyprotein; protein id:
At3g43955.1 [Arabidopsis thaliana]
Length = 1481
Score = 407 bits (1047), Expect(2) = e-115
Identities = 189/288 (65%), Positives = 230/288 (79%), Gaps = 1/288 (0%)
Frame = +3
Query: 345 PQFDFADAHYSPYALSNGDNPGTTIVSEVLDGSNFSSWKIAMFVALDAKNKIAFVDGTLP 524
P + D+ +SPY L+N DNPG +I SEV DG+N+ WKI++ +ALDAKNK+ F+DG++P
Sbjct: 43 PVTESHDSIHSPYYLTNSDNPGASITSEVFDGTNYDDWKISIKIALDAKNKLVFIDGSVP 102
Query: 525 RPPEFDPSFRVWSRCNSMVKSWILNSVTKQIYKSILRFNDAAEIWKDLDTRFHITNLPRS 704
RPPE DP FR+WSRCNS+VKSW+LNSV+K IYKSILRF+DA+EIW DL TR+HITNLPRS
Sbjct: 103 RPPESDPMFRIWSRCNSLVKSWLLNSVSKPIYKSILRFDDASEIWNDLSTRYHITNLPRS 162
Query: 705 YQLTQQIWSLQQGNMSLSDYYTTLKTLWDDLDGASCVNTCRNCKCCSATASVNEHSKIVK 884
Y LTQQIWSLQQG M L+ YYTTL+TLW++LDG+ CV C+ C CC A EH++++K
Sbjct: 163 YPLTQQIWSLQQGTMDLTTYYTTLRTLWNELDGSDCVTLCKRCDCCKAMDKKAEHARVIK 222
Query: 885 FLAGLNDFYSTIRSQIIMKKTIPDLAEIYNLLDQDHSQRNIVTNPTNASAFNVSILSNDQ 1064
FLAGLN+ Y+ IRSQIIMKK +P LAEIYNLLDQDHSQR+ P+NA+AF VS Q
Sbjct: 223 FLAGLNESYAVIRSQIIMKKHVPSLAEIYNLLDQDHSQRSFTPVPSNAAAFIVSAPEQVQ 282
Query: 1065 IAVNATRSFQPNSKP-KVQCSHCGYTGHTADTCYKIHGYPIGFKHKQK 1205
+VNAT + N+KP KV CSHCGYTGHT D CYKIHGYP+GFKHK K
Sbjct: 283 PSVNATFN---NAKPQKVICSHCGYTGHTVDRCYKIHGYPLGFKHKNK 327
Score = 31.6 bits (70), Expect(2) = e-115
Identities = 23/57 (40%), Positives = 31/57 (54%), Gaps = 1/57 (1%)
Frame = +2
Query: 1229 KPVVANLALTDGKMTLGKGIGPDGIAELVGNMSKSQIQDVIAYF-STIRHSLIGKMS 1396
KPVVA++ALTD D I L ++K QI V+AYF S +++S I S
Sbjct: 344 KPVVAHMALTDSTTN-------DLINGLTKVLTKDQINGVVAYFNSQMQNSSIASSS 393
>pir||G86301 probable retroelement polyprotein [imported] - Arabidopsis
thaliana|gi|9989054|gb|AAG10817.1|AC011808_5 Putative
retroelement polyprotein [Arabidopsis thaliana]
Length = 1413
Score = 309 bits (792), Expect(2) = 4e-87
Identities = 166/294 (56%), Positives = 205/294 (69%), Gaps = 17/294 (5%)
Frame = +3
Query: 363 DAHYSPYALSNGDNPGTTIVSEVLDGSNFSSWKIAMFVALDAKNKIAFVDGTLPRPPEFD 542
D+ +SP L N D+PG +IVS LDG+N++ W AM +ALDAKNKIAF+DG+ PRP E +
Sbjct: 48 DSVHSPLFLHNADHPGISIVSVQLDGANYNQWSSAMKIALDAKNKIAFIDGSCPRPEEGN 107
Query: 543 PSFRVWSRCNSMVKSWILNSVTKQIYKSILRFNDAAEIWKDLDTRFHITNLPRSYQLTQQ 722
R+WSRCNSMVKSWILNSV ++IY SIL F+DAA+IW DL RFH+TNLPR++QL QQ
Sbjct: 108 HLLRIWSRCNSMVKSWILNSVNREIYGSILSFDDAAQIWNDLHNRFHMTNLPRTFQLVQQ 167
