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= Ahg472929
Length=365
Score E
Sequences producing significant alignments: (Bits) Value
AT1G27330.1 | Symbols: | Ribosome associated membrane protein ... 521 1e-147
AT1G27350.1 | Symbols: | Ribosome associated membrane protein ... 392 1e-108
> AT1G27330.1 | Symbols: | Ribosome associated membrane protein
RAMP4 | chr1:9492964-9494069 FORWARD LENGTH=478
Length=478
Score = 521 bits (282), Expect = 1e-147
Identities = 352/382 (92%), Gaps = 20/382 (5%)
Strand=Plus/Plus
Query 4 TTCTTCTCCGGTGTAATCATGACAACTTCAAAAAGACTCGCAGACAGGAAGATTGAGAAA 63
|||||||||||||||||||||||||| ||||||||||| |||||||||||||||||||||
Sbjct 83 TTCTTCTCCGGTGTAATCATGACAACCTCAAAAAGACTAGCAGACAGGAAGATTGAGAAA 142
Query 64 TTCGACAAGAACATATTAAAAAGAGGATTTGTTCCTGAGACCACCACCAAGAAGGGCAAG 123
||||||||||||||||| |||||||||||||||||||||||||||||||||||||| |||
Sbjct 143 TTCGACAAGAACATATTGAAAAGAGGATTTGTTCCTGAGACCACCACCAAGAAGGGTAAG 202
Query 124 GATTACCCTGTTGGTCCCATCCTCCTCGGCTTCTTTGTCTTCGTTGTCATTGGATCATCT 183
||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct 203 GATTACCCTGTTGGTCCCATCCTCCTCGGCTTCTTTGTCTTTGTTGTCATTGGATCATCT 262
Query 184 CTCTTCCAGATCATCAGGACCGCAACTAGTGGAGGAATGGCTTAAACCCTATCACATTCA 243
||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct 263 CTCTTCCAGATCATCAGGACCGCAACTAGTGGAGGAATGGCTTAAACCCAATCACATTCA 322
Query 244 AGCTGGAAGATCGCAATTCTCAAATT-------C-T---T--CT-CT-T-CTGACTTGCC 287
||||||||||| |||||||||||||| | | | || || | |||||||| |
Sbjct 323 AGCTGGAAGATTGCAATTCTCAAATTGATGAATCATCACTTTCTTCTCTTCTGACTTGTC 382
Query 288 TCTTTTTC-CCCTTATACTGTAGAATGCGACTACTTTCTGTTGACTACATGTTAT-GAA- 344
||||||| |||||||||||||||||| ||||||||||||||||||||||||||| |||
Sbjct 383 TCTTTTTTTCCCTTATACTGTAGAATGTGACTACTTTCTGTTGACTACATGTTATTGAAA 442
Query 345 GAATTTT-GAGTCTTTTTCTAA 365
||||||| ||||||||||||||
Sbjct 443 GAATTTTTGAGTCTTTTTCTAA 464
> AT1G27350.1 | Symbols: | Ribosome associated membrane protein
RAMP4 | chr1:9498151-9499425 REVERSE LENGTH=497
Length=497
Score = 392 bits (212), Expect = 1e-108
Identities = 326/378 (86%), Gaps = 19/378 (5%)
Strand=Plus/Plus
Query 2 GTTTCTTCTCCGGTGTAATCATGACAACTTCAAAAAGACTCGCAGACAGGAAGATTGAGA 61
||||||||||||| |||||||||||||| ||||||||||| |||||||||||||||||||
Sbjct 103 GTTTCTTCTCCGGCGTAATCATGACAACCTCAAAAAGACTAGCAGACAGGAAGATTGAGA 162
Query 62 AATTCGACAAGAACATATTAAAAAGAGGATTTGTTCCTGAGACCACCACCAAGAAGGGCA 121
|||||||||| ||||| ||||| |||||||||||||||||||||||||||||||||||||
Sbjct 163 AATTCGACAAAAACATTTTAAAGAGAGGATTTGTTCCTGAGACCACCACCAAGAAGGGCA 222
Query 122 AGGATTA-CCCTGTTGGTCCCATCCTCCTCGGCTTCTTTGTCTTCGTTGTCATTGGATCA 180
||||||| ||| |||||||||||||| || |||||||||||||| |||||||||||||||
Sbjct 223 AGGATTATCCC-GTTGGTCCCATCCTTCTTGGCTTCTTTGTCTTTGTTGTCATTGGATCA 281
Query 181 TCTCTCTTCCAGATCATCAGGACCGCAACTAGTGGAGGAATGGCTTAAACCCTATCACAT 240
|||||||| |||||||| ||||| |||||||| ||||| ||||| |||||| | ||||
Sbjct 282 TCTCTCTTTCAGATCATTAGGACTGCAACTAGCGGAGGCATGGCATAAACCAAAACACAG 341
Query 241 TCAAGCTGGAAGATCGCAATTCTCAAATTCT----TCT-CTTCTGACTTGCCT--CTTTT 293
||||||| ||||| ||| || ||||| | | ||| |||||| || ||| |||||
Sbjct 342 TCAAGCTAGAAGAA-GCAGTTTTCAAAATGTAGAATCTTCTTCTGTCT--CCTTTCTTTT 398
Query 294 TC-C-CCTTATACTGTAGAATGCGACTACTTTCTGTTGACTA---CATGTTATGAAGAAT 348
|| | ||||||||||||||||| | | |||||||||| |||| ||||| ||||||| |
Sbjct 399 TCTCTCCTTATACTGTAGAATGTGTCAACTTTCTGTTTACTATATCATGTAATGAAGATT 458
Query 349 -TTTGAGTCTTTTTCTAA 365
||||||| ||||| |||
Sbjct 459 ATTTGAGT-TTTTTATAA 475
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 17141302409
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