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= Ahg910808
Length=1239
Score E
Sequences producing significant alignments: (Bits) Value
AT1G10710.1 | Symbols: PHS1 | poor homologous synapsis 1 | chr1... 1792 0.0
> AT1G10710.1 | Symbols: PHS1 | poor homologous synapsis 1 | chr1:3558358-3561634
FORWARD LENGTH=1437
Length=1437
Score = 1792 bits (970), Expect = 0.0
Identities = 1146/1230 (93%), Gaps = 15/1230 (1%)
Strand=Plus/Plus
Query 1 ATGGCGGGATCTCTAACAGCATCAACCCGCCGTGGAAACACGGAGGCTTCTTCAGAAATT 60
||||||||||||||||||||||||| ||||||| ||||| |||||| |||||||||||||
Sbjct 66 ATGGCGGGATCTCTAACAGCATCAAACCGCCGTAGAAACGCGGAGGATTCTTCAGAAATT 125
Query 61 TACCGGTGGATGATCGGTTTTGCTCGGTTTGTTCACTATCCATCTACTCCTTCTCAGTGT 120
|||||||||| |||||||||||||||||||||||||||||||||| ||||||||| | |
Sbjct 126 TACCGGTGGACGATCGGTTTTGCTCGGTTTGTTCACTATCCATCTTCTCCTTCTCCGCAT 185
Query 121 CCAGGTCTGAGACCTCTCGGAAGGAGAGAGCTGTATCATTCGCCCCACGGAACCTGGTTG 180
|||| ||||| ||||||||||| |||||||| ||||||||||||||||||||||||| ||
Sbjct 186 CCAGTTCTGAAACCTCTCGGAAAGAGAGAGCAGTATCATTCGCCCCACGGAACCTGGCTG 245
Query 181 TCGGCGTCTTCTTCGACGCTGTCTCTCCAGA-TGTTCGACGAAGTCAACAGATCCGATGT 239
|||||||||||||||||| | |||||||| | || |||||||| | ||| ||||||||||
Sbjct 246 TCGGCGTCTTCTTCGACGGTTTCTCTCCACATTG-TCGACGAATTGAACCGATCCGATGT 304
Query 240 GATTCTCTCCGTCAAACTCGGCGAGAAAGTCCTTGAAGAACACTACATTTCAAAGCTGAA 299
|||||| ||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct 305 GATTCTATCCGTCAAACTCGGCCAGAAAGTCCTTGAAGAACACTACATTTCAAAGCTGAA 364
Query 300 TTTCACATGGCCTCAGATGTCATGCGTTTCTGGGTTTCCATCTCGTGGTAGTCGAGCGAT 359
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 365 CTTCACATGGCCTCAGATGTCATGCGTTTCTGGGTTTCCATCTCGTGGTAGTCGAGCGAT 424
Query 360 TTTCGTTACCTATAAGGATTCTGCAAACGAGATCCAGAAATTTGCTTTAAGGTTTTCCAC 419
|||||||||||||| ||||||||| ||| |||||||||||||||||||||||||||||||
Sbjct 425 TTTCGTTACCTATATGGATTCTGCTAACCAGATCCAGAAATTTGCTTTAAGGTTTTCCAC 484
Query 420 ATGTGATGCAGCGTTGGAGTTTGTGGAAGCTCTTAAGGAGAAGTTTAAGGGTTTAGAGGA 479
|||||||||||||||||||||||||||||||||||||||||| ||||||||||| ||||
Sbjct 485 TTGTGATGCAGCGTTGGAGTTTGTGGAAGCTCTTAAGGAGAAGATTAAGGGTTTAAAGGA 544
Query 480 AGC-TCG-----GAACCAGAGAAATGAAACTAGGTGTGAGGTGGTTTCTTTCCAGTCAGA 533
||| ||| |||||||| |||| ||||||||||||| | |||||||||||||||||
Sbjct 545 AGCTTCGACTCAGAACCAGAAAAATAAAACTAGGTGTGA--T-GTTTCTTTCCAGTCAGA 601
Query 534 TTACAACCCTTCAAATGCGATCATCCCCAGAGCCACTCAGAAAGAGCCAAATATGGTTAA 593
||||||||||||| ||||||| |||||||||||||||||||||||||||||||||||||
Sbjct 602 TTACAACCCTTCAGATGCGATTATCCCCAGAGCCACTCAGAAAGAGCCAAATATGGTTAG 661
Query 594 ACCTCGTAATAGTTATGTTCCTGAAATGCAACCAAGAATTGAGTATGAAGTTCAGAACCA 653
||||| ||||||||||||||||||||||| ||||||||||| |||||||| |||| ||||
Sbjct 662 ACCTCTTAATAGTTATGTTCCTGAAATGCTACCAAGAATTGTGTATGAAGCTCAGTACCA 721
Query 654 GAAAAGTGAAACTAGGTCCGAGGTTTCTTTCCAGACAGATTACAACCCTTCAAATGAGAT 713
