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|23452038|gb|AAN32904.1| methionine-S-sulfoxide reductase
MsrA1 [Chlamydomonas reinhardtii] 
         (160 letters)

Database: genome.fa 
           1185 sequences; 56,660,578 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

scaffold_5                                                            120   7e-28
scaffold_1                                                            115   2e-26
scaffold_4                                                            114   6e-26
scaffold_2                                                             98   2e-22
scaffold_14                                                           102   2e-22
scaffold_13                                                           101   4e-22
scaffold_7                                                             97   6e-21
scaffold_41                                                            80   8e-16
scaffold_15                                                            77   1e-14
scaffold_3                                                             44   1e-04
scaffold_8                                                             31   0.55 
scaffold_81                                                            28   3.5  
scaffold_6                                                             27   7.9  

>scaffold_5 
          Length = 3000003

 Score =  120 bits (301), Expect = 7e-28
 Identities = 70/148 (47%), Positives = 96/148 (64%), Gaps = 2/148 (1%)
 Frame = +2

Query: 13      LATFALGUFWHPEASFANVPGVVKTRVGYTGGSRPNPTYESVCAGDGHTEAMRVWFDPAI 72
               + T A+G FWHP+ SF  + GV KT VGYTGG    PTY+ +  GD HTEAM V FD + 
Sbjct: 1244405 VCTLAMG*FWHPQGSFDALAGVEKTLVGYTGGDDFEPTYQRI--GD-HTEAMLVEFDES- 1244572

Query: 73      ISYEDLLKQFFREHDPTQKSKCQYKSAVWYHSEAHGTALAAVMKEL--EGKYRVRLATTV 130
               +++EDLL +F+ EH P   S+ QY+SAV++H +A   A  ++   L  +GK  V+  T V
Sbjct: 1244573 LAFEDLLVKFWEEHTPMVGSR-QYRSAVFFHDDAQRDAAESMKAALIADGKKWVK-NTAV 1244746

Query: 131     DPAGDWWDAEEYHQKYIEKSMMRRGSAG 158
               +PA D+W AEEYHQKY+ K +  R  +G
Sbjct: 1244747 EPAKDFWQAEEYHQKYLAKMLTPRYYSG 1244830


>scaffold_1 
          Length = 3520325

 Score =  115 bits (289), Expect = 2e-26
 Identities = 60/147 (40%), Positives = 84/147 (57%), Gaps = 7/147 (4%)
 Frame = -3

Query: 10      GAELATFALGUFWHPEASFANVPGVVKTRVGYTGGSRPNPTYESVCAGD-GHTEAMRVWF 68
               G ++ATFA G FW  E  F  +PGV  T VGYT G    P Y+ VC G  GHTEA+++ +
Sbjct: 1231323 GYKVATFAGGCFWGTELHFQRIPGVAATCVGYTQGWAGEPNYDQVCGGQTGHTEALQLLY 1231144

Query: 69      DPAIISYEDLLKQFFREHDPTQKSK------CQYKSAVWYHSEAHGTALAAVMKELEGKY 122
               DP ++SYE L  +     DPT  ++       QY+  ++ HS+    A AAV++  + KY
Sbjct: 1231143 DPNVVSYEALCYKLLDTVDPTVLNRVRGDAGTQYRHGIYPHSKEQAEAAAAVVEATQAKY 1230964

Query: 123     RVRLATTVDPAGDWWDAEEYHQKYIEK 149
                  + T V  A  +W AE YHQ+Y+EK
Sbjct: 1230963 AEPVVTEVKDAAVFWPAENYHQQYLEK 1230883



 Score = 30.8 bits (68), Expect = 0.71
 Identities = 17/45 (37%), Positives = 20/45 (44%), Gaps = 9/45 (20%)
 Frame = +2

Query: 22      WHP---------EASFANVPGVVKTRVGYTGGSRPNPTYESVCAG 57
               WHP         E SF      +K  +GYT  S P PTY+  C G
Sbjct: 2578115 WHPPEFGSMHQDEISFV-FGQPIKMNLGYTNCSEPGPTYDKSCLG 2578246



