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= Ahg921182
Length=715
Score E
Sequences producing significant alignments: (Bits) Value
AT1G21960.1 | Symbols: | RING/U-box superfamily protein | chr1... 372 3e-102
ATCG01180.1 | Symbols: RRN23S.2 | chloroplast-encoded 23S ribos... 257 9e-68
ATCG00950.1 | Symbols: RRN23S.1 | chloroplast-encoded 23S ribos... 257 9e-68
> AT1G21960.1 | Symbols: | RING/U-box superfamily protein | chr1:7725972-7726586
FORWARD LENGTH=615
Length=615
Score = 372 bits (201), Expect = 3e-102
Identities = 281/317 (89%), Gaps = 16/317 (5%)
Strand=Plus/Plus
Query 381 TACATGTACTGTAAAGTCATTGTTCCCTCTCCTCCTTGGATTGACTCGTTCGATGAGACC 440
|||||||||||||||||||||||||| | | || ||||||||||||| |||||||||
Sbjct 313 TACATGTACTGTAAAGTCATTGTTCCA-C-C-TC---GGATTGACTCGTTTGATGAGACC 366
Query 441 ACCAATAATATCCG-GTTAATTAGACCGGCAAGTAAGCTTGCGGTTGGTCGTTTGGCAAG 499
|||||||||||| | ||| ||||||||||||| |||||||| ||||| |||||||||||
Sbjct 367 ACCAATAATATC-GAGTTGATTAGACCGGCAAATAAGCTTGTGGTTGACCGTTTGGCAAG 425
Query 500 GAAAATATATAAGAACAATAAGAAGAAGACGTCCAAGTTTGACGCCAGCATGTGCACAAT 559
|||| ||||||| || || |||||| | ||||| | |||||| ||| ||||||||||
Sbjct 426 GAAAGTATATAATAAGAA---GAAGAA-A--TCCAACTCTGACGCGAGCGTGTGCACAAT 479
Query 560 TTGTTTGGATGG-GTTTGAAAAAGGAGAAATAGTCGTGACCTTACCATGTGGCCACGAGT 618
||||||||| || ||||||||| ||||||||||| |||||||||||||||||||||||||
Sbjct 480 TTGTTTGGA-GGAGTTTGAAAAGGGAGAAATAGTGGTGACCTTACCATGTGGCCACGAGT 538
Query 619 TTGACGACGGATGTATTGTGAAGTGGTTTTTGAAAGATCATGTTTGTCCATTGTACCGTT 678
||||||| |||||||||| |||||||||||||||||| |||||||||||||||| |||||
Sbjct 539 TTGACGATGGATGTATTGGGAAGTGGTTTTTGAAAGACCATGTTTGTCCATTGTGCCGTT 598
Query 679 TCGAGTTGCCTTGTTAA 695
|||||||||||||||||
Sbjct 599 TCGAGTTGCCTTGTTAA 615
Score = 309 bits (167), Expect = 2e-83
Identities = 220/244 (90%), Gaps = 10/244 (4%)
Strand=Plus/Plus
Query 148 GCGAAATCGACCTCAAACCTAAATCAAAAGATGCTGGATCATTCAAAATCTGCGTAAGTG 207
||||||| ||||||||||| |||||| |||||||||||||||||||||||||||||||||
Sbjct 26 GCGAAATAGACCTCAAACCGAAATCACAAGATGCTGGATCATTCAAAATCTGCGTAAGTG 85
Query 208 CCCTAAGGTCGGACACATCAATTAGTCTTATACCAAATTTCG-T-TCTC-T-C---G--T 258
||| ||| ||||||||||||||||||||| ||||||||||| | |||| | | | |
Sbjct 86 CCCGAAGATCGGACACATCAATTAGTCTTCCACCAAATTTCGTTCTCTCGTACAATGACT 145
Query 259 ACGAAGGCGTCATATCCTCCTACCCTAATGACTTGAAAAAACTGACTGATTGGTTGTACT 318
||||||| ||||||||||||||||||||||||| ||||||||||| ||||||||||||||
Sbjct 146 ACGAAGGTGTCATATCCTCCTACCCTAATGACTCGAAAAAACTGAATGATTGGTTGTACT 205
Query 319 TAGCAGGGATCTCCGACCAATCTGTTGACATTGCTAACTCTCAACTCACTGAACGAATCT 378
||||||| ||||||| |||| ||||||||||||||||||||||||||||||||||||||
Sbjct 206 CAGCAGGGCTCTCCGAACAATATGTTGACATTGCTAACTCTCAACTCACTGAACGAATCT 265
Query 379 TGTA 382
|||
Sbjct 266 -GTA 268
> ATCG01180.1 | Symbols: RRN23S.2 | chloroplast-encoded 23S ribosomal
RNA | chrC:131149-133958 REVERSE LENGTH=2810
Length=2810
Score = 257 bits (139), Expect = 9e-68
Identities = 145/148 (98%), Gaps = 0/148 (0%)
Strand=Plus/Minus
Query 1 GTTCGAGCTTTTCCTGGGAGTATAGCATGGGTTACTTTAGCGCCGTAGCGCCTGGTACTC 60
||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct 1615 GTTCGAGCTTTTCCTGGGAGTATAGCATGGGTTACTTCAGCGCCGTAGCGCCTGGTACTC 1556
Query 61 GAACATTGGGTCGGGGCATTTTCTCTACCCCTTCTTACCCTGATAAAACAGGGACACCTT 120
||||||||| ||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct 1555 GAACATTGGCTCGGGGCATTTTCTCTACCCCTTCTTACCCTGAAAAAACAGGGACACCTT 1496
Query 121 GCGTCCTTGAACCGATAACCATCTTTCG 148
||||||||||||||||||||||||||||
Sbjct 1495 GCGTCCTTGAACCGATAACCATCTTTCG 1468
> ATCG00950.1 | Symbols: RRN23S.1 | chloroplast-encoded 23S ribosomal
RNA | chrC:104691-107500 FORWARD LENGTH=2810
Length=2810
Score = 257 bits (139), Expect = 9e-68
Identities = 145/148 (98%), Gaps = 0/148 (0%)
Strand=Plus/Minus
Query 1 GTTCGAGCTTTTCCTGGGAGTATAGCATGGGTTACTTTAGCGCCGTAGCGCCTGGTACTC 60
||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct 1615 GTTCGAGCTTTTCCTGGGAGTATAGCATGGGTTACTTCAGCGCCGTAGCGCCTGGTACTC 1556
Query 61 GAACATTGGGTCGGGGCATTTTCTCTACCCCTTCTTACCCTGATAAAACAGGGACACCTT 120
||||||||| ||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct 1555 GAACATTGGCTCGGGGCATTTTCTCTACCCCTTCTTACCCTGAAAAAACAGGGACACCTT 1496
Query 121 GCGTCCTTGAACCGATAACCATCTTTCG 148
||||||||||||||||||||||||||||
Sbjct 1495 GCGTCCTTGAACCGATAACCATCTTTCG 1468
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 34661561430
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