Contig-U12082-1
Contig ID Contig-U12082-1
Contig update 2002.12.18
Contig sequence
>Contig-U12082-1 (Contig-U12082-1Q) /CSM_Contig/Contig-U12082-1Q.Seq.d
AACCAAAATTAAATTTATTTTATTATTTCCACAGTTTAATTCTTTTTTTA
TTTATTAAATATATATATATATATATTTAAATAAAAAAAAGAAAAAAAAA
ANNNNNNNNN----------NNNNNNNNNNCAATCATTTATAGATAAACA
AAAACAAATCAATAATGACAATAGTAATGAGGAATATGATGAAATTGGAG
GCACAATCGTTGATAATGCATCATTAAATTCAAAAGTTTTATCACCATCA
CCAAAGAAAATTCAAGATCNTGGTATAGTATCTGATTCTGATCATAGTGA
TGACGACGATGATGATGATAATAATAATAAAAAACAAAACGAAAATGAAA
ATGAAAACGAAAATGAAAAAGTAGGAGATGAAAATGAAAAATTAGGTGAC
AATGATCTATATGATAATGATATATATGATAATGAAGATCCTGAGGACGA
TAAGATCGAACCAATATTTCAAACAAAACAAACTAGAAAAGAACAAAGAA
AATTAGAAAAATTAAAGAAAAAAGAAGAAAAGAAAGCTGCAAGAGAAGAG
AGAATTAAATTAAAGAAAGAAAAGAAACACAGAGAGAAAAAAGCACCAAT
AATGCCTGTTTCAACACCAGTAATTGAAGCACGTCAAGTTATTAAAAAGC
GTTCNCTTCTTGATTTCTTTAGTAAAGTTGAAGGTGTTAGAAAACAATCA
CAACAACAACAACAAACNATTCCACCACAATTTGAAGAGGATAGTGATGA
TGAATCCTAGAAACTGAATCTGA

Gap gap included
Contig length 763
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 3373572
End point 3372827
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 2
Link to clone list U12082
List of clone(s)

est1=SHF854F,1,101
est2=SHF854Z,102,745
Translated Amino Acid sequence
tkikfillfpqfnsffiy*IYIYIYLNKKKKKKXXX---

---XXXQSFIDKQKQINNDNSNEEYDEIGGTIVDNASLNSKVLSPSPKKIQDXGIVSDSD
HSDDDDDDDNNNKKQNENENENENEKVGDENEKLGDNDLYDNDIYDNEDPEDDKIEPIFQ
TKQTRKEQRKLEKLKKKEEKKAAREERIKLKKEKKHREKKAPIMPVSTPVIEARQVIKKR
SLLDFFSKVEGVRKQSQQQQQTIPPQFEEDSDDES*klnl


Translated Amino Acid sequence (All Frames)
Frame A:
nqn*iyfiistv*fffyllniyiyifk*kkekkxxx---

---xxxxiiyr*tktnq**q***gi**nwrhnr**ciikfksfititkensrswysi*f*
s***rr*******ktkrk*k*krk*ksrr*k*kir*q*si***yi***rs*gr*drtnis
nktn*krtkkirkikekrrkesckrren*ikerketqrekstnnacfntsn*stssy*ka
fxs*fl**s*rc*ktitttttnxstti*rg****iletes

Frame B:
tkikfillfpqfnsffiy*IYIYIYLNKKKKKKXXX---

---XXXQSFIDKQKQINNDNSNEEYDEIGGTIVDNASLNSKVLSPSPKKIQDXGIVSDSD
HSDDDDDDDNNNKKQNENENENENEKVGDENEKLGDNDLYDNDIYDNEDPEDDKIEPIFQ
TKQTRKEQRKLEKLKKKEEKKAAREERIKLKKEKKHREKKAPIMPVSTPVIEARQVIKKR
SLLDFFSKVEGVRKQSQQQQQTIPPQFEEDSDDES*klnl

Frame C:
pklnlfyyfhslilflfikyiyiyi*ikkrkkkxxx---

---xxxnhl*inknksimtivmrnmmkleaqslimhh*iqkfyhhhqrkfkixv*ylili
ivmttmmmiiiiknktkmkmktkmkk*emkmkn*vtmiymimiymimkilrtirsnqyfk
qnkleknken*kn*rkkkkrklqekreln*rkkrnterkkhq*clfqhq*lkhvkllksv
xflislvklkvlennhnnnnkxfhhnlkrivmmnprn*i*

own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U12082-1 (Contig-U12082-1Q)
/CSM_Contig/Contig-U12082-1Q.Seq.d
(773 letters)