|||||||||||||||||||||||||||||||||| |||||||||||||||||| ||||||
Sbjct 722 GAAAAGTGAAACTAGGTCCGAGGTTTCTTTCCAGTCAGATTACAACCCTTCAATTGAGAT 781
Query 714 TTTCCCCAGAGCCATTGAAGAAGAGCCAAATATGGTTAGATTTTTTGATAGTTATGTTCC 773
|||||||||||||| ||| |||||||||||||||||||||||||||||||||| ||||||
Sbjct 782 TTTCCCCAGAGCCACTGAGGAAGAGCCAAATATGGTTAGATTTTTTGATAGTTCTGTTCC 841
Query 774 TGAAATGCAACCAAGACCTGAGTATGAAACTGGA-AGAGCCTTATATCCATCACAATCCA 832
|||| ||| ||||||||||||||||||| ||||| | ||||||||| |||||||||||||
Sbjct 842 TGAAGTGCTACCAAGACCTGAGTATGAAGCTGGACA-AGCCTTATACCCATCACAATCCA 900
Query 833 CGCTAAATCAAATCCCGAA-TCTCCCTCCGAGTTTCACCTCCTTACTCTCTGGTTGCTTC 891
|||||||||||||||| || ||| |||||||||||||| ||||||||||||| ||||||
Sbjct 901 CGCTAAATCAAATCCC-AAGTCTTCCTCCGAGTTTCACAACCTTACTCTCTGGCTGCTTC 959
Query 892 CCTGACTCCACTCTAGATGCAGGCCAAACACCTGTGAAGCAGGATCCTGATCTAAAGTCA 951
|| ||||||||||||||||||||||||||| ||||||||||| ||||||||||||||||
Sbjct 960 CCCGACTCCACTCTAGATGCAGGCCAAACAACTGTGAAGCAGAATCCTGATCTAAAGTCG 1019
Query 952 CAGATACTGAGGTACATGGAAGATTCTTCATTTCAAGATATGCTGCAGAAAGTAGAGAGA 1011
|||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 1020 CAGATACTGAAGTACATGGAAGATTCTTCATTTCAAGATATGCTGCAGAAAGTAGAGAGA 1079
Query 1012 ATTATCGACGAAATTGGAGATCGATGTGCAGGTAGCACGATAGGGAGATCGAGCAAAATC 1071
|||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct 1080 ATTATCGACGAAATTGGAGATCGATGTGTAGGTAGCACGATAGGGAGATCGAGCAAAATC 1139
Query 1072 TATGTACCATTGTGTTTCCACGACAATTGCGTCCTGCCATTTAAAAATGATTGTTGGTGT 1131
||| ||||||||||||| ||| |||||||| ||| ||||||||| ||||||||||||||
Sbjct 1140 TATATACCATTGTGTTTTCACAACAATTGCATCCACCCATTTAAAGATGATTGTTGGTGT 1199
Query 1132 TGTCTCGCAGCTGGAACTAAAAAAGATTGGTGTTGGGAAGAAAAAGATTATCCGGACGCC 1191
|||||||||||||||||||||||||||||||||||| ||||||||||| ||| ||||||
Sbjct 1200 TGTCTCGCAGCTGGAACTAAAAAAGATTGGTGTTGGCTAGAAAAAGATTTTCCCGACGCC 1259
Query 1192 AAAGAGCTTTGTATGAAAACATGTACAAGA 1221
||||||||||||||||||||||||||||||
Sbjct 1260 AAAGAGCTTTGTATGAAAACATGTACAAGA 1289
Score = 159 bits (86), Expect = 4e-38
Identities = 141/167 (84%), Gaps = 5/167 (3%)
Strand=Plus/Plus
Query 478 GAAGCTCGGAACCAGAGAAA-TGAAACTAGGTGTGAGGTGGTTTCTTTCCAGTCAGATTA 536
||||||| | |||||| ||| ||||||||||| || |||||||||||||||||||||
Sbjct 708 GAAGCTCAGTACCAGA-AAAGTGAAACTAGGTCCGA---GGTTTCTTTCCAGTCAGATTA 763
Query 537 CAACCCTTCAAATGCGATCATCCCCAGAGCCACTCAGAAAGAGCCAAATATGGTTAAACC 596
||||||||||| || ||| |||||||||||||| || |||||||||||||||||| |
Sbjct 764 CAACCCTTCAATTGAGATTTTCCCCAGAGCCACTGAGGAAGAGCCAAATATGGTTAGATT 823
Query 597 TCGTAATAGTTATGTTCCTGAAATGCAACCAAGAATTGAGTATGAAG 643
| | |||||| |||||||||| ||| ||||||| |||||||||||
Sbjct 824 TTTTGATAGTTCTGTTCCTGAAGTGCTACCAAGACCTGAGTATGAAG 870
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 60893261085
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