BLAST2 result
BLASTP 2.2.2 [Dec-14-2001]
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= TM0260.11
(337 letters)
Database: ara_mips
26,719 sequences; 11,318,596 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
orf240b -mitochondrial genome- 39 0.004
At2g07683 putative protein 39 0.004
At4g04290 putative reverse transcriptase 39 0.005
At4g19780 putative LTR retrotransposon (fragment) 35 0.076
At4g17450 retrotransposon like protein 35 0.076
At4g10990 putative retrotransposon polyprotein 35 0.076
At2g15870 putative retroelement pol polyprotein 34 0.099
At2g20460 putative retroelement pol polyprotein 34 0.13
At4g14460 retrovirus-related like polyprotein 33 0.22
At1g26990 polyprotein, putative 33 0.22
At4g23160 putative protein 33 0.29
At1g44510 polyprotein, putative 33 0.29
At2g16000 putative retroelement pol polyprotein 32 0.38
At4g04410 putative polyprotein 32 0.49
At2g07420 putative retroelement pol polyprotein 32 0.49
At1g47520 hypothetical protein 31 1.1
At4g16870 retrotransposon like protein 30 1.4
At1g47650 hypothetical protein 30 1.4
At4g27210 putative protein 30 1.9
At4g10690 retrotransposon like protein 30 1.9
>orf240b -mitochondrial genome-
Length = 240
Score = 38.9 bits (89), Expect = 0.004
Identities = 34/102 (33%), Positives = 49/102 (47%), Gaps = 9/102 (8%)
Query: 138 LHSVFPIKDLGELHYFLMKHCKS-ASTLMIHDFVCQMSVLFNLT*HFVKKRSILALLSIQ 196
L S F +KDLG +HYFL K+ S L + +L N + + + L ++
Sbjct: 27 LSSTFSMKDLGPVHYFLGIQIKTHPSGLFLSQTKYAEQILNNA--GMLDCKPMSTPLPLK 84
Query: 197 *NSFGFSFNSHDSWLYKSIVGAL------HPDIAFCVNKVCQ 232
NS + D ++SIVGAL PDI++ VN VCQ
Sbjct: 85 LNSSVSTAKYPDPSDFRSIVGALQYLTLTRPDISYAVNIVCQ 126
>At2g07683 putative protein
Length = 385
Score = 38.9 bits (89), Expect = 0.004
Identities = 34/102 (33%), Positives = 49/102 (47%), Gaps = 9/102 (8%)
Query: 138 LHSVFPIKDLGELHYFLMKHCKS-ASTLMIHDFVCQMSVLFNLT*HFVKKRSILALLSIQ 196
L S F +KDLG +HYFL K+ S L + +L N + + + L ++
Sbjct: 172 LSSTFSMKDLGPVHYFLGIQIKTHPSGLFLSQTKYAEQILNNA--GMLDCKPMSTPLPLK 229
Query: 197 *NSFGFSFNSHDSWLYKSIVGAL------HPDIAFCVNKVCQ 232
NS + D ++SIVGAL PDI++ VN VCQ
Sbjct: 230 LNSSVSTAKYPDPSDFRSIVGALQYLTLTRPDISYAVNIVCQ 271
>At4g04290 putative reverse transcriptase
Length = 403
Score = 38.5 bits (88), Expect = 0.005
Identities = 43/142 (30%), Positives = 61/142 (42%), Gaps = 20/142 (14%)
Query: 138 LHSVFPIKDLGELHYFL-MKHCKSASTLMIHDFVCQMSVLFNLT*HFVKKRSILALLSIQ 196
L SVF IKDLGEL YFL ++ C+S L + + +L + VK +
Sbjct: 191 LKSVFDIKDLGELKYFLGIEVCRSKEGLFLSQRKYTLDLLAQVGKLGVKPAKTPLEDDYK 250
Query: 197 *NSFGFSFNS--HDSWLYKSIVGALHPDIAFCVNKVCQFKQLIFLTAKKVVVVS*SNTEA 254
G N D+ Y+ +VG L+ +KK VVS S+ EA
Sbjct: 251 AKRKGEHDNKPFEDATRYRRLVG-----------------NLVTWRSKKQKVVSLSSAEA 293
Query: 255 EYRSIAFDTI*PIWLQFQLS*F 276
EYR++ T +WL+ L F
