Contig-U12164-1
Contig ID Contig-U12164-1
Contig update 2002.12.18
Contig sequence
>Contig-U12164-1 (Contig-U12164-1Q) /CSM_Contig/Contig-U12164-1Q.Seq.d
AATCTCTGCTTTAATCTTACAATTCTGTTCTTCATGTTCAATTAATCTAT
GTTTACAAATTATGTCTTGTGCTCATTTAACTTTAAATCAATCATTGTCT
AACTATTGTAAAGTCATTGATAATATTCTAAGATCTTTCTACTCAATCGA
TACCAATAAATCAATGGGAATTGGTGGTGGTGAAGGTGATGAAAATAGTA
ATTCCACTGGTACAAACAATACAAATCTCATTAATAAATACTTGATTTTC
CCAAATAATCAT----------ACTTGATTTTCCCAAATAATCATGAAAA
TCCTTCAAGATTATTGAAAACTTGTATCCAAGAGAATTGTCATTTATTAA
TGTATATTATAGCCATTCAAAGTCAACGTAATGATACTTTAAATCTTTCT
GAATTCATTCAAGATGTAATTAATATTACCTTTAGAAATAATCATGAATA
TGAACTTTGGTTATCTTGGATGTTGGTAATTAAATTAATTGAAAATCAAT
CTCAATCAAGTTTTAAAAATAAACATTTAATTCAATCTATTTCAGATTTT
AAAGATTCAATATCATCATATTTTGGAACAGCTGGTAATAAGATAACATC
ATTATTTTCAAATAAACAAAAGACAATAATGGTACAGACTCATTTAGCAG
CAAGAGCATGTTTATTATATTTACAGAGAATATTGGTTCAAAGAAAAGAA
AAAGATGGTGAAAAAACAATCAAAGATGTTCAATTATTAAATCAAATCAC
TGATAGTCTCGTTGATTTGAAAAAGAAATCAACCAATAATATCTATTCAC
CATATCAAGATTTCTTTAATGAATCAGAAAACTTTTTATCACCATTGGTA
GAATTTGAATTCTTTTCAAACTCTGTCATTAGAACTCTTGTACCATTTGC
AAATTATATTTTAAATATTTTATCTTATGAATAAAAAAAAAATAATAATA
ACAATAAATAATAATAATAAAATAATAATA

Gap gap included
Contig length 970
Chromosome number (1..6, M) 4
Chromosome length 5430582
Start point 2015018
End point 2014047
Strand (PLUS/MINUS) MINUS
Number of clones 3
Number of EST 4
Link to clone list U12164
List of clone(s)

est1=SLF274F,1,263
est2=VHN171Z,264,881
est3=VHI203Z,266,957
est4=SLF274Z,432,972
Translated Amino Acid sequence
ISALILQFCSSCSINLCLQIMSCAHLTLNQSLSNYCKVIDNILRSFYSIDTNKSMGIGGG
EGDENSNSTGTNNTNLINKYLIFPNNH---

---LIFPNNHENPSRLLKTCIQENCHLLMYIIAIQSQRNDTLNLSEFIQDVINITFRNNH
EYELWLSWMLVIKLIENQSQSSFKNKHLIQSISDFKDSISSYFGTAGNKITSLFSNKQKT
IMVQTHLAARACLLYLQRILVQRKEKDGEKTIKDVQLLNQITDSLVDLKKKSTNNIYSPY
QDFFNESENFLSPLVEFEFFSNSVIRTLVPFANYILNILSYE*kknnnnnk****nnn


Translated Amino Acid sequence (All Frames)
Frame A:
nlcfnltilffmfn*smftnyvlcsfnfksiiv*ll*sh**yskifllnryq*ingnwww
*r**k**fhwykqyksh**ildfpk*s---

---t*fsqiimkilqdy*klvskriviy*cil*pfkvnvmil*iflnsfkm*lilpleii
mnmnfgylgcw*ln*lkinlnqvlkini*fnlfqilkiqyhhileqlvir*hhyfqinkr
q*wyrli*qqehvyyiyreywfkekkkmvkkqskmfny*ikslivsli*krnqpiisihh
ikislmnqktfyhhw*nlnsfqtlslellyhlqiif*ifylmnkkkiiitinnnnkiii

