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= Ahg487173
Length=1813
Score E
Sequences producing significant alignments: (Bits) Value
AT5G03940.1 | Symbols: FFC, 54CP, CPSRP54, SRP54CP | chloroplas... 2800 0.0
> AT5G03940.1 | Symbols: FFC, 54CP, CPSRP54, SRP54CP | chloroplast
signal recognition particle 54 kDa subunit | chr5:1060134-1063319
REVERSE LENGTH=1888
Length=1888
Score = 2800 bits (1516), Expect = 0.0
Identities = 1722/1818 (95%), Gaps = 27/1818 (1%)
Strand=Plus/Plus
Query 1 GAGAGTCATAAAAAGTTTTGAGCTTTGATCACACTATTCACTACTAATGGAGGCTCTGCA 60
||||||| | |||||||||||||||||||||| | | |||||| ||||||||||||| ||
Sbjct 18 GAGAGTCGTGAAAAGTTTTGAGCTTTGATCACTC-ACTCACTAGTAATGGAGGCTCTTCA 76
Query 61 ATTTTCCAGCCATTTCTCCGTGAGTAGAGTTCC--GAATTAT-A-CTCTA--GGAATTCG 114
||||||||| ||||| ||||||||| | | | | | || || |||| | |
Sbjct 77 ATTTTCCAG---------CGTGAATAGAGTTCCTTGTACTCTGAGCTGTACCGGAAATAG 127
Query 115 GAGAAGT-AGAGCAACATTTAGCTCTGCATTCACCGGT---ACCAGCAATTCAGCTTCTC 170
||||| | || || | || |||||||| ||||||||| |||| ||||||||||||||
Sbjct 128 GAGAATTAAG-GCTGCCTTCAGCTCTGCGTTCACCGGTGGCACCATCAATTCAGCTTCTC 186
Query 171 --T-CTCCTCTAGGAATCCCTCAACGCGAGAGATATGGAGTTGGGTGAAATCGAAGAC-- 225
| |||||||||||||| ||| |||||||||||||||||||||||||||||||||||
Sbjct 187 TGTCCTCCTCTAGGAATCTCTCCACGCGAGAGATATGGAGTTGGGTGAAATCGAAGACTG 246
Query 226 -TGTTGGTCAAGGAAGATACAGAAGAAGCTATGTGAGAGCCGAGATGTTTGGACAGTTGA 284
|||||| || |||||||||||||||||| | |||||||||||||||||||| |||||||
Sbjct 247 TTGTTGGCCATGGAAGATACAGAAGAAGCCAAGTGAGAGCCGAGATGTTTGGTCAGTTGA 306
Query 285 CTGGTGGACTCGAGGCTGCTTGGAGCAAACTCAAAGGCGAAGAGGTTTTGACCAAGGAGA 344
||||||| |||||||||||||||||||||||||||||||||||||| ||||| ||||| |
Sbjct 307 CTGGTGGCCTCGAGGCTGCTTGGAGCAAACTCAAAGGCGAAGAGGTCTTGACTAAGGACA 366
Query 345 ATATTGCCGAACCAATGCGAGATATTAGAAGAGCTCTCCTGGAAGCAGATGTGAGTCTCC 404
||||||| || |||||||| ||||| ||||||||||||||||||||||||||||||||||
Sbjct 367 ATATTGCTGAGCCAATGCGGGATATCAGAAGAGCTCTCCTGGAAGCAGATGTGAGTCTCC 426
Query 405 CAGTTGTTAGAAGGTTTGTTCAATCTGTTAGTGACCAAGCCGTTGGAATGGGTGTCATTC 464
|||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct 427 CAGTTGTTAGAAGGTTTGTTCAGTCTGTTAGTGACCAAGCCGTTGGAATGGGTGTCATTC 486
Query 465 GTGGAGTTAAACCAGATCAGCAATTGGTCAAGATTGTACATGATGAGCTAGTGAAATTGA 524
||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 487 GTGGAGTCAAACCAGATCAGCAATTGGTCAAGATTGTACATGATGAGCTAGTGAAATTGA 546
