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= Ahg949026
Length=1168
Score E
Sequences producing significant alignments: (Bits) Value
AT1G43170.1 | Symbols: ARP1, emb2207, RPL3A, RP1 | ribosomal pr... 876 0.0
AT5G42445.1 | Symbols: | 60S ribosomal protein L3 (RPL3C), pse... 377 1e-103
> AT1G43170.1 | Symbols: ARP1, emb2207, RPL3A, RP1 | ribosomal
protein 1 | chr1:16266720-16268870 FORWARD LENGTH=1496
Length=1496
Score = 876 bits (474), Expect = 0.0
Identities = 547/583 (94%), Gaps = 2/583 (0%)
Strand=Plus/Plus
Query 12 AGAAGAAGAATGTCTCACAGGAAGTTTGAGCATCCAAGACATGGTTCTCTTGGTTT-CTT 70
|||||||||||||||||||||||||||||||| ||||||||||||||||||||||| |||
Sbjct 79 AGAAGAAGAATGTCTCACAGGAAGTTTGAGCACCCAAGACATGGTTCTCTTGGTTTCCTT 138
Query 71 ACCAAGAAAGAGAGCTAATCGTCACAGAGGAAAGGTGAAGGCTTTTCCTAAGGATGATCA 130
||||| ||||||||||| ||||||||||||||||||||||| || ||||||||||| ||
Sbjct 139 -CCAAGGAAGAGAGCTAACCGTCACAGAGGAAAGGTGAAGGCGTTCCCTAAGGATGACCA 197
Query 131 AACTAAGCCTTGCAAGTTCACAGCTTTCATGGGTTACAAAGCTGGTATGACTCATATTGT 190
||| |||||||||||||||||||||||||||||||||||||||||||||||||| |||||
Sbjct 198 AACCAAGCCTTGCAAGTTCACAGCTTTCATGGGTTACAAAGCTGGTATGACTCACATTGT 257
Query 191 CAGAGATGTCGAGAAACCCGGATCCAAGCTTCACAAGAAGGAGACATGTGAGGCTGTTAC 250
|||||| || |||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct 258 CAGAGAAGTGGAGAAACCTGGATCCAAGCTTCACAAGAAGGAGACATGTGAGGCTGTTAC 317
Query 251 TATCATTGAGACACCAGCTATGGTTGTTGTTGGAGTTGTTGCTTATGTGAAGACTCCGAG 310
|||||||||||||| |||||||| ||||||||||||||||| |||||||||||||| ||
Sbjct 318 CATCATTGAGACACCTGCTATGGTGGTTGTTGGAGTTGTTGCCTATGTGAAGACTCCTAG 377
Query 311 AGGTTTGAGGTCTTTGAACACTGTTTGGGCACAGCATTTGAGTGAGGAGGTTAGGAGAAG 370
|||||||||||||||||||||||| |||||||||||||||||||||||||| ||||||||
Sbjct 378 AGGTTTGAGGTCTTTGAACACTGTCTGGGCACAGCATTTGAGTGAGGAGGTCAGGAGAAG 437
Query 371 GTTCTACAAGAACTGGGCTAAGTCTAAGAAGAAGGCTTTTACCGGGTACGCTAAGCAGTA 430
||||||||||||||||||||||||||||||||||||||| || |||||||||||||||||
Sbjct 438 GTTCTACAAGAACTGGGCTAAGTCTAAGAAGAAGGCTTTCACTGGGTACGCTAAGCAGTA 497
Query 431 TGAAAGTAACGATGGCAGGAAGGGTATCCAGGCTCAGCTTGACAAGATGAAGAAATACGG 490
||| ||| | ||||||| ||||||||| |||||||||||||| ||||||||||| ||||
Sbjct 498 TGACAGTGAGGATGGCAAGAAGGGTATTCAGGCTCAGCTTGAGAAGATGAAGAAGTACGC 557
Query 491 AACTGTTATCCGTGTTCTGGCTCACACTCAGATCAGGAAGATGAAGGGGTTGACGCAGAA 550
||||| ||||||||| ||||||||||||||||||||||||||||||| |||| ||||||
Sbjct 558 TACTGTCATCCGTGTTTTGGCTCACACTCAGATCAGGAAGATGAAGGGATTGAAGCAGAA 617
Query 551 GAAGGCTCACATGATGGAGATCCAGATAAATGGTGGTACCATT 593
||||||||||||||||||||||||||| |||||||||||||||
Sbjct 618 GAAGGCTCACATGATGGAGATCCAGATCAATGGTGGTACCATT 660
Score = 582 bits (315), Expect = 2e-165
Identities = 449/515 (87%), Gaps = 4/515 (1%)
Strand=Plus/Plus
Query 594 ATCCCGATTGACGCTGTTTTCCAGAAGGATGAAATGATTGATGTGATTGGTGTGACCAAG 653
||||| ||||| ||||| |||||||||||||||||||||||| | |||||||||||||||
Sbjct 703 ATCCCAATTGAAGCTGTCTTCCAGAAGGATGAAATGATTGATATCATTGGTGTGACCAAG 762
Query 654 GGTAAGGGTTACGAAGGAGTTGTAACCCGTTGGGGTGTGACAAGGCTTCCCCGTAAGACT 713
||||||||||| ||||| ||||| || ||||||||||| || | ||||| |||||||||
Sbjct 763 GGTAAGGGTTATGAAGGTGTTGTTACTCGTTGGGGTGTTACCCGTCTTCCTCGTAAGACT 822