 Score = 30.4 bits (67), Expect = 0.93
 Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
 Frame = -2

Query: 53     SVCAGDGHTEAMRVWFDPAIISYEDLLKQF--FREHDPTQKSKCQYKSAVWYHSE 105
              + CA DG   A+  W +P  +    L  +     +HDP ++ K + K+AVWY  E
Sbjct: 811300 ATCAVDG--VAVETWSEPMKVMRLKLEIEGGGVLDHDPEEQKKTKDKAAVWYKDE 811142


>scaffold_4 
          Length = 3024044

 Score =  114 bits (284), Expect = 6e-26
 Identities = 62/142 (43%), Positives = 87/142 (61%)
 Frame = +2

Query: 8       ASGAELATFALGUFWHPEASFANVPGVVKTRVGYTGGSRPNPTYESVCAGDGHTEAMRVW 67
               A    +ATFALG FW P+  F    GV+ + VGYT G+ P P Y+ +  GD HTEA+R+ 
Sbjct: 1209101 APSRRVATFALG*FWTPQQKFDLRDGVIWSTVGYTSGTTPAPNYDDL--GD-HTEALRLE 1209271

Query: 68      FDPAIISYEDLLKQFFREHDPTQKSKCQYKSAVWYHSEAHGTALAAVMKELEGKYRVRLA 127
               FD  ++SYE L++QF+  H P + S+ QY+SA++YH EA       V  +L    R    
Sbjct: 1209272 FDEDVVSYEALVEQFWDLHAPNKGSR-QYRSAIFYHDEAQRECAERVQAQLFPSKRYVRD 1209448

Query: 128     TTVDPAGDWWDAEEYHQKYIEK 149
               T ++PA +++ AE YHQKY EK
Sbjct: 1209449 TAIEPAAEFFPAEAYHQKYREK 1209514



 Score = 29.6 bits (65), Expect = 1.6
 Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 6/54 (11%)
 Frame = +1

Query: 91      KSKCQYKSAVWYHSEA-HGTA-----LAAVMKELEGKYRVRLATTVDPAGDWWD 138
               +++C+  +A WY  +A  G A     +AA    L G+Y +     VD A DW++
Sbjct: 2222671 EAECEAGTATWYDRDAAKGDADACYNVAAHKMRLAGRYALHERQLVDAARDWYE 2222832


>scaffold_2 
          Length = 3465789

 Score = 97.8 bits (242), Expect = 5e-21
 Identities = 55/151 (36%), Positives = 79/151 (52%), Gaps = 10/151 (6%)
 Frame = -2

Query: 8       ASGAELATFALGUFWHPEASFANVPGVVKTRVGYTGGSRPNPTYESVCAG-DGHTEAMRV 66
               A G  +ATFA G FW  E  F  +PGV+ T VGY  G +  PTYE V A   GHTEA+++
Sbjct: 3317405 ADGYAIATFAAGCFWGVELEFQRLPGVIATSVGYVQGHKQKPTYEEVSAATSGHTEAVQL 3317226

Query: 67      WFDPAIISYEDLLKQFF--------REHDPTQKSKCQYKSAVWYHSEAHGTALAAVMKEL 118
                +DP +ISY  L + F+        R          QY+S ++  + A        + + 
Sbjct: 3317225 IYDPGVISYARLCEAFWARLGDGAVRYQQVGNDRGPQYRSGIYTTTSAQLDVARKSLVDA 3317046

Query: 119     EGKYRVRLATTVDP-AGDWWDAEEYHQKYIE 148
               + K+   + T V+P  G +W AE YHQ+Y+E
Sbjct: 3317045 QKKFASPIQTEVEPMRGVYWPAEAYHQRYLE 3316953



 Score = 79.3 bits (194), Expect(2) = 2e-22
 Identities = 42/78 (53%), Positives = 49/78 (62%), Gaps = 1/78 (1%)
 Frame = +1