Query 525 TGGGTGGAGAAGTATCTGAGTTACAGTTTGCTAAATCAGGCCCTACGGTAATATTGTTGG 584
|||||||||||||||||||||||||||||||||||||||| ||||| |||||||||||||
Sbjct 547 TGGGTGGAGAAGTATCTGAGTTACAGTTTGCTAAATCAGGTCCTACAGTAATATTGTTGG 606
Query 585 CTGGACTCCAAGGAGTTGGAAAGACAACGGTTTGCGCTAAATTAGCTTGTTACCTAAAGA 644
|||| ||||||||||||||||||||||||||||| |||||| ||||||||||||||||||
Sbjct 607 CTGGGCTCCAAGGAGTTGGAAAGACAACGGTTTGTGCTAAACTAGCTTGTTACCTAAAGA 666
Query 645 AGCAGGGAAAGTCTTGCATGCTTATTGCTGGAGATGTGTACCGACCTGCTGCCATCGATC 704
|||||||||| |||||||||||||||||||||||||| |||||||||||||| |||||||
Sbjct 667 AGCAGGGAAAATCTTGCATGCTTATTGCTGGAGATGTATACCGACCTGCTGCTATCGATC 726
Query 705 AACTTGTCATTTTAGGTGAACAGGTTGGTGTGCCGGTTTATACAGCAGGGACTGATGTCA 764
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct 727 AACTTGTCATTTTAGGTGAACAGGTTGGTGTGCCGGTTTATACAGCAGGGACTGATGTAA 786
Query 765 AACCTGCAGATATAGCTAAGCAAGGTCTAAAAGAAGCTAAAAAGAATAATGTTGATGTAG 824
|||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct 787 AACCTGCAGATATAGCTAAGCAAGGTCTAAAAGAAGCTAAAAAGAACAATGTTGATGTAG 846
Query 825 TTATTATGGATACTGCAGGGAGGCTTCAGATAGATAAAGGCATGATGGACGAATTAAAAG 884
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 847 TTATTATGGATACTGCAGGGAGGCTTCAGATAGATAAAGGCATGATGGACGAATTAAAAG 906
Query 885 ATGTGAAGAGATTTCTGAATCCAACAGAAGTGTTACTAGTTGTTGATGCCATGACTGGAC 944
| ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 907 ACGTGAAGAAATTTCTGAATCCAACAGAAGTGTTACTAGTTGTTGATGCCATGACTGGAC 966
Query 945 AAGAAGCTGCAGCACTGGTGACTACATTCAATGTTGAGATAGGAATCACAGGAGCCATTT 1004
|||||||||||||||||||||| ||||||||||| ||||||||||| |||||||||||||
Sbjct 967 AAGAAGCTGCAGCACTGGTGACGACATTCAATGTAGAGATAGGAATTACAGGAGCCATTT 1026
Query 1005 TGACAAAGCTAGATGGTGATTCAAGAGGTGGTGCTGCTTTGAGTGTCAAGGAGGTATCGG 1064
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct 1027 TGACAAAGCTAGATGGTGATTCAAGAGGTGGTGCTGCTTTGAGTGTCAAGGAGGTATCAG 1086
Query 1065 GAAAACCGATTAAACTGGTAGGACGTGGAGAGCGAATGGAGGATCTTGAACCCTTTTATC 1124
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1087 GAAAACCGATTAAACTGGTAGGACGTGGAGAGCGAATGGAGGATCTTGAACCCTTTTATC 1146
Query 1125 CAGATCGAATGGCTGGACGAATTCTAGGAATGGGAGATGTGCTTTCATTTGTAGAGAAGG 1184
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1147 CAGATCGAATGGCTGGACGAATTCTAGGAATGGGAGATGTGCTTTCATTTGTAGAGAAGG 1206
