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= Ahg320641
Length=2130
Score E
Sequences producing significant alignments: (Bits) Value
AT1G12210.1 | Symbols: RFL1 | RPS5-like 1 | chr1:4140948-414360... 222 1e-56
> AT1G12210.1 | Symbols: RFL1 | RPS5-like 1 | chr1:4140948-4143605
FORWARD LENGTH=2658
Length=2658
Score = 222 bits (120), Expect = 1e-56
Identities = 814/1127 (72%), Gaps = 135/1127 (12%)
Strand=Plus/Plus
Query 1000 AAAATGATATC-TGGCAACCCCGATTGTC-CTCAACTTACAACTCTCCTT-C-TCAAAAC 1055
|||| |||| | ||||| ||||| || | | |||||| |||||| || | ||| ||
Sbjct 1586 AAAA-GATA-CTTGGCAGTCCCGAATG-CGTTGAACTTATAACTCT-GTTCCTTCAGAA- 1640
Query 1056 AAACTACAAGTTGGAAAATATTTC-AGGTGAATTTTTTATGTCTATGCC-AATGCTAG-T 1112
||||||||||||| | | || || | | ||||| ||| || |||||| | | |||| |
Sbjct 1641 TAACTACAAGTTGGTAGACATCTCAATG-GAATTCTTTCGGTGTATGCCTAGT-CTAGCT 1698
Query 1113 AGTCTTGGATCTGTCAATG-AACT-ACCG-CCTCGAAGAATTGCCAGAAGAAATATCAGA 1169
|| |||||||| || | | || | || | | | | ||| |||||||||||||||||||
Sbjct 1699 -GTTTTGGATCTATC-A-GAAAATCACAGTCTTAG-TGAACTGCCAGAAGAAATATCAGA 1754
Query 1170 GTTGGTCTCCTTGCAGTTTCTTGACTTGTCATACACA-AGTATAGATCGACT--GTCAGT 1226
|||||| |||||||||| |||||| ||||| ||| | |||||| ||||| |||
Sbjct 1755 GTTGGTGTCCTTGCAGTATCTTGATTTGTCCGGGACATA-TATAGAGCGACTACCTCA-- 1811
Query 1227 TGGAATACAAAAGTTGAAAAAACTATTACATCT-AAATATGGAATCCATGTGGAGACTTG 1285
||| |||| |||||| ||| ||| ||||| | ||| ||||| | | |||||||||
Sbjct 1812 TGGTTTACACGAGTTGAGAAAGCTAGTACATTTGAAA-CTGGAAAGGACGAGGAGACTTG 1870
Query 1286 AGAGTATTTAC-GGGATATCGA-ATTTGTCGAGTTTGAGATTATTGAAACTACGAAATTC 1343
|||| |||| | |||||||| | ||||||| ||||||||| ||||| |||| || ||||
Sbjct 1871 AGAGCATTT-CAGGGATATC-ATATTTGTCAAGTTTGAGAACATTGAGACTAAGAGATTC 1928
Query 1344 ---CACGGTATTGGTAGATAAC--AGCTTAATAG-AGGAGCTGCAACTCTTGGAATATCT 1397
|| | | ||||| || |||| || | | || || || ||||| ||| || |
Sbjct 1929 AAAAAC-G-A-CACTAGAT-ACGGGGCTT-AT-GAAAGAACTACAGCTCTTAGAACATTT 1982
Query 1398 AGAAACTCTTACCCTAACA-ATA-C-CATCAAGTTTGGGTTTGAAGAAACTGTTCTCTGC 1454
|| ||||| || || ||| ||| | | ||| |||| || ||| | || |||||| |
Sbjct 1983 AG-AACTCATAACC--ACAGATATCTCGTCAGGTTT-GG-TTG-GGGAATTGTTCTGTTA 2036
Query 1455 TCACA-AGTTGGTGAAATGCATTCAAAAGGTATCTATAAAGAACC-TT--GA------GG 1504
|| || |||||| || ||| |||||| | | | ||| | | ||| || || ||