Frame B:
ISALILQFCSSCSINLCLQIMSCAHLTLNQSLSNYCKVIDNILRSFYSIDTNKSMGIGGG
EGDENSNSTGTNNTNLINKYLIFPNNH---

---ldfpk*s*ksfkiienlyprelsfinvyyshskst**yfksf*ihsrcn*yyl*k*s
*i*tlvildvgn*in*ksisikf*k*tfnsiyfrf*rfniiifwnsw**dniiifk*tkd
nngtdsfssksmfiiftenigskkrkrw*knnqrcsiiksnh**sr*fekeinq*ylfti
srfl**irklfitigri*ilfklch*nscticklyfkyfil*ikkk***q*iiiik**

Frame C:
sll*synsvlhvqliyvyklclvli*l*inhcltivksliif*dlstqsipinqwelvvv
kvmkiviplvqtiqislint*fsqii---

---LIFPNNHENPSRLLKTCIQENCHLLMYIIAIQSQRNDTLNLSEFIQDVINITFRNNH
EYELWLSWMLVIKLIENQSQSSFKNKHLIQSISDFKDSISSYFGTAGNKITSLFSNKQKT
IMVQTHLAARACLLYLQRILVQRKEKDGEKTIKDVQLLNQITDSLVDLKKKSTNNIYSPY
QDFFNESENFLSPLVEFEFFSNSVIRTLVPFANYILNILSYE*kknnnnnk****nnn

own update 2004. 6.10
Homology vs CSM-cDNA
Query= Contig-U12164-1 (Contig-U12164-1Q)
/CSM_Contig/Contig-U12164-1Q.Seq.d
(980 letters)

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


Score E
Sequences producing significant alignments: (bits) Value

Contig-U12164-1 (Contig-U12164-1Q) /CSM_Contig/Conti... 1306 0.0
Contig-U14122-1 (Contig-U14122-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U13543-1 (Contig-U13543-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U13103-1 (Contig-U13103-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U12522-1 (Contig-U12522-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U12036-1 (Contig-U12036-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U12019-1 (Contig-U12019-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U11650-1 (Contig-U11650-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U11608-1 (Contig-U11608-1Q) /CSM_Contig/Conti... 36 0.069
Contig-U11254-1 (Contig-U11254-1Q) /CSM_Contig/Conti... 36 0.069

>Contig-U12164-1 (Contig-U12164-1Q) /CSM_Contig/Contig-U12164-1Q.Seq.d
Length = 980

Score = 1306 bits (659), Expect = 0.0
Identities = 689/689 (100%)
Strand = Plus / Plus


Query: 1 aatctctgctttaatcttacaattctgttcttcatgttcaattaatctatgtttacaaat 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1 aatctctgctttaatcttacaattctgttcttcatgttcaattaatctatgtttacaaat 60


Query: 61 tatgtcttgtgctcatttaactttaaatcaatcattgtctaactattgtaaagtcattga 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61 tatgtcttgtgctcatttaactttaaatcaatcattgtctaactattgtaaagtcattga 120


Query: 121 taatattctaagatctttctactcaatcgataccaataaatcaatgggaattggtggtgg 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 taatattctaagatctttctactcaatcgataccaataaatcaatgggaattggtggtgg 180


Query: 181 tgaaggtgatgaaaatagtaattccactggtacaaacaatacaaatctcattaataaata 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 tgaaggtgatgaaaatagtaattccactggtacaaacaatacaaatctcattaataaata 240


Query: 241 cttgattttcccaaataatcatnnnnnnnnnnacttgattttcccaaataatcatgaaaa 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 cttgattttcccaaataatcatnnnnnnnnnnacttgattttcccaaataatcatgaaaa 300


Query: 301 tccttcaagattattgaaaacttgtatccaagagaattgtcatttattaatgtatattat 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 tccttcaagattattgaaaacttgtatccaagagaattgtcatttattaatgtatattat 360


Query: 361 agccattcaaagtcaacgtaatgatactttaaatctttctgaattcattcaagatgtaat 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 agccattcaaagtcaacgtaatgatactttaaatctttctgaattcattcaagatgtaat 420


Query: 421 taatattacctttagaaataatcatgaatatgaactttggttatcttggatgttggtaat 480
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 taatattacctttagaaataatcatgaatatgaactttggttatcttggatgttggtaat 480


