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= Ahg932745
Length=197
Score E
Sequences producing significant alignments: (Bits) Value
AT1G79075.1 | Symbols: | other RNA | chr1:29745939-29746842 FO... 182 1e-45
AT2G40205.1 | Symbols: | Ribosomal protein L41 family | chr2:1... 108 2e-23
AT3G11120.1 | Symbols: | Ribosomal protein L41 family | chr3:3... 104 3e-22
AT3G56020.1 | Symbols: | Ribosomal protein L41 family | chr3:2... 102 1e-21
AT3G08520.1 | Symbols: | Ribosomal protein L41 family | chr3:2... 102 1e-21
> AT1G79075.1 | Symbols: | other RNA | chr1:29745939-29746842
FORWARD LENGTH=290
Length=290
Score = 182 bits (98), Expect = 1e-45
Identities = 130/144 (90%), Gaps = 7/144 (5%)
Strand=Plus/Minus
Query 14 TAAGATCAATGTTTGCAAGAGATAGAA-GGAGAGAAGCAAGAAACACAGTCGTCGAATTG 72
||||| |||||||||||||||| | || |||||||||||||||||| ||||| | ||||
Sbjct 224 TAAGAACAATGTTTGCAAGAGAGA-AAGGGAGAGAAGCAAGAAACAGAGTCG-C--ATTG 169
Query 73 ACTTCAAAAGCCAAA-TTACTTGGATCGCTGTCTCATCTTTCGTCTCTTCCTCTTAAGCC 131
|||| |||| |||| |||||| || ||||||||||||||||||||||||||||||||||
Sbjct 168 TCTTC-AAAGGCAAATTTACTTAGAACGCTGTCTCATCTTTCGTCTCTTCCTCTTAAGCC 110
Query 132 TCCTCATACGCTTCTTCTTCCACT 155
||||||||||||||||||||||||
Sbjct 109 TCCTCATACGCTTCTTCTTCCACT 86
> AT2G40205.1 | Symbols: | Ribosomal protein L41 family | chr2:16792317-16792531
REVERSE LENGTH=116
Length=116
Score = 108 bits (58), Expect = 2e-23
Identities = 64/67 (96%), Gaps = 0/67 (0%)
Strand=Plus/Minus
Query 89 TACTTGGATCGCTGTCTCATCTTTCGTCTCTTCCTCTTAAGCCTCCTCATACGCTTCTTC 148
||||| |||||||||||||||||||||||||||||||| ||||||||||| |||||||||
Sbjct 77 TACTTAGATCGCTGTCTCATCTTTCGTCTCTTCCTCTTCAGCCTCCTCATTCGCTTCTTC 18
Query 149 TTCCACT 155
|||||||
Sbjct 17 TTCCACT 11
> AT3G11120.1 | Symbols: | Ribosomal protein L41 family | chr3:3481052-3481448
FORWARD LENGTH=298
Length=298
Score = 104 bits (56), Expect = 3e-22
Identities = 68/73 (93%), Gaps = 3/73 (4%)
Strand=Plus/Minus
Query 85 AAAT-TACTTGGATCGCTGTCTCATCTTTCGTCTCTTCCTCTT-AAGCCTCCTCATACGC 142
|||| ||||| |||||||||||||||||||||||||||||||| || | |||||||||||
Sbjct 158 AAATCTACTTAGATCGCTGTCTCATCTTTCGTCTCTTCCTCTTTAATC-TCCTCATACGC 100
Query 143 TTCTTCTTCCACT 155
|||||||||||||
Sbjct 99 TTCTTCTTCCACT 87
> AT3G56020.1 | Symbols: | Ribosomal protein L41 family | chr3:20790570-20791085
REVERSE LENGTH=376
Length=376
Score = 102 bits (55), Expect = 1e-21
Identities = 64/68 (94%), Gaps = 2/68 (3%)
Strand=Plus/Minus
Query 89 TACTTGGATCGCTGTCTCATCTTTCGTCTCTTCCTCTT-AAGCCTCCTCATACGCTTCTT 147
||||| |||||||||||||||||||||||||||||||| || | ||||||||||||||||
Sbjct 119 TACTTAGATCGCTGTCTCATCTTTCGTCTCTTCCTCTTCAATC-TCCTCATACGCTTCTT 61
Query 148 CTTCCACT 155
||||||||
Sbjct 60 CTTCCACT 53
> AT3G08520.1 | Symbols: | Ribosomal protein L41 family | chr3:2586032-2586206
FORWARD LENGTH=78
Length=78
Score = 102 bits (55), Expect = 1e-21
Identities = 64/68 (94%), Gaps = 2/68 (3%)
Strand=Plus/Minus
Query 89 TACTTGGATCGCTGTCTCATCTTTCGTCTCTTCCTCTT-AAGCCTCCTCATACGCTTCTT 147
||||| |||||||||||||||||||||||||||||||| || | ||||||||||||||||
Sbjct 77 TACTTAGATCGCTGTCTCATCTTTCGTCTCTTCCTCTTCAATC-TCCTCATACGCTTCTT 19
Query 148 CTTCCACT 155
||||||||
Sbjct 18 CTTCCACT 11
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 8752435074
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