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= Ahg356101
Length=1203
Score E
Sequences producing significant alignments: (Bits) Value
AT5G38870.1 | Symbols: | transposable element gene | chr5:1556... 963 0.0
> AT5G38870.1 | Symbols: | transposable element gene | chr5:15561465-15562122
FORWARD LENGTH=658
Length=658
Score = 963 bits (521), Expect = 0.0
Identities = 614/658 (93%), Gaps = 9/658 (1%)
Strand=Plus/Minus
Query 526 TCAATATTTCCTCCAAACCCATTTCAGCCTCGTCCTCCGCCACCATCGATATTTCCTCCA 585
||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct 658 TCAATCTTTCCTCCAAACCCATTTCAGCCTCGTCCTCCGCCACCATCGATATTTCCTCCA 599
Query 586 TTATTTCCTCAGCCAcct----c-cc-cctccatcaatatttcctccattatttcctcat 639
||||||||| |||||||| | || |||||||||||||||||||||||||||||||||
Sbjct 598 TTATTTCCTAAGCCACCTCCCGCTCCTCCTCCATCAATATTTCCTCCATTATTTCCTCAT 539
Query 640 ccacctcctgctcctcctccGTCAATATTCCCTCCAAACCCGTTTCAGCCTCGTCCTCCT 699
|||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct 538 CCACCTCCTGCTCCTCCTCCCTCAATATTCCCTCCAAACCCGTTTCAGCCTCGTCCTCCT 479
Query 700 CAGCCACCTCCTGCTCCTCCATCGATATTCCCTCCAAACCCATTTCAGCCTCGTCCTCCT 759
| ||||||||| | ||||||||||||||||||||||||||||||||||||||||||| |
Sbjct 478 CCGCCACCTCCCGAACCTCCATCGATATTCCCTCCAAACCCATTTCAGCCTCGTCCTCTT 419
Query 760 CAGCCGCCTCCTGCTCCTCCATCGATATTCCCTCCAAACCCATTTCAGCCTCGtcctcct 819
||||| |||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct 418 CAGCCACCTCCTGCTCCTCCATCGATATTCCCTCCAAACCCATTTCAGCCTCATCCTCCT 359
Query 820 cagccacct--c-ctactcctccatcgttattccctccaatatttcctcagcctcctcca 876
|||| ||| | | |||||||| ||||| |||||||||||||||| |||||||||||||
Sbjct 358 CAGCTTCCTCCCACAACTCCTCCGTCGTTCTTCCCTCCAATATTTCATCAGCCTCCTCCA 299
Query 877 gctccagcttctcctcctccatcaatattccctccaAACCCATTTCAGcctcgtcctcct 936
|||||||||||||||||||| || | ||||||||||||||||||||||||| |||||||
Sbjct 298 GCTCCAGCTTCTCCTCCTCCGTCGTTCTTCCCTCCAAACCCATTTCAGCCTCATCCTCCT 239
Query 937 cagcctcctcccactcctcctccatcgatattccctccGAACCCATTTCAGCCTCATCCT 996
|||||||||||||||||||||||||||||||||||||| |||||||||||||||| ||||
Sbjct 238 CAGCCTCCTCCCACTCCTCCTCCATCGATATTCCCTCCAAACCCATTTCAGCCTCGTCCT 179
Query 997 CCTCTTCCCACTCCTCCTCCACCATGGTCTCTCTTTCCTCCACTGCCACCAATCTTTCCA 1056
|||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||
Sbjct 178 CCTCTTCCCACTCCTCCTCCACCATGGTCTCTCTTTCCTCCACTGCCACCGATCTTTCCA 119
Query 1057 GGCTTAAAtccaccaccaccaccacctcctccccctcctccacctccatcgttttttcca 1116
||| ||||||||||||||||||| |||||||| |||||||||||||| ||| | ||||||
Sbjct 118 GGCCTAAATCCACCACCACCACCTCCTCCTCCTCCTCCTCCACCTCCGTCGATCTTTCCA 59
Query 1117 ttccctccattcccattcttaccaccaccaCGCAACCCTGGCCCTCCTCCTGCTTCAT 1174
|| ||||||||||||||| ||||||||||| ||| ||||||||||||||||||||||
Sbjct 58 TTTCCTCCATTCCCATTCCTACCACCACCAAACAAACCTGGCCCTCCTCCTGCTTCAT 1
Score = 305 bits (165), Expect = 5e-82
Identities = 350/433 (81%), Gaps = 38/433 (9%)
Strand=Plus/Minus
Query 601 cctccccctccatcaatatttcctccattatttcctcatccacctcctgctcctcctccG 660
