GITNUXSOFTWARE ADVICE
Finance Financial ServicesTop 10 Best Non Profit Tax Software of 2026
Ranking of non profit tax software options for nonprofits, with side-by-side criteria and tradeoffs, including UltraTax CS, Drake, and TaxSlayer Pro.
How we ranked these tools
Core product claims cross-referenced against official documentation, changelogs, and independent technical reviews.
Analyzed video reviews and hundreds of written evaluations to capture real-world user experiences with each tool.
AI persona simulations modeled how different user types would experience each tool across common use cases and workflows.
Final rankings reviewed and approved by our editorial team with authority to override AI-generated scores based on domain expertise.
Score: Features 40% · Ease 30% · Value 30%
Gitnux may earn a commission through links on this page — this does not influence rankings. Editorial policy
UltraTax CS is the best choice when a professional tax firm manages recurring nonprofit returns with integrated Form 990 workflows, whereas TaxSlayer Pro fits teams that need consistent, repeatable 990 production with controlled internal review, without jumping into accounting systems.
Editor’s top 3 picks
Three quick recommendations before you dive into the full comparison below — each one leads on a different dimension.
UltraTax CS
CS Professional Suite data sharing connects nonprofit return preparation with accounting and practice-management records.
Built for fits when professional tax firms manage recurring nonprofit returns across integrated accounting and compliance workflows..
Drake Software
Editor pickIntegrated nonprofit return worksheet logic that maps interview inputs to consistent computations and statement-ready outputs.
Built for fits when a tax prep team needs repeatable nonprofit return preparation across multiple entities..
TaxSlayer Pro
Editor pickPreparer workflow uses organizer inputs to keep recurring entity data consistent across multiple filing seasons.
Built for fits when tax teams need consistent, repeatable non profit return production with controlled internal review..
Related reading
Comparison Table
UltraTax CS
enterpriseThomson Reuters professional tax preparation software with Form 990 and exempt organization return modules.
CS Professional Suite data sharing connects nonprofit return preparation with accounting and practice-management records.
UltraTax CS combines nonprofit-specific interview screens with diagnostics that identify missing information and inconsistent entries before filing. Integration with Accounting CS and other CS Professional Suite applications can transfer client and financial data into return preparation. Form 990-PF support gives private-foundation specialists dedicated workflows for excise-tax reporting and related schedules.
The product requires trained preparers because its large worksheet structure and broad configuration options can slow first-time users. A tax firm handling recurring nonprofit engagements benefits from standardized data transfers, reusable client settings, and electronic filing controls.
- +Dedicated exempt-organization modules cover complex nonprofit filing requirements
- +Integrated diagnostics flag missing data and inconsistent return entries
- +CS Professional Suite transfers reduce repeated client and accounting data entry
- +Electronic filing supports recurring professional tax workflows
- –The worksheet structure requires substantial training for occasional preparers
- –Advanced configuration can increase administrative setup time
- –Small organizations may need an accounting system for source data
- –Workflow depth is better suited to firms than direct nonprofit self-filing
Nonprofit accounting firms
Recurring exempt-organization return preparation
Fewer duplicate entries
Private foundation specialists
Foundation excise-tax compliance
More consistent filings
Show 1 more scenario
Multi-entity tax departments
Centralized nonprofit return production
Consistent production controls
Standardized settings and electronic filing controls support repeatable preparation across multiple exempt entities.
Best for: Fits when professional tax firms manage recurring nonprofit returns across integrated accounting and compliance workflows.
More related reading
Drake Software
enterpriseProfessional tax preparation suite with Form 990, 990-EZ, and 990-PF filing support for exempt organizations.
Integrated nonprofit return worksheet logic that maps interview inputs to consistent computations and statement-ready outputs.
Drake Software is a strong fit for teams that prepare multiple nonprofit returns and need consistent interview-to-return outputs. It supports Form 990 preparation workflows for both Form 990 and Form 990-EZ, and it uses built-in computations and screens to keep inputs organized. It also supports Form 990-T preparation workflows for unrelated business income tax scenarios that include schedules tied to income and deductions.
A tradeoff appears when organizations need heavy customization beyond tax workflows, since Drake centers on return preparation rather than full accounting system replacement. It works best when the organization or tax firm can standardize inputs like entity details, revenue categories, and governance disclosures before data entry. Preparation teams that rely on a fixed annual checklist will gain the most throughput, while ad hoc, highly customized reporting formats may require manual mapping outside the core workflow.
