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Dicty_cDB
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U13280-1
Contig ID Contig-U13280-1
Contig update 2002.12.18
Contig sequence 
>Contig-U13280-1 (Contig-U13280-1Q) /CSM_Contig/Contig-U13280-1Q.Seq.d
ATCCTAAAATTTGGTATTGTAAAATCAAGTAATTTGATATGTTTAAATAG
TATTTCAACAAAATTGGCAGGAAGCACAATTTCAGATTATTGCACTAATG
AATTAACAGTAAATTTATATTCATTTTCATATAGCACAGTATGTAATGGA
ACAACTCTAACTCAACTAACTCTTAGTACCATTTTATACAATAATAAAAG
TTTGTCACATACTGAATTAAATTGTTTTGAAACAACATTAGAATCACTAA
TTTTAAATAGTATTTTAATACATGAAGATTCCTTTGGAGTTGAAAACCAA
CCAGCAATTGCTGATACAATTACTTTAAGTAATGTTACATTCATAGATGG
AAGATTTACATCTCTTGGAAATTCTTTACCATTTAATACAAGCACTTTAA
ACATTTTTAATCTTGGAACATCAAATTTACTCTTTATTGATTTTTTAGCT
ATTAAAAACCTAAAAACATACTATACAATTAATTTTAATTCTTTAGAACC
TTATCCAACATATACCAATAGTTTAACTAGCCCAGACTTTAAAATGGAAA
AAATAACAATGGCTTTATCAAACATTCCTTCTTTTTTAAATGTTGTAGTT
GACTATCTANNNNNNNNN
Gap no gap
Contig length 618
Chromosome number (1..6, M) 4
Chromosome length 5430582
Start point 1103604
End point 1104212
Strand (PLUS/MINUS) PLUS
Number of clones 1
Number of EST 1
Link to clone list U13280
List of clone(s) 

est1=SHG715F,1,609
Translated Amino Acid sequence 
ILKFGIVKSSNLICLNSISTKLAGSTISDYCTNELTVNLYSFSYSTVCNGTTLTQLTLST
ILYNNKSLSHTELNCFETTLESLILNSILIHEDSFGVENQPAIADTITLSNVTFIDGRFT
SLGNSLPFNTSTLNIFNLGTSNLLFIDFLAIKNLKTYYTINFNSLEPYPTYTNSLTSPDF
KMEKITMALSNIPSFLNVVVDYLXXX
Translated Amino Acid sequence (All Frames) 
Frame A:
ILKFGIVKSSNLICLNSISTKLAGSTISDYCTNELTVNLYSFSYSTVCNGTTLTQLTLST
ILYNNKSLSHTELNCFETTLESLILNSILIHEDSFGVENQPAIADTITLSNVTFIDGRFT
SLGNSLPFNTSTLNIFNLGTSNLLFIDFLAIKNLKTYYTINFNSLEPYPTYTNSLTSPDF
KMEKITMALSNIPSFLNVVVDYLXXX


Frame B:
s*nlvl*nqvi*yv*ivfqqnwqeaqfqiialmn*q*iyihfhiaqyvmeql*ln*llvp
fytiikvchiln*ivlkqh*nh*f*ivf*ymkiplelktnqqlliqll*vmlhs*medlh
lleilyhliqal*tflilehqiysllif*llkt*khtiqlilil*nliqhipiv*laqtl
kwkk*qwlyqtfllf*ml*ltixxx


Frame C:
pkiwyckik*fdmfk*yfnkigrkhnfrllh**inskfififi*hsm*wnnsnstns*yh
fiq**kfvty*iklf*nniritnfk*yfnt*rflws*kptsnc*ynyfk*cyihrwkiyi
swkffti*ykhfkhf*swnikftly*ffsy*kpknilyn*f*ffrtlsniyq*fn*prl*
ngknnngfikhsfffkccs*lsxxx
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U13280-1 (Contig-U13280-1Q)
/CSM_Contig/Contig-U13280-1Q.Seq.d
         (618 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U13280-1 (Contig-U13280-1Q) /CSM_Contig/Conti...  1207  0.0
Contig-U11494-1 (Contig-U11494-1Q) /CSM_Contig/Conti...    38  0.011
Contig-U11835-1 (Contig-U11835-1Q) /CSM_Contig/Conti...    36  0.043
Contig-U04863-1 (Contig-U04863-1Q) /CSM_Contig/Conti...    36  0.043
Contig-U14090-1 (Contig-U14090-1Q) /CSM_Contig/Conti...    34  0.17
Contig-U13721-1 (Contig-U13721-1Q) /CSM_Contig/Conti...    34  0.17
Contig-U12656-1 (Contig-U12656-1Q) /CSM_Contig/Conti...    34  0.17
Contig-U11659-1 (Contig-U11659-1Q) /CSM_Contig/Conti...    34  0.17
Contig-U08029-1 (Contig-U08029-1Q) /CSM_Contig/Conti...    34  0.17
Contig-U06117-1 (Contig-U06117-1Q) /CSM_Contig/Conti...    34  0.17