Query: 481 taaattaattgaaaatcaatctcaatcaagttttaaaaataaacatttaattcaatctat 540
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 taaattaattgaaaatcaatctcaatcaagttttaaaaataaacatttaattcaatctat 540


Query: 541 ttcagattttaaagattcaatatcatcatattttggaacagctggtaataagataacatc 600
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541 ttcagattttaaagattcaatatcatcatattttggaacagctggtaataagataacatc 600


Query: 601 attattttcaaataaacaaaagacaataatggtacagactcatttagcagcaagagcatg 660
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 601 attattttcaaataaacaaaagacaataatggtacagactcatttagcagcaagagcatg 660


Query: 661 tttattatatttacagagaatattggttc 689
|||||||||||||||||||||||||||||
Sbjct: 661 tttattatatttacagagaatattggttc 689


Score = 422 bits (213), Expect = e-118
Identities = 213/213 (100%)
Strand = Plus / Plus


Query: 717 caatcaaagatgttcaattattaaatcaaatcactgatagtctcgttgatttgaaaaaga 776
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 717 caatcaaagatgttcaattattaaatcaaatcactgatagtctcgttgatttgaaaaaga 776


Query: 777 aatcaaccaataatatctattcaccatatcaagatttctttaatgaatcagaaaactttt 836
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 777 aatcaaccaataatatctattcaccatatcaagatttctttaatgaatcagaaaactttt 836


Query: 837 tatcaccattggtagaatttgaattcttttcaaactctgtcattagaactcttgtaccat 896
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 837 tatcaccattggtagaatttgaattcttttcaaactctgtcattagaactcttgtaccat 896


Query: 897 ttgcaaattatattttaaatattttatcttatg 929
|||||||||||||||||||||||||||||||||
Sbjct: 897 ttgcaaattatattttaaatattttatcttatg 929


>Contig-U14122-1 (Contig-U14122-1Q) /CSM_Contig/Contig-U14122-1Q.Seq.d
Length = 681

Score = 36.2 bits (18), Expect = 0.069
Identities = 18/18 (100%)
Strand = Plus / Plus


Query: 671 ttacagagaatattggtt 688
||||||||||||||||||
Sbjct: 222 ttacagagaatattggtt 239


>Contig-U13543-1 (Contig-U13543-1Q) /CSM_Contig/Contig-U13543-1Q.Seq.d
Length = 600

Score = 36.2 bits (18), Expect = 0.069
Identities = 24/26 (92%)
Strand = Plus / Minus


Query: 171 ttggtggtggtgaaggtgatgaaaat 196
||||||||||||| | ||||||||||
Sbjct: 203 ttggtggtggtgatgatgatgaaaat 178


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: 20,061
Number of Sequences: 6905
Number of extensions: 20061
Number of successful extensions: 2455
Number of sequences better than 10.0: 255
length of query: 980
length of database: 5,674,871
effective HSP length: 16
effective length of query: 964
effective length of database: 5,564,391
effective search space: 5364072924
effective search space used: 5364072924
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-U12164-1 (Contig-U12164-1Q) /CSM_Contig/Contig-U12164-1Q.Seq.d
(980 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