Database: CSM
6905 sequences; 5,674,871 total letters


Score E
Sequences producing significant alignments: (bits) Value

Contig-U12082-1 (Contig-U12082-1Q) /CSM_Contig/Conti... 387 e-107
Contig-U10929-1 (Contig-U10929-1Q) /CSM_Contig/Conti... 54 2e-07
Contig-U00857-1 (Contig-U00857-1Q) /CSM_Contig/Conti... 46 6e-05
Contig-U14541-1 (Contig-U14541-1Q) /CSM_Contig/Conti... 42 9e-04
Contig-U12920-1 (Contig-U12920-1Q) /CSM_Contig/Conti... 42 9e-04
Contig-U12434-1 (Contig-U12434-1Q) /CSM_Contig/Conti... 42 9e-04
Contig-U12391-1 (Contig-U12391-1Q) /CSM_Contig/Conti... 42 9e-04
Contig-U11681-1 (Contig-U11681-1Q) /CSM_Contig/Conti... 42 9e-04
Contig-U11328-1 (Contig-U11328-1Q) /CSM_Contig/Conti... 42 9e-04
Contig-U09566-1 (Contig-U09566-1Q) /CSM_Contig/Conti... 42 9e-04

>Contig-U12082-1 (Contig-U12082-1Q) /CSM_Contig/Contig-U12082-1Q.Seq.d
Length = 773

Score = 387 bits (195), Expect = e-107
Identities = 198/198 (100%)
Strand = Plus / Plus


Query: 131 caatcatttatagataaacaaaaacaaatcaataatgacaatagtaatgaggaatatgat 190
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 131 caatcatttatagataaacaaaaacaaatcaataatgacaatagtaatgaggaatatgat 190


Query: 191 gaaattggaggcacaatcgttgataatgcatcattaaattcaaaagttttatcaccatca 250
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 191 gaaattggaggcacaatcgttgataatgcatcattaaattcaaaagttttatcaccatca 250


Query: 251 ccaaagaaaattcaagatcntggtatagtatctgattctgatcatagtgatgacgacgat 310
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 251 ccaaagaaaattcaagatcntggtatagtatctgattctgatcatagtgatgacgacgat 310


Query: 311 gatgatgataataataat 328
||||||||||||||||||
Sbjct: 311 gatgatgataataataat 328


Score = 188 bits (95), Expect = 6e-48
Identities = 98/98 (100%)
Strand = Plus / Plus


Query: 593 gcaccaataatgcctgtttcaacaccagtaattgaagcacgtcaagttattaaaaagcgt 652
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 593 gcaccaataatgcctgtttcaacaccagtaattgaagcacgtcaagttattaaaaagcgt 652


Query: 653 tcncttcttgatttctttagtaaagttgaaggtgttag 690
||||||||||||||||||||||||||||||||||||||
Sbjct: 653 tcncttcttgatttctttagtaaagttgaaggtgttag 690


Score = 155 bits (78), Expect = 9e-38
Identities = 78/78 (100%)
Strand = Plus / Plus


Query: 392 ttaggtgacaatgatctatatgataatgatatatatgataatgaagatcctgaggacgat 451
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 392 ttaggtgacaatgatctatatgataatgatatatatgataatgaagatcctgaggacgat 451


Query: 452 aagatcgaaccaatattt 469
||||||||||||||||||
Sbjct: 452 aagatcgaaccaatattt 469


Score = 107 bits (54), Expect = 2e-23
Identities = 54/54 (100%)
Strand = Plus / Plus


Query: 720 ttccaccacaatttgaagaggatagtgatgatgaatcctagaaactgaatctga 773
||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 720 ttccaccacaatttgaagaggatagtgatgatgaatcctagaaactgaatctga 773


>Contig-U10929-1 (Contig-U10929-1Q) /CSM_Contig/Contig-U10929-1Q.Seq.d
Length = 1727

Score = 54.0 bits (27), Expect = 2e-07
Identities = 30/31 (96%)
Strand = Plus / Plus


Query: 298 tgatgacgacgatgatgatgataataataat 328
||||||||||||||||||| |||||||||||
Sbjct: 1173 tgatgacgacgatgatgataataataataat 1203