Sbjct: 294 EYRAMRKLTTELMWLKALLKDF 315
>At4g19780 putative LTR retrotransposon (fragment)
Length = 306
Score = 34.7 bits (78), Expect = 0.076
Identities = 37/111 (33%), Positives = 51/111 (45%), Gaps = 16/111 (14%)
Query: 134 FYLGLHSVFPIKDLGELHYFL-MKHCKSASTLMIHDFVCQMSVLFNL--T*HFV--KKRS 188
F L S F ++DLG YFL ++ +S + I CQ + L T F+ K S
Sbjct: 4 FTAELKSYFKLRDLGAAKYFLGIEIARSEKGISI----CQRKYILELLSTTGFLGSKPSS 59
Query: 189 ILALLSIQ*NSFGFSFNSHDSWLYKSIVGAL------HPDIAFCVNKVCQF 233
I S++ N DS Y+ +VG L PDIA+ VN +CQF
Sbjct: 60 IPLDPSVKLNKED-GVPLTDSTSYRKLVGKLMYLQITRPDIAYAVNTLCQF 109
Score = 29.6 bits (65), Expect = 2.4
Identities = 20/58 (34%), Positives = 28/58 (47%), Gaps = 2/58 (3%)
Query: 226 CVNKVCQF--KQLIFLTAKKVVVVS*SNTEAEYRSIAFDTI*PIWLQFQLS*FMTLYV 281
CV C F L+ +KK VS S EAE+R+++ T IWL L F ++
Sbjct: 163 CVAAYCMFIGDSLVSWKSKKQDTVSMSTAEAEFRAMSQGTKEMIWLSRLLDDFKVPFI 220
>At4g17450 retrotransposon like protein
Length = 1433
Score = 34.7 bits (78), Expect = 0.076
Identities = 37/111 (33%), Positives = 51/111 (45%), Gaps = 16/111 (14%)
Query: 134 FYLGLHSVFPIKDLGELHYFL-MKHCKSASTLMIHDFVCQMSVLFNL--T*HFV--KKRS 188
F L S F ++DLG YFL ++ +S + I CQ + L T F+ K S
Sbjct: 1131 FTAELKSYFKLRDLGAAKYFLGIEIARSEKGISI----CQRKYILELLSTTGFLGSKPSS 1186
Query: 189 ILALLSIQ*NSFGFSFNSHDSWLYKSIVGAL------HPDIAFCVNKVCQF 233
I S++ N DS Y+ +VG L PDIA+ VN +CQF
Sbjct: 1187 IPLDPSVKLNKED-GVPLTDSTSYRKLVGKLMYLQITRPDIAYAVNTLCQF 1236
Score = 29.6 bits (65), Expect = 2.4
Identities = 23/74 (31%), Positives = 35/74 (47%), Gaps = 7/74 (9%)
Query: 226 CVNKVCQF--KQLIFLTAKKVVVVS*SNTEAEYRSIAFDTI*PIWL-----QFQLS*FMT 278
CV C F L+ +KK VS S EAE+R+++ T IWL F++
Sbjct: 1290 CVAAYCMFIGDYLVSWKSKKQDTVSMSTAEAEFRAMSQGTKEMIWLSRLFDDFKVPFIPP 1349
Query: 279 LYVNCRCSSA*HSI 292
Y+ C ++A H +
Sbjct: 1350 AYLYCDNTAALHIV 1363
>At4g10990 putative retrotransposon polyprotein
Length = 1203
Score = 34.7 bits (78), Expect = 0.076
Identities = 24/50 (48%), Positives = 29/50 (58%), Gaps = 3/50 (6%)
Query: 236 LIFLTAKKVVVVS*SNTEAEYRSIAFDTI*PIWLQFQLS*FMTLYVNCRC 285
LI +KK VVS S+TE+EYRS+A T IWLQ L L+V C
Sbjct: 910 LITWKSKKQSVVSRSSTESEYRSLAQATCEIIWLQQLLK---DLHVTMTC 956
>At2g15870 putative retroelement pol polyprotein
Length = 1264
Score = 34.3 bits (77), Expect = 0.099
Identities = 30/108 (27%), Positives = 47/108 (42%), Gaps = 18/108 (16%)
Query: 138 LHSVFPIKDLGELHYFL---MKHCKSASTLMIHDFVCQMSV---LFNLT*HFVKKRSILA 191
L ++F ++DLG+L YFL + ++ +L + ++ + N V L
Sbjct: 968 LQNLFKLRDLGDLKYFLGLEITRTEAGISLCQRKYALELLASTGMINCKLVSVPMVPNLK 1027
Query: 192 LLSIQ*NSFGFSFNSHDSWLYKSIVGAL------HPDIAFCVNKVCQF 233
L+ + D Y+ IVG L PDI F VNK+CQF
Sbjct: 1028 LMKVDGELL------EDREQYRRIVGTLMYLTITRPDITFAVNKLCQF 1069
Score = 33.5 bits (75), Expect = 0.17
Identities = 19/39 (48%), Positives = 25/39 (63%)
