Sequencher statistics

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Citations per year

Number of citations per year for the bioinformatics software tool Sequencher

Tool usage distribution map

This map represents all the scientific publications referring to Sequencher per scientific context
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Associated diseases

This word cloud represents Sequencher usage per disease context

Popular tool citations

chevron_left Read alignment Variant detection Amino acid sequence homology search Read quality control SNV detection Base calling Sequence alignment Trace visualization/edition Reference-assisted assembly Methylation annotation chevron_right
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Sequencher specifications


Unique identifier OMICS_01817
Name Sequencher
Software type Application/Script
Interface Graphical user interface
Restrictions to use License purchase required
Operating system Mac OS, Windows
License Commercial
Computer skills Medium
Version 5.4.6
Stability Stable
Maintained Yes


No version available


Sequencher citations


Filling the BINs of life: Report of an amphibian and reptile survey of the Tanintharyi (Tenasserim) Region of Myanmar, with DNA barcode data

PMCID: 5958176
PMID: 29780268
DOI: 10.3897/zookeys.757.24453
call_split See protocol

[…] ith the PCR primers using BigDye® Terminator v3.1 Cycle Sequencing Kit’s in 0.25 × 10 µl reactions and run on an Automated ABI3730 Sequencer (2011 Life Technologies). Raw chromatograms were edited in Sequencher v5.1 (2012 Gene Codes Corp.), complementary strands were aligned, and COI was inspected for proper translation, alignments were done using the MUSCLE option in Sequencher. Neighbor-joining […]


Premna vietnamensis (Lamiaceae, Premnoideae), a distinct new species from the Central Highlands of Vietnam

PLoS One
PMCID: 5931452
PMID: 29718994
DOI: 10.1371/journal.pone.0195811
call_split See protocol

[…] Sequences were assembled and edited using Sequencher v.4.5 (Gene Codes Corporation, Ann Arbor, Michigan, U.S.A.). Sequence alignment was initially conducted in Clustal X v.2.0. [] and adjusted manually in BioEdit Sequence Alignment Editor v.7 […]


High prevalence of G3 rotavirus in hospitalized children in Rawalpindi, Pakistan during 2014

PLoS One
PMCID: 5927433
PMID: 29708975
DOI: 10.1371/journal.pone.0195947
call_split See protocol

[…] Con3 [] respectively using BigDye Terminator Cycle Sequencing kit v3.0 (Applied Biosystems) on an automated sequencer ABI 3100 (Applied Biosystems). Analysis of nucleotide sequences was done by using Sequencher version 4.1 (Gene Codes Corp., USA). Closely matched nucleotide sequences of VP7 and VP4 genes were retrieved from GenBank using BLAST ( Phylogenet […]


Oxygen minimum zone cryptic sulfur cycling sustained by offshore transport of key sulfur oxidizing bacteria

Nat Commun
PMCID: 5928099
PMID: 29712903
DOI: 10.1038/s41467-018-04041-x

[…] uencing kit, Applied Biosystems).Raw sequence data were quality controlled and vector ends were trimmed, then forward and reverse amplicons were assembled into near-full-length 16S rRNA contigs using Sequencher 4.6 software (Gene Codes Corporation, Ann Arbor, MI). The 16S rRNA contigs were aligned with the SINA aligner, and then imported into SILVAref115 curated 16S rRNA reference database using A […]


The detection of 3 ambiguous type 2 vaccine derived polioviruses (VDPV2s) in Uganda

Virol J
PMCID: 5922010
PMID: 29699577
DOI: 10.1186/s12985-018-0990-y
call_split See protocol

[…] e orientation and Q8, PV10A, PV1A and 253A (3.2 picomole/μl) for the antisense orientation []. The samples were then run on the ABI 3130xl Genetic analyzer and sequenced. The data were analyzed using Sequencher Software v4.10.1. Finally, the alignment of the sequence data and the inference of phylogenetic relatedness was performed using the MEGA version 7.0 software []. The obtained sequences were […]


Airborne transmission of invasive fusariosis in patients with hematologic malignancies

PLoS One
PMCID: 5919535
PMID: 29698435
DOI: 10.1371/journal.pone.0196426

[…] tions were sequenced in an ABI Prism 3,100 Genetic Analyzer (Applied Biosystems, USA) using primers described before[, ] and additional designed primers (). DNA sequences were edited and assembled by Sequencher version 5.2.4 (Gene Codes, USA). Sequences for all genes (6,082bp) were aligned by Clustal W tool and followed manual adjustments with MEGA6[]. Numbers were assigned to each allelic variant […]

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Sequencher institution(s)
Gene Codes Corporation

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