- +Return-generation workflow is built around nonprofit tax interviews
- +Form 990 and Form 990-EZ support fits common annual filing paths
- +Form 990-T workflows cover unrelated business income tax calculations
- +Built-in review checks reduce common transcription and calculation errors
- –Limited depth for end-to-end nonprofit accounting beyond tax returns
- –Data cleanup still depends on consistent source documents and coding choices
- –Workflow customization for nonstandard reporting can require manual handling
- –IRS e-filing coverage varies by return type and preparation path
Tax preparers at nonprofits firms
Prepare multiple Form 990s each season
Fewer rework cycles during review
Organizations with UBI activity
File Form 990-T with income tracking
Clearer tax treatment of UBI
Show 1 more scenario
Mid-size nonprofit accounting teams
Standardize annual data before filing
More predictable annual close-to-file flow
Recurring input capture helps enforce consistent coding choices across governance disclosures and revenue categories.
Best for: Fits when a tax prep team needs repeatable nonprofit return preparation across multiple entities.
TaxSlayer Pro
SMBProfessional tax preparation software supporting Form 990 e-filing for exempt organizations.
Preparer workflow uses organizer inputs to keep recurring entity data consistent across multiple filing seasons.
TaxSlayer Pro supports common non profit return workflows such as Form 990, Form 990-EZ, and Form 990-PF using guided inputs that map answers to the correct schedules. Preparation flows include statement and disclosure fields needed for narrative sections and audit trail style review before export and e-filing. For firms handling many entities, the ability to carry forward organizer inputs across repeats reduces manual data entry when only specific sections change.
A practical tradeoff is that non profit edge cases still require manual verification of schedule selection and cross-checks, especially when organizations have multiple program revenue streams or noncash contributions. TaxSlayer Pro fits best when a team runs a consistent intake-to-review process and wants a predictable path from organizer data to IRS XML e-filing outputs.
- +Guided interview reduces schedule selection errors during Form 990 preparation
- +Organizer-driven intake speeds repeat returns with partial data changes
- +Signature-ready workflow supports team review before e-filing
- +Role-separated access supports preparer and reviewer separation
- –Noncash and in-kind details need careful manual reconciliation
- –Some nonprofit-specific disclosures depend on preparer completion in narratives
- –Complex governance edge cases can require extra back-and-forth review
- –Limited automation surface for third-party accounting and CRM sync
Tax preparation firms
Multi-entity Form 990 production queue
Fewer rework cycles
Non profit tax compliance teams
Recurring annual return updates
Faster annual close
Show 2 more scenarios
Internal reviewers
Second-pass quality control
More consistent approvals
Role-separated access supports separating preparer work from reviewer signoff steps.
Specialists handling exceptions
Narrative-heavy governance disclosures
More complete documentation
Narrative fields and statement sections help capture governance disclosures with structured prompts.
Best for: Fits when tax teams need consistent, repeatable non profit return production with controlled internal review.
ProConnect Tax Online
enterpriseIntuit cloud-based professional tax software supporting Form 990 series preparation and e-filing.
Schedule-driven interview flow that enforces cross-field checks while building complete Form 990 filing packages.
ProConnect Tax Online from Intuit is a non profit tax preparation workflow built around the IRS Form 990 family and related schedules. It supports guided interviews for common nonprofit deliverables and produces the forms and schedules needed for filing packages.
The solution is designed to integrate into an accounting ecosystem through Intuit data handling patterns, with review and correction loops aimed at reducing missing or inconsistent fields. For organizations that need repeatable 990 preparation year over year, it provides structured input screens and reconciliation checkpoints for key schedules.
- +Guided Form 990 inputs reduce omissions across schedules
- +Schedule-level screens support focused review of disclosure sections
- +Print and export workflows fit typical nonprofit filing packaging
- +Data carryforward supports year over year preparation consistency
- –Less suited for nonprofits needing heavy custom tax computations
- –State charitable filing and registration workflows are not centralized
- –Complex in-kind donation details can require careful manual substantiation entry
- –Customization for unusual governance disclosures is limited
Best for: Fits when teams prepare Form 990 packages repeatedly and want structured, schedule-level review.
