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= Ahg900654
Length=873
Score E
Sequences producing significant alignments: (Bits) Value
AT2G28830.1 | Symbols: PUB12, AtPUB12 | PLANT U-BOX 12 | chr2:1... 619 1e-176
ATCG00790.1 | Symbols: RPL16 | ribosomal protein L16 | chrC:811... 438 4e-122
> AT2G28830.1 | Symbols: PUB12, AtPUB12 | PLANT U-BOX 12 | chr2:12366748-12370684
REVERSE LENGTH=3218
Length=3218
Score = 619 bits (335), Expect = 1e-176
Identities = 441/491 (90%), Gaps = 12/491 (2%)
Strand=Plus/Plus
Query 395 agagttccgtcagcgaaaagaaac-a-aaaaa-aaaagacttccatcagcgaaaagaaac 451
||| |||| || ||||||||||| | ||||| |||| | |||| ||| |||||||||||
Sbjct 2475 AGACTTCCAACAACGAAAAGAAACAACAAAAACAAAAAAGTTCCGTCAACGAAAAGAAAC 2534
Query 452 c------aaaaaaaaaGAGTTCCGTCAGCGATATCCCTAGAAGAACAAAGTTTCAGAAAC 505
| |||||||||||||||| ||||||||||||| ||||||||||||||||||||||
Sbjct 2535 CAAAAAAAAAAAAAAAGAGTTCCATCAGCGATATCCCAAGAAGAACAAAGTTTCAGAAAC 2594
Query 506 ATCATCGAGGAAGAA-T--TAAAGGAATATCTACTCAAGGGAATATTTTTGGTAGATATG 562
||||||||||||||| | ||||||| ||||| |||| ||| |||||| | |||||||||
Sbjct 2595 ATCATCGAGGAAGAATTAATAAAGGAGTATCTTCTCAGGGGTATATTTGTAGTAGATATG 2654
Query 563 CTCTTCAAACACTTGAACCCGCTTGGATCACATCTAGACAAATAGAAGCAGGGCGACGAG 622
||||||||||||||||||| ||||||||||| |||||||||||||||||||| |||||||
Sbjct 2655 CTCTTCAAACACTTGAACCAGCTTGGATCACTTCTAGACAAATAGAAGCAGGACGACGAG 2714
Query 623 CAATGACACGAAATATAGGACGTGGTTTAAAAGTTCGAGTTCATATATTTGCAGACAAAC 682
|||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct 2715 CAATGACACGAAATATAGGACGTGGTTTAACTGTTCGAGTTCATATATTTGCAGACAAAC 2774
Query 683 CAGTTACAGTAAGACCCCCCGAAACGCGAATGGGTCGTGGGAAAGGAGATCCAGCGTTTT 742
|||||||||||||||| || |||||||| ||||||||||||||||||| |||||||||||
Sbjct 2775 CAGTTACAGTAAGACCTCCTGAAACGCGTATGGGTCGTGGGAAAGGAGCTCCAGCGTTTT 2834
Query 743 GGGTAGCTGTGGTTAAACCAGGTAAAATCATTTATGAAATGGGTGGTGTATCCGAAAAAA 802
||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct 2835 GGGTAGCTGTGGTTAAACCAGGTAAAATCATTTATGAAATGGGTGGTGTTTCCGAAAAAG 2894
Query 803 TAGCCAGAGAAGCTATTACAATTGCGGCATCAAAATTGCCTATAAAAACCAAATTCATTA 862
|||| |||||||||||| | || || |||||||| |||||| ||||||||||||||| |
Sbjct 2895 TAGCTAGAGAAGCTATTTCTATAGCCGCATCAAAGTTGCCTGCAAAAACCAAATTCATCA 2954
Query 863 TTTTTGAATAA 873
||| | |||||
Sbjct 2955 TTTCTAAATAA 2965
Score = 215 bits (116), Expect = 6e-55
Identities = 169/193 (88%), Gaps = 9/193 (5%)
Strand=Plus/Plus
