TBLASTN 2.2.13 [Nov-27-2005]


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= gi|209487151|gb|AAFD02000010.1|:subseq(2005336,4362)
Thalassiosira pseudonana CCMP1335 chromosome 6 THAPSchr_6_Cont10,
whole genome shotgun sequence:[translate(1)]
         (135 letters)

Database: genome.fa 
           9 sequences; 8,347,606 total letters

Searching.........done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gb|AAGK01000002.1| Theileria parva strain Muguga chromosome 2 ch...    60   1e-10
gb|AAGK01000001.1| Theileria parva strain Muguga chromosome 1 ch...    44   1e-05
gb|AAGK01000005.1| Theileria parva strain Muguga chromosome 3 ct...    39   3e-04

>gb|AAGK01000002.1| Theileria parva strain Muguga chromosome 2 chr2_complete, whole genome
               shotgun sequence
          Length = 1971884

 Score = 60.5 bits (145), Expect = 1e-10
 Identities = 36/90 (40%), Positives = 46/90 (51%), Gaps = 1/90 (1%)
 Frame = +3

Query: 27      TVFIKFLAPW*GHCKKMKPDWDKLAEKFAGSATQLVADVDCTTEGKPLCDANGVRGYPTI 86
               T F+KF APW  HC+KM P W+ LA+   G     VADVD  T    L     +RGYPT+
Sbjct: 1224231 TWFVKFYAPWCSHCRKMAPAWESLAKALKGQVN--VADVD-VTRNLNLGKRFQIRGYPTL 1224401

Query: 87      KWGDPADLQDYQGG-RDYVALEKFATENLK 115
                      +  Y+GG R    L +FA   L+
Sbjct: 1224402 LLFHKGKMYQYEGGERTVEKLSEFALGTLR 1224491



 Score = 26.6 bits (57), Expect = 1.7
 Identities = 19/62 (30%), Positives = 28/62 (45%)
 Frame = +3

Query: 26    KTVFIKFLAPW*GHCKKMKPDWDKLAEKFAGSATQLVADVDCTTEGKPLCDANGVRGYPT 85
             K V  KF A W   C+K KP  ++L+ +       +  DVD   +   + D  GV+  P 
Sbjct: 88695 KLVLAKFSASWCKPCQKAKPVVEELSNELP-HLNFIDVDVDNLPQ---IADEEGVKTIPF 88862

Query: 86    IK 87
              K
Sbjct: 88863 FK 88868


>gb|AAGK01000001.1| Theileria parva strain Muguga chromosome 1 chr1_complete, whole genome
               shotgun sequence
          Length = 2540030

 Score = 43.9 bits (102), Expect = 1e-05
 Identities = 21/46 (45%), Positives = 28/46 (60%)
 Frame = -2

Query: 30      IKFLAPW*GHCKKMKPDWDKLAEKFAGSATQLVADVDCTTEGKPLC 75
               +KF APW GHCK ++P+W  L +K  G     V  VDCT+  + LC
Sbjct: 1807417 VKFYAPWCGHCKNLEPEWMSLPKKSKGVK---VGRVDCTSH-QSLC 1807292



 Score = 25.8 bits (55), Expect = 2.9
 Identities = 13/50 (26%), Positives = 23/50 (46%), Gaps = 3/50 (6%)
 Frame = -2

Query: 42      KMKPD---WDKLAEKFAGSATQLVADVDCTTEGKPLCDANGVRGYPTIKW 88
               +MK D   W+++ ++F   A QL     C  +GK +   +    Y  + W
Sbjct: 1706728 EMKHDSNIWNEIRDRFFNEAAQLCGCSYCEGKGKVMIKPSSDLSYIEVSW 1706579


>gb|AAGK01000005.1| Theileria parva strain Muguga chromosome 3 ctg_530, whole genome shotgun
              sequence
          Length = 1317241

 Score = 38.9 bits (89), Expect = 3e-04
 Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 5/80 (6%)
 Frame = +2

Query: 28     VFIKFLAPW*G-----HCKKMKPDWDKLAEKFAGSATQLVADVDCTTEGKPLCDANGVRG 82
              V I FL P+*      HCK + P++ K A+      + +V       EG  L +   VRG
Sbjct: 867353 VVIYFLNPF*PFRRCVHCKNLAPEYSKAAKMLKDEKSDVVFAKVRNEEGVNLMERFNVRG 867532

Query: 83     YPTIKWGDPADLQDYQGGRD 102
              +PT+ +       +Y G RD
Sbjct: 867533 FPTLYFFKNGTEVEYSGSRD 867592



 Score = 25.8 bits (55), Expect = 2.9
 Identities = 12/24 (50%), Positives = 15/24 (62%)
 Frame = -3

Query: 106    LEKFATENLKPVCSPKNIDLCDDD 129
              +E+  TENLKP  S  NID   +D
Sbjct: 817490 VEEIKTENLKPETSVANIDTKTED 817419


  Database: genome.fa
    Posted date:  Jan 19, 2010  5:27 PM
  Number of letters in database: 8,347,606
  Number of sequences in database:  9
  
Lambda     K      H
   0.320    0.136    0.442 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,048,227
Number of Sequences: 9
Number of extensions: 11191
Number of successful extensions: 30
Number of sequences better than 10.0: 3
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 20
Number of HSP's gapped (non-prelim): 17
length of query: 135
length of database: 2,782,535
effective HSP length: 81
effective length of query: 54
effective length of database: 2,781,806
effective search space: 150217524
effective search space used: 150217524
frameshift window, decay const: 40,  0.1
T: 13
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)