Score = 42.1 bits (21), Expect = 9e-04
Identities = 27/29 (93%)
Strand = Plus / Plus


Query: 300 atgacgacgatgatgatgataataataat 328
|||| ||||| ||||||||||||||||||
Sbjct: 1172 atgatgacgacgatgatgataataataat 1200


>Contig-U00857-1 (Contig-U00857-1Q) /CSM_Contig/Contig-U00857-1Q.Seq.d
Length = 2229

Score = 46.1 bits (23), Expect = 6e-05
Identities = 29/31 (93%)
Strand = Plus / Minus


Query: 298 tgatgacgacgatgatgatgataataataat 328
||||||||| || ||||||||||||||||||
Sbjct: 548 tgatgacgatgacgatgatgataataataat 518


Database: CSM
Posted date: Jun 9, 2004 7:35 PM
Number of letters in database: 5,674,871
Number of sequences in database: 6905

Lambda K H
1.37 0.711 1.31

Gapped
Lambda K H
1.37 0.711 1.31


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Hits to DB: 18,641
Number of Sequences: 6905
Number of extensions: 18641
Number of successful extensions: 2043
Number of sequences better than 10.0: 309
length of query: 773
length of database: 5,674,871
effective HSP length: 16
effective length of query: 757
effective length of database: 5,564,391
effective search space: 4212243987
effective search space used: 4212243987
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 15 (30.2 bits)
dna update 2008.11.29
Homology vs DNA
Query= Contig-U12082-1 (Contig-U12082-1Q) /CSM_Contig/Contig-U12082-1Q.Seq.d
(773 letters)

