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= Ahg489169
Length=1319
Score E
Sequences producing significant alignments: (Bits) Value
AT5G23120.1 | Symbols: HCF136 | photosystem II stability/assemb... 1742 0.0
> AT5G23120.1 | Symbols: HCF136 | photosystem II stability/assembly
factor, chloroplast (HCF136) | chr5:7778121-7780628 FORWARD
LENGTH=1410
Length=1410
Score = 1742 bits (943), Expect = 0.0
Identities = 1141/1231 (93%), Gaps = 36/1231 (3%)
Strand=Plus/Plus
Query 1 ACATCAATGGCGTCTCTGCAACTCTGCGACGGTTATCTTCTCTTCAAGCCCTCTG----- 55
|||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 28 ACATCAATGGCGTCTCTGCAACTCTGCGACGGTTATCTTCTCTTCAAGCCCTCTGTTTCT 87
Query 56 --T---TT-CTC-CTCAACGCATCTCTCACCGCCTCATCCCTAAAG-C-C-TC--C-GCT 102
| || ||| |||||||||| ||||| ||||| |||||||||| | | || | ||
Sbjct 88 CCTCGATTCCTCTCTCAACGCATTTCTCATCGCCTAATCCCTAAAGCCTCATCTTCTCCT 147
Query 103 --T-CA---CCGT---CGTC-T--TCTTCTTCCTCCTTATCTTTCAGTCGGCGGGAGCTT 150
| || || | | || | || ||||| |||||||||||||||||||||||||||
Sbjct 148 CCTCCATCTCCATCACCATCATCGTCCTCTTCATCCTTATCTTTCAGTCGGCGGGAGCTT 207
Query 151 CTATACCAATCGGCGGCTGTATCACTCTC-CATTGTTGGACCA--GTAAAAGAAGCGAAA 207
|| ||||||||||| |||||||||||||| | || || ||| || | ||||| |
Sbjct 208 CTGTACCAATCGGCAGCTGTATCACTCTCGCTTTCTT---CCATTGTTGGACCAGCGAGA 264
Query 208 GCTGATGAACAGTTATCAGAATGGGAAAGAGTGTTTCTCCCAATCGATCCCGGTGTTGTT 267
||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct 265 GCTGATGAACAGTTATCCGAATGGGAAAGAGTGTTTCTCCCAATCGATCCCGGTGTTGTT 324
Query 268 CTTCTCGACATTGCTTTCGTCCCCGACGAACCTAGCCGCGGGTTTTTACTGGGAACGAGA 327
|||||||||||||||||||||||||||||||||||||| ||||||||||| |||||||||
Sbjct 325 CTTCTCGACATTGCTTTCGTCCCCGACGAACCTAGCCGAGGGTTTTTACTTGGAACGAGA 384
Query 328 CAGACTCTATTAGAGACTAAAGACGGTGGAAACACTTGGAATCCACGCTCGATTCCTTCA 387
|||||| | |||||||||||||| ||||||| ||||||||||||||| ||||||||||||
Sbjct 385 CAGACTTTGTTAGAGACTAAAGATGGTGGAAGCACTTGGAATCCACGTTCGATTCCTTCA 444
Query 388 GCTGAAGAGGAAGATTTCAATTATAGATTCAATTCGATTAGCTTTAAAGGCAAACAAGGA 447
|||||||| ||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct 445 GCTGAAGAAGAAGATTTCAATTATAGATTCAATTCGATTAGCTTTAAAGGCAAAGAAGGA 504
Query 448 TGGATTATTGGCAAGCCTGCAATTTTGTTGTACACTGCTGATGCTGGAGAGAATTGGGAT 507
|||||||||||||| ||||| ||||| |||||||||||||||||||||||||||||||||
Sbjct 505 TGGATTATTGGCAAACCTGCGATTTTATTGTACACTGCTGATGCTGGAGAGAATTGGGAT 564
Query 508 CGGATTCCTCTAAGTTCTCAGCTTCCTGGAGATATGGTGTTTATAAAAGCGACAGGAGAT 567