Query: 12      ELATFALGUFWHPEASFANVPGVVKTRVGYTGGSRPNPTYESVCAG-DGHTEAMRVWFDP 70
               E A FA G FW  + +F  VPGVV+T VGYT G   NPTYE VC+G  GHTEA+ V F  
Sbjct: 1289245 EQAVFAAGCFWGVQLAFQRVPGVVRTTVGYTMGRFSNPTYEEVCSGVTGHTEAVHVVFRK 1289424

Query: 71      AIISYEDLLKQFFREHDP 88
               A ISYE+LL   +    P
Sbjct: 1289425 AEISYEELLTVLWDRASP 1289478



 Score = 43.9 bits (102), Expect(2) = 2e-22
 Identities = 22/69 (31%), Positives = 34/69 (49%), Gaps = 6/69 (8%)
 Frame = +2

Query: 87      DPTQKSK------CQYKSAVWYHSEAHGTALAAVMKELEGKYRVRLATTVDPAGDWWDAE 140
               DPT K         QY+S +++ +            +++ KY   +AT V PA  +W AE
Sbjct: 1289531 DPTAKDHQGNDYGTQYRSGIYFLTNEQKAIALKSKAKIQEKYSAEIATEVLPAQHFWPAE 1289710

Query: 141     EYHQKYIEK 149
               +YHQ Y+ K
Sbjct: 1289711 DYHQHYLAK 1289737



 Score = 32.7 bits (73), Expect = 0.19
 Identities = 15/50 (30%), Positives = 22/50 (44%)
 Frame = -3

Query: 84     REHDPTQKSKCQYKSAVWYHSEAHGTALAAVMKELEGKYRVRLATTVDPA 133
              R H+PT      +++  W H+ A  T+  +V     G  R R    V PA
Sbjct: 327766 RRHEPTDAPSAPFRTPFWSHAVAFSTSAGSVWPARRGGARARTLAGVAPA 327617


>scaffold_14 
          Length = 1107847

 Score =  102 bits (254), Expect = 2e-22
 Identities = 58/156 (37%), Positives = 79/156 (50%), Gaps = 16/156 (10%)
 Frame = -3

Query: 10     GAELATFALGUFWHPEASFANVPG--VVKTRVGYTGGSRPNPTYESVCAG-DGHTEAMRV 66
              G ++A FA G FW  E      PG  +  T VGY  G  PNPTYE  C+G  GHTE +RV
Sbjct: 573812 GHKVAVFANGCFWGSEKGIWRFPGDGITSTAVGYCAGFTPNPTYEEACSGRTGHTEGVRV 573633

Query: 67     WFDPAIISYEDLLKQFFREHDPT------QKSKCQYKSAVWYHSEAHGTALAAVMKELEG 120
               +DPA +S+ D+L+ F+  HDP            QY+S  +Y  +     + A MK  E 
Sbjct: 573632 VYDPAKVSFVDILRWFWEAHDPCSGMGQGNDRGTQYRSGFYYFDDDQKALIEASMKAYEA 573453

Query: 121    KYRVRLATTVDPAGD-------WWDAEEYHQKYIEK 149
              +    + T V  A D       W+  E+YHQ+Y+ K
Sbjct: 573452 QLGRPITTEVAAASDYDQYGGLWFYGEQYHQQYLAK 573345


>scaffold_13 
          Length = 1338096

 Score =  101 bits (251), Expect = 4e-22
 Identities = 58/152 (38%), Positives = 82/152 (53%), Gaps = 10/152 (6%)
 Frame = +1

Query: 8      ASGAELATFALGUFWHPEASFANVPGVVKTRVGYTGGSRPNPTYESVCAG-DGHTEAMRV 66
              A+  E ATFA G FW  E +F   PGV  T VGY  G  PNPTYE+VC+G  GHTEA++V
Sbjct: 535066 ATTLEEATFAGGCFWGVELAFQREPGVAATAVGYAMGDVPNPTYEAVCSGATGHTEAVKV 535245