Query: 723 IWSLQQGNMSLSDYYTTLKTLWDDLDGASCVNTCRNCK---CCS---ATASVNEHSKIVK 884
I L+QG+M+LS YYTTLKTL D+LDGA C CK C S A ++VN +I+K
Sbjct: 168 IQDLRQGSMNLSTYYTTLKTLRDNLDGAEASVPCHCCKKSTCESQIFAKSNVN-RGRIIK 226
Query: 885 FLAGLNDFYSTIRSQIIMKKTIPDLAEIYNLLDQDHSQRNIVTNPTNASAFNVSILSNDQ 1064
FLAGLN+ YS IR QIIMKK +PDLAE+YN+LDQD SQR N +A AF V + D
Sbjct: 227 FLAGLNEKYSIIRGQIIMKKPLPDLAEVYNILDQDDSQRQFSNNVASA-AFQV---TKDD 282
Query: 1065 IAVNATRSF----QPNSKPKVQ-------CSHCGYTGHTADTCYKIHGYPIGFK 1193
+ A S QP VQ CSH GYTGHT++ CYK+HGYP+G+K
Sbjct: 283 VQPGALASSSNMPQPGMLGAVQKKDKKSICSHYGYTGHTSERCYKLHGYPVGWK 336
Score = 36.6 bits (83), Expect(2) = 4e-87
Identities = 23/61 (37%), Positives = 36/61 (58%)
Frame = +2
Query: 1184 WFQT*AEGSTPPEKSKPVVANLALTDGKMTLGKGIGPDGIAELVGNMSKSQIQDVIAYFS 1363
+++ A+ S + KP N A+T ++T P G+ L+GNMSK QIQ++IA FS
Sbjct: 341 FYEKIAQASQSSQAPKP---NSAVT-AQVTGNSQNTPAGLESLIGNMSKDQIQNLIALFS 396
Query: 1364 T 1366
+
Sbjct: 397 S 397
>pir||T14517 hypothetical protein 1 - wild cabbage transposon
Melmoth|gi|2462935|emb|CAA72989.1| open reading frame 1
[Brassica oleracea]
Length = 1131
Score = 302 bits (774), Expect(2) = 9e-83
Identities = 157/282 (55%), Positives = 192/282 (67%), Gaps = 1/282 (0%)
Frame = +3
Query: 363 DAHYSPYALSNGDNPGTTIVSEVLDGSNFSSWKIAMFVALDAKNKIAFVDGTLPRPPEFD 542
D + SP + N D+PG ++S LDGSN+ W AM +ALDAKNKI FVDGTL RP D
Sbjct: 9 DPNQSPLFMHNADHPGLQLISLKLDGSNYDDWNAAMKIALDAKNKIGFVDGTLTRPDTSD 68
Query: 543 PSFRVWSRCNSMVKSWILNSVTKQIYKSILRFNDAAEIWKDLDTRFHITNLPRSYQLTQQ 722
P+FR+WSRCNSMVKSW+LNSV+ QIY+SILR NDAA+IW+DL RFH+TNLPR++ LTQ+
Sbjct: 69 PTFRLWSRCNSMVKSWLLNSVSPQIYRSILRLNDAADIWRDLHGRFHMTNLPRTFNLTQE 128
Query: 723 IWSLQQGNMSLSDYYTTLKTLWDDLDGASCVNTCRNCKCCSATASVNEHSKIVKFLAGLN 902
I L+QG+MSLSDYYTTLKTLWD+L+ +T C + +KIVKFLAGLN
Sbjct: 129 IQDLKQGSMSLSDYYTTLKTLWDNLESVDEPDTPCVCGNAEKLQKKVDRAKIVKFLAGLN 188
Query: 903 DFYSTIRSQIIMKKTIPDLAEIYNLLDQDHSQRNIVTNPTNASAFNVSILSNDQIAVNAT 1082
D Y+ IR QIIMKK +P L E+YN+LDQD SQ+ T T A AFNVS +A
Sbjct: 189 DSYAIIRRQIIMKKVLPSLVEVYNILDQDDSQKGFSTAITPA-AFNVSENVPPPMAEAGI 247
Query: 1083 RSFQPN-SKPKVQCSHCGYTGHTADTCYKIHGYPIGFKHKQK 1205
Q +K + CS C GH A+ CYK HG+P GF K K
Sbjct: 248 CYVQTGPNKGRPICSFCNRVGHIAERCYKKHGFPPGFVSKYK 289
Score = 28.9 bits (63), Expect(2) = 9e-83
Identities = 18/49 (36%), Positives = 25/49 (50%)
Frame = +2
Query: 1220 EKSKPVVANLALTDGKMTLGKGIGPDGIAELVGNMSKSQIQDVIAYFST 1366
