BLAST2 result
TBLASTN 2.2.2 [Dec-14-2001]
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= TM0135.12
(76 letters)
Database: LJGI
28,460 sequences; 14,692,800 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
TC7796 homologue to gb|AF036495.1|AF036495 Hamamelis virginiana ... 124 2e-30
TC7800 homologue to gb|AF036493.1|AF036493 Tragopogon dubius lar... 103 8e-24
AV424291 77 8e-16
TC8426 homologue to emb|X62099.1|CHEVIARRN E.virginiana plastid ... 26 1.6
TC14094 homologue to emb|X02559.1|MIOBRN26 Oenothera berteriana ... 25 2.0
AV408733 25 2.7
AV423942 25 3.5
AV410182 24 4.6
BP053272 24 6.0
TC18416 24 6.0
TC16343 similar to UP|Q8LB75 (Q8LB75) Galactose-1-phosphate urid... 23 7.8
>TC7796 homologue to gb|AF036495.1|AF036495 Hamamelis virginiana large
subunit 26S ribosomal RNA gene, partial sequence,
complete
Length = 6006
Score = 124 bits (312), Expect = 2e-30
Identities = 59/75 (78%), Positives = 63/75 (83%), Gaps = 2/75 (2%)
Frame = -2
Query: 4 THRYSPNSELEALSHNPTHGSFAPLTSQTSVMTNCANQRFLFN*VE--LRHFHQ*GKTNM 61
THR SP+S+LEA SHNPTHGSFAPL Q S MTNCANQRFL *VE LRH+HQ*GKTN+
Sbjct: 5744 THRSSPDSDLEAFSHNPTHGSFAPLAFQPSAMTNCANQRFLSY*VELLLRHYHQ*GKTNL 5565
Query: 62 SHDGLIPTHVPYWWV 76
SHDGL P HVPYWWV
Sbjct: 5564 SHDGLNPAHVPYWWV 5520
>TC7800 homologue to gb|AF036493.1|AF036493 Tragopogon dubius large subunit
26S ribosomal RNA gene, partial sequence, partial (10%)
Length = 477
Score = 103 bits (256), Expect = 8e-24
Identities = 51/65 (78%), Positives = 55/65 (84%), Gaps = 2/65 (3%)
Frame = -2
Query: 4 THRYSPNSELEALSHNPTHGSFAPLTSQTSVMTNCANQRFLFN*VE--LRHFHQ*GKTNM 61
THR SP+S+LEA SHNPTHGSFAPL Q S MTNCANQRFL *VE LRH+HQ*GKTN+
Sbjct: 335 THRSSPDSDLEAFSHNPTHGSFAPLAFQPSAMTNCANQRFLSY*VELLLRHYHQ*GKTNL 156
Query: 62 SHDGL 66
SHDGL
Sbjct: 155 SHDGL 141
>AV424291
Length = 429
Score = 76.6 bits (187), Expect = 8e-16
Identities = 37/47 (78%), Positives = 39/47 (82%)
Frame = +3
Query: 4 THRYSPNSELEALSHNPTHGSFAPLTSQTSVMTNCANQRFLFN*VEL 50
THR SP+S+LEA SHNPTHGSFAPL Q S MTNCANQRFL *VEL
Sbjct: 135 THRSSPDSDLEAFSHNPTHGSFAPLAFQPSAMTNCANQRFLSY*VEL 275
>TC8426 homologue to emb|X62099.1|CHEVIARRN E.virginiana plastid ribosomal
RNA operon, trnI and trnA pseudogenes, partial (12%)
Length = 957
Score = 25.8 bits (55), Expect = 1.6
Identities = 10/17 (58%), Positives = 11/17 (63%)
Frame = -2
Query: 59 TNMSHDGLIPTHVPYWW 75
T +SHD L P HVP W
Sbjct: 446 TELSHDVLNPAHVPL*W 396
>TC14094 homologue to emb|X02559.1|MIOBRN26 Oenothera berteriana mitochondrial
gene for 26S ribosomal RNA, partial (83%)
Length = 3140
Score = 25.4 bits (54), Expect = 2.0
Identities = 10/14 (71%), Positives = 11/14 (78%)
Frame = -1
Query: 59 TNMSHDGLIPTHVP 72
T +SHD L PTHVP
Sbjct: 2864 TELSHDVLNPTHVP 2823
>AV408733
Length = 430
Score = 25.0 bits (53), Expect = 2.7
Identities = 13/38 (34%), Positives = 18/38 (47%)
Frame = +1
Query: 9 PNSELEALSHNPTHGSFAPLTSQTSVMTNCANQRFLFN 46
P + AL+ HG+ APL NC ++ F FN
Sbjct: 73 PGNSSSALNAGQNHGNKAPL-------PNCVDENFNFN 165
>AV423942
Length = 413
Score = 24.6 bits (52), Expect = 3.5
Identities = 9/18 (50%), Positives = 11/18 (61%)
Frame = +3
Query: 5 HRYSPNSELEALSHNPTH 22
H +SP L AL+H P H
Sbjct: 30 HHHSPYPSLSALTHRPWH 83
>AV410182
Length = 366
Score = 24.3 bits (51), Expect = 4.6
Identities = 8/13 (61%), Positives = 10/13 (76%)
Frame = +1
Query: 15 ALSHNPTHGSFAP 27
A+ H P HGSF+P
Sbjct: 262 AVDHQPQHGSFSP 300
>BP053272
Length = 509
Score = 23.9 bits (50), Expect = 6.0
Identities = 13/35 (37%), Positives = 18/35 (51%)
Frame = +1
Query: 12 ELEALSHNPTHGSFAPLTSQTSVMTNCANQRFLFN 46
E+ A+ HNP HG + L M C N ++ FN
Sbjct: 232 EVVAILHNPLHGGWLILVG-*PCMAFCPNVQWNFN 333
>TC18416
Length = 426
Score = 23.9 bits (50), Expect = 6.0
Identities = 13/33 (39%), Positives = 17/33 (51%)
Frame = +3
Query: 6 RYSPNSELEALSHNPTHGSFAPLTSQTSVMTNC 38
R SP+S PTH S L S+T ++ NC
Sbjct: 282 RLSPSSP----PTRPTHHSLRALCSKTGLILNC 368
>TC16343 similar to UP|Q8LB75 (Q8LB75) Galactose-1-phosphate uridyl
transferase-like protein, partial (28%)
Length = 466
Score = 23.5 bits (49), Expect = 7.8
Identities = 11/40 (27%), Positives = 19/40 (47%)
Frame = +2
Query: 3 YTHRYSPNSELEALSHNPTHGSFAPLTSQTSVMTNCANQR 42
Y+H PN+ L + ++P + PL S + A+ R
Sbjct: 107 YSHPREPNAPLISSQNHPPTRTRTPLAPSASATSTSAHPR 226
Database: LJGI
Posted date: Jul 30, 2004 11:16 AM
Number of letters in database: 14,692,800
Number of sequences in database: 28,460
Lambda K H
0.332 0.139 0.486
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,669,876
Number of Sequences: 28460
Number of extensions: 20951
Number of successful extensions: 191
Number of sequences better than 10.0: 22
Number of HSP's better than 10.0 without gapping: 189
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 189
length of query: 76
length of database: 4,897,600
effective HSP length: 52
effective length of query: 24
effective length of database: 3,417,680
effective search space: 82024320
effective search space used: 82024320
frameshift window, decay const: 50, 0.1
T: 13
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.5 bits)
S2: 48 (23.1 bits)
Lotus: description of TM0135.12