||||| || ||||| ||||||||||||||||||||| | |||||||| |||||||||||
Sbjct 625 CCTCCGCCACCATCGATATTTCCTCCATTATTTCCTAAGCCACCTCCCGCTCCTCCTCCA 566
Query 661 TCAATATTCCCTCCAAACCCGTTTCAGCCTCGTCCTCCTCAGCCACCTCCTG---CTCCT 717
|||||||| ||||| | || | | | |||||| |||||||||| |||||
Sbjct 565 TCAATATTTCCTCC--A-----TT-A---T--T--TCCTCATCCACCTCCTGCTCCTCCT 521
Query 718 CCATCGATATTCCCTCCAAACCCATTTCAGCCTCGTCCTCCTCAGCCGCCTCCTGCTCCT 777
|| || ||||||||||||||||| ||||||||||||||||||| ||| ||||| | |||
Sbjct 520 CCCTCAATATTCCCTCCAAACCCGTTTCAGCCTCGTCCTCCTCCGCCACCTCCCGAACCT 461
Query 778 CCATCGATATTCCCTCCAAACCCATTTCAGCCTCGtcctcctcagccacctcctactcct 837
|||||||||||||||||||||||||||||||||||||||| ||||||||||||| |||||
Sbjct 460 CCATCGATATTCCCTCCAAACCCATTTCAGCCTCGTCCTCTTCAGCCACCTCCTGCTCCT 401
Query 838 ccatcgttattccctccaat---atttc--c-tcagcctcctccagct-ccagcttctcc 890
|||||| |||||||||||| ||||| | ||| ||||||| |||| || | | |
Sbjct 400 CCATCGATATTCCCTCCAAACCCATTTCAGCCTCATCCTCCTC-AGCTTCCTCCCACAAC 342
Query 891 tcctccatcaatattccctccaAACCCATTTCAGcctcgtcctcctcagcctcctcccac 950
|||||| || | |||||||||| |||||| | | |||||| ||| ||| | |
Sbjct 341 TCCTCCGTCGTTCTTCCCTCCAAT---ATTTCATCAGCCTCCTCC--AGC-TCCAGCTTC 288
Query 951 tcctcctccatcgatattccctccGAACCCATTTCAGCCTCATCCTCCTC----T--TCC 1004
||||||||| ||| | |||||||| ||||||||||||||||||||||||| | |||
Sbjct 287 TCCTCCTCCGTCGTTCTTCCCTCCAAACCCATTTCAGCCTCATCCTCCTCAGCCTCCTCC 228
Query 1005 CACTCCTCCTCCA 1017
|||||||||||||
Sbjct 227 CACTCCTCCTCCA 215
Score = 287 bits (155), Expect = 2e-76
Identities = 346/431 (80%), Gaps = 42/431 (10%)
Strand=Plus/Minus
Query 560 CTCCGCCACCATCGATATTTCCTCCATTATTTCCTCAGCCA---cct-c-cc-cctccat 613
|||| || ||||| ||||||||||||||||||||||| ||| ||| | || ||||| |
Sbjct 576 CTCCTCCTCCATCAATATTTCCTCCATTATTTCCTCATCCACCTCCTGCTCCTCCTCCCT 517
Query 614 caatatttcctcc--a-ttattt---cctcatccacct---cctgct-cc--tcctccGT 661
||||||| ||||| | ||| |||| ||| ||| || || || ||||| |
Sbjct 516 CAATATTCCCTCCAAACCCGTTTCAGCCTCGTCCTCCTCCGCCACCTCCCGAACCTCCAT 457
Query 662 CAATATTCCCTCCAAACCCGTTTCAGCCTCGTCCTCCTCAGCCACCTCCTGCTCCTCCAT 721
| ||||||||||||||||| |||||||||||||||| |||||||||||||||||||||||
Sbjct 456 CGATATTCCCTCCAAACCCATTTCAGCCTCGTCCTCTTCAGCCACCTCCTGCTCCTCCAT 397
Query 722 CGATATTCCCTCCAAACCCATTTCAGCCTCGTCCTCCTCAGCCGCCTCCTGC---TCCTC 778
|||||||||||||||||||||||||||||| ||||||||||| ||||| | |||||
Sbjct 396 CGATATTCCCTCCAAACCCATTTCAGCCTCATCCTCCTCAGCTTCCTCCCACAACTCCTC 337
Query 779 CATCGATATTCCCTCCAA-ACC-CATTTCAGCCTCGtcctcctcagccacctcctactcc 836
| ||| | |||||||||| | ||| ||||||| ||| ||| | | || || ||||
Sbjct 336 CGTCGTTCTTCCCTCCAATATTTCAT--CAGCCTCCTCCAGCTC--C-AGCTTCTCCTCC 282
Query 837 tccatcgttattccctccaat---atttc--c-tcagcctcctccagc-tccagcttctc 889
||| ||||| |||||||||| ||||| | ||| ||||||| ||| ||| | |||
Sbjct 281 TCCGTCGTTCTTCCCTCCAAACCCATTTCAGCCTCATCCTCCTC-AGCCTCCTCCCACTC 223
Query 890 ctcctccatcaatattccctccaAACCCATTTCAGcctcgtcctcctcagcctcctccca 949