Database: ddbj_A
92,845,959 sequences; 95,242,211,685 total letters

Searching..................................................done

Score E
Sequences producing significant alignments: (bits) Value N

(BJ406551) Dictyostelium discoideum cDNA clone:dds35l14, 3' ... 387 0.0 4
(AC180212) Strongylocentrotus purpuratus clone R3-3006C12, W... 62 3e-05 1
(AC180145) Strongylocentrotus purpuratus clone R3-4004A12, W... 62 3e-05 1
(AC168658) Strongylocentrotus purpuratus clone R3-3017A12, W... 62 3e-05 1
(CR931998) Zebrafish DNA sequence from clone DKEY-261G23 in ... 58 5e-04 1
(CR932357) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 58 5e-04 1
(CB258938) 07-E010796-014-001-M01-T7R MPIZ-ADIS-014 Arabidop... 44 0.001 2
(DR375292) 105793 CERES-148 Arabidopsis thaliana cDNA clone ... 44 0.001 2
(BU006021) QGG9L18.yg.ab1 QG_EFGHJ lettuce serriola Lactuca ... 46 0.002 2
(FC833010) CBHI4825.fwd CBHI Metridium senile tentacle Metri... 54 0.002 2
(FF577306) TTEEQ42THB Tetrahymena thermophila conjugation cD... 54 0.002 2
(AE014832) Plasmodium falciparum 3D7 chromosome 10 section 4... 44 0.002 2
(FD947780) RS2GQ82TF RS2(RS) Raphanus sativus cDNA 5', mRNA ... 42 0.002 3
(AC124235) Mus musculus chromosome 13, clone RP23-273G24, co... 56 0.002 1
(EF514213) Solanum tuberosum strain P6/210 contig r1, comple... 56 0.002 1
(AL929355) Plasmodium falciparum strain 3D7, chromosome 9; s... 56 0.002 1
(AC131578) Mus musculus chromosome 13 clone RP23-37L15 map 1... 56 0.002 1
(AC112359) Rattus norvegicus clone CH230-242K10, WORKING DRA... 56 0.002 1
(AC181039) Strongylocentrotus purpuratus clone R3-3029B14, W... 56 0.002 1
(EB246766) PEG003-C-229632-501 Normalized Pedal-Pleural Gang... 56 0.002 1
(EB241260) PEG003-C-217803-501 Normalized Pedal-Pleural Gang... 56 0.002 1
(EB240796) PEG003-C-217226-501 Normalized Pedal-Pleural Gang... 56 0.002 1
(EB236863) PEG003-C-222153-501 Normalized Pedal-Pleural Gang... 56 0.002 1
(EB231416) PEG003-C-201969-501 Normalized Pedal-Pleural Gang... 56 0.002 1
(EB224910) PEG002-C-106771-501 Normalized Pedal-Pleural Gang... 56 0.002 1
(FD570768) RS2FI43TF RS2(RS) Raphanus sativus cDNA 5', mRNA ... 42 0.002 3
(FD943660) RS2GQ82JQ RS2(RS) Raphanus sativus cDNA 3', mRNA ... 42 0.003 3
(FE712015) FCMI-PM-245 WSSV infected Penaeus monodon cDNA li... 40 0.003 2
(AM058550) Brassica oleracea var. alboglabra EST, clone AAF... 42 0.004 2
(AV783607) Arabidopsis thaliana cDNA clone:RAFL05-11-G17, 3'... 42 0.005 2
(AV554530) Arabidopsis thaliana cDNA clone:RZ93h11R, 5' end. 42 0.005 2
(AL491824) T. brucei sheared genomic DNA clone 320b05, rever... 34 0.005 3
(AM385867) Brassica oleracea var. alboglabra EST, clone AAF... 42 0.005 2
(AM389229) Brassica oleracea var. alboglabra EST, clone AAF... 42 0.005 2
(BT006569) Arabidopsis thaliana At1g47970 gene, complete cds. 42 0.005 2
(EH414508) OL137R Brassica oleracea var. alboglabra leaf cDN... 42 0.005 2
(AM390759) Brassica oleracea var. alboglabra EST, clone AAF... 42 0.006 2
(ES937547) 46RDOAG_UP_051_A09_01FEB2006_079 Brassica olerace... 42 0.006 2
(BX818414) Arabidopsis thaliana Full-length cDNA Complete se... 42 0.006 2
(AF386997) Arabidopsis thaliana Unknown protein (T2J15.12) m... 42 0.007 2
(BT000731) Arabidopsis thaliana clone RAFL08-11-G02 (R11308)... 42 0.008 2
(CR847998) Zebrafish DNA sequence from clone DKEY-205L13 in ... 54 0.008 1
(BX936437) Zebrafish DNA sequence from clone DKEYP-96G2 in l... 54 0.008 1
(BX247887) Zebrafish DNA sequence from clone CH211-142L10. 54 0.008 1
(BX001038) Zebrafish DNA sequence from clone CH211-12M10 in ... 54 0.008 1
(AB180090) Nestor meridionalis DNA, microsatellite locus Nme... 54 0.008 1
(AC107711) Mus musculus chromosome 14, clone RP23-291I12, co... 54 0.008 1
(AM451088) Vitis vinifera, whole genome shotgun sequence, co... 54 0.008 1
(AC116960) Dictyostelium discoideum chromosome 2 map complem... 54 0.008 1