Query: 67     WFDPAIISYEDLLKQFF-----REHDPTQKSK---CQYKSAVWYHSEAHGTALAAVMKEL 118
               +DPA++S+E L   F+       + P Q       QY+  ++Y   A            
Sbjct: 535246 MYDPALVSFERLCDLFWDRLGENRYAPNQVGNDRGTQYRHGIYYRDAAQRDVALKTFDVE 535425

Query: 119    EGKYRVR-LATTVDPAGDWWDAEEYHQKYIEK 149
                ++  R + T V P   ++DAE+YH +Y++K
Sbjct: 535426 SARFPERKIVTEVLPLTIFYDAEDYHMQYLQK 535521


>scaffold_7 
          Length = 2177197

 Score = 97.4 bits (241), Expect = 6e-21
 Identities = 51/137 (37%), Positives = 78/137 (56%)
 Frame = +1

Query: 13      LATFALGUFWHPEASFANVPGVVKTRVGYTGGSRPNPTYESVCAGDGHTEAMRVWFDPAI 72
               +AT A+G FW PE+ FA+  G+++ RVGY GG    PTYE++     HTEA++V FDP  
Sbjct: 2114695 VATMAMG*FWGPESVFASTEGILEHRVGYCGGKEAYPTYEAI---KDHTEAVQVEFDPEK 2114865

Query: 73      ISYEDLLKQFFREHDPTQKSKCQYKSAVWYHSEAHGTALAAVMKELEGKYRVRLATTVDP 132
               I YED++++   E         QY+SA++YH +     L   + ++    +      V+P
Sbjct: 2114866 IKYEDVIRRVLDEAPREPAYSTQYRSAIFYHDDEQKRILERKVADMGAAAQY---VAVEP 2115036

Query: 133     AGDWWDAEEYHQKYIEK 149
                   + AEEYHQ+Y+ K
Sbjct: 2115037 YHVMYRAEEYHQQYLSK 2115087



 Score = 83.2 bits (204), Expect = 1e-16
 Identities = 54/141 (38%), Positives = 71/141 (50%), Gaps = 5/141 (3%)
 Frame = +1

Query: 14      ATFALGUFWHPEASFANVPGVVKTRVGYTGGSRPN--PTYESVCAGDGHTEAMRVWFDPA 71
               AT  LG FW P      V GVV T  GY G   P+  P+Y SVC GDG+ EA++V +D A
Sbjct: 1744909 ATLGLGCFWAPSEELLGVEGVVDTCCGYAGAVFPDARPSYASVCGGDGNVEAVQVTYDDA 1745088

Query: 72      IISYEDLLKQFFREHDPTQKSKCQYKSAVWYHSEAHGTALAAVMKELEG---KYRVRLAT 128
               ++SYE +L   F    P   S+ QY   V + S+    + AA    L G       R   
Sbjct: 1745089 VVSYEAVLDAAFAASKPVLGSR-QYAPIV-FASDGDEASRAAAWVGLGGVRDDGLERRQF 1745262

Query: 129     TVDPAGDWWDAEEYHQKYIEK 149
                V+    +W AE YHQ+Y +K
Sbjct: 1745263 AVEETDTFWLAESYHQEYWQK 1745325


>scaffold_41 
          Length = 407180

 Score = 80.5 bits (197), Expect = 8e-16
 Identities = 45/108 (41%), Positives = 63/108 (58%), Gaps = 1/108 (0%)
 Frame = +2

Query: 12     ELATFALGUFWHPEASF-ANVPGVVKTRVGYTGGSRPNPTYESVCAGDGHTEAMRVWFDP 70
              E+AT ALG FW P A   A   GV  T VGY GG  P PTY  +  GD HTEA++V +DP
Sbjct: 206435 EVATVALG*FWEPPALLRATHAGVAATTVGYCGGRAPWPTYGDM--GD-HTEAVQVLYDP 206605

