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= Ahg485860
Length=671
Score E
Sequences producing significant alignments: (Bits) Value
AT3G54560.1 | Symbols: HTA11 | histone H2A 11 | chr3:20196266-2... 867 0.0
AT4G04408.1 | Symbols: | pseudogene, similar to Putative histo... 311 6e-84
> AT3G54560.1 | Symbols: HTA11 | histone H2A 11 | chr3:20196266-20197650
FORWARD LENGTH=689
Length=689
Score = 867 bits (469), Expect = 0.0
Identities = 622/692 (90%), Gaps = 25/692 (4%)
Strand=Plus/Plus
Query 1 AACCAGATTTCGTTTCTTTCGTCCttttttttttttttGCATTCTCTCGTCGTCGTCTCA 60
|||||||||||||||||||||||| ||||||| ||||||||||||||||||||||||||
Sbjct 1 AACCAGATTTCGTTTCTTTCGTCC-TTTTTTTCCTTTTGCATTCTCTCGTCGTCGTCTCA 59
Query 61 AGATCTAGAAGAAGGAAACAGCAATTTGAAGCGACATGGCAGGCAAAGGTGGAAAAGGAC 120
|||||||||||||||||||| |||||| ||| ||||||||||||||||||||||||||||
Sbjct 60 AGATCTAGAAGAAGGAAACAACAATTTCAAGAGACATGGCAGGCAAAGGTGGAAAAGGAC 119
Query 121 TCGTAGCTGCGAAGACGATGGCTGCTAACAAGGACAAAGACAAGGACAAGAAGAAACCCA 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 120 TCGTAGCTGCGAAGACGATGGCTGCTAACAAGGACAAAGACAAGGACAAGAAGAAACCCA 179
Query 181 TCTCTCGCTCTGCTCGTGCTGGTATTCAGTTTCCTGTGGGTCGTATTCACAGGCAACTCA 240
|||||||||||||||||||||||||||||||||| || || || |||||||||||||| |
Sbjct 180 TCTCTCGCTCTGCTCGTGCTGGTATTCAGTTTCCAGTTGGACGAATTCACAGGCAACTGA 239
Query 241 AGACCAGAGTTTCCGCACACGGCAGAGTTGGTGCAACTGCTGCTGTTTACACGGCATCAA 300
||||| |||| || ||||| |||||||||||||| ||||| || || ||||| || ||||
Sbjct 240 AGACCCGAGTCTCGGCACATGGCAGAGTTGGTGCCACTGCAGCCGTCTACACAGCTTCAA 299
Query 301 TCCTGGAGTATCTAACTGCTGAAGTTCTTGAGTTGGCTGGAAACGCTAGCAAGGATTTGA 360
||||||||||||| || || || ||||||||||||||||| || || ||||||||| | |
Sbjct 300 TCCTGGAGTATCTGACAGCAGAGGTTCTTGAGTTGGCTGGGAATGCGAGCAAGGATCTCA 359
Query 361 AAGTGAAGAGGATCACTCCGAGGCATCTGCAGTTGGCTATCAGAGGAGATGAGGAGCTTG 420
||||||||||||| || || ||||||||||||||||| || ||||||||||||||||| |
Sbjct 360 AAGTGAAGAGGATAACGCCAAGGCATCTGCAGTTGGCGATTAGAGGAGATGAGGAGCTGG 419
Query 421 ACACACTCATCAAGGGAACGATTGCCGGAGGAGGTGTGATCCCACACATCCACAAGTCTC 480
||||||||||||||||||||||||| ||||| ||||||||||| ||||||||||||||||
Sbjct 420 ACACACTCATCAAGGGAACGATTGCTGGAGGTGGTGTGATCCCTCACATCCACAAGTCTC 479
Query 481 TGATCAACAAAACCACCAAGGAGTGAT-TGT-G-TTTCT-T--T------A-----GT-- 521
| ||||||||||||||||||||||||| ||| | ||| | | | | ||
Sbjct 480 TCATCAACAAAACCACCAAGGAGTGATGTGTAGCTTTTTATGGTGTTTGTATTTCTGTAG 539
Query 522 -CTTGGACTCATTTTCCTTT-TCCCTTTTCTTAGTTCTTTGACTAGTGTTGACCTCTTCT 579
||||||||||||||||||| ||| |||||||||||||||||||||||||||||||||||
Sbjct 540 TCTTGGACTCATTTTCCTTTATCC-TTTTCTTAGTTCTTTGACTAGTGTTGACCTCTTCT 598
Query 580 GGACATCCTCAGGTGTACATTAGTTAATTTGAACTCTTTAGGTTTCTTTTGTTCAAGCAA 639
|||||||||||||||||||||||||||||||||||||||||||| ||| |||||| ||
Sbjct 599 GGACATCCTCAGGTGTACATTAGTTAATTTGAACTCTTTAGGTTCCTT--GTTCAATCAT 656
Query 640 ATGTTCTCTTTGAATGCTATTGTGATTTGCTT 671
||||||||||| |||||||||||||||||||
Sbjct 657 ATGTTCTCTTTCTATGCTATTGTGATTTGCTT 688
> AT4G04408.1 | Symbols: | pseudogene, similar to Putative histone
H2A, blastp match of 79% identity and 3.0e-31 P-value to
GP|22773254|gb|AAN06860.1||AC105729 Putative histone H2A {Oryza
sativa (japonica cultivar-group)} | chr4:2184059-2184400
REVERSE LENGTH=342
Length=342
Score = 311 bits (168), Expect = 6e-84
Identities = 249/289 (86%), Gaps = 2/289 (1%)
Strand=Plus/Plus
Query 205 TTCAGTTTCCTGTGGGTCGTATTCACAGGCAACTCAAGACCAGAGTTTCCGCACACGGCA 264
|||||||||| |||| ||||||||||| |||||| |||||||||||||| ||||| || |
Sbjct 56 TTCAGTTTCCAGTGGCTCGTATTCACAAGCAACTTAAGACCAGAGTTTCTGCACATGGTA 115
Query 265 GAGTTGGTGCAACTGCTGCTGTTTACACGGCATCAATCCTGGAGTATCTAACTGCTGAAG 324
|||||||| |||| || ||| |||||| | |||||||| || | |||||| |||| |
Sbjct 116 CTGTTGGTGCGACTGATGTTGTCTACACGACTTCAATCCTTGAATGCCTAACTACTGAGG 175
Query 325 TTCTTGAGTTGGCTGGAAACGCTAGCAAGGATTTGAAAGTGAAGAGGATCACTCCGAGGC 384
||||| ||||||| | |||| ||| |||||||||||||||||||||||| ||||| ||||
Sbjct 176 TTCTTCAGTTGGCCGAAAACACTAACAAGGATTTGAAAGTGAAGAGGATAACTCCAAGGC 235
Query 385 ATCTGCAGTTGGCTATCAGAGGAGATGAGGAGCTTGACACACTCATCAAGGGAACGATTG 444
|| |||||||||| | |||||||||||||||||||||||||||||||| ||||| ||||
Sbjct 236 ATTTGCAGTTGGCGGTTAGAGGAGATGAGGAGCTTGACACACTCATCAAAGGAACAATTG 295
Query 445 CCGGAGGAGGTGTGATCCCACACATCCACAAGTCTCTGATCAACAAAAC 493
||||||||||||||||| ||||||||| |||||| |||||||||||
Sbjct 296 TTGGAGGAGGTGTGATCCCTCACATCCACTAGTCTC--ATCAACAAAAC 342
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 32451258962
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