Query 1 ATGCAGAGATTCTTGTTTAGCCGCGTCGTGGAAAATCAACATCAGATAAGCCGAAGATTT 60
|||||||||||| |||||||||||||||||||| |||||| ||||||||||||| |||||
Sbjct 2090 ATGCAGAGATTCATGTTTAGCCGCGTCGTGGAACATCAACGTCAGATAAGCCGAGGATTT 2149
Query 61 CTCAATCTAGTTCCATCTCTATC-ACCAC--CAGTTCCTGCTCTGTCTCGTTTCTTTCCG 117
|||| ||| || ||||||||||| |||| | ||||||||| |||||||||||||||||
Sbjct 2150 CTCAGTCTTGTACCATCTCTATCTCCCACTGCTGTTCCTGCTATGTCTCGTTTCTTTCCG 2209
Query 118 AAGATTACTGCTTCTGATTCCACTTCCTCTCTTCCCGTTGTTAGTGTTACTCTTGACTCC 177
||||||||||||||||||||||||||||| ||||| || || | | |||| |||| |
Sbjct 2210 AAGATTACTGCTTCTGATTCCACTTCCTCGATTCCC-TT-TT--T-T-ACTCCAGACTTC 2263
Query 178 ATCAATCCCAAGA 190
|||||||||||||
Sbjct 2264 ATCAATCCCAAGA 2276
> ATCG00790.1 | Symbols: RPL16 | ribosomal protein L16 | chrC:81189-82652
REVERSE LENGTH=408
Length=408
Score = 438 bits (237), Expect = 4e-122
Identities = 345/396 (87%), Gaps = 12/396 (3%)
Strand=Plus/Plus
Query 486 AAGAA-CAAAGTTTCAG-AAACATCATCGAGGAAGAATTAAAGGAATATCTACTCAAGGG 543
||||| || | |||| | ||||| |||||||||||| | |||||||||||| ||| |||
Sbjct 15 AAGAACCAGA-TTTC-GTAAACAACATCGAGGAAGACTAAAAGGAATATCTTCTCGTGGG 72
Query 544 AA---TA--T-TTTTGGTAGATATGCTCTTCAAACACTTGAACCCGCTTGGATCACATCT 597
|| || | |||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct 73 AATCGTATTTGTTTTGGCAGATATGCTCTTCAAACACTTGAACCCGCTTGGATCACATCT 132
Query 598 AGACAAATAGAAGCAGGGCGACGAGCAATGACACGAAATATAGGACGTGGTTTAAAAGTT 657
||||||||||||||||||||||| ||||||||||||||| || |||||||| |||| ||
Sbjct 133 AGACAAATAGAAGCAGGGCGACGCGCAATGACACGAAATGTACGACGTGGTGGAAAAATT 192
Query 658 CGAGTTCATATATTTGCAGACAAACCAGTTACAGTAAGACCCCCCGAAACGCGAATGGGT 717
| || | ||||||| ||||||||||||||||||||||||| | |||||||| ||||||
Sbjct 193 TGGGTACGTATATTTCCAGACAAACCAGTTACAGTAAGACCTGCGGAAACGCGTATGGGT 252
Query 718 -CGTGGGAAAGGAGATCCAGCGTTTTGGGTAGCTGTGGTTAAACCAGGTAAAATCATTTA 776
| |||||||||| || | || ||||||||||||||||||||||||||||||| ||||
Sbjct 253 TC-TGGGAAAGGATCCCCTGAGTATTGGGTAGCTGTGGTTAAACCAGGTAAAATCCTTTA 311
Query 777 TGAAATGGGTGGTGTATCCGAAAAAATAGCCAGAGAAGCTATTACAATTGCGGCATCAAA 836
|||||||||||||||| ||||||| ||||| ||| |||||||| |||| |||||||||||
Sbjct 312 TGAAATGGGTGGTGTACCCGAAAATATAGCAAGAAAAGCTATTTCAATAGCGGCATCAAA 371
Query 837 ATTGCCTATAAAAACCAAATTCATTATTTTTGAATA 872
| |||||||||||||| |||||||||||| ||||||
Sbjct 372 AATGCCTATAAAAACCCAATTCATTATTTCTGAATA 407
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 42598556656
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