990 Online
vertical specialistWeb-based software for preparing nonprofit Form 990 series returns.
Section-linked Schedule O drafting that ties narrative answers to specific form lines for review and revision tracking.
990 Online generates IRS-ready Form 990, including Form 990-EZ and Form 990-PF workflows, from imported financial and governance inputs. The tool targets common non profit reporting needs such as Schedule O narrative drafting and functional expense allocation logic.
It also supports IRS XML e-filing preparation for tax-exempt submissions. Automation centers on repeatable intake forms and review-ready output packs that reduce manual copy and reformatting between drafts.
- +Built for repeatable 990 prep with structured intake and output packs
- +Schedule O narrative capture keeps disclosures attached to the right sections
- +Functional expense allocation guidance reduces spreadsheet translation steps
- +IRS XML e-filing output workflow fits organizations using electronic submission
- –Limited visibility into multi-entity consolidations without careful mapping
- –Integration depth depends on manual import quality rather than direct accounting sync
- –Audit trail controls are present but less granular than full governance suites
- –Automation covers form flows more than downstream state charitable filings
Best for: Fits when a non profit team needs structured, repeatable 990 preparation with e-file output for annual reporting cycles.
Aplos
SMBNonprofit accounting and fund accounting software that includes Form 990 preparation capabilities.
Tax-year configuration that maps accounting and fund activity into Form 990 sections with an audit trail.
Aplos is a non profit tax preparation and accounting system built around year-end workflows, including Forms 990 and related schedules. It ties contribution records to reporting outputs so organizations can produce consistent financial statements, narrative disclosures, and schedules from one ledger.
Grant accounting and restricted fund tracking feed reporting categories used for functional expense and supporting disclosures. Its automation focus centers on recurring tax-year tasks, audit trail visibility for changes, and workflow checks before e-filing packaging.
- +End-to-end year-end workflow ties ledger activity to 990 outputs
- +Grant and restricted-fund tracking supports reporting category consistency
- +Audit trail controls show who changed tax-year reporting inputs
- +Configuration patterns reduce repeated manual data mapping during preparation
- –Functional expense allocation needs careful configuration to match policies
- –Complex noncash contribution detail can require disciplined source documentation
- –API and extensibility tooling feel limited versus accounting-first ecosystems
- –Some schedule-level narrative fields need manual attention for completeness
Best for: Fits when a nonprofit wants its ledger and restricted funds to drive 990 reporting with guided year-end workflows.
CCH Axcess Tax 990
enterpriseCloud-based exempt organization tax preparation supporting full Form 990 series including 990-PF, 990-N, 990-T, 4720, and 5227 with federal and state e-filing.
CCH Axcess workflow reuse lets 990 preparation inherit the same document, review, and production controls used for other returns.
CCH Axcess Tax 990 is a Form 990 preparation workflow built to run inside the broader CCH Axcess tax environment, which matters for firms standardizing templates and tax staff roles across entity types. The software supports 990 and related schedules through guided entry, organizer-style data capture, and return-level review steps aimed at reducing transcription issues.
It also fits organizations that need consistent handling for restricted and grant-linked documentation across the year, not only at final filing. For non profit teams, the practical differentiator is how the 990 work ties into the same research, document management, and production controls used for other tax forms.
- +Workflow consistency across multiple tax form types reduces operational churn
- +Return review steps support catch of common 990 entry and logic errors
- +Document capture and production controls fit firm-style tax operations
- +Works well when accounting and CRM systems feed recurring non profit data
- –990-specific setup can take longer for teams moving from spreadsheet workflows
- –Automation depth for nonprofit-specific schedules can depend on firm templates
- –Large multi-entity nonprofit portfolios may increase review effort
- –External system integration usually requires deliberate configuration work
Best for: Fits when tax staff need firm-grade 990 preparation controls plus cross-form workflow standardization.
Thomson Reuters ONESource
enterpriseEnterprise tax provision and compliance platform with exempt organization modules supporting Form 990 series preparation and filing.
Governance-oriented preparer and reviewer workflow with traceable change history across the full Form 990 document assembly.
Thomson Reuters ONESource is a non profit tax solution built around managed tax content, workflow tools, and document output designed for complex reporting. It supports Form 990 series preparation workflows with sponsor-friendly review and signoff steps that fit governance processes.