Query 1185 CAACAGAAGTTATGCGTCAAGAAGATGCTGAAGATCTACAGAAGAAGATAATGAGTGCAA 1244
|||||||||||||||||||||||||||| |||||||| ||||||||||||||||||||||
Sbjct 1207 CAACAGAAGTTATGCGTCAAGAAGATGCAGAAGATCTGCAGAAGAAGATAATGAGTGCAA 1266
Query 1245 AGTTCGACTTCAACGATTTCCTAAAGCAGACTCGTGCTGTTGCGAAAATGGGTTCGATGA 1304
||||||||||||||||||| |||||||||||||||||||| |||||||||||||||||||
Sbjct 1267 AGTTCGACTTCAACGATTTTCTAAAGCAGACTCGTGCTGTAGCGAAAATGGGTTCGATGA 1326
Query 1305 CACGAGTTCTTGGAATGATTCCCGGAATGGGGAAAGTGAGTCCAGCACAAATCCGAGAAG 1364
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1327 CACGAGTTCTTGGAATGATTCCCGGAATGGGGAAAGTGAGTCCAGCACAAATCCGAGAAG 1386
Query 1365 CGGAAAAGAATCTTTTAGTCATGGAAGCAATGATTGAAGTGATGACACCCGAGGAAAGGG 1424
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct 1387 CGGAAAAGAATCTTTTAGTCATGGAAGCAATGATTGAAGTGATGACACCCGAGGAAAGAG 1446
Query 1425 AGAGACCAGAGTTACTAGCAGAATCTCCAGAGAGAAGAAAAAGAATCGCTAAAGATTCAG 1484
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1447 AGAGACCAGAGTTACTAGCAGAATCTCCAGAGAGAAGAAAAAGAATCGCTAAAGATTCAG 1506
Query 1485 GAAAGACAGAACAGCAGGTGAGTGCACTTGTAGCACAAATCTTCCAAATGAGAGTAAAAA 1544
||||||||||||| |||||||| |||||||||||||||||||||||||||||||| ||||
Sbjct 1507 GAAAGACAGAACAACAGGTGAGCGCACTTGTAGCACAAATCTTCCAAATGAGAGTGAAAA 1566
Query 1545 TGAAGAACTTGATGGGAGTAATGGAAGGAGGATCAATTCCTGCATTAAGCGGTCTCGAGG 1604
||||||||||||||||||| |||||||||||||||||||| |||||||||||||||||||
Sbjct 1567 TGAAGAACTTGATGGGAGTGATGGAAGGAGGATCAATTCCAGCATTAAGCGGTCTCGAGG 1626
Query 1605 ACGCATTGAAAGCAGAACAAAAGGCTCCACCTGGAACTGCAAGGAGGAAGAGAAAGGCGG 1664
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
Sbjct 1627 ACGCATTGAAAGCAGAACAAAAGGCTCCACCTGGAACTGCAAGGAGGAAGAGAAAGGCAG 1686
Query 1665 ACTCAAGGAAGAAATTTGTAGAGTCAGCATCAAGCAAGCCTGGTCCTCGTGGCTTCGGCT 1724
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1687 ACTCAAGGAAGAAATTTGTAGAGTCAGCATCAAGCAAGCCTGGTCCTCGTGGCTTCGGCT 1746
Query 1725 CTGGTAACTAAAATTATTTCAGTCCAGTTTGGTTAATTTCAAAACGGATTAtttttttGT 1784
||||||||||||| |||||||| ||| ||||||||||||| |||||||||||||||||||
Sbjct 1747 CTGGTAACTAAAACTATTTCAGCCCAATTTGGTTAATTTCTAAACGGATTATTTTTTTGT 1806
Query 1785 ACAAGTTAATGAATGAGA 1802
| ||||||||||||||||
Sbjct 1807 ATAAGTTAATGAATGAGA 1824
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 89708373915
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