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= Ahg485949
Length=724
Score E
Sequences producing significant alignments: (Bits) Value
AT3G55280.1 | Symbols: RPL23AB | ribosomal protein L23AB | chr3... 918 0.0
> AT3G55280.1 | Symbols: RPL23AB | ribosomal protein L23AB | chr3:20500335-20501709
FORWARD LENGTH=773
Length=773
Score = 918 bits (497), Expect = 0.0
Identities = 554/582 (95%), Gaps = 1/582 (0%)
Strand=Plus/Plus
Query 1 ACGCTTTTGTTTCATTTTCACATCCCTTAGAATAAATAAAAACCAGC-AGCAACTTGAAG 59
||| ||||||||||||||||| ||||||||||||||||||||||| | ||||||||| |
Sbjct 1 ACGGTTTTGTTTCATTTTCACTTCCCTTAGAATAAATAAAAACCACCAAGCAACTTGGAT 60
Query 60 CTGTTCTAGGGTTTCGGTTTCGCCGCTCAGGTTTCGTGAAAAGAATCTATCTTCAGTAAT 119
|| ||||||||||| ||||||||||||||||||||||||||||||||||||| || |||
Sbjct 61 CTACTCTAGGGTTTCTGTTTCGCCGCTCAGGTTTCGTGAAAAGAATCTATCTTGAGCAAT 120
Query 120 GTCTCCAGCTAAAGTTGATGTCACCAAGAAAGCCGACCCTAAGGCTAAGGCTTTGAAAGC 179
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 121 GTCTCCAGCTAAAGTTGATGTCACCAAGAAAGCCGACCCTAAGGCTAAGGCTTTGAAAGC 180
Query 180 TGCGAAAGCAGTGAAATCTGGCCAAATCCTTAAAAAGCCTGCGAAGAAGATCAGGACAAA 239
|||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct 181 TGCGAAAGCAGTGAAATCTGGCCAAATCGTTAAAAAGCCTGCGAAGAAGATCAGGACAAA 240
Query 240 GGTCACTTTCCACAGGCCAAAGACATTGACCCTGCAGAGGAATCCTAAGTACCCAAGGAT 299
||| ||||||||||||||||||||||||||| | | || || ||||||||||||| |||
Sbjct 241 GGTTACTTTCCACAGGCCAAAGACATTGACCGTTCCTAGAAAGCCTAAGTACCCAAAGAT 300
Query 300 CAGTGCTACTCCAAGGAACAAATTGGATCACTACCAGATCCTCAAGTACCCTCTCACTAC 359
|||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct 301 CAGTGCTACTCCAAGGAACAAATTGGATCATTACCAGATCCTCAAGTACCCTCTCACTAC 360
Query 360 TGAATCTGCCATGAAGAAGATCGAAGACAACAACACCTTAGTCTTCATTGTTGACATCCG 419
||||||||||||||| ||||| ||||||||||||||||||||||||||||||||||||||
Sbjct 361 TGAATCTGCCATGAAAAAGATTGAAGACAACAACACCTTAGTCTTCATTGTTGACATCCG 420
Query 420 TGCTGACAAGAAGAAGATCAAAGATGCTGTCAAGAAGATGTATGACATTCAGACCAAGAA 479
|||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 421 TGCTGACAAGAAAAAGATCAAAGATGCTGTCAAGAAGATGTATGACATTCAGACCAAGAA 480
Query 480 AGTTAACACCCTCATTAGGACCGATGGAACGAAGAAGGCGTATGTGAGGTTGACTCCTGA 539
||| ||||||||||||||| |||||||||| |||||||||||||||||||||||||||||
Sbjct 481 AGTCAACACCCTCATTAGGCCCGATGGAACAAAGAAGGCGTATGTGAGGTTGACTCCTGA 540
Query 540 TTACGATGCTTTGGATGTGGCTAACAAAATCGGGATCATCTA 581
||| ||||||||||||||||||||||||||||||||||||||
Sbjct 541 TTATGATGCTTTGGATGTGGCTAACAAAATCGGGATCATCTA 582
Score = 198 bits (107), Expect = 5e-50
Identities = 134/146 (92%), Gaps = 5/146 (3%)
Strand=Plus/Plus
Query 583 TTCTGGGTTTTCTCTTCCATAGTCTCAGTTTTGCTAGAGAAGTTAAGATATTAC---CAT 639
|||||| ||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct 615 TTCTGGTTTTTCTCTTCCATAGTCTCAGTTTTGCTAGAGAAGTTAAGATATTACTATCAC 674
Query 640 CATCTCTTTGTTATGC-TTTATCTTTTGATTCAGAAAGATTTATATGTTTGGTATTTGTT 698
|||||||||||||||| ||||||||| |||||| ||||| ||||||||||||||||||||
Sbjct 675 CATCTCTTTGTTATGCTTTTATCTTTGGATTCAAAAAGA-TTATATGTTTGGTATTTGTT 733
Query 699 GATGCGTCAAAGTTTCTTTTTAGATC 724
||||||||| ||||||| || |||||
Sbjct 734 GATGCGTCATAGTTTCTATTCAGATC 759
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 35113668753
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