|||||||||| ||||||||||||||||||||||||||||||||||||| | |||||
Sbjct 222 CTCCTCCATCGATATTCCCTCCAAACCCATTTCAGCCTCGTCCTCCTC----T--TCCCA 169
Query 950 ctcctcctcca 960
|||||||||||
Sbjct 168 CTCCTCCTCCA 158
Score = 163 bits (88), Expect = 3e-39
Identities = 134/155 (86%), Gaps = 8/155 (5%)
Strand=Plus/Minus
Query 694 CCTCCT-CAG--CCACCTCCTGCTCCTCCATCGATATTCCCTCCAAACCCATTTCAGCCT 750
|||||| ||| ||| || || ||||||| ||| | ||||||||||||||||||||||||
Sbjct 307 CCTCCTCCAGCTCCAGCTTCTCCTCCTCCGTCGTTCTTCCCTCCAAACCCATTTCAGCCT 248
Query 751 CGTCCTCCTCAGCCGCCT--C-CTGCTCCTCCATCGATATTCCCTCCAAACCCATTTCAG 807
| |||||||||||| ||| | || |||||||||||||||||||||||||||||||||||
Sbjct 247 CATCCTCCTCAGCCTCCTCCCACTCCTCCTCCATCGATATTCCCTCCAAACCCATTTCAG 188
Query 808 CCTCGtcctcctcagcc-acctcctactcctccat 841
||||||||||||| || || |||| |||| ||||
Sbjct 187 CCTCGTCCTCCTCTTCCCAC-TCCTCCTCCACCAT 154
Score = 158 bits (85), Expect = 2e-37
Identities = 120/136 (88%), Gaps = 5/136 (4%)
Strand=Plus/Minus
Query 650 ctcctcctccGTCAATATTCCCTCCAAACCCGTTTCAGCCTCGTCCTCCTCAGCCACCT- 708
||||||||||||| | |||||||||||||| |||||||||| |||||||||||| |||
Sbjct 288 CTCCTCCTCCGTCGTTCTTCCCTCCAAACCCATTTCAGCCTCATCCTCCTCAGCCTCCTC 229
Query 709 -C-CTGCTCCTCCATCGATATTCCCTCCAAACCCATTTCAGCCTCGTCCTCCTCAGCCGC 766
| || |||||||||||||||||||||||||||||||||||||||||||||||| || |
Sbjct 228 CCACTCCTCCTCCATCGATATTCCCTCCAAACCCATTTCAGCCTCGTCCTCCTCTTCC-C 170
Query 767 -CTCCTGCTCCTCCAT 781
||||| |||| ||||
Sbjct 169 ACTCCTCCTCCACCAT 154
Score = 150 bits (81), Expect = 3e-35
Identities = 157/191 (82%), Gaps = 16/191 (8%)
Strand=Plus/Minus
Query 833 ctcctccatcgttattccctccaatatttcctcagcctcctccagctccagcttctcctc 892
|||||||||| |||| |||||| |||||||||| || ||||| ||||| | | | ||
Sbjct 573 CTCCTCCATCAATATTTCCTCCATTATTTCCTCATCCACCTCCTGCTCC---T-C-C-TC 520
Query 893 ctccatcaatattccctccaAACCCATTTCAGcctcgtcctcctcagcctcctccc-act 951
| | |||||||||||||||||||| ||||||||||||||||||| ||| |||||| |
Sbjct 519 C-C--TCAATATTCCCTCCAAACCCGTTTCAGCCTCGTCCTCCTCCGCCACCTCCCGAA- 464
Query 952 cctcctccatcgatattccctccGAACCCATTTCAGCCTCATCCTCCTCTTCCCAC-TCC 1010
||||| ||||||||||||||| |||||||||||||||| ||||| || || || |||
Sbjct 463 CCTCC---ATCGATATTCCCTCCAAACCCATTTCAGCCTCGTCCTCTTCAGCC-ACCTCC 408
Query 1011 TCCTCCACCAT 1021
| |||| ||||
Sbjct 407 TGCTCCTCCAT 397
Score = 65.8 bits (35), Expect = 1e-09
Identities = 41/44 (93%), Gaps = 0/44 (0%)
Strand=Plus/Minus
Query 520 CCTCCTTCAATATTTCCTCCAAACCCATTTCAGCCTCGTCCTCC 563
||||| || ||||| |||||||||||||||||||||||||||||
Sbjct 220 CCTCCATCGATATTCCCTCCAAACCCATTTCAGCCTCGTCCTCC 177
Score = 65.8 bits (35), Expect = 1e-09
Identities = 41/44 (93%), Gaps = 0/44 (0%)
Strand=Plus/Minus
Query 519 ACCTCCTTCAATATTTCCTCCAAACCCATTTCAGCCTCGTCCTC 562
|||||| || ||||| ||||||||||||||||||||||||||||
Sbjct 464 ACCTCCATCGATATTCCCTCCAAACCCATTTCAGCCTCGTCCTC 421
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 59086041465
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