It also connects to upstream accounting and constituent data sources so organizations can carry contribution detail into tax schedules with fewer manual rebuilds. ONESource further supports electronic filing readiness through IRS XML e-filing output preparation and controls for recurring disclosure narratives.
- +Form 990 series workflow supports structured review and signoff steps
- +Integration pathways move accounting and constituent data into tax preparation
- +Document generation supports consistent Schedule A and narrative assembly
- +Controls help maintain traceable changes across preparer and reviewer work
- –Setup requires careful mapping of source data into ONESource inputs
- –Nonstandard state charitable filing workflows may require more manual handling
- –Automation depth varies by organization data quality and tagging discipline
- –Reporting layouts can feel rigid for organizations with highly customized schedules
Best for: Fits when tax teams need repeatable Form 990 preparation tied to accounting and constituent data with audit-ready change control.
K1x 990 Tracker
vertical specialistIRS-approved e-file compliance solution for Form 990, 990-PF, 990-EZ, 990-T, 4720, and 8868 across 42 state taxing jurisdictions.
Work items for 990 deliverables can be tracked with evidence and approval steps tied to each item.
K1x 990 Tracker handles Form 990 planning and tracking work around nonprofit filing deadlines. The product focuses on managing form-related tasks, evidence, and internal sign-offs in a single workflow view.
Teams can connect recurring compliance activity to named reporting items so updates follow a consistent runbook. It also supports audit-trail style documentation by keeping changes and approvals attached to the work being completed.
- +Deadline and evidence tracking for 990 workflows in one workspace
- +Approval steps tied to specific reporting deliverables
- +Clear task ownership helps keep compliance work moving
- +Change history supports internal review and rework control
- –Limited depth for tax schedule logic beyond workflow tracking
- –Automation coverage depends on manual task structure and discipline
- –Integration options for accounting and CRM are not a primary strength
- –Data export needs manual formatting for downstream filing tools
Best for: Fits when nonprofits want a structured checklist and approvals system for 990 work, without replacing accounting or tax prep software.
990.tax
SMBIRS-authorized e-file provider offering simplified nonprofit tax return filing built for small organizations.
Schedule-driven guidance that keeps answers and disclosures aligned across the full 990 workflow.
990.tax is a non profit tax software focused on recurring Form 990 preparation workflows with guided inputs and form outputs. It supports core returns used by exempt organizations, including Form 990, Form 990-EZ, and Form 990-PF.
The workflow centers on capturing organization and program details and then producing the completed schedules and related disclosures needed for filing. It is best suited for teams that want repeatable preparation rather than custom tax engineering or spreadsheet-heavy processes.
- +Guided return flows for common 990 variants reduce form-skipping mistakes
- +Schedule-driven workflow keeps disclosures tied to the underlying answer inputs
- +Document-style output helps staff review and reconcile narratives consistently
- +Designed around recurring annual preparation for stable, repeatable compliance work
- –Limited automation visibility when mapping accounting data into line items
- –API and integration details are not a strong focus for external system provisioning
- –Restricted extensibility for custom schedules or unusual disclosure formats
- –Governance controls for multi-user collaboration are less granular than enterprise workflows
Best for: Fits when a non profit needs repeatable Form 990 preparation with guided inputs and consistent schedule completion.
Conclusion
After evaluating 10 finance financial services, UltraTax CS stands out as our overall top pick — it scored highest across our combined criteria of features, ease of use, and value, which is why it sits at #1 in the rankings above.
Use the comparison table and detailed reviews above to validate the fit against your own requirements before committing to a tool.
How to Choose the Right non profit tax software
Non profit tax software covers Form 990 preparation workflows, Schedule A and Schedule B inputs, and schedule-linked drafting for disclosures on Schedule O. This buyer guide covers UltraTax CS, Drake Software, TaxSlayer Pro, ProConnect Tax Online, 990 Online, Aplos, CCH Axcess Tax 990, Thomson Reuters ONESource, K1x 990 Tracker, and 990.tax.
These tools differ most in how they connect nonprofit interview inputs to produced 990 packages and how they enforce review discipline across schedules. Teams comparing options should focus on integration depth and automation surface where tools link accounting records to 990 sections, especially when nonprofit reporting depends on restricted-fund tracking and grant categories.