Query 714 CACAGGGGTCTACGTAAGGTTGCTTGTATCGGTGCGTGGCATCCAGCTAGAGTGTCCTAC 773
||||| ||||| ||||||||||||||||| |||||||||||||| |||||||||||||||
Sbjct 823 CACAGAGGTCTGCGTAAGGTTGCTTGTATTGGTGCGTGGCATCCTGCTAGAGTGTCCTAC 882
Query 774 ACTGTAGCTAGGGCTGGTCAGAACGGTTACCATCACCGTACTGAGCTAAACAAGAAGATT 833
||||| ||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct 883 ACTGTTGCTAGGGCTGGTCAGAACGGTTACCATCACCGTACTGAGCTTAACAAGAAGATT 942
Query 834 TACAGGTTGGGCAAAGTTGGTACTGAGACTCATTCAGCCATGACTGAATATGACAGGACT 893
||||||||||| || |||||||||||| | || ||||||||||||||||||||||||||
Sbjct 943 TACAGGTTGGGTAAGGTTGGTACTGAGGCACACACAGCCATGACTGAATATGACAGGACT 1002
Query 894 GAGAAGGAAATAACTCCAATGGGAGGATTCGCACATTACGGTATAGTGAAGGATGACTAC 953
|||||||| | |||||||||||||| ||| |||| |||||||| |||||||||||||||
Sbjct 1003 GAGAAGGATGTGACTCCAATGGGAGGCTTCCCACACTACGGTATTGTGAAGGATGACTAC 1062
Query 954 TTGATGATTAAGGGTTGTTGCATGGGTCCAAAGAAGAGAGTTGTGACTCTGC-GCCAGTC 1012
|||||||||||||| || || | ||||| |||||||||||||| ||||| | | |||||
Sbjct 1063 TTGATGATTAAGGGGTGCTGTGTTGGTCCCAAGAAGAGAGTTGTAACTCT-CAGACAGTC 1121
Query 1013 GCTGCTTAGGCAGACTTCTCGTCTTGCGATGGAGGTGATTAATA-TCAAGTTCGTTGATA 1071
|| || | |||||||| |||||||| |||||| ||| || | ||||||| |||| |
Sbjct 1122 ACTTCTCACTCAGACTTCCCGTCTTGCCTTGGAGGAGATCAA-ACTCAAGTTTATTGACA 1180
Query 1072 CTTCCTCCAAGCAAGGACATGGTCACTTCCAGACC 1106
| |||||| |||||||||| ||||||||||
Sbjct 1181 CCGCCTCCATTTTTGGACATGGTCGCTTCCAGACC 1215
> AT5G42445.1 | Symbols: | 60S ribosomal protein L3 (RPL3C), pseudogene,
temporary automated functional assignment; blastp
match of 61% identity and 1.3e-25 P-value to SP|P35684|RL3_ORYSA
60S ribosomal protein L3. (Rice) {Oryza sativa} | chr5:16976272-16976613
FORWARD LENGTH=342
Length=342
Score = 377 bits (204), Expect = 1e-103
Identities = 235/250 (94%), Gaps = 2/250 (1%)
Strand=Plus/Plus
Query 888 AGGACTGAGAAGGAAATAACTCCAATGGGAGGATTCGCACATTACGGTATAGTGAAGGAT 947
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 76 AGGACTGAGAAGGAAATAACTCCAATGGGAGGATTCGCACATTACGGTATAGTGAAGGAT 135
Query 948 GACTACTTGATGATTAAGGGTTGTTGCATGGGTCCAAAGAAGAGAGTTGTGACTCTGCGC 1007
||||||||||||||||||||||| |||||||||||||||||||||||||||||||| ||
Sbjct 136 GACTACTTGATGATTAAGGGTTGCTGCATGGGTCCAAAGAAGAGAGTTGTGACTCTTCGT 195
Query 1008 CAGTCGCTGCTTAGGCAGACTTCTCGTCTTGCGATGGAGGTGATTAATATCAAGTTCGTT 1067
||||| ||||| |||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct 196 CAGTCACTGCTAAGGCAGACTTCTCGTCTTGCGATGGAGGTGATTAATCTCAAGTTCGTC 255
Query 1068 GATACTTCCTCCAAGCAAGGACATGGTCACTTCCAGACCAGCGAGGAAAAGGCCAAGT-T 1126
||||| || || ||| |||||||||||||||||||||||||||||||||||||||| |
Sbjct 256 GATACCTCATCGAAGGGGGGACATGGTCACTTCCAGACCAGCGAGGAAAAGGCCAAGTAT 315
Query 1127 TCTTGGTCGT 1136
| ||||||||
Sbjct 316 T-TTGGTCGT 324
Score = 95.3 bits (51), Expect = 1e-18
Identities = 53/54 (98%), Gaps = 0/54 (0%)
Strand=Plus/Plus
Query 52 ATGGTTCTCTTGGTTTCTTACCAAGAAAGAGAGCTAATCGTCACAGAGGAAAGG 105
||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct 1 ATGGTTCTCTTGGTTTCTTACCAAGGAAGAGAGCTAATCGTCACAGAGGAAAGG 54
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 57329022390
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