Query: 71     AIISYEDLLKQFFREHDPTQKSKCQYKSAVWYHSEAHGTALAAVMKEL 118
               + +++D+L+         +    QY +AVW H++A   A+AA  ++L
Sbjct: 206606 GVTTFDDILRFVLPSGGRNRSQTRQYMTAVWPHTDAQAAAVAAATRDL 206749


>scaffold_15 
          Length = 987846

 Score = 76.6 bits (187), Expect = 1e-14
 Identities = 52/157 (33%), Positives = 76/157 (48%), Gaps = 18/157 (11%)
 Frame = -3

Query: 10     GAELATFALGUFWHPEASFANVPGVVKTRVGYTGGSRPNPTYESVC-AGDGHTEAMRVWF 68
              G  +ATF  G FW  + +F   PGVV + VGYT G    PTY  VC    GHTEA+ V +
Sbjct: 743041 GLAVATFGGGYFWGLQLAFDREPGVVDSVVGYTHGHAERPTYADVCDETTGHTEAVLVKY 742862

Query: 69     DPAIISYEDLLKQFFR-EHDPTQKSK------CQYKSAVWYHSEAHGTALAAVMKELEGK 121
               P I+S+  L    F    DPT  ++        Y++ ++ HS+A        +++ E  
Sbjct: 742861 SPEIVSFARLAAVLFDVVGDPTTLNRVGRDRGTNYRTGMYCHSDAQ-------LRDAEEA 742703

Query: 122    YRV----------RLATTVDPAGDWWDAEEYHQKYIE 148
              + V          ++ T V  A  +W AE  HQ+Y+E
Sbjct: 742702 FDVEDRSWQSSGRKVVTEVKRAAVFWPAEAVHQRYLE 742592


>scaffold_3 
          Length = 3001400

 Score = 43.5 bits (101), Expect = 1e-04
 Identities = 39/117 (33%), Positives = 57/117 (48%), Gaps = 20/117 (17%)
 Frame = -3

Query: 5     GNGASGAELATFALGU---FWHPEASFANVPGVVKTRVGYTGGSRP--NPTYESVCA--- 56
             G GA+ A LA  A      +  P A   +V G V+T   ++GG      P +++V     
Sbjct: 84396 GGGAAAAALAALAPARAVAYAKPGADGDDV-GAVETAY-FSGGDAKLLAPAFDAVLGVFA 84223

Query: 57    ------GDGHTEAMRVWFDPAIISYEDLLKQFFREHDPTQ------KSKCQYKSAVW 101
                   GDG T A+RV +DP + SY  LL QF+R  DPT+       +   Y++A+W
Sbjct: 84222 AETGAMGDG-TRAVRVTYDPTVASYGRLLGQFWRAVDPTRADGQFDTAGAAYRTAIW 84055



 Score = 27.7 bits (60), Expect = 6.0
 Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 2/52 (3%)
 Frame = +2

Query: 32      PGVVKTRVGYTGG--SRPNPTYESVCAGDGHTEAMRVWFDPAIISYEDLLKQ 81
               P VV   VGY G     PN TY S+       + +R     A++   DLL+Q
Sbjct: 1141067 PLVVSCTVGYFGHLVDNPNATYASLLRASSLGDGLRAEALRALVGSGDLLRQ 1141222



 Score = 27.7 bits (60), Expect = 6.0
 Identities = 22/69 (31%), Positives = 30/69 (43%)
 Frame = +1

Query: 59      GHTEAMRVWFDPAIISYEDLLKQFFREHDPTQKSKCQYKSAVWYHSEAHGTALAAVMKEL 118
               GH EA+    +    S E   +    E D +  S     +A+    EAH  AL+A  KEL
Sbjct: 1759261 GHKEAITAMQEKHAASLESATELLALEKDHSHSSALA--AALRERDEAHAKALSAREKEL 1759434

Query: 119     EGKYRVRLA 127
                 K+   LA
Sbjct: 1759435 ADKHAGALA 1759461



 Score = 27.7 bits (60), Expect = 6.0
 Identities = 22/69 (31%), Positives = 30/69 (43%)
 Frame = +3