(BJ444862) Dictyostelium discoideum cDNA clone:ddv57m17, 3' ... 815 0.0 2
(BJ441546) Dictyostelium discoideum cDNA clone:ddv47e02, 3' ... 799 0.0 2
(AU052889) Dictyostelium discoideum slug cDNA, clone SLF274. 494 0.0 2
(AU061658) Dictyostelium discoideum slug cDNA, clone SLF274. 519 e-143 1
(AC116977) Dictyostelium discoideum chromosome 2 map 5515173... 36 4e-05 15
(AC116305) Dictyostelium discoideum chromosome 2 map 1005175... 36 8e-04 16
(AC083825) Homo sapiens chromosome 3 clone RP11-208N8, WORKI... 34 0.040 10
(AF099925) Caenorhabditis elegans cosmid K01A2, complete seq... 52 0.040 1
(AC006765) Caenorhabditis elegans clone Y43H11, *** SEQUENCI... 52 0.040 1
(DW344358) PP_LEc0019B03f Peach shoot Prunus persica cDNA cl... 52 0.040 1
(DW343957) PP_LEc0017F12f Peach shoot Prunus persica cDNA cl... 52 0.040 1
(AX346417) Sequence 1488 from Patent WO0200928. 44 0.043 2
(AC212313) Solanum lycopersicum chromosome 07 clone C07SLm00... 42 0.051 7
(AC210366) Solanum lycopersicum chromosome 7 clone C07HBa030... 42 0.079 6
(AC136572) Rattus norvegicus clone CH230-22E17, *** SEQUENCI... 36 0.085 6
(AC091165) Homo sapiens chromosome 8, clone RP11-366G13, com... 38 0.14 5
(AC011096) Homo sapiens clone RP11-2D21, WORKING DRAFT SEQUE... 40 0.19 5
(AC108782) Mus musculus chromosome 8, clone RP23-350C11, com... 38 0.21 6
(AC116986) Dictyostelium discoideum chromosome 2 map 2234041... 34 0.23 13
(BX784393) Zebrafish DNA sequence from clone DKEY-126N3 in l... 48 0.25 3
(AC165023) Bos taurus clone CH240-167G1, WORKING DRAFT SEQUE... 42 0.44 8
(AC007625) Genomic sequence of Homo sapiens clone 2314F2 fro... 36 0.45 7
(AC072063) Homo sapiens BAC clone RP11-697B15 from 7, comple... 38 0.53 4
(CP000061) Aster yellows witches'-broom phytoplasma AYWB, co... 36 0.55 12
(CU855866) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f... 44 0.61 6
(CT025874) Zebrafish DNA sequence from clone DKEY-170I22 in ... 48 0.63 1
(CR812957) Zebrafish DNA sequence from clone DKEY-41L5 in li... 48 0.63 1
(CR382298) Zebrafish DNA sequence from clone DKEY-25J19 in l... 48 0.63 1
(AC133728) Rattus norvegicus clone CH230-181L15, WORKING DRA... 48 0.63 1
(AC099250) Rattus norvegicus clone CH230-167E1, WORKING DRAF... 48 0.63 1
(CT025898) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS... 48 0.63 1
(AP007931) Lotus japonicus genomic DNA, chromosome 4, clone:... 48 0.63 1
(AC167793) Bos taurus clone CH240-216G5, WORKING DRAFT SEQUE... 48 0.63 1
(AZ193664) SP_1023_B2_C12_SP6E Strongylocentrotus purpuratus... 48 0.63 1
(AC116984) Dictyostelium discoideum chromosome 2 map 2567470... 32 0.64 16
(AC157536) Medicago truncatula clone mth2-123a2, complete se... 38 0.65 5
(DV778670) Hw_Fat_9_D10 Bos taurus CF-24-HW fat cDNA library... 34 0.66 3
(AE017263) Mesoplasma florum L1 complete genome. 32 0.70 18
(AC114263) Dictyostelium discoideum chromosome 2 map 215673-... 32 0.71 7
(EI738538) CHORI5143E20TF BAC library from the primary breas... 40 0.74 3
(EJ832991) 1093017587572 Global-Ocean-Sampling_GS-30-02-01-1... 36 0.75 3
(DQ642846) Plasmodium falciparum HB3 apicoplast, complete ge... 44 1.00 3
(AC017065) Homo sapiens chromosome 8 clone RP11-366G13, WORK... 38 1.1 4
(AC120327) Rattus norvegicus clone CH230-61A15, *** SEQUENCI... 38 1.1 7
(EJ328201) 1092963408069 Global-Ocean-Sampling_GS-28-01-01-1... 34 1.3 3
(AL161631) Human DNA sequence from clone RP11-70K10 on chrom... 40 1.3 4
(AC192094) Taeniopygia guttata chromosome UNK clone TG_Ba-29... 40 1.3 5
(AC177379) Strongylocentrotus purpuratus clone R3-1031O21, W... 32 1.3 2
(M64570) Vaccinia virus cDNA of the 5' end of the 5' polyade... 42 1.4 2
