GeneModel BLAST Result against rice

BLASTP 2.2.12 [Aug-07-2005]


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= BGIBMGA000977-TA|BGIBMGA000977-PA|IPR010913|Single-stranded DNA
binding, IPR011344|Single-strand binding protein, IPR008994|Nucleic
acid-binding, OB-fold, IPR000424|Single-strand binding
protein/Primosomal replication protein n
         (121 letters)

Database: rice 
           37,544 sequences; 14,793,348 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

04_03_0532 - 16824394-16824447,16824545-16824665,16824748-168248...    28   1.8  
05_06_0029 - 25057067-25057083,25057250-25057309,25057565-250576...    28   2.3  
06_01_0604 - 4358278-4358442,4358835-4358943,4359236-4359331,435...    27   4.1  
03_06_0686 + 35553179-35553553,35554028-35554399,35554486-35554965     27   4.1  
11_08_0007 + 27551173-27551828,27552071-27552282,27553371-275535...    27   5.4  
08_02_0657 - 19749835-19751942,19753123-19753561                       26   7.1  
05_05_0388 - 24584629-24584744,24585270-24585371,24585932-245859...    26   9.4  

>04_03_0532 -
           16824394-16824447,16824545-16824665,16824748-16824875,
           16825457-16825603,16825682-16825807,16825895-16826160,
           16826259-16826453,16826577-16826657,16826756-16826830,
           16827270-16827530,16827633-16827719,16827844-16828060
          Length = 585

 Score = 28.3 bits (60), Expect = 1.8
 Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 5/53 (9%)

Query: 41  YSYKYESGDILQRTDWHRVSI----FKPGLRDTVYKYLKKGQRIYVTGKLSYG 89
           Y  + E G ++ ++D    ++    F P L   V K +KKG+++ +T K  YG
Sbjct: 191 YEARLEDGTVVSKSDGVEFAVKDGYFCPALSKAV-KTMKKGEKVLLTVKPQYG 242


>05_06_0029 -
           25057067-25057083,25057250-25057309,25057565-25057665,
           25057803-25058011,25058097-25058260,25058292-25058418,
           25059110-25059157
          Length = 241

 Score = 27.9 bits (59), Expect = 2.3
 Identities = 20/82 (24%), Positives = 34/82 (41%), Gaps = 4/82 (4%)

Query: 9   INQVTLLGRVGADP-QKRGSEEHPVINFPLATHYSYKYE---SGDILQRTDWHRVSIFKP 64
           +++  + G+VG  P QK       V  F + T   +        D+ +   WHR++I   
Sbjct: 111 VHRAIICGKVGQVPVQKILRNGRTVTVFTVGTGGMFDQRVVGDADLPKPAQWHRIAIHND 170

Query: 65  GLRDTVYKYLKKGQRIYVTGKL 86
            L     + L K   +YV G +
Sbjct: 171 QLGAFAVQKLVKNSAVYVEGDI 192


>06_01_0604 -
           4358278-4358442,4358835-4358943,4359236-4359331,
           4359823-4359956,4360639-4360905,4361225-4361310,
           4361409-4361501,4361601-4361696,4361986-4362093,
           4362473-4362493,4363856-4364156
          Length = 491

 Score = 27.1 bits (57), Expect = 4.1
 Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 1/54 (1%)

Query: 33  INFPLATHYSYKYESGDILQRTDWHRVSIFKPGLRDTVYKYLK-KGQRIYVTGK 85
           ++ P+   YSY   S DIL   D    +     L   + ++ + KG+  YVTG+
Sbjct: 150 LDSPVGVGYSYSNASDDILNNGDARTANDSLTFLTKWIERFPQYKGREFYVTGE 203


>03_06_0686 + 35553179-35553553,35554028-35554399,35554486-35554965
          Length = 408

 Score = 27.1 bits (57), Expect = 4.1
 Identities = 13/44 (29%), Positives = 20/44 (45%), Gaps = 1/44 (2%)

Query: 34  NFPLATHYSYKYESGDILQRTDWHRVSIFKPGLRD-TVYKYLKK 76
           NFP    +  K  +  I    +WH      PGL +  V+ ++KK
Sbjct: 285 NFPNTGFFYVKPSARTIAMTKEWHEARSSHPGLNEQPVFNHIKK 328


>11_08_0007 +
           27551173-27551828,27552071-27552282,27553371-27553550,
           27555154-27556187
          Length = 693

 Score = 26.6 bits (56), Expect = 5.4
 Identities = 10/37 (27%), Positives = 22/37 (59%)

Query: 83  TGKLSYGEVKLDDGQVRTASTVIADDVIFFQSTPYES 119
           TG +   ++ L+ G++R  + V+++    + +T YES
Sbjct: 74  TGNVEIKDISLEAGEIRLYTHVVSNCYTSYNTTEYES 110


>08_02_0657 - 19749835-19751942,19753123-19753561
          Length = 848

 Score = 26.2 bits (55), Expect = 7.1
 Identities = 15/50 (30%), Positives = 23/50 (46%), Gaps = 1/50 (2%)

Query: 63  KPGLRDTVYKYLKKGQRIYVTGKLSYGEVKLDDGQVRTASTVIADDVIFF 112
           KP   D + + +KKG R  V G +   E K+ D +      ++A D   F
Sbjct: 146 KPYFMDAL-RPVKKGDRFLVRGHMHAVEFKVMDTEPNNEPVIVAGDTEIF 194


>05_05_0388 -
           24584629-24584744,24585270-24585371,24585932-24585987,
           24586090-24586124,24586620-24586697,24587224-24587595
          Length = 252

 Score = 25.8 bits (54), Expect = 9.4
 Identities = 10/18 (55%), Positives = 13/18 (72%)

Query: 24  KRGSEEHPVINFPLATHY 41
           KRGSEE P++ F   +HY
Sbjct: 210 KRGSEEPPIMAFNQQSHY 227


  Database: rice
    Posted date:  Oct 3, 2007  3:31 PM
  Number of letters in database: 14,793,348
  Number of sequences in database:  37,544
  
Lambda     K      H
   0.319    0.137    0.403 

Gapped
Lambda     K      H
   0.279   0.0580    0.190 


Matrix: BLOSUM62
Gap Penalties: Existence: 9, Extension: 2
Number of Hits to DB: 3,437,210
Number of Sequences: 37544
Number of extensions: 128236
Number of successful extensions: 193
Number of sequences better than 10.0: 7
Number of HSP's better than 10.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 190
Number of HSP's gapped (non-prelim): 7
length of query: 121
length of database: 14,793,348
effective HSP length: 74
effective length of query: 47
effective length of database: 12,015,092
effective search space: 564709324
effective search space used: 564709324
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 37 (14.9 bits)
X3: 62 (25.0 bits)
S1: 41 (21.7 bits)
S2: 54 (25.8 bits)