Fish presence probabilities for the San Juan Islands’ shorelines were calculated for seven juvenile fish species or species groupings from results of 1,350 beach seine sets made at 80 different sites throughout the San Juan Islands in 2008 and 2009. The juvenile fish species evaluated were: unmarked (assumed wild) Chinook salmon (Oncorhynchus tshawytscha), chum salmon (Oncorhynchus keta), pink salmon (Oncorhynchus gorbuscha), Pacific herring (Clupea pallasii), Pacific sand lance (Ammodytes hexapterus), surf smelt (Hypomesus pretiosus), and lingcod/greenling (family Hexagrammidae).DESCRIPTION:  Shoreline  arcs  for  San  Juan  County  (WRIA  2) showing  geomorphic  data  and  fish  probability of presence by species.PURPOSE:To show shoreline habitat, geomorphology, and fish presence probabilities for the WRIA 2 Habitat-Based Assessment of Juvenile Salmon project.SUPPLEMENTARY INFORMATION:  Arcs for this theme were pulled from SSHIAP's (Salmon & Steelhead Habitat Inventory & Assessment Program, under WDFW & Northwest Indian Fisheries Commission) geomorphicarcs for the WRIA 2area only. All of SSHIAP’s attribute fields were kept in the theme, including their shoretype designation ‘GeoUnit’.Arcs were attributed with Puget Sound RITT (Recovery Implementation Technical Team, appointed by NOAA) shoretype determinations. The RITT nested shoreline habitat classification was compiled from Shipman's 2008 (WDOE) and McBride et al.'s 2009 (SRSC) geomorphic classifications. It includes several scales, three of whichwe use because theyare geomorphic and process-inferred: System Type (RITT_SysTy), System Sub-Type (RITT_SubTy), and Shoreline Type(SiteType3). The coarsest classification is System Type which includes: Major River Systems, Drift Cell Systems, and Rocky Shorelines. The next tier down is Sub-Type which includes: Source Population (natal)Chinook Estuaries (a Major River System); Coastal Landforms, Bluff Backed Beaches, and Pocket Estuaries (all Drift Cell Systems); and Rocky Pocket Estuaries and Rocky Beaches (both Rocky Shoreline systems).Arcs were also attributed by region (SiteType2), whether they are interior or exterior (int/ext), enclosure or passage (encl/pass), and for fish probability of presence. Regionand interior/exteriorboundaries were determined by Eric Beamer of SRSC.Shoreline typedeterminations were taken from SSHIAP’s ‘GeoUnit’, categorized by SRSC,and edited per Coastal Geologic Services (CGS, of Bellingham, WA) 2011 mapping of pocket beaches in the San Juan Islands. While many pocket beaches were mapped by CGS that weren’t in SSHIAP’s data, there were a few pocket beaches inSSHIAP’s data that weren’t mapped by CGS. Arcsin these places were re-typed by SRSC, usually to the dominant adjacent shoretype. Thesedeterminationsare noted in the Comments field. Enclosure/passdeterminations were doneby SRSCat an intermediate scale only (i.e. larger than a SiteType3 [shoreform] size but smaller than a SiteType2 [region] size). Scale was determined for each watershed by shoreline length and watershed area, with special exceptions for small islands and headlands. Enclosure was determined by shoreline sinuosity (length of bay opening and average bay depth). Fish probability of presence was determined by both high and low resolution models per Beamer and Fresh (2011) for sevenjuvenile fish (wild Chinook salmon, chum salmon, pink salmon, lingcod & greenling (family Hexagrammidae), surf smelt, Pacific herring, and Pacific sand lance).ATTRIBUTES (created by SRSC): SiteType2 = Intermediate geographic scale, descriptively named after waterbodies or islands. SiteType3 = Dominant simplified geomorphic shoreform, categorized by SRSC per SSHIAP’s ‘GeoUnit’ (and incorporating CGS’ new determinations).RITT_SysTy = Geomorphic, process-inferred system type, per RITT’s nested shoreline habitat classification.RITT_SubTy = Geomorphic, process-inferred sub-system type, per RITT’s nested shoreline habitat classification.Int_Ext = Classification of whether arc is within the interior or exterior of the San Juan landscape.Encl_Pass= Classification of whether arc is within a tidal and wind-protected water body such as a bay or inlet (enclosure) or a less protected water body such as a strait, sound, or pass (passage).Length_km = Length of arc in kilometers.Watershed = Name of watershed.HRM_Ck = Wild juvenile Chinook salmon presence determined by high resolution model. LRM_Ck = Wild juvenile Chinook salmon presence determined by low resolution model.HRM_Chum = Juvenile chum salmon presence determined by high resolution model. LRM_Chum = Juvenile chum salmon presence determined by low resolution model. HRM_Pk = Juvenile pink salmon presence determined by high resolution model. LRM_Pk = Juvenile pink salmon presence determined by low resolution model. HRM_Hex = Juvenile lingcod and greenling presence determined by high resolution model. LRM_Hex = Juvenile lingcod and greenling presence determined by low resolution model. HRM_Smelt = Juvenile surf smelt presence determined by high resolution model. LRM_Smelt = Juvenile surf smelt presence determined by low resolution model. HRM_Herr = Juvenile Pacific herring presence determined by high resolution model. LRM_Herr = Juvenile Pacific herring presence determined by low resolution model.HRM_Lance = Juvenile Pacific sand lance presence determined by high resolution model. LRM_Lance = Juvenile Pacific sand lance presence determined by low resolution model.Metadata:The Salmon and Steelhead Habitat Inventory and Assessment Program (SSHIAP) has mapped the Washington State shoreline according to geomorphology. In 2008 SSHIAP completed a quality assurance (QA) on the initial draft dataset for the Puget Sound region. In 2009, SSHIAP completed a QA version for the outer Washington coast using similar methodologies. The mapping was based on a geomorphic classification model developed by McBride et al. (2005). The model uses existing information to determine dominant processes (i.e., tidal erosion, wave deposition, fluvial deposition), surface geology/shoreline material (e.g. bedrock, cohesive sediments, loose sediments), and topography (i.e., steep, gentle, and flat) to map the shoreline into geomorphic units. The Washington  Department  of  Natural  Resources  (WDNR)  ShoreZone  spatial  dataset  represents the shoreline, and WDNR aquatic boundary spatial dataset and National Wetlands Inventory spatial dataset represent the Extreme Low Water (ELW).  In performing the quality assurance phase of the mapping for the Puget Sound region, SSHIAP used supplemental datasets that were not widely available during the initial mapping phase, including a revised driftcell dataset (unpublished from PSNERP 2008), 1:24000 scale geology maps in a few locations, historic and current tidal wetland datasets available through the University of Washington River History Project (UWRHP), and the Washington Department of Ecology oblique air photos from 2006, available via the world wide web at the Washington Digital Coastal Atlas. Data is available as ArcGIS geodatabase format.This nearshore classification was developed for addressing specific applications regarding habitat protection, restoration, and land use policies and regulations that affect nearshore processes, including salmonid habitat structure and function. Beamer, E, and K Fresh. 2012. Juvenile salmon and forage fish presence and abundance in shoreline habitats of the San Juan Islands, 2008- 2009: Map applications for selected fish species. Skagit River System Cooperative, LaConner, WA.