(BD061520) Genome DNA of symbiotic bacteria of aphid. 38 1.4 15
(AR409405) Sequence 1 from patent US 6632935. 38 1.4 15
(BA000003) Buchnera aphidicola str. APS (Acyrthosiphon pisum... 38 1.4 15
(DQ784707) Kaniska canace voucher jshao2005042 16S ribosomal... 32 1.4 3
(AC118148) Rattus norvegicus clone CH230-382K14, *** SEQUENC... 42 1.4 3
(M64569) Vaccinia virus cDNA of the 5' end of the 5' polyade... 42 1.4 2
(AC142506) Medicago truncatula chromosome 8 clone mth2-25k8,... 40 1.4 4
(AC180286) Strongylocentrotus purpuratus clone R3-3121K19, W... 36 1.6 5
(AC024106) Homo sapiens 3 BAC RP11-33K7 (Roswell Park Cancer... 36 1.6 6
(EJ702395) 1092956040356 Global-Ocean-Sampling_GS-30-02-01-1... 34 1.7 2
(ER451209) 1092963850305 Global-Ocean-Sampling_GS-35-01-01-1... 34 1.7 2
(EJ719664) 1092959443014 Global-Ocean-Sampling_GS-30-02-01-1... 34 1.7 2
(EJ620507) 1092963056053 Global-Ocean-Sampling_GS-29-01-01-1... 34 1.7 2
(EJ633690) 1092970301452 Global-Ocean-Sampling_GS-29-01-01-1... 34 1.7 2
(DR392367) USDA-FP_152299 Adult Alate Aphis gossypii (WHAGA)... 36 1.7 2
(AL844509) Plasmodium falciparum chromosome 13. 46 1.7 17
(DR389810) USDA-FP_149630 Adult Alate Aphis gossypii (WHAGA)... 36 1.8 2
(FH481989) CHO_OF4848xi02f1.ab1 CHO_OF4 Nicotiana tabacum ge... 34 1.9 3
(AL049181) Plasmodium falciparum DNA *** SEQUENCING IN PROGR... 32 2.0 11
(EJ677283) 1092955094231 Global-Ocean-Sampling_GS-30-02-01-1... 38 2.0 2
(CU469464) Candidatus Phytoplasma mali strain AT complete ch... 38 2.0 11
(CP000743) Methanococcus aeolicus Nankai-3, complete genome. 34 2.1 18
(M64589) Vaccinia virus XbaI-site-bounded symmetrical nucleo... 42 2.1 2
(CR788308) Zebrafish DNA sequence from clone DKEY-192K19 in ... 40 2.1 7
(AC116963) Dictyostelium discoideum chromosome 2 map 4657875... 36 2.1 11
(AC024366) Homo sapiens chromosome 6 clone RP11-5O15 map 6, ... 38 2.2 5
(BZ206624) CH230-487O8.TJ CHORI-230 Segment 2 Rattus norvegi... 32 2.2 3
(AC169516) Medicago truncatula chromosome 7 BAC clone mth2-8... 38 2.3 5
(EK412442) 1095505203738 Global-Ocean-Sampling_GS-31-01-01-1... 36 2.3 2
(CP000942) Ureaplasma parvum serovar 3 str. ATCC 27815, comp... 34 2.3 15
(AC115598) Dictyostelium discoideum chromosome 2 map 581427-... 34 2.3 9
(M14004) Vaccinia virus telomere. 42 2.4 2
(CR382297) Zebrafish DNA sequence from clone CH211-195D9 in ... 40 2.4 3
(AC010577) Drosophila melanogaster clone BACR22J20, complete... 32 2.4 8
(M29271) Vaccinia virus concatemer junction. 42 2.5 2
(BX005084) Mouse DNA sequence from clone RP24-468M3 on chrom... 46 2.5 1
(AL672015) Mouse DNA sequence from clone RP23-154O12 on chro... 46 2.5 1
(AC126036) Mus musculus BAC clone RP24-184E20 from chromosom... 46 2.5 1
(AC113464) Mus musculus chromosome 8, clone RP23-183P1, comp... 46 2.5 1
(AC193566) Rhesus Macaque BAC CH250-236H10 () complete sequ... 46 2.5 1
(AP006207) Homo sapiens genomic DNA, chromosome 8, clone:RP1... 46 2.5 1
(AC211781) Homo sapiens FOSMID clone ABC9-44035000P12 from c... 46 2.5 1
(AC105419) Homo sapiens BAC clone RP11-502O9 from 2, complet... 46 2.5 1
(AC091050) Homo sapiens chromosome 8, clone RP11-242F4, comp... 46 2.5 1
(AC079193) Homo sapiens chromosome 8, clone RP11-468H14, com... 46 2.5 1
(AB020859) Homo sapiens genomic DNA of 8p21.3-p22 anti-oncog... 46 2.5 1
(AC160541) Mus musculus chromosome 1 clone RP23-144F15 map 1... 46 2.5 1
(AC109089) Rattus norvegicus clone CH230-202E3, *** SEQUENCI... 46 2.5 1
(AC097391) Rattus norvegicus clone CH230-9E23, *** SEQUENCIN... 46 2.5 1
(AC094280) Rattus norvegicus clone CH230-3G22, WORKING DRAFT... 46 2.5 1
(AC079008) Homo sapiens chromosome 4 clone RP11-163O21 map 4... 46 2.5 1