Query: 236 LIFLTAKKVVVVS*SNTEAEYRSIAFDTI*PIWLQFQLS 274
LI L +KK VVS S+ EAEYR++A T +WL L+
Sbjct: 1135 LISLRSKKQHVVSRSSAEAEYRALALATCELVWLHTLLA 1173
>At2g20460 putative retroelement pol polyprotein
Length = 1461
Score = 33.9 bits (76), Expect = 0.13
Identities = 29/103 (28%), Positives = 49/103 (47%), Gaps = 8/103 (7%)
Query: 138 LHSVFPIKDLGELHYFL-MKHCKSASTLMIHDFVCQMSVLFNLT*HFVKKRSILALLSIQ 196
L + F +++LG L YFL ++ +++ + + + +L + K SI +I+
Sbjct: 1165 LKASFKLRELGPLKYFLGLEVARTSEGISLSQRKYALELLTSADMLDCKPSSIPMTPNIR 1224
Query: 197 *NSFGFSFNSHDSWLYKSIVGAL------HPDIAFCVNKVCQF 233
S D +Y+ +VG L PDI F VNK+CQF
Sbjct: 1225 -LSKNDGLLLEDKEMYRRLVGKLMYLTITRPDITFAVNKLCQF 1266
>At4g14460 retrovirus-related like polyprotein
Length = 1489
Score = 33.1 bits (74), Expect = 0.22
Identities = 19/35 (54%), Positives = 23/35 (65%)
Query: 236 LIFLTAKKVVVVS*SNTEAEYRSIAFDTI*PIWLQ 270
LI +KK V S S+TE+EYRS+A T IWLQ
Sbjct: 1355 LISWKSKKQAVASRSSTESEYRSMAQATCEIIWLQ 1389
>At1g26990 polyprotein, putative
Length = 1436
Score = 33.1 bits (74), Expect = 0.22
Identities = 23/58 (39%), Positives = 31/58 (52%), Gaps = 2/58 (3%)
Query: 221 PDIAFCVNKVCQF--KQLIFLTAKKVVVVS*SNTEAEYRSIAFDTI*PIWLQFQLS*F 276
PD CV F L+ +KK VVS S+ EAEYR+++ T IWL + L+ F
Sbjct: 1289 PDTRRCVTGFAIFVGNSLVSWRSKKQDVVSMSSAEAEYRAMSVATKELIWLGYILTAF 1346
>At4g23160 putative protein
Length = 1240
Score = 32.7 bits (73), Expect = 0.29
Identities = 20/44 (45%), Positives = 26/44 (58%), Gaps = 2/44 (4%)
Query: 228 NKVCQF--KQLIFLTAKKVVVVS*SNTEAEYRSIAFDTI*PIWL 269
N C F LI +KK VVS S+ EAEYR+++F T +WL
Sbjct: 461 NGYCMFLGTSLISWKSKKQQVVSKSSAEAEYRALSFATDEMMWL 504
Score = 32.7 bits (73), Expect = 0.29
Identities = 35/126 (27%), Positives = 58/126 (45%), Gaps = 28/126 (22%)
Query: 138 LHSVFPIKDLGELHYFL-MKHCKSASTLMIHDFVCQMSVLFNLT*HFVKKRSILALLSIQ 196
L S F ++DLG L YFL ++ +SA+ + I CQ +L LL +
Sbjct: 304 LKSCFKLRDLGPLKYFLGLEIARSAAGINI----CQRKYALDLL-------DETGLLGCK 352
Query: 197 *NSF----GFSFNSH------DSWLYKSIVGAL------HPDIAFCVNKVCQFKQLIFLT 240
+S +F++H D+ Y+ ++G L DI+F VNK+ QF + L
Sbjct: 353 PSSVPMDPSVTFSAHSGGDFVDAKAYRRLIGRLMYLQITRLDISFAVNKLSQFSEAPRLA 412
Query: 241 AKKVVV 246
++ V+
Sbjct: 413 HQQAVM 418
>At1g44510 polyprotein, putative
Length = 1459
Score = 32.7 bits (73), Expect = 0.29
Identities = 30/101 (29%), Positives = 45/101 (43%), Gaps = 12/101 (11%)
Query: 142 FPIKDLGELHYFLMKHCKSAST---LMIHDFVCQMSVLFNLT*HFVKKRSILALLSIQ*N 198
F IKD +LHYFL +T LM ++ + N+ K L +
Sbjct: 1168 FSIKDPTDLHYFLGIEATRTNTGLHLMQRKYMTDLLAKHNM---LDAKPVATPLPTSPKL 1224
Query: 199 SFGFSFNSHDSWLYKSIVGALH------PDIAFCVNKVCQF 233
+ +D+ Y+S+VG+L PDIAF VN++ QF
Sbjct: 1225 TLHGGTKLNDASEYRSVVGSLQYLAFTRPDIAFAVNRLSQF 1265
>At2g16000 putative retroelement pol polyprotein
Length = 1454