(AC157976) Strongylocentrotus purpuratus clone R3-4002B10, W... 54 0.008 1
(AC146990) Lytechinus variegatus clone BLV-104N16, WORKING D... 54 0.008 1
(AC141967) Rattus norvegicus clone CH230-356E15, WORKING DRA... 54 0.008 1
(AC133378) Rattus norvegicus clone CH230-58K17, *** SEQUENCI... 54 0.008 1
(AC131204) Rattus norvegicus clone CH230-258P17, WORKING DRA... 54 0.008 1
(AC121435) Rattus norvegicus clone CH230-210I5, *** SEQUENCI... 54 0.008 1
(AC120294) Rattus norvegicus clone CH230-166P16, WORKING DRA... 54 0.008 1
(AC119054) Rattus norvegicus strain Brown Norway clone RP31-... 54 0.008 1
(AC109711) Rattus norvegicus clone CH230-29O9, *** SEQUENCIN... 54 0.008 1
(AC094927) Rattus norvegicus clone CH230-6B23, WORKING DRAFT... 54 0.008 1
(AC094661) Rattus norvegicus clone CH230-5C1, *** SEQUENCING... 54 0.008 1
(CU856137) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 54 0.008 1
(BX942830) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 54 0.008 1
(AC201677) Strongylocentrotus purpuratus clone R3-1014A5, WO... 54 0.008 1
(AC201533) Strongylocentrotus purpuratus clone R3-3090N2, WO... 54 0.008 1
(AC184488) Strongylocentrotus purpuratus clone R3-1014L6, WO... 54 0.008 1
(AC184485) Strongylocentrotus purpuratus clone R3-1014E21, W... 54 0.008 1
(AC184294) Strongylocentrotus purpuratus clone R3-18E9, WORK... 54 0.008 1
(AC184253) Strongylocentrotus purpuratus clone R3-3060D8, WO... 54 0.008 1
(AC181399) Strongylocentrotus purpuratus clone R3-4K03, WORK... 54 0.008 1
(AC179897) Strongylocentrotus purpuratus clone R3-1003N16, W... 54 0.008 1
(AC179098) Strongylocentrotus purpuratus clone R3-4011B7, WO... 54 0.008 1
(AC178870) Strongylocentrotus purpuratus clone R3-27B10, WOR... 54 0.008 1
(AC177307) Strongylocentrotus purpuratus clone R3-46C10, WOR... 54 0.008 1
(AC168417) Strongylocentrotus purpuratus clone R3-4002B10, W... 54 0.008 1
(ET414666) S0205A18_SP6 CHORI-214 Salmo salar genomic clone ... 54 0.008 1
(ET252885) S0245E19_SP6 CHORI-214 Salmo salar genomic clone ... 54 0.008 1
(EK202564) 1095460062420 Global-Ocean-Sampling_GS-31-01-01-1... 54 0.008 1
(DX986629) CHORI103-5K24.TJ CHORI103 Schistosoma mansoni gen... 54 0.008 1
(EL381359) CFFM18803.b1_F22.ab1 CFF(LMS) safflower Carthamus... 54 0.008 1
(CX585946) TTE00029031 Amplicon Express - Conjugative Form T... 54 0.008 1
(FF576363) TTEE335THB Tetrahymena thermophila conjugation cD... 54 0.008 1
(EY319156) CAWX675.rev CAWX Helobdella robusta Primary Early... 54 0.008 1
(EX279799) 1566875_5_F17_075 PY06 Carica papaya cDNA, mRNA s... 54 0.008 1
(EY361287) CAWZ7644.rev CAWZ Helobdella robusta Primary Late... 40 0.009 3
(AC116032) Dictyostelium discoideum chromosome 2 map 4158743... 40 0.012 3
(AC169948) Bos taurus clone CH240-243B14, WORKING DRAFT SEQU... 52 0.018 2
(AE014823) Plasmodium falciparum 3D7 chromosome 14 section 8... 36 0.020 2
(EE525810) 37RDBRH_UP_046_G04_10JUL2004_020 Brassica rapa 37... 40 0.020 2
(AC122097) Rattus norvegicus clone CH230-108A24, WORKING DRA... 42 0.021 2
(AC133413) Rattus norvegicus clone CH230-275C14, WORKING DRA... 40 0.021 2
(AC181593) Strongylocentrotus purpuratus clone R3-1109E11, W... 40 0.021 2
(AC094347) Rattus norvegicus clone CH230-3K2, WORKING DRAFT ... 52 0.022 2
(BJ345808) Dictyostelium discoideum cDNA clone:dda28k20, 3' ... 42 0.024 2
(EY323003) CAWX8756.rev CAWX Helobdella robusta Primary Earl... 40 0.026 2
(EY352104) CAWZ18505.fwd CAWZ Helobdella robusta Primary Lat... 40 0.026 2
(AC174936) Strongylocentrotus purpuratus clone R3-4016H14, W... 44 0.029 4
(CR855265) Zebrafish DNA sequence from clone CH211-195E6 in ... 52 0.032 1
(BV211624) BARC14 Wheat var Chinese Spring Genomic DNA Triti... 52 0.032 1
(AC134577) Mus musculus BAC clone RP24-79G11 from chromosome... 52 0.032 1
(AE014845) Plasmodium falciparum 3D7 chromosome 12, section ... 52 0.032 1

