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= Ahg328078
Length=987
Score E
Sequences producing significant alignments: (Bits) Value
AT3G50820.1 | Symbols: PSBO2, PSBO-2, OEC33 | photosystem II su... 453 1e-126
AT4G37230.1 | Symbols: | Photosystem II manganese-stabilising ... 217 2e-55
AT4G37225.1 | Symbols: | other RNA | chr4:17516187-17516857 RE... 139 5e-32
> AT3G50820.1 | Symbols: PSBO2, PSBO-2, OEC33 | photosystem II
subunit O-2 | chr3:18890876-18892426 REVERSE LENGTH=1243
Length=1243
Score = 453 bits (245), Expect = 1e-126
Identities = 621/797 (78%), Gaps = 48/797 (6%)
Strand=Plus/Plus
Query 190 AAGATCGCTGGTTTTTCACTCGCCGCCTCCGCTCTTTTTGTCTCGGGTGCAAATGCAGAA 249
|||||||| |||||| | || ||| |||| ||||| |||||||||| || ||| ||
Sbjct 311 AAGATCGCCGGTTTTGCTCTAGCCACCTCTGCTCTCGTTGTCTCGGGGGCCGGTGCGGAG 370
Query 250 GGCGTGCCAAAGAGGCTAACTTTCGACGAGATACAGAGCAAGACTTACATGGAAGTGAAA 309
|| | |||||||||||||| | |||||||||||||||||||||||||||||| || |||
Sbjct 371 GGAGCACCAAAGAGGCTAACGTACGACGAGATACAGAGCAAGACTTACATGGAGGT-AAA 429
Query 310 GGA-ACAGGAACCGCGAATCAATGTCCAACCATTGAAGGTGGCT-TGGAGTCATTCGCCA 367
|| || || || || || || |||||||| || || ||||||| || || ||||| |
Sbjct 430 GGGTACCGGTACGGCAAACCAGTGTCCAACTATCGATGGTGGCTCTG-AGACATTCTCGT 488
Query 368 T-AAAGCCAGGCAAATACTAC-GCCAAGAAATTCTGCTTAGAGCCAACTTCATTCACCGT 425
| ||||| || || ||| || | |||||| |||||||| ||||| ||||| ||||||||
Sbjct 489 TCAAAGCT-GGTAAGTAC-ACAGGCAAGAAGTTCTGCTTCGAGCCCACTTCCTTCACCGT 546
Query 426 CAAAGCTGA-AGGAGTTAGCAAGAA-GTCTAC-GCCCGATTTCCAAAACACAAAGCTCAT 482
||| || || || || |||||||| | | || ||| |||||||||||||| ||||||||
Sbjct 547 CAAGGCAGATAGC-GTCAGCAAGAATG-C-ACCGCCGGATTTCCAAAACACCAAGCTCAT 603
Query 483 GACTCGTCTTACCTACACACTCGATGAAATCGAAGG-CCCTTTCGAAGTAGCTTCTGATG 541
||| ||||| || |||||||||||||| |||||||| ||||| ||| || | ||| || |
Sbjct 604 GACCCGTCTCACTTACACACTCGATGAGATCGAAGGACCCTT-CGAGGTTGGTTCAGACG 662
Query 542 GAAAG-GTGAAGTTTCTAG-A-GAAAGACGGTATTGATTACGCTGCAGTGACAGTACAAC 598
||| | |||||||| | || | ||| || ||||| |||||||| ||||| ||||| || |
Sbjct 663 GAA-GCGTGAAGTT-CAAGGAAGAA-GATGGTATCGATTACGCAGCAGTCACAGTCCAGC 719
Query 599 TTCCTGGTGGAGAGCGTGTACCGTTCTTGTTCACGATCAAGCAGCTTGTGGCATC-GGGT 657
|||| || ||||| || || |||||| | |||||| | |||||||| | ||| || |||
Sbjct 720 TTCCGGGAGGAGAACGCGTGCCGTTCCTCTTCACGGTTAAGCAGCTCGAGGCTTCAGGG- 778
Query 658 AAACCAGAGAGCTTTGGAGG-AGATTTCTTGGTGCCATCTTATAGAGGTTCGTC-TTTCT 715
||||| || ||||| | || | | ||||| || ||||| || | || ||||| ||| |
Sbjct 779 AAACCCGAAAGCTTCAGTGGCA-AGTTCTTAGTTCCATCGTACCGTGGCTCGTCCTTT-T 836
Query 716 TGGATCCTAAAGGC-CGTGGTGGCTCTAC-GGGCTACGACAATGCGGTTGCATTACCTGC 773
|||| || ||||| |||||||| || || ||| ||||| ||||| || || || |||||
Sbjct 837 TGGACCC-AAAGGGTCGTGGTGGATCCACTGGG-TACGATAATGCAGTGGCTTTGCCTGC 894
Query 774 T--AG--AG-G-AGACGATGAGGAGCTAGCTAAAGAGAACAACAAGAACACAGCTGCTTC 827
|| || | |||||| || |||||| | || || ||| ||||||||| || |||||
Sbjct 895 CGGAGGCAGAGGAGACGAGGAAGAGCTATCCAAGGAAAACGTCAAGAACACGGCGGCTTC 954
Query 828 ACTT-GGTA-AGATCACACTT-A-GTGTAACAAAGAGTAATCCCGAGAGTCGTGAAGTGA 883
| | || | ||||||| || | | | |||||||| || || |||| |||||||||
Sbjct 955 -CGTCGG-AGAGATCACT-TTGAAGA-TCACAAAGAGCAAACCGGAGACAGGTGAAGTGA 1010
Query 884 TCGGTGTTTTCGAGAGTATTCAGCCTTCGGATACTGATTTGGGTGCTAAGACT-CCTAAG 942