Score = 32.3 bits (72), Expect = 0.38
Identities = 31/106 (29%), Positives = 46/106 (43%), Gaps = 22/106 (20%)
Query: 142 FPIKDLGELHYFL-MKHCKSASTLMIHDFVCQMSVLFNLT*HFVKKRSILALLSIQ*NSF 200
F ++DLG+L YFL ++ ++ + + I CQ L ++ +LA +
Sbjct: 1162 FKLRDLGDLKYFLGLEVARTTAGISI----CQRKYALEL----LQSTGMLACKPVSVPMI 1213
Query: 201 -GFSFNSHDSWL------YKSIVGAL------HPDIAFCVNKVCQF 233
D L Y+ IVG L PDI F VNK+CQF
Sbjct: 1214 PNLKMRKDDGDLIEDIEQYRRIVGKLMYLTITRPDITFAVNKLCQF 1259
Score = 29.6 bits (65), Expect = 2.4
Identities = 16/34 (47%), Positives = 21/34 (61%)
Query: 236 LIFLTAKKVVVVS*SNTEAEYRSIAFDTI*PIWL 269
LI +KK VS S+ EAEYR++A T +WL
Sbjct: 1325 LISWRSKKQHTVSRSSAEAEYRALALATCEMVWL 1358
>At4g04410 putative polyprotein
Length = 1017
Score = 32.0 bits (71), Expect = 0.49
Identities = 34/116 (29%), Positives = 50/116 (42%), Gaps = 21/116 (18%)
Query: 56 KAFYG*QWDHHGWFDKHNFISTLDKKKLYISSF*FFRC*VSKCDSSLSLI----GLLPV* 111
KA YG + W+ HN +TL K S+ D +L + G++
Sbjct: 871 KAIYGLKQSPRAWY--HNLSTTLKGKGFK----------KSEADHTLFTLQSDQGIIVAL 918
Query: 112 LLFLCFMLGYNNPPLFFLTHLFFYLGLHSVFPIKDLGELHYFL-MKHCKSASTLMI 166
+ ++ +N T LF L S F IKDLGEL YFL ++ C+S L +
Sbjct: 919 IYVDNIIISGDNKEGIHDTKLF----LKSTFDIKDLGELKYFLGIEVCRSPEGLFL 970
>At2g07420 putative retroelement pol polyprotein
Length = 1664
Score = 32.0 bits (71), Expect = 0.49
Identities = 17/30 (56%), Positives = 21/30 (69%), Gaps = 1/30 (3%)
Query: 138 LHSVFPIKDLGELHYFL-MKHCKSASTLMI 166
L SVF IKDLGEL YFL ++ C+S L +
Sbjct: 1106 LKSVFDIKDLGELKYFLGIEVCRSKEGLFL 1135
>At1g47520 hypothetical protein
Length = 634
Score = 30.8 bits (68), Expect = 1.1
Identities = 30/113 (26%), Positives = 47/113 (41%), Gaps = 28/113 (24%)
Query: 138 LHSVFPIKDLGELHYFL-MKHCKSASTLMIHDFVCQMSVLFNLT*HFVKKRSILALLSIQ 196
L F +++LG L YFL ++ +++ + + CQ L + +L Q
Sbjct: 485 LKESFRLRELGPLKYFLGLEVARTSEGISL----CQRKYALELL-------TSTGMLDCQ 533
Query: 197 *NSFGFSFNSH----------DSWLYKSIVGAL------HPDIAFCVNKVCQF 233
+S N H D Y+ +VG L PDI F VNK+CQ+
Sbjct: 534 HSSTPMIPNLHLSKSDGELLEDKEYYRRLVGRLMYLTITRPDITFAVNKLCQY 586
>At4g16870 retrotransposon like protein
Length = 1474
Score = 30.4 bits (67), Expect = 1.4
Identities = 28/100 (28%), Positives = 44/100 (44%), Gaps = 12/100 (12%)
Query: 142 FPIKDLGELHYFL---MKHCKSASTLMIHDFVCQMSVLFNLT*HFVKKRSILALLSIQ*N 198
F IKD +LHYFL K LM ++ + N+ K + L +
Sbjct: 1183 FSIKDPTDLHYFLGIEATRTKQGLHLMQRKYIKDLLAKHNMA---DAKPVLTPLPTSPKL 1239
Query: 199 SFGFSFNSHDSWLYKSIVGAL------HPDIAFCVNKVCQ 232
+ +D+ Y+S+VG+L PDIA+ VN++ Q
Sbjct: 1240 TLHGGTKLNDASEYRSVVGSLQYLAFTRPDIAYAVNRLSQ 1279
>At1g47650 hypothetical protein
Length = 1409
Score = 30.4 bits (67), Expect = 1.4
Identities = 17/34 (50%), Positives = 22/34 (64%)
Query: 236 LIFLTAKKVVVVS*SNTEAEYRSIAFDTI*PIWL 269
LI +KK VVS S+ EAEYR++A T +WL