>(BJ444862) Dictyostelium discoideum cDNA clone:ddv57m17, 3' end,
single read.
Length = 618

Score = 815 bits (411), Expect(2) = 0.0
Identities = 415/417 (99%)
Strand = Plus / Minus


Query: 273 acttgattttcccaaataatcatgaaaatccttcaagattattgaaaacttgtatccaag 332
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 618 acttgattttcccaaataatcatgaaaatccttcaagattattgaaaacttgtatccaag 559


Query: 333 agaattgtcatttattaatgtatattatagccattcaaagtcaacgtaatgatactttaa 392
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 558 agaattgtcatttattaatgtatattatagccattcaaagtcaacgtaatgatactttaa 499


Query: 393 atctttctgaattcattcaagatgtaattaatattacctttagaaataatcatgaatatg 452
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 498 atctttctgaattcattcaagatgtaattaatattacctttagaaataatcatgaatatg 439


Query: 453 aactttggttatcttggatgttggtaattaaattaattgaaaatcaatctcaatcaagtt 512
|||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 438 aactttggttatcttggatgttggtaattaaattaattgaaaatcaatntcaatcaagtt 379


Query: 513 ttaaaaataaacatttaattcaatctatttcagattttaaagattcaatatcatcatatt 572
|||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 378 ttaaaaataaacatttaattcaatntatttcagattttaaagattcaatatcatcatatt 319


Query: 573 ttggaacagctggtaataagataacatcattattttcaaataaacaaaagacaataatgg 632
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 318 ttggaacagctggtaataagataacatcattattttcaaataaacaaaagacaataatgg 259


Query: 633 tacagactcatttagcagcaagagcatgtttattatatttacagagaatattggttc 689
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 258 tacagactcatttagcagcaagagcatgtttattatatttacagagaatattggttc 202

Score = 327 bits (165), Expect(2) = 0.0
Identities = 171/174 (98%)
Strand = Plus / Minus


Query: 717 caatcaaagatgttcaattattaaatcaaatcactgatagtctcgttgatttgaaaaaga 776
||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 174 caatcaaagatgttcaattattaaatcaaatcactgatagtntcgttgatttgaaaaaga 115


Query: 777 aatcaaccaataatatctattcaccatatcaagatttctttaatgaatcagaaaactttt 836
|||||||||||||||| |||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 114 aatcaaccaataatatntattcaccatatcaagatttntttaatgaatcagaaaactttt 55


Query: 837 tatcaccattggtagaatttgaattcttttcaaactctgtcattagaactcttg 890
||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 54 tatcaccattggtagaatttgaattcttttcaaactctgtcattagaactcttg 1

Score = 46.1 bits (23), Expect(2) = 0.43
Identities = 23/23 (100%)
Strand = Plus / Minus


Query: 240 acttgattttcccaaataatcat 262
|||||||||||||||||||||||
Sbjct: 618 acttgattttcccaaataatcat 596

Score = 26.3 bits (13), Expect(2) = 0.43
Identities = 13/13 (100%)
Strand = Plus / Minus


Query: 286 aaataatcatgaa 298
|||||||||||||
Sbjct: 455 aaataatcatgaa 443

Lambda K H
1.37 0.711 1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 1,299,043,924
Number of extensions: 87680651
Number of successful extensions: 7911786
Number of sequences better than 10.0: 299
Length of query: 980
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 956
Effective length of database: 97,308,875,965
Effective search space: 93027285422540
Effective search space used: 93027285422540
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)

protein update 2009. 7. 2
Homology vs Protein
Query= Contig-U12164-1 (Contig-U12164-1Q) /CSM_Contig/Contig-U12164-1Q.Seq.d
(980 letters)

