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= Ahg471868
Length=2013
Score E
Sequences producing significant alignments: (Bits) Value
AT1G16720.1 | Symbols: HCF173 | high chlorophyll fluorescence p... 3221 0.0
> AT1G16720.1 | Symbols: HCF173 | high chlorophyll fluorescence
phenotype 173 | chr1:5723088-5726478 FORWARD LENGTH=2100
Length=2100
Score = 3221 bits (1744), Expect = 0.0
Identities = 1910/1991 (96%), Gaps = 7/1991 (0%)
Strand=Plus/Plus
Query 24 AGCAGAGTTTCAAAAAATGGTGGGTAGTATTGTTGGCAGTAACATGGCGGCCACTGATGC 83
||||||| ||| |||||||||||||||||||||||||||||||||||| || ||||||||
Sbjct 60 AGCAGAG-TTC-AAAAATGGTGGGTAGTATTGTTGGCAGTAACATGGCTGCGACTGATGC 117
Query 84 GAGGTTTCTAAGCTCCAATTTTGGCAACACTTTCAGCATCAACACCAGAATTCACAGATT 143
||||||||||||||| ||||||||||||| ||||||||||||||||||||||||||||||
Sbjct 118 GAGGTTTCTAAGCTCGAATTTTGGCAACAGTTTCAGCATCAACACCAGAATTCACAGATT 177
Query 144 CCATGATCGCTCCCAAATCGTAATCCCTAGGGCTCAGTCTTCTTCTTCTCCGTCTCCATC 203
|||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct 178 CCATGATCGCTCCCAAATCGTAATCCCTAGGGCTCAATCTTCTTCTTCTCCGTCTCCATC 237
Query 204 TCCACCCTCCGATAAAAAGAAGACTAAGACCCGACCCGGAACCACAACTACTAAGGAAAG 263
|||||||||||| || |||||||| || |||||||||||||||| ||| |||||||| ||
Sbjct 238 TCCACCCTCCGACAAGAAGAAGACCAAAACCCGACCCGGAACCATAACCACTAAGGAGAG 297
Query 264 CGAAGAGACGGTGGCCAAGAAGCTCGACGTTTCTCCGCCGCCGACCGCTCAATCACCACC 323
|||||||||||| || ||||||||||||||| ||||||| || | |||||||||||||
Sbjct 298 CGAAGAGACGGTTGCGAAGAAGCTCGACGTTGCTCCGCCTTCG--C-CTCAATCACCACC 354
Query 324 GTCTCCGCCTACACTGAAATTGGACGATGTGAATCCTGTGGGGTTAGGACGACGATCGCG 383
|||||||||||||||||| ||||||||||||||||||||||| |||||||||||||||||
Sbjct 355 GTCTCCGCCTACACTGAAGTTGGACGATGTGAATCCTGTGGGATTAGGACGACGATCGCG 414
Query 384 GCAGATTTTCGACGAGGTGTGGCGGAAATTCTCTGGATTAGGTCAGATGTCGAGGACCAC 443
|||||| |||||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct 415 GCAGATCTTCGACGAGGTGTGGCGGAAATTCTCTGGATTAGGTCAGATGTCGAGGACAAC 474
Query 444 CCGACCCGATGAGCAGGAGACTCTTGATAGTCTTCTCATTAGAGAAGGACCTATGTGTGA 503
||||||||||||||| ||||||||||||||||| ||||||||||||||||||||||||||
Sbjct 475 CCGACCCGATGAGCAAGAGACTCTTGATAGTCTACTCATTAGAGAAGGACCTATGTGTGA 534
Query 504 GTTCGCTGTTCCCGGCGCTCAAAACGTTACCGTTTTAGTCGTCGGAGCCACTAGCCGAAT 563
||| |||||||||||||||||||||||||||||||||||||||||||| ||||| ||||
Sbjct 535 GTTTGCTGTTCCCGGCGCTCAAAACGTTACCGTTTTAGTCGTCGGAGCTACTAGTAGAAT 594
Query 564 TGGCCGTATCGTTGTCCGTAAACTCATGCTCCGTGGCTACACCGTCAAGGCACTGGTGAG 623
|| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 595 CGGTCGTATCGTTGTCCGTAAACTCATGCTCCGTGGCTACACCGTCAAGGCACTGGTGAG 654
