Summary of BLAST Results

All hits shown.

BLAST query on Arabidopsis sequences

Query performed by the Arabidopsis thaliana Database; for full BLAST options and parameters, refer to the NCBI BLAST Documentation

Links to GenBank, EMBL, PIR, and SwissProt are shown in bold type; links to locations within this document are in normal type.

Your comments and suggestions are requested: Send a Message to AtDB

Please Note Sequence Filtering is ON.

Sequence filtering will mask out regions with low compositional complexity or segments consisting of simple repetitive sequences from your query sequence. Filtering can eliminate statistically significant but biologically uninteresting reports from the BLAST output. A low complexity sequence found by a filter program is substituted using the letter "N" in nucleotide sequence (e.g., "NNNNN") and the letter "X" in protein sequences (e.g., "XXXXX"). Filtering is on by default, however it can be turned off by selecting "none" from the Filter options on the BLAST form.

For more details on filtering see the BLAST Help at NCBI.

TBLASTN 2.0MP-WashU [15-Dec-1999] [decunix4.0-a21164-b64 02:20:18 15-Dec-1999]

References: Gish, W. (1996-1999) http://blast.wustl.edu

Notice: statistical significance is estimated under the assumption that the equivalent of one entire reading frame of the database codes for protein and that significant alignments will involve only coding reading frames. >query_seq (Length: 209)

Query Sequence: >query_seq (Length: 209)

Database: Arabidopsis GenBank Data Set; 113,243 sequences; 167,312,605 total letters.

                                                                     Smallest
                                                                       Sum
                                                     Reading  High  Probability
Sequences producing High-scoring Segment Pairs:        Frame Score  P(N)      N

  GenBank|AQ956550|AQ956550 LERAK61TR LERA Arabidopsis tha... +2   222  8.7e-18   1
  GenBank|AQ956549|AQ956549 LERAK61TF LERA Arabidopsis tha... -2   187  7.3e-14   1



AQ956550|AQ956550 LERAK61TR LERA Arabidopsis thaliana genomic clone	[GenBank / EMBL] 
            LERAK61, genomic survey sequence. 1/2000
            Length = 695

  Plus Strand HSPs:

 Score = 222 (83.2 bits), Expect = 8.7e-18, P = 8.7e-18
 Identities = 45/96 (46%), Positives = 60/96 (62%), Frame = +2

Query:     3 VSKNPGTSYNPLLIYGGVGLGKTHLMQAIG-HEIYKTTDLNVIYVTAENFGNEFISTLLN 61
             V+ NP   YNPL +YGGVGLGKTHLM A+G H + K  +  V+Y+ +E F  + +  L  
Sbjct:   410 VADNPKHGYNPLFLYGGVGLGKTHLMHAVGNHLLKKNPNAKVVYLHSERFVADMVKALQL 589

Query:    62 KKTQDFKKKYRYTADVLLIDDIHFFENKDGLQEELF 97
                 +FK+ YR + D LLIDDI FF  ++  QEE F
Sbjct:   590 NAINEFKRFYR-SVDALLIDDIQFFARRERSQEEFF 694


AQ956549|AQ956549 LERAK61TF LERA Arabidopsis thaliana genomic clone	[GenBank / EMBL] 
            LERAK61, genomic survey sequence. 1/2000
            Length = 421

  Minus Strand HSPs:

 Score = 187 (70.9 bits), Expect = 7.3e-14, P = 7.3e-14
 Identities = 45/125 (36%), Positives = 61/125 (48%), Frame = -2

Query:    43 VIYVTAENFGNEFISTLLNKKTQDFKKKYRYTADVLLIDDIHFFENKDGLQEELFYTFNE 102
             V+Y+ +E F  + +  L      +FK+ YR +   LLIDDI FF  K   QEE F+TFN 
Sbjct:   399 VVYLHSERFVADMVKALQLNAINEFKRFYR-SVHALLIDDIQFFARKGRSQEEFFHTFNA 223

Query:   103 LFEKKKQIIFTCDRPVQELKNXXXXXXXXXXXXXXTDLNMPCFETRCAILIKKIQNYNST 162
             L E  +Q+I T DR  +E++                 +  P  ETR AIL+KK       
Sbjct:   222 LLEGGQQVILTSDRYPKEMQGLEERLKSRFGWGLTVAVEPPELETRVAILMKKADQAKVE 43

Query:   163 YPHKA 167
              PH A
Sbjct:    42 LPHDA 28


Parameters:
  hspsepsmax=2000
  hspsepqmax=2000
  gapsepsmax=1000
  gapsepqmax=1000
  B=100
  V=100
  filter=seg
  cpus=1
  progress=20

  ctxfactor=6.00
  E=10

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.320   0.139   0.394    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E    S W   T  X   E2     S2
   +0      0      209       209       10.  72 3  13 22  0.068   36
                                                    31  0.066   40


Statistics:

  Database:  /share/fasolt/gcg5/gcgdata/gcgblast/ArabidopsisN
    Title:  ArabidopsisN
    Release date:  unknown
    Posted date:  10:22:50 AM PST Feb 10, 2000
    Last modified:  10:22:50 AM PST Feb 10, 2000
    First created:  10:22:50 AM PST Feb 10, 2000
    Format:  XDF-1
  # of letters in database:  167,312,605
  # of sequences in database:  113,243
  # of database sequences satisfying E:  2
  No. of states in DFA:  419 (89 KB)
  Total size of DFA:  118 KB (128 KB)
  Time to generate neighborhood:  0.01u 0.01s 0.03t  Elapsed: 00:00:00
  No. of threads or processors used:  1
  Search cpu time:  148.41u 8.28s 156.70t  Elapsed: 00:02:37
  Total cpu time:  148.50u 8.40s 156.90t  Elapsed: 00:02:38
  Start:  Mon Feb 14 10:03:11 2000   End:  Mon Feb 14 10:05:49 2000