>Contig-U13280-1 (Contig-U13280-1Q) /CSM_Contig/Contig-U13280-1Q.Seq.d
          Length = 618

 Score = 1207 bits (609), Expect = 0.0
 Identities = 609/609 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   atcctaaaatttggtattgtaaaatcaagtaatttgatatgtttaaatagtatttcaaca 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   atcctaaaatttggtattgtaaaatcaagtaatttgatatgtttaaatagtatttcaaca 60

                                                                       
Query: 61  aaattggcaggaagcacaatttcagattattgcactaatgaattaacagtaaatttatat 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  aaattggcaggaagcacaatttcagattattgcactaatgaattaacagtaaatttatat 120

                                                                       
Query: 121 tcattttcatatagcacagtatgtaatggaacaactctaactcaactaactcttagtacc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 tcattttcatatagcacagtatgtaatggaacaactctaactcaactaactcttagtacc 180

                                                                       
Query: 181 attttatacaataataaaagtttgtcacatactgaattaaattgttttgaaacaacatta 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 attttatacaataataaaagtttgtcacatactgaattaaattgttttgaaacaacatta 240

                                                                       
Query: 241 gaatcactaattttaaatagtattttaatacatgaagattcctttggagttgaaaaccaa 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 gaatcactaattttaaatagtattttaatacatgaagattcctttggagttgaaaaccaa 300

                                                                       
Query: 301 ccagcaattgctgatacaattactttaagtaatgttacattcatagatggaagatttaca 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 ccagcaattgctgatacaattactttaagtaatgttacattcatagatggaagatttaca 360

                                                                       
Query: 361 tctcttggaaattctttaccatttaatacaagcactttaaacatttttaatcttggaaca 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 tctcttggaaattctttaccatttaatacaagcactttaaacatttttaatcttggaaca 420

                                                                       
Query: 421 tcaaatttactctttattgattttttagctattaaaaacctaaaaacatactatacaatt 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 tcaaatttactctttattgattttttagctattaaaaacctaaaaacatactatacaatt 480

                                                                       
Query: 481 aattttaattctttagaaccttatccaacatataccaatagtttaactagcccagacttt 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 aattttaattctttagaaccttatccaacatataccaatagtttaactagcccagacttt 540

                                                                       
Query: 541 aaaatggaaaaaataacaatggctttatcaaacattccttcttttttaaatgttgtagtt 600
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541 aaaatggaaaaaataacaatggctttatcaaacattccttcttttttaaatgttgtagtt 600

                    
Query: 601 gactatcta 609
           |||||||||
Sbjct: 601 gactatcta 609


>Contig-U11494-1 (Contig-U11494-1Q) /CSM_Contig/Contig-U11494-1Q.Seq.d
          Length = 1307

 Score = 38.2 bits (19), Expect = 0.011
 Identities = 22/23 (95%)
 Strand = Plus / Plus

                                  
Query: 43  ttaaatagtatttcaacaaaatt 65
           |||||||||| ||||||||||||
Sbjct: 91  ttaaatagtaattcaacaaaatt 113


>Contig-U11835-1 (Contig-U11835-1Q) /CSM_Contig/Contig-U11835-1Q.Seq.d
          Length = 1648

 Score = 36.2 bits (18), Expect = 0.043
 Identities = 21/22 (95%)
 Strand = Plus / Minus

                                 
Query: 16  attgtaaaatcaagtaatttga 37
           ||||||||||||| ||||||||
Sbjct: 283 attgtaaaatcaattaatttga 262