Non profit tax software for Form 990 preparation, schedule logic, and nonprofit-specific review controls
Non profit tax software is software used to assemble complete Form 990 filing packages with schedule-level interview flows, disclosure capture, and review steps that reduce omissions across sections. UltraTax CS supports nonprofit return preparation that can share data between CS Professional Suite and exemption-focused modules, which aligns 990 inputs with accounting and practice-management records.
Drake Software uses nonprofit return worksheet logic that maps interview inputs to consistent computations and statement-ready outputs for repeatable annual production across multiple entities. In contrast, 990 Online emphasizes section-linked Schedule O drafting that ties narrative answers to specific form lines, and Aplos configures tax-year workflows that map accounting and fund activity into 990 sections with an audit trail.
Integration, automation, and schedule-linked discipline for nonprofit 990 workflows
Non profit tax software succeeds when it connects interview inputs to produced Form 990 package outputs with repeatable schedule logic. That linkage reduces omissions across schedules and makes Schedule O disclosures auditable to the underlying answers that generated them.
Accounting-to-990 data connection and cross-system reuse
UltraTax CS shares nonprofit return preparation with CS Professional Suite data and practice-management records to keep 990 inputs aligned to source activity. Thomson Reuters ONESource routes accounting and constituent data into its Form 990 assembly workflow with traceable change history.
Schedule-driven interview flows with cross-field checks
ProConnect Tax Online structures Form 990 package creation with schedule-level interview screens that enforce cross-field checks. Drake Software uses nonprofit return worksheet logic that maps interview inputs to consistent computations and statement-ready outputs.
Disclosures and Schedule O drafting that stays attached to answers
990 Online drafts Schedule O narratives via section-linked capture that ties narrative answers to specific form lines for review tracking. 990.tax uses schedule-driven guidance to keep answers and disclosures aligned across the full 990 workflow.
Year-end mapping from restricted-fund and ledger activity into 990 sections
Aplos configures tax-year workflows that map accounting and fund activity into Form 990 sections with an audit trail tied to the year-end workflow. Aplos pairs restricted-fund tracking with grant and reporting category consistency so 990 outputs follow ledger categories.
Multi-step review controls for firm workflow standardization
CCH Axcess Tax 990 supports workflow reuse so 990 preparation inherits document, review, and production controls used for other returns. CCH Axcess Tax 990 adds return review steps that target common 990 entry and logic errors.
Work-approval tracking for deliverables without replacing tax logic
K1x 990 Tracker organizes 990 deliverables as work items with evidence and approval steps tied to each deliverable. This approach supports teams that want checklist discipline while keeping tax schedule logic in the separate tax preparation tool.
Choose based on how the tool links inputs to outputs and controls review across schedules
Start by defining the workflow object that matters most in the organization. Some tools center the produced 990 package with schedule logic and narrative linkage while others center the review and evidence trail around deliverables.
Pick the workflow anchor: schedule assembly or deliverable approvals
If the organization needs schedule-level interview screens and produced 990 package assembly in one workflow, choose ProConnect Tax Online or Drake Software. If the organization already has tax logic elsewhere and needs evidence and approvals around 990 deliverables, choose K1x 990 Tracker.
Validate disclosure attachment by using a Schedule O sample
Run a sample that includes narrative disclosures and confirm that the narrative stays tied to the underlying answer fields in 990 Online or 990.tax. This test targets review friction where a team revises disclosures after schedule completion.
Test accounting and restricted-fund mapping depth
If restricted-fund and grant categories should drive 990 sections with an audit trail from year-end workflow, evaluate Aplos with its ledger-driven mapping approach. If the nonprofit and its tax professionals rely on integrated accounting and practice-management records, evaluate UltraTax CS for data sharing into exempt-organization modules.
Decide how much internal review governance must be built in
If a firm wants 990 prep to inherit standard document and review controls used across other tax work, evaluate CCH Axcess Tax 990. If governance requires traceable change history across full Form 990 assembly tied to reviewer workflow, evaluate Thomson Reuters ONESource.
Stress test recurring entity consistency and preparer workload
If recurring entity work needs organizer-driven intake that keeps entity data consistent across seasons, evaluate TaxSlayer Pro for organizer inputs and guided interview flows. If the team uses occasional preparers and needs quick onboarding to worksheets, validate UltraTax CS worksheet structure training time against internal capacity.
