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= Ahg491032
Length=1148
Score E
Sequences producing significant alignments: (Bits) Value
AT4G36020.1 | Symbols: CSDP1 | cold shock domain protein 1 | ch... 881 0.0
> AT4G36020.1 | Symbols: CSDP1 | cold shock domain protein 1 |
chr4:17043112-17044396 REVERSE LENGTH=1285
Length=1285
Score = 881 bits (477), Expect = 0.0
Identities = 667/752 (89%), Gaps = 39/752 (5%)
Strand=Plus/Plus
Query 420 GGTTGTTACAATTGTGGTGATGCTGGTCACTTCGCTAGGGATTGTACTCAGAAATCAGCT 479
||||| |||| ||| ||||||| ||||||| | ||||||||||||||||||||||||| |
Sbjct 547 GGTTGCTACACTTGCGGTGATGTTGGTCACGTGGCTAGGGATTGTACTCAGAAATCAGTT 606
Query 480 GGAAACGGAGACCAACGTGGAGCAGCCGGAGCTGGAAAAGATGGTTGTTACAATTGTGGT 539
||||||||||||||||||||||| | | || |||||| |||||||| |||| |||||||
Sbjct 607 GGAAACGGAGACCAACGTGGAGCGGTCAAAGGTGGAAACGATGGTTGCTACACTTGTGGT 666
Query 540 GACATTGGTCACTTCGCTAGGGATTGTGGTAATCAGAAAGTGGCTGCTGGAAACGTCAGA 599
|| |||||||||| |||||||| | | ||| |||||| || ||||| ||||||||||||
Sbjct 667 GATGTTGGTCACTTTGCTAGGGA-T-T-GTACTCAGAAGGTTGCTGCCGGAAACGTCAGA 723
Query 600 AGC---GGTGGTGGTAGTGGATCTTGTTATACATGTGGTGGAGTTGGTCACATTGCAAGA 656
||| ||||||||||||||| |||||||| |||| ||||||||||||||||||||||||
Sbjct 724 AGCGGTGGTGGTGGTAGTGGAACTTGTTATTCATGCGGTGGAGTTGGTCACATTGCAAGA 783
Query 657 GAGTGTGCGACTAAGAAACAGCCTTCTCGTGGTTGTTACCAGTGTGGTGGTTCTGGTCAC 716
|| ||||||||||||| ||||||||||||||| |||||||||||||||||||||||||||
Sbjct 784 GATTGTGCGACTAAGAGACAGCCTTCTCGTGGGTGTTACCAGTGTGGTGGTTCTGGTCAC 843
Query 717 TTGGCTCGTGATTGTGACCAGAGAGGAAGCGGTGGAAGCGGTGGTGGTAATAAGTGCTAC 776
|||||||||||||||||||||||||||||||||||| | ||| || |||| |||||||
Sbjct 844 TTGGCTCGTGATTGTGACCAGAGAGGAAGCGGTGGAGGAGGTAATGATAATGCGTGCTAC 903
Query 777 A-GCTGCGGTAAGGAAGGTCACTTTGCAAGGGAATG--CT-CTGTGGCTTAAACGATTTC 832
| | || ||||||||||||||||||||||||||||| || |||| |||||| |||||||
Sbjct 904 AAG-TGTGGTAAGGAAGGTCACTTTGCAAGGGAATGTTCTTCTGTAGCTTAATCGATTTC 962
Query 833 CTAATCAACAAAA-AA-----CAAGAATGAAATTGAATCGAGTAATATAGTTTGGTATAT 886
||||||||||||| || |||||||||||||||||||||| ||||||||||||||||
Sbjct 963 CTAATCAACAAAACAAAAAAACAAGAATGAAATTGAATCGAGTTATATAGTTTGGTATAT 1022
Query 887 ATTTCTCTTCGTTTTCATTTATCtttttttttGTTG---ATGGGAATGAAATTGCCTGGT 943
||| |||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct 1023 ATTACTCTTCGTTTTCATTTATCTTTTTTTTTGTTGTTGATGGGAATGAAATTGCCTGGT 1082
Query 944 CCTTTTGGTGT-TTTA-GAGGTTTTATTATTATACAGAGAGTGAATCCCCCTTTTGTTAT 1001
||||||||||| ||| ||| |||||||||||||||||| ||| |||| |||||||||
Sbjct 1083 CCTTTTGGTGTGTTTTTGAGCTTTTATTATTATACAGAG--TGA-TCCCT-TTTTGTTAT 1138
Query 1002 AACTATTACAAGTTTTTAGCTTTATTTGTTTCTCTGATATGGATGCTCTCT--TTTTCTT 1059
|||||||||||||||||||||||||||| ||||||||||||||| |||||||