Query 624 GAAACAAGATGAGGAAGTGATGAGTATGTTGCCAAGATCAGTGGATATTGTTGTTGGAGA 683
|||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct 655 GAAACAAGATGAGGAAGTGATGAGTATGTTGCCAAGGTCAGTGGATATTGTTGTTGGAGA 714
Query 684 TGTTGGCGAACCGTCAACACTCAAATCCGCTGTTGAAAGCTGCAACAAGATCATCTACTG 743
||| || ||||||||||| ||||||||||||||||||||||||| |||||||||||||||
Sbjct 715 TGTGGGTGAACCGTCAACGCTCAAATCCGCTGTTGAAAGCTGCAGCAAGATCATCTACTG 774
Query 744 TGCGACTGCTCGGTCTACGATTACTGCAGACCTTACCCGGGTTGATCATTTGGGTGTTTA 803
|||||||||||||||||||||||||||||||||||| ||||||||||| |||||||||||
Sbjct 775 TGCGACTGCTCGGTCTACGATTACTGCAGACCTTACGCGGGTTGATCACTTGGGTGTTTA 834
Query 804 TAACCTCACCAAGGCTTTTCAGGATTACAATAACAGACTAGCGCAATTAAGAGCGGGTAA 863
||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct 835 TAACCTCACCAAGGCTTTTCAGGATTACAATAACAGACTAGCGCAATTAAGGGCGGGTAA 894
Query 864 AAGCAGCAAAAGCAAGCTTCTAATAGCTAAGTTCAAATCGGCTGAGTCACTCGATGGTTG 923
|||||||||||||||||||||| ||||||||||||| || ||||||||||| ||||||||
Sbjct 895 AAGCAGCAAAAGCAAGCTTCTATTAGCTAAGTTCAAGTCAGCTGAGTCACTTGATGGTTG 954
Query 924 GGAAATTCGTCAAGGAACTTACTTTCAAGACACAACTGCTTCCAAATATGATGGTGGGAT 983
||||||||||||||||||||||||||| |||||||| |||||||||||||||||||||||
Sbjct 955 GGAAATTCGTCAAGGAACTTACTTTCAGGACACAACCGCTTCCAAATATGATGGTGGGAT 1014
Query 984 GGATGCTAAGTTCGAGTTCACGGAAACTGAGAGAGCTGAGTTTTCAGGTTATGTTTTCAC 1043
|||||||||||| |||||||| ||||||||||||||||||||||||||||||||||||||
Sbjct 1015 GGATGCTAAGTTTGAGTTCACTGAAACTGAGAGAGCTGAGTTTTCAGGTTATGTTTTCAC 1074
Query 1044 CCGAGGAGGATATGTTGAGTTGTCGAAGAAACTTTCACTTCCATTGGGTACCACTCTTGA 1103
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1075 CCGAGGAGGATATGTTGAGTTGTCGAAGAAACTTTCACTTCCATTGGGTACCACTCTTGA 1134
Query 1104 CAGGTACGAAGGCTTAGTTCTTTCTGTTGGTGGGAATGGAAGATCCTATGTTGTAATCCT 1163
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1135 CAGGTACGAAGGCTTAGTTCTTTCTGTTGGTGGGAATGGAAGATCCTATGTTGTAATCCT 1194
Query 1164 TGAAGCTGGTCCATCATCAGATATGTCTCAGAGCAAACAGTATTTCGCAAGGATCAGTAC 1223
|||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct 1195 TGAAGCTGGTCCATCATCAGATATGTCTCAGAGCAAACAGTATTTCGCTAGGATCAGTAC 1254
Query 1224 CAAAGCAGGTTTTTGTCGGGTAAGGGTGCCATTTTCAGCTTTTCGTCCGGTTAACCCAGA 1283
||||||||| ||||||||||||||||||||||||||||||||||| ||||| ||||||||
Sbjct 1255 CAAAGCAGGGTTTTGTCGGGTAAGGGTGCCATTTTCAGCTTTTCGACCGGTCAACCCAGA 1314
Query 1284 AGATCCACCGCTAGATCCATTTCTTGTTCACACATTGACAATACGCTTTGAGCCTAAAAG 1343
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1315 AGATCCACCGCTAGATCCATTTCTTGTTCACACATTGACAATACGCTTTGAGCCTAAAAG 1374