Who nonprofit teams should match to each workflow style
Non profit tax software choices align to how nonprofits and tax firms run annual compliance. Some teams optimize for accounting-to-return linkage while others optimize for repeatable interview logic or review traceability.
Tax firms managing recurring nonprofit returns across integrated accounting and practice management systems
UltraTax CS fits when CS Professional Suite data sharing can connect nonprofit return preparation with accounting and practice-management records for consistent annual production.
In-house tax prep teams that standardize nonprofit 990 production through schedule-level interviews
ProConnect Tax Online and Drake Software support repeatable Form 990 package creation with schedule-driven checks and worksheet logic that map interview inputs to computations.
Nonprofit teams that need tighter disclosure drafting tied to the exact form lines
990 Online and 990.tax support review of disclosures by keeping Schedule O narratives aligned to specific form lines or schedule-driven answers.
Organizations that treat evidence collection and signoff as the controlling step for 990 work
K1x 990 Tracker fits when the team wants a structured checklist with evidence and approvals tied to 990 deliverables without replacing tax schedule logic.
Organizations with ledger-first year-end processes and restricted-fund reporting categories
Aplos fits when tax-year configuration maps accounting and fund activity into 990 sections with an audit trail from year-end workflow and restricted-fund tracking.
Common failure modes in nonprofit 990 software selections
Many teams choose based on form coverage and then hit workflow mismatches when staff must reconcile sources into consistent schedule answers. Another common issue is underestimating how schedule-linked drafting affects review cycles for Schedule O disclosures.
Selecting a tool with strong interview guidance but weak accounting integration for restricted-fund reporting
Aplos supports restricted-fund and grant tracking through year-end workflow mapping, while 990 Online emphasizes structured 990 preparation with narrative linkage that still depends on import quality.
Assuming Schedule O narrative edits will remain tied to the exact schedule answers
990 Online ties Schedule O drafting to specific form lines for review and revision tracking, while 990.tax uses schedule-driven guidance that keeps disclosures aligned across the full 990 workflow.
Underestimating how much preparer training worksheet structure requires for occasional users
UltraTax CS can require substantial training because the worksheet structure is designed for integrated professional workflows rather than lightweight periodic use.
Treating workflow approvals as a substitute for tax schedule logic validation
K1x 990 Tracker provides work items and approvals with evidence tracking, but it does not replace the schedule-level tax logic needed for correct nonprofit computations.
Relying on review traceability without testing mapping quality into the tool
Thomson Reuters ONESource provides governance-oriented review workflow and traceable change history, but setup requires careful mapping of source data into ONESource inputs.
How We Selected and Ranked These Tools
We evaluated UltraTax CS, Drake Software, TaxSlayer Pro, ProConnect Tax Online, 990 Online, Aplos, CCH Axcess Tax 990, Thomson Reuters ONESource, K1x 990 Tracker, and 990.tax by weighting features at 40%, ease and value each at 30%. UltraTax CS earned the top position by combining nonprofit-specific exempt-organization modules with CS Professional Suite data sharing that connects return preparation to accounting and practice-management records.
UltraTax CS also stood out for integrated diagnostics that flag missing data and inconsistent return entries during nonprofit return preparation. Across the remaining tools, we favored schedule-level interview flows and review discipline that keep produced Form 990 packages consistent across annual cycles.
Frequently Asked Questions About non profit tax software
How does UltraTax CS handle non profit return workflows for multiple nonprofit entity types?
Which tool is best for repeatable Form 990 preparation when interview inputs must stay consistent across cycles?
When should a team choose ProConnect Tax Online over standalone 990 workflows?
How does 990 Online support Schedule O narrative drafting and functional expense allocation?
What breaks if a nonprofit tries to run Aplos without a ledger and restricted-fund structure that matches its reporting model?
How does ONESource manage governance review steps compared with checklist-style tools?
Which tool is designed for tax staff who need standardized document management and production controls across returns?
What data migration issues commonly affect organizations switching to K1x 990 Tracker from spreadsheets?
How does 990.tax support schedule completeness for Form 990 series filings?
Tools reviewed
Primary sources checked during evaluation.
Referenced in the comparison table and product reviews above.
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