Query: 59      GHTEAMRVWFDPAIISYEDLLKQFFREHDPTQKSKCQYKSAVWYHSEAHGTALAAVMKEL 118
               GH EA+    +    S E   +    E D +  S     +A+    EAH  AL+A  KEL
Sbjct: 1767429 GHKEAITAMQEKHAASLESATELLALEKDHSHSSALA--AALRERDEAHAKALSAREKEL 1767602

Query: 119     EGKYRVRLA 127
                 K+   LA
Sbjct: 1767603 ADKHAGALA 1767629



 Score = 27.7 bits (60), Expect = 6.0
 Identities = 22/69 (31%), Positives = 30/69 (43%)
 Frame = +3

Query: 59      GHTEAMRVWFDPAIISYEDLLKQFFREHDPTQKSKCQYKSAVWYHSEAHGTALAAVMKEL 118
               GH EA+    +    S E   +    E D +  S     +A+    EAH  AL+A  KEL
Sbjct: 1769955 GHKEAITAMQEKHAASLESATELLALEKDHSHSSALA--AALRERDEAHAKALSAREKEL 1770128

Query: 119     EGKYRVRLA 127
                 K+   LA
Sbjct: 1770129 ADKHAGALA 1770155


>scaffold_8 
          Length = 1961717

 Score = 31.2 bits (69), Expect = 0.55
 Identities = 28/102 (27%), Positives = 40/102 (39%)
 Frame = +3

Query: 32      PGVVKTRVGYTGGSRPNPTYESVCAGDGHTEAMRVWFDPAIISYEDLLKQFFREHDPTQK 91
               PG V+ RV   G +   P+   V   D H  A+   F PAI   + +          T +
Sbjct: 1494615 PGTVELRVVRLGDAAAGPSVPFVALPDPHANALLAPFAPAIAGGDVVAVAGVGFEHATAE 1494794

Query: 92      SKCQYKSAVWYHSEAHGTALAAVMKELEGKYRVRLATTVDPA 133
               + C++   V   + A   A   V   L     VRLA + D A
Sbjct: 1494795 AACRFGDRV--VAAAADGAFRCVAPRLAATGHVRLALSNDGA 1494914


>scaffold_81 
          Length = 40918

 Score = 28.5 bits (62), Expect = 3.5
 Identities = 16/45 (35%), Positives = 19/45 (42%)
 Frame = +1

Query: 92    SKCQYKSAVWYHSEAHGTALAAVMKELEGKYRVRLATTVDPAGDW 136
             S+C   SA W  S   GTA AA      G    R  +T  P+  W
Sbjct: 16432 SRCAASSAPWRASTRRGTAPAAATGACAGPSS*RRGSTRPPSSPW 16566


>scaffold_6 
          Length = 2755913

 Score = 27.3 bits (59), Expect = 7.9
 Identities = 12/21 (57%), Positives = 13/21 (61%)
 Frame = +1

Query: 56      AGDGHTEAMRVWFDPAIISYE 76
               AGDG  E  RVW D  II+ E
Sbjct: 2014228 AGDGGAEPARVWCDAVIIAVE 2014290


  Database: genome.fa
    Posted date:  Jan 16, 2009 12:50 PM
  Number of letters in database: 56,660,578
  Number of sequences in database:  1185
  
Lambda     K      H
   0.317    0.131    0.429 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,187,723
Number of Sequences: 1185
Number of extensions: 217786
Number of successful extensions: 1272
Number of sequences better than 10.0: 13
Number of HSP's better than 10.0 without gapping: 121
Number of HSP's successfully gapped in prelim test: 35
Number of HSP's that attempted gapping in prelim test: 441
Number of HSP's gapped (non-prelim): 1027
length of query: 160
length of database: 18,886,859
effective HSP length: 96
effective length of query: 64
effective length of database: 18,773,099
effective search space: 1201478336
effective search space used: 1201478336
frameshift window, decay const: 40,  0.1
T: 13
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.9 bits)