Sbjct: 1116 LISWRSKKQHVVSRSSAEAEYRALALVTCELVWL 1149
>At4g27210 putative protein
Length = 1318
Score = 30.0 bits (66), Expect = 1.9
Identities = 30/102 (29%), Positives = 45/102 (43%), Gaps = 18/102 (17%)
Query: 56 KAFYG*QWDHHGWFDKHNFISTLDKKKLYISSF*FFRC*VSKCDSSLSLIGL---LPV*L 112
K+ YG + WFDK + ++ F FF SK D SL + L + L
Sbjct: 858 KSIYGLKQSPRAWFDKFS---------TFLLEFGFF---CSKSDPSLFIYAHNNNLILLL 905
Query: 113 LFLCFMLGYNNPPLFFLTHLFFYLGLHSVFPIKDLGELHYFL 154
L++ M+ N + L L+ F + D+G+LHYFL
Sbjct: 906 LYVDDMVITGNSSQTLTSLL---AALNKEFRMTDMGQLHYFL 944
Score = 27.7 bits (60), Expect = 9.3
Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 227 VNKVCQFK--QLIFLTAKKVVVVS*SNTEAEYRSIAFDTI*PIWL 269
V +C F L+ ++KK VS S+TEAEY+S++ +WL
Sbjct: 1084 VGGLCTFMGTNLVSWSSKKHPTVSRSSTEAEYKSLSDAASEILWL 1128
>At4g10690 retrotransposon like protein
Length = 1515
Score = 30.0 bits (66), Expect = 1.9
Identities = 16/38 (42%), Positives = 24/38 (63%)
Query: 236 LIFLTAKKVVVVS*SNTEAEYRSIAFDTI*PIWLQFQL 273
+I +AK+ VS S+TEAEYR+++F W+ F L
Sbjct: 1299 IISWSAKRHPTVSKSSTEAEYRTLSFAASEVSWIGFLL 1336
Database: ara_mips
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 2,978,382
Number of sequences in database: 6832
Database: /data/blast2/ara_mips_chr2
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 1,737,135
Number of sequences in database: 4184
Database: /data/blast2/ara_mips_chr3
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 2,236,886
Number of sequences in database: 5377
Database: /data/blast2/ara_mips_chr4
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 1,748,816
Number of sequences in database: 4030
Database: /data/blast2/ara_mips_chr5
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 2,569,679
Number of sequences in database: 6098
Database: /data/blast2/ara_mips_chl
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 25,951
Number of sequences in database: 85
Database: /data/blast2/ara_mips_mit
Posted date: Jul 15, 2004 10:29 AM
Number of letters in database: 21,747
Number of sequences in database: 113
Lambda K H
0.364 0.164 0.596
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,127,576
Number of Sequences: 26719
Number of extensions: 212957
Number of successful extensions: 1184
Number of sequences better than 10.0: 30
Number of HSP's better than 10.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1113
Number of HSP's gapped (non-prelim): 75
length of query: 337
length of database: 11,318,596
effective HSP length: 100
effective length of query: 237
effective length of database: 8,646,696
effective search space: 2049266952
effective search space used: 2049266952
T: 11
A: 40
X1: 14 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 36 (21.5 bits)
S2: 60 (27.7 bits)
Lotus: description of TM0260.11