cluster # 6401

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Oryza sativa
cluster # 6401 cluster # 6401 Sequences # 4 consensus # 2

see consensus multiple alignment with clustalw

Direct access to contigs :

consensus_6401#0 length = 301 sequences # 3

consensus_6401#1 length = 208 sequences # 1

consensusID : consensus_6401#0
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 3
consensus length = 301
fasta sequence

                              [CACGCGTTCGGGAAGAGCGTCGGCGTCGTCGTCCCGGACTCGTGCCTCGGGAAGGAGGACTACCTCCGCCGGCAAGTCCCCGCCTCCGCCGCCGCGCCGGCGGCGGAACGCAGGAGAAGGGAGGAGAAGATGACGATCGGTGAAACCGTGGCAGGTTAAGTCAGCGTGTGTAGTGGACGTGTTCACATCCTTTACC-ATAATAACGCTATTATTACATGTACTAAC-GTGTGAGGATAATAAAAGTTTAGAACCCACATACCATGTATCTATCGTGTAATCGTAAAAAAAAAACTTTTAAAAA]

[+] EMBL C98477               [CACGCGTTCGGGAAGAGCGTCGGCGTCGTCGTCCCGGACTCGTGCCTCGGGAAGGAGGACTACCTCCGCCGGCAAGTCCCCGCCTCCGCCGCCGCGCCGGCGGCGGAACGCAGGAGAAGGGAGGAGAAGATGACGATCGGTGAAACCGTGGCAGGTTAAGTCAGCGTGTGTAGTGGACGTGTTCACATCCTTTACC ATAATAACGCTATTATTACATGTACTAAC GTGTGAGGATAATAAAAGTTTAGAACCCACATACCATGTATCTATCGTGTAATCGTAAAAAAAAAACTTTTAAAAA]
[+] EMBL AU182243             [                                                                                                          AACGCAGGAGAAGGGAGGAGAAGATGACGATCGGTGAAACCGTGGCAGGTTAAGTCAGCGTGTGTAGTGGACGTGTTCACATCCTTTACCTATAATAACGCTATTATTACATGTACTAACTGTGTGAGGATAATAAAAGTTTAGAACCCACATACCATGTATCTATCGTGTAATCGTAAAAAAAAAACTTTTAAAAA]
[+] EMBL AU172618             [                                                                                                          AACGCAGGAGAAGGGAGGAGAAGATGACGATCGGTGAAACCGTGGCAGGTTAAGTCAGCGTGTGTAGTGGACGTGTTCACATCCTTTACC ATAATAACGCTATTATTACATGTACTAAC GTGTGAGGATAATAAAAGTTTAGAACCCACATACCATGTATCTATCGTGTAATCGTAAAAA               ]




>consensus_6401#0
CACGCGTTCGGGAAGAGCGTCGGCGTCGTCGTCCCGGACTCGTGCCTCGGGAAGGAGGAC
TACCTCCGCCGGCAAGTCCCCGCCTCCGCCGCCGCGCCGGCGGCGGAACGCAGGAGAAGG
GAGGAGAAGATGACGATCGGTGAAACCGTGGCAGGTTAAGTCAGCGTGTGTAGTGGACGT
GTTCACATCCTTTACCATAATAACGCTATTATTACATGTACTAACGTGTGAGGATAATAA
AAGTTTAGAACCCACATACCATGTATCTATCGTGTAATCGTAAAAAAAAAACTTTTAAAA
A

consensusID : consensus_6401#1
NCBI blastX ! send the sequence to the NCBI site !
NCBI blastN ! send the sequence to the NCBI site !
Sequences nbr = 1
consensus length = 208
fasta sequence

                              [AACGCAGGAGAAGGGAGGAGAAGATGACGATCGGTGAAACCGTGGCAGGTTAAGTCAGCGTGTGTAGTGGACGTGTTCACATCCTTTACCATAATACGCTATTATTATATGTTTAGAACCCGCATACCATGTATCTATCGTGTAATCGTAAAAAAAAAAAACTTTTAATAAAACCAGAGAAGGACGGCCCCGATGTTAGGATGAAAAA]

[+] EMBL BI809604             [AACGCAGGAGAAGGGAGGAGAAGATGACGATCGGTGAAACCGTGGCAGGTTAAGTCAGCGTGTGTAGTGGACGTGTTCACATCCTTTACCATAATACGCTATTATTATATGTTTAGAACCCGCATACCATGTATCTATCGTGTAATCGTAAAAAAAAAAAACTTTTAATAAAACCAGAGAAGGACGGCCCCGATGTTAGGATGAAAAA]




>consensus_6401#1
AACGCAGGAGAAGGGAGGAGAAGATGACGATCGGTGAAACCGTGGCAGGTTAAGTCAGCG
TGTGTAGTGGACGTGTTCACATCCTTTACCATAATACGCTATTATTATATGTTTAGAACC
CGCATACCATGTATCTATCGTGTAATCGTAAAAAAAAAAAACTTTTAATAAAACCAGAGA
AGGACGGCCCCGATGTTAGGATGAAAAA

consensus multiple alignement with clustalw

CLUSTAL W (1.82) multiple sequence alignment


consensus_6401#0      CACGCGTTCGGGAAGAGCGTCGGCGTCGTCGTCCCGGACTCGTGCCTCGGGAAGGAGGAC 60
consensus_6401#1      ------------------------------------------------------------
                                                                                  

consensus_6401#0      TACCTCCGCCGGCAAGTCCCCGCCTCCGCCGCCGCGCCGGCGGCGGAACGCAGGAGAAGG 120
consensus_6401#1      ----------------------------------------------AACGCAGGAGAAGG 14
                                                                    **************

consensus_6401#0      GAGGAGAAGATGACGATCGGTGAAACCGTGGCAGGTTAAGTCAGCGTGTGTAGTGGACGT 180
consensus_6401#1      GAGGAGAAGATGACGATCGGTGAAACCGTGGCAGGTTAAGTCAGCGTGTGTAGTGGACGT 74
                      ************************************************************

consensus_6401#0      GTTCACATCCTTTACCATAATAACGCTATTATTACATGTACTAACGTGTGAGGATAATAA 240
consensus_6401#1      GTTCACATCCTTTACCATAATA-CGCTATTATTATATGT--------------------- 112
                      ********************** *********** ****                     

consensus_6401#0      AAGTTTAGAACCCACATACCATGTATCTATCGTGTAATCGTAAAAAAAAAA--CTTTTAA 298
consensus_6401#1      ----TTAGAACCCGCATACCATGTATCTATCGTGTAATCGTAAAAAAAAAAAACTTTTAA 168
                          ********* *************************************  *******

consensus_6401#0      AAA------------------------------------- 301
consensus_6401#1      TAAAACCAGAGAAGGACGGCCCCGATGTTAGGATGAAAAA 208
                       **