  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: 10,792
Number of Sequences: 6905
Number of extensions: 10792
Number of successful extensions: 1144
Number of sequences better than 10.0: 116
length of query: 618
length of database: 5,674,871
effective HSP length: 16
effective length of query: 602
effective length of database: 5,564,391
effective search space: 3349763382
effective search space used: 3349763382
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 2008.12. 7
Homology vs DNA 
Query= Contig-U13280-1 (Contig-U13280-1Q) /CSM_Contig/Contig-U13280-1Q.Seq.d
         (618 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

(BJ394968) Dictyostelium discoideum cDNA clone:dds37n03, 5' ...  1207   0.0    1
(AC148992) Mus musculus BAC clone RP24-337C15 from 10, compl...    44   3e-04  5
(CP000263) Buchnera aphidicola str. Cc (Cinara cedri), compl...    36   0.008  11
(CP000048) Borrelia hermsii DAH, complete genome.                  38   0.012  13
(AE016826) Buchnera aphidicola str. Bp (Baizongia pistaciae)...    36   0.058  12
(CR847969) Zebrafish DNA sequence from clone CH211-264G11 in...    36   0.060  6
(DU921317) 343427 Tomato EcoRI BAC Library Solanum lycopersi...    50   0.095  1
(BA000026) Mycoplasma penetrans HF-2 DNA, complete genome.         32   0.11   20
(ER980597) MUGQ_CH252P303J07T7_CP484_024 CHORI-252 Vervet Mo...    44   0.19   2
(EK079464) 1092961089463 Global-Ocean-Sampling_GS-31-01-01-1...    36   0.21   3
(AP010264) Solanum lycopersicum DNA, chromosome 8, clone: C0...    42   0.25   3
(AC117176) Dictyostelium discoideum chromosome 2 map 5018074...    34   0.28   6
(AE017308) Mycoplasma mobile 163K complete genome.                 36   0.35   12
(AL772302) Mouse DNA sequence from clone RP23-450F9 on chrom...    48   0.38   1
(AC101401) Mus musculus clone RP23-120D14, LOW-PASS SEQUENCE...    48   0.38   1
(ED213381) AUAC-aav62c05.g1 Ascaris suum whole genome shotgu...    48   0.38   1
(AC152349) Medicago truncatula clone mth2-52p10, complete se...    38   0.44   8
(CR925678) Ehrlichia ruminantium str. Welgevonden, complete ...    42   0.46   14
(CR767821) Ehrlichia ruminantium strain Welgevonden, complet...    42   0.47   14
(AC193195) Pan troglodytes BAC clone CH251-634H3 from chromo...    36   0.60   6
(CU915516) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    32   0.61   9
(BX548248) Zebrafish DNA sequence from clone DKEY-245P14 in ...    36   0.64   5
(DH773296) Rattus norvegicus DNA, BAC clone: RNB1-358P20, 5'...    44   0.65   2
(FF308802) 279373147 Pea aphid whole body normalized full le...    32   0.66   3
(FG650527) G1142P323RA13.T0 Anolis carolinensis pooled norma...    38   0.79   2
(CP000942) Ureaplasma parvum serovar 3 str. ATCC 27815, comp...    36   0.82   14
(FG650480) G1142P323FA13.T0 Anolis carolinensis pooled norma...    38   0.83   2
(DU931832) 356084 Tomato EcoRI BAC Library Solanum lycopersi...    36   0.84   2
(CR848702) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    32   0.88   6
(AC115536) Canis familiaris clone RP81-299N4, WORKING DRAFT ...    44   0.89   5
(AC010888) Homo sapiens BAC clone RP11-418N16 from 2, comple...    36   1.0    6
(EC291472) BRAINF089693H14 POSSUM_01-POSSUM-C-BRAIN-2KB Tric...    34   1.0    3
(BX470210) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    36   1.1    5
(AC116977) Dictyostelium discoideum chromosome 2 map 5515173...    34   1.1    7
(AC116984) Dictyostelium discoideum chromosome 2 map 2567470...    38   1.1    11
(BP643465) Arabidopsis thaliana cDNA clone:RAFL19-62-A13, 3'...    32   1.3    3
(CP000312) Clostridium perfringens SM101, complete genome.         34   1.4    17
(BX005297) Zebrafish DNA sequence from clone CH211-271B8 in ...    34   1.4    6
(AC161418) Mus musculus BAC clone RP23-325K2 from chromosome...    46   1.5    1
(AC132475) Mus musculus BAC clone RP23-114P16 from 3, comple...    46   1.5    1
(U28944) Caenorhabditis elegans cosmid C18A3, complete seque...    46   1.5    1
(AL354811) Human DNA sequence from clone RP11-632L2 on chrom...    46   1.5    1
(AC093521) Homo sapiens chromosome 5 clone RP11-152P24, comp...    46   1.5    1
(CU855519) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   1.5    1
(CU442706) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    46   1.5    1
(AL354927) Human DNA sequence *** SEQUENCING CANCELLED *** f...    46   1.5    1
