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= SPP00000100_2.0 # Protein # Selenoprotein S (SelS) # Human
(Homo sapiens)
(189 letters)
Database: /cursos/BI/genomes/project_2014/Alligator_mississippiensis/g
enome.fa
14,644 sequences; 2,174,243,242 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gi|397460072|gb|JH735429.1| Alligator mississippiensis unplaced ... 50 6e-05
gi|397460476|gb|JH735025.1| Alligator mississippiensis unplaced ... 36 0.89
gi|397462169|gb|JH733332.1| Alligator mississippiensis unplaced ... 34 3.4
gi|397461064|gb|JH734437.1| Alligator mississippiensis unplaced ... 33 5.8
gi|397461634|gb|JH733867.1| Alligator mississippiensis unplaced ... 33 5.8
gi|397461538|gb|JH733963.1| Alligator mississippiensis unplaced ... 33 7.6
gi|397463336|gb|JH732165.1| Alligator mississippiensis unplaced ... 33 7.6
gi|397455920|gb|JH739580.1| Alligator mississippiensis unplaced ... 32 9.9
>gi|397460072|gb|JH735429.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-7161, whole genome shotgun sequence
Length = 322022
Score = 49.7 bits (117), Expect = 6e-05
Identities = 24/27 (88%), Positives = 26/27 (96%)
Frame = -2
Query: 70 VEPDVVVKRQEALAAARLKMQEELNAQ 96
+EPD VV+RQEALAAARLKMQEELNAQ
Sbjct: 152881 LEPDAVVRRQEALAAARLKMQEELNAQ 152801
Score = 39.7 bits (91), Expect = 0.062
Identities = 13/27 (48%), Positives = 23/27 (85%)
Frame = -1
Query: 26 VGSLLATYGWYIVFSCILLYVVFQKLS 52
VG+LL+ YGWY++ +C+ +Y++ QK+S
Sbjct: 155072 VGALLSAYGWYLLLACVAIYLLVQKVS 154992
Score = 39.7 bits (91), Expect = 0.062
Identities = 15/15 (100%), Positives = 15/15 (100%)
Frame = -2
Query: 162 GYNPLSGEGGGACSW 176
GYNPLSGEGGGACSW
Sbjct: 149092 GYNPLSGEGGGACSW 149048
Score = 35.8 bits (81), Expect = 0.89
Identities = 15/19 (78%), Positives = 16/19 (84%)
Frame = -3
Query: 118 MWDSMQEGKSYKGNAKKPQ 136
MW+SMQEGKSYKGN K Q
Sbjct: 151395 MWESMQEGKSYKGNLKLNQ 151339
Score = 35.4 bits (80), Expect = 1.2
Identities = 19/32 (59%), Positives = 23/32 (71%), Gaps = 2/32 (6%)
Frame = -1
Query: 136 QEEDSPGPSTSSVL-KRKSDRKPLRGGG-YNP 165
Q+E + PSTSS + K K D+KPLRGGG Y P
Sbjct: 151184 QQETASSPSTSSAVPKPKPDKKPLRGGGKYEP 151089
>gi|397460476|gb|JH735025.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-6502, whole genome shotgun sequence
Length = 853276
Score = 35.8 bits (81), Expect = 0.89
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 2/40 (5%)
Frame = +3
Query: 138 EDSPGP-STSSVLKRKSDRKPLRG-GGYNPLSGEGGGACS 175
E+SP P S +LK + +P G GGY+P G GGAC+
Sbjct: 226224 EESPSPHSPIMILKHRGLERPTAGKGGYSPCPGSSGGACT 226343
>gi|397462169|gb|JH733332.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-3744, whole genome shotgun sequence
Length = 76340
Score = 33.9 bits (76), Expect = 3.4
Identities = 21/56 (37%), Positives = 28/56 (50%), Gaps = 9/56 (16%)
Frame = -3
Query: 129 KGNAKKPQEEDSPGPSTSSVLKRKSDRKPLRGGGY-----NPLSGE----GGGACS 175
KG KPQ DSP P+ +S L+ R P G +P +G+ GGGAC+
Sbjct: 41415 KGKTNKPQTRDSPVPAAASGLQGACGRGPYASQGSWKQQGSPPAGQEPVAGGGACA 41248
