TBLASTN 2.8.1+


Reference: Stephen F. Altschul, 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.



Database: X5.fasta
           1,868 sequences; 23,962,143 total letters



Query= RPB9_ENCCU Q8SQU1 DNA-directed RNA polymerase II subunit RPB9 (RNA
polymerase II subunit B9) (DNA-directed RNA polymerase II subunit 9)

Length=108
                                                                      Score     E
Sequences producing significant alignments:                          (Bits)  Value

  scaffold-359                                                        72.0    4e-16
  scaffold-463                                                        68.9    4e-15
  scaffold-693                                                        28.9    0.47 
  scaffold-100                                                        26.9    2.2  
  scaffold-444                                                        26.6    2.6  
  scaffold-243                                                        25.8    5.0  
  scaffold-282                                                        25.4    6.3  
  scaffold-17                                                         25.4    6.5  


> scaffold-359
Length=583372

 Score = 72.0 bits (175),  Expect = 4e-16, Method: Compositional matrix adjust.
 Identities = 41/111 (37%), Positives = 64/111 (58%), Gaps = 8/111 (7%)
 Frame = +3

Query  5       FCKECNNLLYPKED--DNTLFLACKNCEHIQEAKSHRLYVKNFRPKHAS--IELYARDLV  60
               FC +CNN+LYPKE+  +  L  AC+NC H + A+S+ +Y K+    HA   ++    D+ 
Sbjct  536802  FCPDCNNMLYPKENRQEKRLLYACRNCNHYEIAESNCIY-KH*VMHHAGD*MQ*LISDVA  536978

Query  61      QDPTLPSVK-INCGNCGFNKGLYFQPRGGEEDVALSIFYLCC--RCYHLWT  108
               +DPTLP  + + C  C   + +YFQ R    D  ++++Y+CC   C H W 
Sbjct  536979  KDPTLPRTRDVQCPRCE*KEVVYFQTRARRADATMTLYYVCCN*ECGHKWA  537131


> scaffold-463
Length=442349

 Score = 68.9 bits (167),  Expect = 4e-15, Method: Compositional matrix adjust.
 Identities = 40/111 (36%), Positives = 63/111 (57%), Gaps = 8/111 (7%)
 Frame = -3

Query  5      FCKECNNLLYPKED--DNTLFLACKNCEHIQEAKSHRLYVKNFRPKHAS--IELYARDLV  60
              FC +CNN+LYPKE+  +  L  AC+NC H + A+S+ +Y K+    HA   ++    D+ 
Sbjct  28776  FCPDCNNMLYPKENRQEKRLLYACRNCNHYEIAESNCIY-KH*VMHHAGD*MQ*LISDVA  28600

Query  61     QDPTLPSVK-INCGNCGFNKGLYFQPRGGEEDVALSIFYLCC--RCYHLWT  108
              +DPTL   + + C  C   + +YFQ R    D  ++++Y+CC   C H W 
Sbjct  28599  KDPTLARTRDVQCPKCE*KEVVYFQTRARRADATMTLYYVCCN*ECGHKWA  28447


> scaffold-693
Length=1268102

 Score = 28.9 bits (63),  Expect = 0.47, Method: Composition-based stats.
 Identities = 21/63 (33%), Positives = 28/63 (44%), Gaps = 13/63 (21%)
 Frame = +1

Query  22       LFLACKNCEHIQEAKSHRLYVKNFRPKHASIELYARDLVQDPTLPSVKINC------GNC  75
                L LA +NC+ I       L +  F  K  ++ L   DL+    +P VKI C      G C
Sbjct  1006645  LILALRNCQSI-------LMIMKFNLKLLAVMLQIMDLILQVKIPVVKIFC*LKKSKGCC  1006803

Query  76       GFN  78
                G N
Sbjct  1006804  GIN  1006812


 Score = 25.8 bits (55),  Expect = 5.0, Method: Compositional matrix adjust.
 Identities = 10/49 (20%), Positives = 24/49 (49%), Gaps = 0/49 (0%)
 Frame = +2

Query  60      VQDPTLPSVKINCGNCGFNKGLYFQPRGGEEDVALSIFYLCCRCYHLWT  108
               + + +   ++  C  CG +K  +F  +    D   ++FY C +C + ++
Sbjct  419612  IDENSGAIIEERCEKCGHDKMKFFTMQLRSADEGQTVFYTCLKCKYTYS  419758


> scaffold-100
Length=762135

 Score = 26.9 bits (58),  Expect = 2.2, Method: Composition-based stats.
 Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 1/39 (3%)
 Frame = +2

Query  27     KNCEHIQEAKSHRLYVKNFRPKHASIELYARDLVQDPTL  65
              KN E  ++ K +R   KNF P H  ++L+ R     P+ 
Sbjct  77345  KN*ESTEQGKVNRSR-KNFPPSHIPLQLFVRSFTLPPSF  77458


> scaffold-444
Length=851481

 Score = 26.6 bits (57),  Expect = 2.6, Method: Composition-based stats.
 Identities = 17/44 (39%), Positives = 21/44 (48%), Gaps = 3/44 (7%)
 Frame = +1

Query  1       MSDRFCKECNNLLYPKEDDNTL---FLACKNCEHIQEAKSHRLY  41
               +S  F   CN   YP  D N+      A  + EH+Q AK  RLY
Sbjct  486973  ISTFFYSSCNFSNYPSVDVNSQASSLKATTHMEHLQLAKQARLY  487104


> scaffold-243
Length=448935

 Score = 25.8 bits (55),  Expect = 5.0, Method: Compositional matrix adjust.
 Identities = 10/49 (20%), Positives = 24/49 (49%), Gaps = 0/49 (0%)
 Frame = +3

Query  60      VQDPTLPSVKINCGNCGFNKGLYFQPRGGEEDVALSIFYLCCRCYHLWT  108
               + + +   ++  C  CG +K  +F  +    D   ++FY C +C + ++
Sbjct  171765  IDENSGAIIEERCEKCGHDKMKFFTMQLRSADEGQTVFYTCLKCKYTYS  171911


> scaffold-282
Length=195711

 Score = 25.4 bits (54),  Expect = 6.3, Method: Composition-based stats.
 Identities = 9/18 (50%), Positives = 14/18 (78%), Gaps = 0/18 (0%)
 Frame = -3

Query  39     RLYVKNFRPKHASIELYA  56
              RL ++NF+P+  S ELY+
Sbjct  15886  RLIIQNFQPRQESQELYS  15833


> scaffold-17
Length=2125590

 Score = 25.4 bits (54),  Expect = 6.5, Method: Compositional matrix adjust.
 Identities = 9/18 (50%), Positives = 14/18 (78%), Gaps = 0/18 (0%)
 Frame = -3

Query  88      GEEDVALSIFYLCCRCYH  105
               G ED++L++  L C+CYH
Sbjct  876400  GNEDLSLTMV*LACKCYH  876347



Lambda      K        H        a         alpha
   0.325    0.141    0.476    0.792     4.96 

Gapped
Lambda      K        H        a         alpha    sigma
   0.267   0.0410    0.140     1.90     42.6     43.6 

Effective search space used: 195808425


  Database: X5.fasta
    Posted date:  Dec 26, 2021  12:14 AM
  Number of letters in database: 23,962,143
  Number of sequences in database:  1,868



Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Neighboring words threshold: 13
Window for multiple hits: 40