Query 1344 ACAGAGACCTGTTGATGGACTTGCTGCTGCGCAACAAGATCTGAGAAGTTTTAGCCTTGT 1403
|||||| ||||||||||||||||||| ||||||||||||| |||||||||||||||||||
Sbjct 1375 ACAGAGGCCTGTTGATGGACTTGCTGGTGCGCAACAAGATTTGAGAAGTTTTAGCCTTGT 1434
Query 1404 ATTCGAGTACATAAAAGCTTTGCCTGCGGGTCAAGAAACAGACTTTATTCTGGTATCGTG 1463
||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1435 ATTTGAGTACATAAAAGCTTTGCCTGCGGGTCAAGAAACAGACTTTATTCTGGTATCGTG 1494
Query 1464 TACTGGTTCGGGAGTAGAACCCAACAGAAGGGAGCAAGTGTTGAAAGCCAAGAGGGCTGG 1523
||||||||||||||||||| |||||||||||||||||||||||||||| |||||||||||
Sbjct 1495 TACTGGTTCGGGAGTAGAAGCCAACAGAAGGGAGCAAGTGTTGAAAGCTAAGAGGGCTGG 1554
Query 1524 TGAAGATTCTTTGAGGAGATCAGGCCTTGGTTACACCATCATTCGTCCCGGCCCCTTGAA 1583
|||||||||||| ||||||||||||||||| ||||| ||||||||||| || ||||||||
Sbjct 1555 TGAAGATTCTTTAAGGAGATCAGGCCTTGGATACACAATCATTCGTCCTGGTCCCTTGAA 1614
Query 1584 GGAGGAACCAGGCGGGCAACGAGCTCTGATATTTGATCAAGGAAACAGAATTTCTCAGGG 1643
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1615 GGAGGAACCAGGCGGGCAACGAGCTCTGATATTTGATCAAGGAAACAGAATTTCTCAGGG 1674
Query 1644 CATTAGTTGCGCGGATGTGGCTGATATATGTGTCAAGGCACTGCATGATTCAACCGCTAG 1703
||||||||||||||||||||||||||||||||||||||||||||| ||||||||||| ||
Sbjct 1675 CATTAGTTGCGCGGATGTGGCTGATATATGTGTCAAGGCACTGCACGATTCAACCGCCAG 1734
Query 1704 AAACAAAAGTTTTGATGTTTGCCATGAATATGTCGCTGAGCAAGGAATAGAGCTCTATGA 1763
||||||||| |||||||||||||||||||| || ||||||||||||||||| ||||||||
Sbjct 1735 AAACAAAAGCTTTGATGTTTGCCATGAATACGTTGCTGAGCAAGGAATAGAACTCTATGA 1794
Query 1764 GCTGGTGGCTCATTTGCCAGACAAGGCGAACAACTATCTGACTCCGGCTTTATCTGTACT 1823
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1795 GCTGGTGGCTCATTTGCCAGACAAGGCGAACAACTATCTGACTCCGGCTTTATCTGTACT 1854
Query 1824 TGAGAAGAACACATGAGAAGTAGAATCATTGATTCCATTTTGTCTAGTGTACTCATCTCA 1883
|||||||||||||||||||| |||||||||||||||||||||| || ||||| |||||||
Sbjct 1855 TGAGAAGAACACATGAGAAGAAGAATCATTGATTCCATTTTGTATATTGTACACATCTCA 1914
Query 1884 AGCTCTGATACGCGTTCCATACATATATACATACGTACATGTATAACTTGTACATACAAG 1943
||||||||||||| || ||| |||||||||||||||||||||||||||||||||||||||
Sbjct 1915 AGCTCTGATACGCATTACATGCATATATACATACGTACATGTATAACTTGTACATACAAG 1974
Query 1944 AATCTCTTTGGTCTCTTTATGTCCATTAACATTTATTTCTTATATTCAACTCTAAA-TTT 2002
|||||||||||||||||||||||||||| |||||||||||||||||||||| |||| |||
Sbjct 1975 AATCTCTTTGGTCTCTTTATGTCCATTACCATTTATTTCTTATATTCAACT-TAAAATTT 2033
Query 2003 GTGTGCTAATA 2013
|||||||||||
Sbjct 2034 GTGTGCTAATA 2044
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 99748482915
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