|||| || ||||||||| ||||||| ||||||||||| |||||||||||| | || ||
Sbjct 1011 TCGGAGTGTTCGAGAGTCTTCAGCCATCGGATACTGACTTGGGTGCTAAGG-TACCAAAA 1069
Query 943 GATGTCAAGATCCAAGG 959
||||| |||||||||||
Sbjct 1070 GATGTGAAGATCCAAGG 1086
> AT4G37230.1 | Symbols: | Photosystem II manganese-stabilising
protein (PsbO) family | chr4:17516424-17517587 FORWARD LENGTH=432
Length=432
Score = 217 bits (117), Expect = 2e-55
Identities = 143/155 (92%), Gaps = 4/155 (3%)
Strand=Plus/Plus
Query 835 AAGATCACACTTAGTGTAACAAAGAGTAATCCCGAGAGTCG-TGAAGTGATCGGTGTTTT 893
|||||||||||||||||||||||||||||||||||||| || ||||||||| |||| |||
Sbjct 280 AAGATCACACTTAGTGTAACAAAGAGTAATCCCGAGAG-CGGTGAAGTGATTGGTGCTTT 338
Query 894 CGAGAGTATTCAGCCTTCGGATACTGATTTGGGTGCTAAGACTCCTAAGGATGTCAAGAT 953
|||||||||||| ||||| || |||||||||||||||| |||||||||||||||||||||
Sbjct 339 CGAGAGTATTCAACCTTCAGACACTGATTTGGGTGCTACGACTCCTAAGGATGTCAAGAT 398
Query 954 CCAAGGAATCTGGTAT-GCCCAACTTGAGGAATAA 987
||||||||||||||| ||| ||||||| ||||||
Sbjct 399 TCAAGGAATCTGGTATTGCC-AACTTGATGAATAA 432
Score = 128 bits (69), Expect = 1e-28
Identities = 80/85 (94%), Gaps = 2/85 (2%)
Strand=Plus/Plus
Query 572 TTGATTACGCTGCAGTGACAGT--ACAACTTCCTGGTGGAGAGCGTGTACCGTTCTTGTT 629
|||||||||| ||||||||||| ||||||||||||||| ||||||||||||||||||||
Sbjct 50 TTGATTACGCAGCAGTGACAGTACACAACTTCCTGGTGGGGAGCGTGTACCGTTCTTGTT 109
Query 630 CACGATCAAGCAGCTTGTGGCATCG 654
||||||||||||||| |||||||||
Sbjct 110 CACGATCAAGCAGCTCGTGGCATCG 134
Score = 111 bits (60), Expect = 1e-23
Identities = 70/75 (93%), Gaps = 0/75 (0%)
Strand=Plus/Plus
Query 745 GGCTACGACAATGCGGTTGCATTACCTGCTAGAGGAGACGATGAGGAGCTAGCTAAAGAG 804
||||| |||||||||||||||||||||||||||||| || |||||||||||||||| |||
Sbjct 214 GGCTATGACAATGCGGTTGCATTACCTGCTAGAGGAAACAATGAGGAGCTAGCTAAGGAG 273
Query 805 AACAACAAGAACACA 819
|||||||||| ||||
Sbjct 274 AACAACAAGATCACA 288
Score = 82.4 bits (44), Expect = 8e-15
Identities = 48/50 (96%), Gaps = 0/50 (0%)
Strand=Plus/Plus
Query 481 ATGACTCGTCTTACCTACACACTCGATGAAATCGAAGGCCCTTTCGAAGT 530
|||||| | |||||||||||||||||||||||||||||||||||||||||
Sbjct 1 ATGACTAGCCTTACCTACACACTCGATGAAATCGAAGGCCCTTTCGAAGT 50
> AT4G37225.1 | Symbols: | other RNA | chr4:17516187-17516857
REVERSE LENGTH=587
Length=587
Score = 139 bits (75), Expect = 5e-32
Identities = 103/116 (89%), Gaps = 3/116 (3%)
Strand=Plus/Minus
Query 415 TCATTCACCGTCAAAGCTGAAGGAGTTAGCAAGAAGTCTACGCCCGATTTCCAAAACACA 474
|||||||||||||||||| ||| |||||| || | | || || |||||||||| ||||
Sbjct 413 TCATTCACCGTCAAAGCTCAAGTAGTTAG-TAGCA--CCACACCAGATTTCCAAAGCACA 357
Query 475 AAGCTCATGACTCGTCTTACCTACACACTCGATGAAATCGAAGGCCCTTTCGAAGT 530
|||||||||||| | |||||||||||||||||||||||||||||||||||||||||
Sbjct 356 AAGCTCATGACTAGCCTTACCTACACACTCGATGAAATCGAAGGCCCTTTCGAAGT 301
Score = 128 bits (69), Expect = 1e-28
Identities = 80/85 (94%), Gaps = 2/85 (2%)
Strand=Plus/Minus
Query 572 TTGATTACGCTGCAGTGACAGT--ACAACTTCCTGGTGGAGAGCGTGTACCGTTCTTGTT 629
|||||||||| ||||||||||| ||||||||||||||| ||||||||||||||||||||
Sbjct 301 TTGATTACGCAGCAGTGACAGTACACAACTTCCTGGTGGGGAGCGTGTACCGTTCTTGTT 242
Query 630 CACGATCAAGCAGCTTGTGGCATCG 654
||||||||||||||| |||||||||
Sbjct 241 CACGATCAAGCAGCTCGTGGCATCG 217
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 48325249414
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