Sbjct 2037 TCCCAGAGTTGG-GAGATGTATTCAACACATTTATATTAGGGACCATTGGGAGCGTCCGG 2095
Query 1505 AAAAAACATTCAAGA-TATTATCTTTT-CCAGTC-ATGGATAATCTGAATAG-T-C-TCG 1558
| || | | | || ||||| |||| |||| | || |||||||| | | | | ||
Sbjct 2096 AGGAATCCGT-AGGAGTATTA-GTTTTGCCAG-CTATACATAATCTG--T-GTTACATCT 2149
Query 1559 CCATATGGAAGTG-TGACATGTTGGAGATAAAGATAGAGAAGTCACCATCATGGAACAAA 1617
|||||||||| || || |||| |||||||| |||||||||| | || ||||||| |||
Sbjct 2150 CCATATGGAACTGTTG-GATGTGGGAGATAATGATAGAGAAG--A-CACCATGGAAAAAA 2205
Query 1618 AGTCCAACAAGT-TCATGCTTCTCTAACCTCTCATATATATG-G-ATACG-AGAGTGTTC 1673
| || ||||| | || |||||| |||||||| || || || | ||| | || ||||
Sbjct 2206 AATCTAACAAATCCCA-ACTTCTCAAACCTCTC-TA-ATGTGCGAATA-GAAGGGTGTGA 2261
Query 1674 GGGTCTAAGGGATTTGACGTGGTTGTTGTTTGCACCAAACCTTATTGATC-T-GACGGTT 1731
||| ||| ||||||||||||| || ||||||| |||||||| || ||| | | || ||
Sbjct 2262 TGGTTTAAAGGATTTGACGTGGCTGCTGTTTGCTCCAAACCTGATCAATCTTCG-CGTTT 2320
Query 1732 --GGTTCGATAAATG-AACTAGAGGATATAATAAGCAAAGAGAAAGCTGATCAAGCTAGA 1788
|| | | | || | | || |||||||||||||||||||||||||||| |||| | |
Sbjct 2321 GGGGGT-G-T-AA-GCATCTGGAGGATATAATAAGCAAAGAGAAAGCTG--CAAG-T-GT 2372
Query 1789 GA-AGAGCAAGGTAATATTATTCCTTTTCAAAAACTGGAAT-CTCTCTCCTTG-ATTGAT 1845
||| |||| | ||| ||||||| || ||||| |||| | || |||| || |
Sbjct 2373 TTTAGAA-AAGG-AG-ATTCTTCCTTTCCAGAAACTAGAATGC-CTGAACTTGTATC-AG 2427
Query 1846 TTACCT-ACGTTAAAAAGCATCTACTGGAGTCCTCTACCTTTTCCATC-TCTTAAGA-GA 1902
|| || | | | || ||||||||||||| | |||| ||||||| | | | || ||| |
Sbjct 2428 TTGTCTGA-GCTGAAGAGCATCTACTGGAATGCTCTGCCTTTTC-AGCGT-TTGAGATGT 2484
Query 1903 ATCAA-AGTAC-AAA-AGT-GTC-GAAAACTTAGAAGGCTTCCATTCGACTCTAAAAGTG 1957
| | | ||| ||| | | ||| ||| || |||| |||||| | || ||||||||||
Sbjct 2485 CTTGACA-TACTAAACAATTGTCCGAAG-CTGAGAAAGCTTCCGCTGGATTCTAAAAGTG 2542
Query 1958 GTGTTGTAGGTGAAGA-TCTTGTCATAAATTAC--GGAGAGGAGGAATGGATAGAAAGAG 2014
||| || |||||| | |||||||||| ||| ||||| | |||||||||||||||
Sbjct 2543 TTGTCAAAGTTGAAGAAT-TTGTCATAAAATACAAGGAGAAAA--AATGGATAGAAAGAG 2599
Query 2015 TTAAATGGGAAGACGAAGC--CACAAGACTTCGTTTCTTATCTTCTT 2059
|| ||||||| |||||||| ||||| || ||||||||| || |||
Sbjct 2600 TTGAATGGGAGGACGAAGCGACACAATAC--CGTTTCTTACCTACTT 2644
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 105621946680
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