>gi|397461064|gb|JH734437.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-5551, whole genome shotgun sequence
Length = 1339269
Score = 33.1 bits (74), Expect = 5.8
Identities = 17/58 (29%), Positives = 24/58 (41%)
Frame = -2
Query: 119 WDSMQEGKSYKGNAKKPQEEDSPGPSTSSVLKRKSDRKPLRGGGYNPLSGEGGGACSW 176
W EG+ G + P + G T+ + RGG + P S +GG CSW
Sbjct: 423911 WKGSGEGRDEGGRSTPPVVREGVGAGTAQLG---------RGGAFAPRSAQGGVGCSW 423765
>gi|397461634|gb|JH733867.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-4593, whole genome shotgun sequence
Length = 362235
Score = 33.1 bits (74), Expect = 5.8
Identities = 20/43 (46%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Frame = +2
Query: 3 RQEESLSARPALETEGLRFLHTTVGSLLATYGWYI-VFSCILL 44
+ EE L P+ ETE RFLHT G L Y W+ SC+LL
Sbjct: 162773 KSEEGLKCPPSRETERGRFLHTPCGIL---YSWFW*CRSCLLL 162892
>gi|397461538|gb|JH733963.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-4764, whole genome shotgun sequence
Length = 379220
Score = 32.7 bits (73), Expect = 7.6
Identities = 17/40 (42%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Frame = +3
Query: 141 PGPSTSSVLKR----KSDRKPLRGGGYNPLSGEGGGACSW 176
PGPS SS +K + G + PL G GGG+CSW
Sbjct: 325548 PGPSPSSPVKLLYLGPGHQGSSTAGRHLPLRGRGGGSCSW 325667
>gi|397463336|gb|JH732165.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-1860, whole genome shotgun sequence
Length = 1713949
Score = 32.7 bits (73), Expect = 7.6
Identities = 19/54 (35%), Positives = 27/54 (50%)
Frame = -2
Query: 119 WDSMQEGKSYKGNAKKPQEEDSPGPSTSSVLKRKSDRKPLRGGGYNPLSGEGGG 172
WD ++ ++ N + Q G + R+S R +RGGG NPLSG G G
Sbjct: 1444734 WDKQRQEALFQ-NIWQSQLAKDKGETVDPGRVRQSPRFEVRGGGRNPLSGGGPG 1444576
>gi|397455920|gb|JH739580.1| Alligator mississippiensis unplaced genomic
scaffold scaffold-14130, whole genome shotgun sequence
Length = 577321
Score = 32.3 bits (72), Expect = 9.9
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Frame = -3
Query: 135 PQEEDSPGPSTSSVLKRKSDRKP------LRGGGYNPLSGEGGGAC 174
P S GPS ++ K+K + P RGGG++PL G G C
Sbjct: 432941 PSMAASQGPSLLAL*KKKKKKSPGAARCQARGGGHSPLRGTAWGLC 432804
Database: /cursos/BI/genomes/project_2014/Alligator_mississippiensis
/genome.fa
Posted date: Oct 18, 2013 5:53 PM
Number of letters in database: 2,174,243,242
Number of sequences in database: 14,644
Lambda K H
0.313 0.130 0.382
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 351,970,200
Number of Sequences: 14644
Number of extensions: 4259105
Number of successful extensions: 24861
Number of sequences better than 10.0: 8
Number of HSP's better than 10.0 without gapping: 931
Number of HSP's successfully gapped in prelim test: 435
Number of HSP's that attempted gapping in prelim test: 22273
Number of HSP's gapped (non-prelim): 6424
length of query: 189
length of database: 724,747,747
effective HSP length: 122
effective length of query: 67
effective length of database: 722,961,179
effective search space: 48438398993
effective search space used: 48438398993
frameshift window, decay const: 40, 0.1
T: 13
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 72 (32.3 bits)