>(BJ406551) Dictyostelium discoideum cDNA clone:dds35l14, 3' end,
single read.
Length = 644

Score = 387 bits (195), Expect(4) = 0.0
Identities = 198/198 (100%)
Strand = Plus / Minus


Query: 131 caatcatttatagataaacaaaaacaaatcaataatgacaatagtaatgaggaatatgat 190
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 644 caatcatttatagataaacaaaaacaaatcaataatgacaatagtaatgaggaatatgat 585


Query: 191 gaaattggaggcacaatcgttgataatgcatcattaaattcaaaagttttatcaccatca 250
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 584 gaaattggaggcacaatcgttgataatgcatcattaaattcaaaagttttatcaccatca 525


Query: 251 ccaaagaaaattcaagatcntggtatagtatctgattctgatcatagtgatgacgacgat 310
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 524 ccaaagaaaattcaagatcntggtatagtatctgattctgatcatagtgatgacgacgat 465


Query: 311 gatgatgataataataat 328
||||||||||||||||||
Sbjct: 464 gatgatgataataataat 447

Score = 190 bits (96), Expect(4) = 0.0
Identities = 99/99 (100%)
Strand = Plus / Minus


Query: 594 caccaataatgcctgtttcaacaccagtaattgaagcacgtcaagttattaaaaagcgtt 653
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 caccaataatgcctgtttcaacaccagtaattgaagcacgtcaagttattaaaaagcgtt 122


Query: 654 cncttcttgatttctttagtaaagttgaaggtgttagaa 692
|||||||||||||||||||||||||||||||||||||||
Sbjct: 121 cncttcttgatttctttagtaaagttgaaggtgttagaa 83

Score = 153 bits (77), Expect(4) = 0.0
Identities = 77/77 (100%)
Strand = Plus / Minus


Query: 393 taggtgacaatgatctatatgataatgatatatatgataatgaagatcctgaggacgata 452
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 382 taggtgacaatgatctatatgataatgatatatatgataatgaagatcctgaggacgata 323


Query: 453 agatcgaaccaatattt 469
|||||||||||||||||
Sbjct: 322 agatcgaaccaatattt 306

Score = 109 bits (55), Expect(4) = 0.0
Identities = 55/55 (100%)
Strand = Plus / Minus


Query: 719 attccaccacaatttgaagaggatagtgatgatgaatcctagaaactgaatctga 773
|||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 56 attccaccacaatttgaagaggatagtgatgatgaatcctagaaactgaatctga 2

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 518,117,387
Number of extensions: 38046991
Number of successful extensions: 4288764
Number of sequences better than 10.0: 4772
Length of query: 773
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 749
Effective length of database: 97,308,875,965
Effective search space: 72884348097785
Effective search space used: 72884348097785
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 7. 2
Homology vs Protein
Query= Contig-U12082-1 (Contig-U12082-1Q) /CSM_Contig/Contig-U12082-1Q.Seq.d
(773 letters)

Database: nrp_B
3,236,559 sequences; 1,051,180,864 total letters

Searching..................................................done

Score E
Sequences producing significant alignments: (bits) Value

BC077923_1(BC077923|pid:none) Xenopus laevis hypothetical LOC494... 33 7.7

>BC077923_1(BC077923|pid:none) Xenopus laevis hypothetical
LOC494592, mRNA (cDNA clone MGC:80856 IMAGE:5514645),
complete cds.
Length = 202

Score = 33.5 bits (75), Expect = 7.7
Identities = 18/45 (40%), Positives = 30/45 (66%)
Frame = +2

Query: 131 QSFIDKQKQINNDNSNEEYDEIGGTIVDNASLNSKVLSPSPKKIQ 265
Q I++Q+ N +N+N++ + GG++ S NSK+LS S K+IQ
Sbjct: 22 QQHIERQEPANINNNNKKKENKGGSM----SKNSKLLSTSAKRIQ 62

Lambda K H
0.318 0.134 0.401

Gapped
Lambda K H
0.267 0.0410 0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3236559
Number of Hits to DB: 480,337,436
Number of extensions: 8103151
Number of successful extensions: 16904
Number of sequences better than 10.0: 1
Number of HSP's gapped: 16884
Number of HSP's successfully gapped: 1
Length of query: 257
Length of database: 1,051,180,864
Length adjustment: 126
Effective length of query: 131
Effective length of database: 643,374,430
Effective search space: 84282050330
Effective search space used: 84282050330
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 31 (16.5 bits)

PSORT

psg: 0.48 gvh: 0.34 alm: 0.48 top: 0.53 tms: 0.00 mit: 0.25 mip: 0.00
nuc: 0.40 erl: 0.00 erm: 0.00 pox: 0.00 px2: 0.00 vac: 0.00 rnp: 0.00
act: 0.00 caa: 0.00 yqr: 0.00 tyr: 0.00 leu: 0.00 gpi: 0.00 myr: 0.00
dna: 0.00 rib: 0.00 bac: 0.00 m1a: 0.00 m1b: 0.00 m2 : 0.00 mNt: 0.00
m3a: 0.00 m3b: 0.00 m_ : 1.00

76.0 %: nuclear
16.0 %: cytoplasmic
4.0 %: cytoskeletal
4.0 %: plasma membrane

>> prediction for Contig-U12082-1 is nuc

VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 0
SH (FL, L) 1
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0