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

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

Score E
Sequences producing significant alignments: (bits) Value

AF325215_2(AF325215|pid:none) Lymphocytic choriomeningitis virus... 39 0.27
AE014187_324(AE014187|pid:none) Plasmodium falciparum 3D7 chromo... 37 1.0
AE014187_162(AE014187|pid:none) Plasmodium falciparum 3D7 chromo... 37 1.4
EU480452_2(EU480452|pid:none) Lymphocytic choriomeningitis virus... 36 1.8
AF325214_2(AF325214|pid:none) Lymphocytic choriomeningitis virus... 36 2.3
(P09992) RecName: Full=Nucleoprotein; AltName: Full=Nucleocapsid... 35 3.0
(P08696) RecName: Full=Bacteriocin BCN5; &A30481(A30481;S03779)... 35 5.1
Y16308_1(Y16308|pid:none) Lymphocytic choriomeningitis virus gen... 35 5.1
CP001401_388(CP001401|pid:none) Sulfolobus islandicus M.16.27, c... 35 5.1
AE001362_187(AE001362|pid:none) Plasmodium falciparum 3D7 chromo... 35 5.1
AJ390514_1(AJ390514|pid:none) Candida albicans ORF DNA, clone 48... 35 5.1
FM992692_161(FM992692|pid:none) Candida dubliniensis CD36 chromo... 34 6.7
CP000764_1792(CP000764|pid:none) Bacillus cereus subsp. cytotoxi... 34 6.7
AE015450_332(AE015450|pid:none) Mycoplasma gallisepticum strain ... 34 6.7
DQ837165_69(DQ837165|pid:none) Ecotropis obliqua NPV strain A1, ... 34 6.7
(Q92351) RecName: Full=Spindle pole body protein pcp1; &AF34850... 34 8.8
AY701528_10(AY701528|pid:none) Campylobacter jejuni plasmid pCG8... 34 8.8
BX294151_109(BX294151|pid:none) Rhodopirellula baltica SH 1 comp... 34 8.8
AE014188_497(AE014188|pid:none) Plasmodium falciparum 3D7 chromo... 34 8.8

>AF325215_2(AF325215|pid:none) Lymphocytic choriomeningitis virus
strain CH-5871 glycoprotein precursor (GP) and
nucleoprotein (NP) genes, complete cds.
Length = 558

Score = 38.9 bits (89), Expect = 0.27
Identities = 27/78 (34%), Positives = 42/78 (53%)
Frame = +2

Query: 671 LQRILVQRKEKDGEKTIKDVQLLNQITDSLVDLKKKSTNNIYSPYQDFFNESENFLSPLV 850
+QRI+ RKEK +K ++ ++ LNQ SLVDLK ST N+ + +E +S
Sbjct: 50 VQRIM--RKEKRDDKDLQRLRSLNQTVYSLVDLKSTSTKNVLKVGR---LSAEELMSLAA 104

Query: 851 EFEFFSNSVIRTLVPFAN 904
+ E +IR+ P A+
Sbjct: 105 DLEKLKTKIIRSERPQAS 122

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: 1,306,153,276
Number of extensions: 23236723
Number of successful extensions: 60360
Number of sequences better than 10.0: 19
Number of HSP's gapped: 59987
Number of HSP's successfully gapped: 19
Length of query: 326
Length of database: 1,051,180,864
Length adjustment: 129
Effective length of query: 197
Effective length of database: 633,664,753
Effective search space: 124831956341
Effective search space used: 124831956341
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: 32 (16.9 bits)

PSORT

psg: 0.90 gvh: 0.55 alm: 0.36 top: 0.57 tms: 0.00 mit: 0.36 mip: 0.00
nuc: 0.00 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

32.0 %: nuclear
28.0 %: cytoplasmic
28.0 %: mitochondrial
4.0 %: cytoskeletal
4.0 %: vacuolar
4.0 %: extracellular, including cell wall

>> prediction for Contig-U12164-1 is nuc

VS (DIR, S) 0
VH (FL, L) 2
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 1
SS (DIR, S) 0
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0