OTU_Misess: An integrated tool for OTU assignment and Microbial Identification of Sequences from Environmental SampleS

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Table 1.Library_certainty

Name	Description
Library	name of clone library
Total_number	effective sequence number in each library
OTU_uncertain_0	all of the (five) hits have the same classification information
OTU_uncertain_1	two kinds of classification information among the (five) hits
OTU_uncertain_2	three kinds of classification information among the (five) hits
OTU_uncertain_3	four kinds of classification information among the (five) hits
OTU_uncertain_4	five kinds of classification information among the (five) hits (all of the five hits have different classification information)
Otu_uncertain_10	none of the closest relatives has sequence similarity achieving the threshold

Table 2.Library_self_OTU

Name	Description
Library	name of clone library
Self_OTU_ID	local sequence OTU identity established by OTU_Misess
Number	sequence number in the library with local sequence OTU identity

Table 3.Library_pub_OTU

Name	Description
Pub_OTU_ID/Library	matrix of the Pub_OTU identity and the clone library

Table 4.Library_pub_OTU_taxo

Name	Description
Library	name of clone library
PUB_OTU_ID	Pub_OTU identity
Groupnumber	number of sequences in Pub_OTU_ID
Brief_classification	description of deep Taxon
Full_classification	full description of Taxon

Table 5.Clone_ident

Name	Description
Library	name of clone library
Seqname	name of clone sequence
OTU_uncertain_value	uncertain value of Pub_OTU identity
Max_similarity	overall identity to the best relative
Self_OTU_ID	local OTU identity established by OTU_Misess
Pub_OTU_ID	Pub_OTU identity
Brief_classification	description of deep Taxon
Full_classification	full description of Taxon
Seq_desc	sequence description in clone library

Table 6.Clone_BLAST

Name	Description
QueryName	sequence name of the query sequence
QueryLength	query sequence length
Subjectlength	length of the subject (public) sequence
Query_coverage	blast overall coverage rate of query sequence
Subject_coverage	blast overall coverage rate of subject sequence
Matched_NCBI_Id	NCBI accession number of subject sequence
Score	highest blast score of HSP (high-scoring segment pairs)
EValue	lowest blast HSP E-value
Identity	HSP identity
Similarity	sequence similarity
QueryStrand	the strand of the query sequence
SubjectStrand	the strand of the subject sequence
QueryStart	start of the query sequence
QueryEnd	HSP end of the query sequence
SubjectStart	HSP start of the subject sequence
SubjectEnd	HSP end of the subject sequence
Pub_OTU_ID	Pub_OTU identity
Brief_classification	description of deep Taxon
Full_classification	full description of Taxon

Table 7.Clone_T_RF
(If primer had not been found, the T-RF length was not shown)

Name	Description
Seqname	Name of clone sequence
Primer_Ford	presence of forward primer sequence
Primer_Back	presence of reverse primer sequence
Self_OTU_ID	local OTU identity established by OTU_Misess
Ori_seqlen	length of the sequence before remove the primer sequence
Real_seqlen	length of the sequence after remove the primer sequence
T-RF_F by HhaI	forward terminal fragment length by HhaI
T-RF_F by HinfI	forward terminal fragment length by HinfI
T-RF_F by HaeIII	forward terminal fragment length by HaeIII
T-RF_F by MseI	forward terminal fragment length by MseI
T-RF_F by NlaIV	forward terminal fragment length by NlaIV
T-RF_R by HhaI	backward terminal fragment length by HhaI
T-RF_R by HinfI	backward terminal fragment length by HinfI
T-RF_R by HaeIII	backward terminal fragment length by HaeIII
T-RF_R by MseI	backward terminal fragment length by MseI
T-RF_R by NlaIV	backward terminal fragment length by NlaIV

Table 8.Primer_Location

Name	Description
Seqname	clone sequence name
Primer_Ford_Tag	presence of forward primer sequence
Primer_Back_Tag	presence of reverse primer sequence
Ori_seqlen	length of the sequence before remove the primer sequence
Real_seqlen	length of the sequence after remove the primer sequence
Primer_Ford_Begin	begin of the forward primer
Primer_Ford_End	end of the forward primer
Primer_Back_Begin	begin of the reverse primer
Primer_Back_End	end of the reverse primer

Last updated: March 31, 2009