+K K V A ++ + G P + LVGN SK Q+Q IA FS+
Sbjct: 298 QKPKQVAAQVSFSPPN----SGQSPMTMDHLVGNHSKEQLQQFIALFSS 342
>ref|NP_179636.1| putative retroelement pol polyprotein; protein id: At2g20460.1
[Arabidopsis thaliana]|gi|25301701|pir||E84589 probable
retroelement pol polyprotein [imported] - Arabidopsis
thaliana|gi|4586028|gb|AAD25646.1| putative retroelement
pol polyprotein [Arabidopsis thaliana]
Length = 1461
Score = 295 bits (756), Expect(2) = 1e-81
Identities = 146/284 (51%), Positives = 191/284 (66%), Gaps = 1/284 (0%)
Frame = +3
Query: 357 FADAHYSPYALSNGDNPGTTIVSEVLDGSNFSSWKIAMFVALDAKNKIAFVDGTLPRPPE 536
F D SP+ L + D+PG +I+S LD + + W +AM ++LDAKNK+ FVDG+LPRP E
Sbjct: 58 FDDPTQSPFFLHSADHPGLSIISHRLDETTYGDWSVAMRISLDAKNKLGFVDGSLPRPLE 117
Query: 537 FDPSFRVWSRCNSMVKSWILNSVTKQIYKSILRFNDAAEIWKDLDTRFHITNLPRSYQLT 716
DP+FR+WSRCNSMVKSW+LNSV+ QIY+SILR NDA +IW+DL RF++TNLPR+Y LT
Sbjct: 118 SDPNFRLWSRCNSMVKSWLLNSVSPQIYRSILRLNDATDIWRDLFDRFNLTNLPRTYNLT 177
Query: 717 QQIWSLQQGNMSLSDYYTTLKTLWDDLDGASCVNTCRNCKCCSATASVNEHSKIVKFLAG 896
Q+I L+QG MSLS+YYT LKTLWD LD ++ C E +KI+KFLAG
Sbjct: 178 QEIQDLRQGTMSLSEYYTLLKTLWDQLDSTEALDDPCTCGKAVRLYQKAEKAKIMKFLAG 237
Query: 897 LNDFYSTIRSQIIMKKTIPDLAEIYNLLDQDHSQRNIVTNPTNASAFNVSILSNDQIAVN 1076
LN+ Y+ +R QII KK +P LAE+Y++LDQD+SQ+ +AF VS +S+ I
Sbjct: 238 LNESYAIVRRQIIAKKALPSLAEVYHILDQDNSQKGFFNVVAPPAAFQVSEVSHSPITSP 297
Query: 1077 ATRSFQPN-SKPKVQCSHCGYTGHTADTCYKIHGYPIGFKHKQK 1205
Q +K + CS C GH A+ CYK HG+P GF K K
Sbjct: 298 EIMYVQSGPNKGRPTCSFCNRVGHIAERCYKKHGFPPGFTPKGK 341
Score = 32.3 bits (72), Expect(2) = 1e-81
Identities = 20/55 (36%), Positives = 28/55 (50%)
Frame = +2
Query: 1202 EGSTPPEKSKPVVANLALTDGKMTLGKGIGPDGIAELVGNMSKSQIQDVIAYFST 1366
+ S P K + V A + L+ KMT + L GN S QIQ++IA FS+
Sbjct: 341 KSSDKPPKPQAVAAQVTLSPDKMT-------GQLETLAGNFSPDQIQNLIALFSS 388
Database: BlastDB/NCBI/blast/db/2003_02_17_02_00_1/nr
Posted date: Feb 17, 2003 10:02 AM
Number of letters in database: 429,188,541
Number of sequences in database: 1,339,046
Lambda K H
0.318 0.135 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
length of database: 429,188,541
effective HSP length: 128
effective length of database: 257,790,653
effective search space used: 102342889241
frameshift window, decay const: 50, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)