Sbjct 1139 AACTATTACAAGTTTTTAGCTTTATTTG--------ATATGGATGCTCTCTCCTTTTCTT 1190
Query 1060 CTATCTGTTTCTGGAAATTTTGACCTC-T--TATTGCTTATGTCATCTAAAGTTTGAGTT 1116
||||||||||||||||||||||||||| | |||| ||||||||||| ||||||||||||
Sbjct 1191 CTATCTGTTTCTGGAAATTTTGACCTCATCATATTACTTATGTCATCCAAAGTTTGAGTT 1250
Query 1117 TTGTCCTTTTTATTAAAGTGTTGCTAGTTTCA 1148
|||||||||||||||||||| |||||||||||
Sbjct 1251 TTGTCCTTTTTATTAAAGTGCTGCTAGTTTCA 1282
Score = 667 bits (361), Expect = 0.0
Identities = 521/592 (88%), Gaps = 35/592 (6%)
Strand=Plus/Plus
Query 1 AAAAACCCTAATTTCTCAATCTCTTCTTCAACttttttttCCCCACGATGGCTTCAGAGG 60
|||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct 9 AAAAACCCTAATTTCTCAATCTCTTCTTCAACTTTTTTTT-TTAACGATGGCTTCAGAGG 67
Query 61 ATCAATCGGCGGTGAGATCTACCGGGAAGGTTAACTGGTTCAACGATTCCAAAGGCTATG 120
|||||||||||| |||||||||||||||||| ||||||||||||| ||| ||||||||||
Sbjct 68 ATCAATCGGCGGCGAGATCTACCGGGAAGGTGAACTGGTTCAACGCTTCTAAAGGCTATG 127
Query 121 GTTTCATTACTCCTGAAGACGGCAGCGAAGAGCTTTTCGTTCATCAATCCTCAATTGTCT 180
|||||||||||||||| || ||||||| ||||||||||||||||||||| ||||||||||
Sbjct 128 GTTTCATTACTCCTGACGATGGCAGCGTAGAGCTTTTCGTTCATCAATCTTCAATTGTCT 187
Query 181 CCGAAGGTTACCGGAGTTTAGCTGAGGGCGATTCGGTTGAGTTCGCTATTACTCAGGGAA 240
|||||||||||||||||||| | | |||||| |||||||||||||||||||||||||||
Sbjct 188 CCGAAGGTTACCGGAGTTTAACCGTCGGCGATGCGGTTGAGTTCGCTATTACTCAGGGAA 247
Query 241 GCGACGGTAAGACTAAAGCCGTCGAGGTTACTGCTC-TCGGTGGTGGTGCTCTTAAGAAG 299
||||||||||||||||||||||| | |||||||||| | ||||||||| |||| ||||||
Sbjct 248 GCGACGGTAAGACTAAAGCCGTCAATGTTACTGCTCCT-GGTGGTGGTTCTCTCAAGAAG 306
Query 300 GAGAATAACTCTCGCGGTAACGGTGCTAGGCGCGGCGG---TGGAAGCGGTTGCTACAAT 356
|||||||||||||| ||||||||||||||||||||||| |||||||||||||||||||
Sbjct 307 GAGAATAACTCTCGTGGTAACGGTGCTAGGCGCGGCGGCGGTGGAAGCGGTTGCTACAAT 366
Query 357 TGCGGTGAGTTAGGTCATAT-T-----G---GTGG---------CGGCAGCGGAGGTGGT 398
|||||||||||||||||||| | | |||| |||| |||||||||||
Sbjct 367 TGCGGTGAGTTAGGTCATATCTCTAAAGATTGTGGTATTGGTGGCGGCGGCGGAGGTGGT 426
Query 399 GAACGTGGATCTAGA--AG-AGAAGGTTGTTACAATTGTGGTGATGCTGGTCACTTCGCT 455
|||||| |||||||| || ||||||||||||||||||||||||| ||||||||||||||
Sbjct 427 GAACGTAGATCTAGAGGAGGAGAAGGTTGTTACAATTGTGGTGATACTGGTCACTTCGCT 486
Query 456 AGGGATTGTACTCAGAAATCAGCTGGAAACGGAGACCAACGTGGAGC-AGCCGGAGCTGG 514
|||||||||||| |||||||||||||| |||||||||||||| | || || |||
Sbjct 487 AGGGATTGTACT------TCAGCTGGAAACGGTGACCAACGTGGAGCCA-CCAAAGGTGG 539
Query 515 AAAAGATGGTTGTTACAATTGTGGTGACATTGGTCACTTCGCTAGGGATTGT 566
||| |||||||| |||| ||| ||||| |||||||| | ||||||||||||
Sbjct 540 AAACGATGGTTGCTACACTTGCGGTGATGTTGGTCACGTGGCTAGGGATTGT 591
Lambda K H
1.33 0.621 1.12
Gapped
Lambda K H
1.28 0.460 0.850
Effective search space used: 56325011490
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