(BH093358) RPCI-24-329B14.TV RPCI-24 Mus musculus genomic cl...    46   1.5    1
(DU046009) 154562 Tomato HindIII BAC Library Solanum lycoper...    46   1.5    1
(EY376490) CAXA16203.fwd CAXA Helobdella robusta Subtracted ...    46   1.5    1
(EY375736) CAXA15787.fwd CAXA Helobdella robusta Subtracted ...    46   1.5    1
(AC010597) Homo sapiens chromosome 5 clone CTC-512N19, WORKI...    36   1.7    5
(CU469464) Candidatus Phytoplasma mali strain AT complete ch...    36   2.1    14
(EF427377) Salmo salar clone BAC CH189M18, complete sequence.      40   2.2    7
(BX465225) Zebrafish DNA sequence from clone DKEY-29F10 in l...    38   2.2    4
(AL132952) Caenorhabditis elegans YAC Y51H4A.                      32   2.4    8
(AX349056) Sequence 514 from Patent WO0202807.                     34   2.5    3
(AX344537) Sequence 384 from Patent WO0200926.                     34   2.5    3
(CZ160929) OR_ABa0002B03.r OR_ABa Oryza ridleyi genomic clon...    40   2.5    2
(BM678100) UI-E-EJ0-aig-l-23-0-UI.s1 UI-E-EJ0 Homo sapiens c...    38   2.6    2
(BX957356) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    32   2.6    8
(BX547927) Zebrafish DNA sequence from clone CH211-194E15 in...    36   2.7    5
(AC091973) Homo sapiens chromosome 5 clone RP11-51B6, comple...    36   3.1    5
(AC010451) Homo sapiens chromosome 5 clone CTD-2247C11, comp...    36   3.3    5
(AM285311) Spiroplasma citri GII3-3X chromosome, contig Cont...    32   3.4    6
(AC231573) Choloepus hoffmanni clone CH281-775G18, WORKING D...    36   3.5    5
(AC154466) Mus musculus BAC clone RP24-148D22 from 14, compl...    38   3.5    7
(CR339055) Zebrafish DNA sequence from clone CH211-67C24 in ...    44   3.6    5
(DU047693) 154997 Tomato HindIII BAC Library Solanum lycoper...    42   3.6    2
(BX537139) Zebrafish DNA sequence from clone DKEY-46K9 in li...    32   3.6    7
(AC167266) Bos taurus clone CH240-191N22, WORKING DRAFT SEQU...    40   3.6    4
(AX344551) Sequence 2 from Patent WO0200932.                       32   3.6    9
(AC107988) Homo sapiens chromosome 18, clone CTC-346I21, com...    34   3.8    5
(AR659753) Sequence 794 from patent US 6900016.                    32   3.8    5
(EG614715) REPROTRACTF088211J5 POSSUM_01-POSSUM-C-REPROTRACT...    34   3.9    2
(AL445069) Human DNA sequence *** SEQUENCING CANCELLED *** f...    34   3.9    6
(CS468878) Sequence 69 from Patent EP1748080.                      34   3.9    8
(CS419355) Sequence 69 from Patent WO2006094836.                   34   3.9    8
(CT583678) Zebrafish DNA sequence from clone DKEYP-106C11 in...    38   4.0    5
(AC134743) Rattus norvegicus clone CH230-472I24, WORKING DRA...    34   4.2    7
(CP000770) Candidatus Sulcia muelleri GWSS, complete genome.       34   4.2    8
(AC026525) Homo sapiens clone RP11-488P21, WORKING DRAFT SEQ...    34   4.4    5
(CR848737) Zebrafish DNA sequence from clone DKEY-3K24 in li...    36   4.5    6
(AC023698) Drosophila melanogaster X BAC RP98-17C9 (Roswell ...    40   5.0    4
(CU407069) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   5.0    3
(AC183182) Bos taurus clone CH240-99I24, WORKING DRAFT SEQUE...    38   5.2    3
(CU693385) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    32   5.4    5
(AC151592) Nematostella vectensis clone JGIAFIN-297A9, compl...    38   5.5    3
(BX548250) Zebrafish DNA sequence from clone DKEYP-104H9 in ...    36   5.5    7
(AP009323) Solanum lycopersicum genomic DNA, chromosome 8, c...    34   5.7    7
(BX255944) Zebrafish DNA sequence from clone CH211-241L20.         36   5.8    4
(BX927388) Zebrafish DNA sequence from clone CH211-160J14 in...    44   5.9    1
(AC153361) Mus musculus BAC clone RP23-291L20 from chromosom...    44   5.9    1
(AC202694) Rhesus Macaque  BAC CH250-420G21 () complete sequ...    44   5.9    1
(AC215464) Solanum lycopersicum chromosome 2 clone C02SLe012...    44   5.9    1
(AC215440) Solanum lycopersicum chromosome 2 clone C02HBa032...    44   5.9    1
(AC215416) Solanum lycopersicum chromosome 2 clone C02HBa019...    44   5.9    1
(DL005673) NUCLEIC ACID PROBES AND NUCLEIC ACID ANALOG PROBES.     44   5.9    1
(CS459598) Sequence 79 from Patent WO2006117596.                   44   5.9    1
(AC189727) Canis Familiaris, clone XX-409N1, complete sequence.    44   5.9    1
(AC189725) Canis Familiaris, clone XX-363H22, complete seque...    44   5.9    1

