BLASTN 2.2.26+
Reference:
Zheng Zhang, Scott Schwartz, Lukas Wagner, and Webb Miller (2000),
"A greedy algorithm for aligning DNA sequences", J Comput Biol 2000;
7(1-2):203-14.
Database: TAIR10_cdna_20110103_representative_gene_model_updated
33,602 sequences; 51,074,197 total letters
Query= Ahg896656
Length=207
Score E
Sequences producing significant alignments: (Bits) Value
AT5G27700.1 | Symbols: | Ribosomal protein S21e | chr5:980730... 198 1e-50
AT3G27450.1 | Symbols: | pseudogene, 40S ribosomal protein S21... 195 2e-49
> AT5G27700.1 | Symbols: | Ribosomal protein S21e | chr5:9807302-9808506
REVERSE LENGTH=600
Length=600
Score = 198 bits (107), Expect = 1e-50
Identities = 166/195 (85%), Gaps = 2/195 (1%)
Strand=Plus/Plus
Query 8 GTTCGGCTACTAATAGGTTGATTACATCAAAGGACCATGCTTCAGTGCAGCTCAACATTG 67
|||| |||||||| ||||||| ||||| ||||| ||||| || || |||||||||||||
Sbjct 162 GTTCTGCTACTAACCGGTTGATCACATCCAAGGATCATGCCTCTGTTCAGCTCAACATTG 221
Query 68 GTCATCTT-GGTGCTGATGGAATCTACACTGGTCAATTCACTACCTTTGCTCTCTGCGGT 126
||||| || | |||| |||| | ||||| || || ||||| ||||||||||||||||||
Sbjct 222 GTCAT-TTAGATGCTAATGGCTTGTACACCGGACAGTTCACAACCTTTGCTCTCTGCGGT 280
Query 127 TTTGTCCGTGCTCAGGGTGATGCTGACAGCAGTGTCGATAGGCTATGGCAGAACAAGAAG 186
||||||||||||||||| || |||||||| ||||||| ||| | |||||||| ||||||
Sbjct 281 TTTGTCCGTGCTCAGGGAGACGCTGACAGTGGTGTCGACAGGTTGTGGCAGAAGAAGAAG 340
Query 187 GTTGAAGCTAAACAA 201
|||||||| ||||||
Sbjct 341 GTTGAAGCCAAACAA 355
> AT3G27450.1 | Symbols: | pseudogene, 40S ribosomal protein S21
(RPS21A), similar to 40S ribosomal subunit protein S21 GB:CAA70852
(Zea mays); contains Pfam profile: PF01249 ribosomal
protein S21e; can not identify a start codon for an ORF;
blastp match of 81% identity and 4.5e-23 P-value to GP|1707868|emb|CAA70852.1||Y09636
40S ribosomal subunit protein S21
{Zea mays} | chr3:10158314-10159194 REVERSE LENGTH=881
Length=881
Score = 195 bits (105), Expect = 2e-49
Identities = 121/129 (94%), Gaps = 0/129 (0%)
Strand=Plus/Plus
Query 14 CTACTAATAGGTTGATTACATCAAAGGACCATGCTTCAGTGCAGCTCAACATTGGTCATC 73
||||||| || || || ||||||||||| |||||||||||||||||||||||||||||||
Sbjct 571 CTACTAACAGATTTATCACATCAAAGGATCATGCTTCAGTGCAGCTCAACATTGGTCATC 630
Query 74 TTGGTGCTGATGGAATCTACACTGGTCAATTCACTACCTTTGCTCTCTGCGGTTTTGTCC 133
||| |||| ||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct 631 TTGATGCTAATGGACTCTACACTGGTCAATTCACTACCTTTGCTCTCTGCGGTTTTGTCC 690
Query 134 GTGCTCAGG 142
|||||||||
Sbjct 691 GTGCTCAGG 699
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 9255448584
Database: TAIR10_cdna_20110103_representative_gene_model_updated
Posted date: Sep 25, 2014 6:13 PM
Number of letters in database: 51,074,197
Number of sequences in database: 33,602
Matrix: blastn matrix 1 -2
Gap Penalties: Existence: 0, Extension: 2.5