|||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct 565 AGGATTCCTCTAAGTTCTCAGCTTCCTGGAGATATGGTGTTTATAAAAGCGACAGAAGAT 624
Query 568 AAGAGCGCAGAGATGGTTACTGATGAAGGTGCTATTTATGTTACTTCAAACAAGGGATAT 627
||||| |||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct 625 AAGAGTGCAGAGATGGTTACTGATGAAGGTGCTATTTATGTTACTTCAAACAGGGGATAT 684
Query 628 AACTGGAAAGCTGCTATTCAGGAAACTGTTTCAGCTACCTTGAACAGAACGGTATCTAGT 687
|||||||||||||||||||||||||||||||||||||||||||||||||| ||||| |||
Sbjct 685 AACTGGAAAGCTGCTATTCAGGAAACTGTTTCAGCTACCTTGAACAGAACAGTATCCAGT 744
Query 688 GGAATCAGTGGTGCTAGTTACTACACGGGAACCTTCAGTGCCGTTAATCGTTCACCTGAC 747
|||||||||||||||||||||||||||||||| |||||||| |||||||||||||||||
Sbjct 745 GGAATCAGTGGTGCTAGTTACTACACGGGAACTTTCAGTGCTGTTAATCGTTCACCTGAT 804
Query 748 GGAAGATATGTCGCTGTTTCCAGCCGTGGTAACTTCTTTCTGACATGGGAGCCTGGGCAG 807
|||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct 805 GGAAGATATGTCGCTGTTTCGAGCCGTGGTAACTTCTTTCTGACATGGGAGCCTGGGCAG 864
Query 808 CCTTACTGGCAACCACACAATAGAGCTGTTGCCCGAAGAATTCAGAACATGGGATGGAGA 867
|||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct 865 CCTTACTGGCAACCACACAATAGAGCTGTTGCTAGAAGAATTCAGAACATGGGATGGAGA 924
Query 868 GCTGATGGTGGTCTGTGGCTTCTTGTTCGTGGTGGAGGACTTTATCTTAGCAAAGGCACT 927
|||||||||||||| ||||||||||||||||||||||||||||||||||||||||| |||
Sbjct 925 GCTGATGGTGGTCTTTGGCTTCTTGTTCGTGGTGGAGGACTTTATCTTAGCAAAGGTACT 984
Query 928 GGGATCACAGAGGATTTTGAAGAAGTTCCAGTACAAAGCCGTGGCTTTGGCATTCTAGAT 987
||||| |||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct 985 GGGATTACAGAGGAGTTTGAAGAAGTTCCAGTACAAAGCCGTGGCTTTGGCATTCTAGAT 1044
Query 988 GTTGGATATCGCTCAGAGGAAGAAGCATGGGCAGCAGGAGGCAGTGGAATACTACTGAGA 1047
||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct 1045 GTTGGATATCGCTCAGAGGAAGAAGCATGGGCAGCAGGAGGCAGTGGCATACTACTGAGA 1104
Query 1048 ACAAGAAATGGAGGCAAATCATGGAACCGTGACAAAGCTGCTGATAATATCGCAGCTAAC 1107
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1105 ACAAGAAATGGAGGCAAATCATGGAACCGTGACAAAGCTGCTGATAATATCGCAGCTAAC 1164
Query 1108 CTCTACGCAGTCAAATTTGTGGATGACAAGAAAGGGTTTGTGCTTGGCAACGATGGAGTC 1167
|| |||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct 1165 CTATACGCAGTCAAATTTGTGGATGACAAGAAAGGATTTGTGCTTGGCAACGATGGAGTC 1224
Query 1168 TTGCTCCGATACGTTGGATGAAAAATTGAAA 1198
||||||||||| ||||| |||| |||| |||
Sbjct 1225 TTGCTCCGATATGTTGGCTGAAGAATTTAAA 1255
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 64909304685
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