>(BJ394968) Dictyostelium discoideum cDNA clone:dds37n03, 5' end,
           single read.
          Length = 609

 Score = 1207 bits (609), Expect = 0.0
 Identities = 609/609 (100%)
 Strand = Plus / Plus


Query: 1   atcctaaaatttggtattgtaaaatcaagtaatttgatatgtttaaatagtatttcaaca 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   atcctaaaatttggtattgtaaaatcaagtaatttgatatgtttaaatagtatttcaaca 60


Query: 61  aaattggcaggaagcacaatttcagattattgcactaatgaattaacagtaaatttatat 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  aaattggcaggaagcacaatttcagattattgcactaatgaattaacagtaaatttatat 120


Query: 121 tcattttcatatagcacagtatgtaatggaacaactctaactcaactaactcttagtacc 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 tcattttcatatagcacagtatgtaatggaacaactctaactcaactaactcttagtacc 180


Query: 181 attttatacaataataaaagtttgtcacatactgaattaaattgttttgaaacaacatta 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 attttatacaataataaaagtttgtcacatactgaattaaattgttttgaaacaacatta 240


Query: 241 gaatcactaattttaaatagtattttaatacatgaagattcctttggagttgaaaaccaa 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 gaatcactaattttaaatagtattttaatacatgaagattcctttggagttgaaaaccaa 300


Query: 301 ccagcaattgctgatacaattactttaagtaatgttacattcatagatggaagatttaca 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 ccagcaattgctgatacaattactttaagtaatgttacattcatagatggaagatttaca 360


Query: 361 tctcttggaaattctttaccatttaatacaagcactttaaacatttttaatcttggaaca 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 tctcttggaaattctttaccatttaatacaagcactttaaacatttttaatcttggaaca 420


Query: 421 tcaaatttactctttattgattttttagctattaaaaacctaaaaacatactatacaatt 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 tcaaatttactctttattgattttttagctattaaaaacctaaaaacatactatacaatt 480


Query: 481 aattttaattctttagaaccttatccaacatataccaatagtttaactagcccagacttt 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 aattttaattctttagaaccttatccaacatataccaatagtttaactagcccagacttt 540


Query: 541 aaaatggaaaaaataacaatggctttatcaaacattccttcttttttaaatgttgtagtt 600
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541 aaaatggaaaaaataacaatggctttatcaaacattccttcttttttaaatgttgtagtt 600


Query: 601 gactatcta 609
           |||||||||
Sbjct: 601 gactatcta 609

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 891,274,139
Number of extensions: 57303472
Number of successful extensions: 5208147
Number of sequences better than 10.0: 186
Length of query: 618
Length of database: 95,242,211,685
Length adjustment: 23
Effective length of query: 595
Effective length of database: 93,106,754,628
Effective search space: 55398519003660
Effective search space used: 55398519003660
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7. 6
Homology vs Protein 
Query= Contig-U13280-1 (Contig-U13280-1Q) /CSM_Contig/Contig-U13280-1Q.Seq.d
         (618 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AP007224_10(AP007224|pid:none) Oryza sativa Japonica Group genom...    33   6.5
AY756174_5(AY756174|pid:none) Oryza rufipogon putative leucine-r...    33   6.5
AE009951_875(AE009951|pid:none) Fusobacterium nucleatum subsp. n...    33   6.5
CP000227_1549(CP000227|pid:none) Bacillus cereus Q1, complete ge...    33   6.5
AE016877_2488(AE016877|pid:none) Bacillus cereus ATCC 14579, com...    33   6.5
CR954246_968(CR954246|pid:none) Pseudoalteromonas haloplanktis s...    33   8.4
CP001407_1490(CP001407|pid:none) Bacillus cereus 03BB102, comple...    33   8.5
CP001177_1593(CP001177|pid:none) Bacillus cereus AH187, complete...    33   8.5
DQ158856_94(DQ158856|pid:none) Bigelowiella natans nucleomorph c...    33   8.5
CP001283_1597(CP001283|pid:none) Bacillus cereus AH820, complete...    33   8.5
AF488567_1(AF488567|pid:none) Arabidopsis thaliana clone bHLH025...    33   8.5
(Q9T072) RecName: Full=Transcription factor bHLH25; AltName: Ful...    33   8.5
DQ120516_26(DQ120516|pid:none) Cercopithecine herpesvirus 8 isol...    33   8.5

>AP007224_10(AP007224|pid:none) Oryza sativa Japonica Group genomic
           DNA, chromosome 2, PAC clone:P0463E12.
          Length = 1049

 Score = 33.1 bits (74), Expect = 6.5
 Identities = 49/217 (22%), Positives = 94/217 (43%), Gaps = 33/217 (15%)
 Frame = +1

Query: 19  VKSSNLICLNSISTKLAGSTISDYCTNELTVNLYSFSYSTVCNG-----XXXXXXXXXXX 183
           V   N++ LN  +   +G   +++CTN   +++   SY+ +
Sbjct: 176 VVMKNMVALNVSNNSFSGHIPANFCTNSPYLSVLELSYNQLSGSIPPGFGSCSRLRVLKA 235

Query: 184 XYNNKS-------LSHTELNC-------FETTLE--SLI----LNSILIHEDSFGVENQP 303
            +NN S        + T L C       F+ TLE  +++    L ++ + E++F
Sbjct: 236 GHNNLSGTIPDEIFNATSLECLSFPNNDFQGTLEWANVVKLSKLATLDLGENNFSGNISE 295

Query: 304 AIADTITLSNVTFIDGR-FTSLGNSLPFNTSTLNIFNLGTSN----LLFIDFLAIKNLKT 468
           +I     L  +   + + F S+ ++L  N ++L I +L  +N    L++++F  + NLKT
Sbjct: 296 SIGQLNRLEELHLNNNKMFGSIPSNLS-NCTSLKIIDLNNNNFSGELIYVNFSNLPNLKT 354

Query: 469 YYTI--NFNSLEPYPTYT-NSLTSPDFKMEKITMALS 570
              +  NF+   P   YT ++LT+      K+   LS
Sbjct: 355 LDLMRNNFSGEIPESIYTCSNLTALRVSSNKLHGQLS 391

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: 846,506,111
Number of extensions: 14678725
Number of successful extensions: 38633
Number of sequences better than 10.0: 13
Number of HSP's gapped: 38619
Number of HSP's successfully gapped: 14
Length of query: 206
Length of database: 1,051,180,864
Length adjustment: 123
Effective length of query: 83
Effective length of database: 653,084,107
Effective search space: 54205980881
Effective search space used: 54205980881
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: 0.86  gvh: 0.52  alm: 0.36  top: 0.53  tms: 0.00  mit: 0.37  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 

	 52.0 %: nuclear
	 28.0 %: mitochondrial
	 16.0 %: cytoplasmic
	  4.0 %: cytoskeletal

>> prediction for Contig-U13280-1 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