ActiveLayerIndex 0 ApplicationVersion com.omnigroup.OmniGraffle 139.18.0.187838 AutoAdjust BackgroundGraphic Bounds {{0, 0}, {576, 733}} Class SolidGraphic ID 2 Style shadow Draws NO stroke Draws NO BaseZoom 0 CanvasOrigin {0, 0} ColumnAlign 1 ColumnSpacing 36 CreationDate 2014-11-17 16:51:42 +0000 Creator Heng Li DisplayScale 1 0/72 in = 1 0/72 in GraphDocumentVersion 8 GraphicsList Bounds {{35.699992179870605, 151.89999580383301}, {476, 224}} Class ShapedGraphic FitText YES Flow Resize FontInfo Font AndaleMono Size 12 ID 28 Shape Rectangle Style fill Draws NO shadow Draws NO stroke Draws NO Text Align 0 Pad 0 Text {\rtf1\ansi\ansicpg1252\cocoartf1265\cocoasubrtf210 \cocoascreenfonts1{\fonttbl\f0\fnil\fcharset0 Consolas;\f1\fnil\fcharset0 Consolas-Bold;} {\colortbl;\red255\green255\blue255;\red0\green0\blue0;\red127\green127\blue127;\red255\green0\blue0; \red204\green204\blue204;\red0\green0\blue255;\red0\green128\blue0;\red255\green128\blue0;} \pard\tx560\tx1120\tx1680\tx2240\tx2800\tx3360\tx3920\tx4480\tx5040\tx5600\tx6160\tx6720\pardirnatural \f0\fs24 \cf2 Read: A\cf0 TCAGCATC\ \cf2 \ ALT ctg 1: \cf3 TGA\cf3 AA---CGAATGCAAATGGTCA \f1\b \cf4 ATCAGCATC \f0\b0 \cf3 GAACTAGTCACAT\cf2 \ \cf3 |||||\cf5 (high div) \cf3 ||||||\cf5 (novel ins)\cf3 ||||||||||\cf2 \ Chromosome:\cf3 GCGTACATGATACGA \f1\b \cf6 ATCgGCATC \f0\b0 \cf3 ATGGTC-------------CTAGTCACATCGTAATC\ \cf2 \cf3 |||||||||||| ||||||||||\cf5 (novel ins) \cf3 ||||||||||\ \cf2 ALT ctg 2:\cf3 TGATACGA \f1\b \cf7 ATCgcCATC \f0\b0 \cf3 ATGGTCA \f1\b \cf8 ATCgcCAgC \f0\b0 \cf3 GAACTAGTCACAT\ \ \cf2 4 potential hits: \f1\b \cf4 ATCAGCATC \f0\b0 \cf0 > \f1\b \cf6 ATCgGCATC \f0\b0 \cf0 > \f1\b \cf7 ATCgcCATC \f0\b0 \cf2 > \f1\b \cf8 ATCgcCAgC\ \pard\tx560\tx1120\tx1680\tx2240\tx2800\tx3360\tx3920\tx4480\tx5040\tx5600\tx6160\tx6720\pardirnatural \f0\b0 \cf0 2 hit groups: \{ \f1\b \cf4 ATCAGCATC \f0\b0 \cf0 , \f1\b \cf8 ATCgcCAgC \f0\b0 \cf2 \} and\cf0 \{ \f1\b \cf6 ATCgGCATC \f0\b0 \cf2 , \f1\b \cf7 ATCgcCATC \f0\b0 \cf2 \}\ \cf0 Hits considered in mapQ: \f1\b \cf4 ATCAGCATC \f0\b0 \cf0 and \f1\b \cf6 ATCgGCATC \f0\b0 \cf2 (best from each group) \f1\b \cf6 \ \pard\tx560\tx1120\tx1680\tx2240\tx2800\tx3360\tx3920\tx4480\tx5040\tx5600\tx6160\tx6720\pardirnatural \f0\b0 \cf3 \ \cf2 In the output SAM: \f1\b \cf6 ATCgGCATC \f0\b0 \cf2 as the primary SAM line with mapQ=0\ \f1\b \cf4 ATCAGCATC \f0\b0 \cf2 as a supplementary line with mapQ>0\ \f1\b \cf8 ATCgcCAgC \f0\b0 \cf2 as a supplementary line with mapQ>0\ \f1\b \cf7 ATCgcCATC \f0\b0 \cf2 in an XA tag, not as a separate line} VerticalPad 0 Wrap NO GridInfo GridSpacing 7.1999998092651367 MajorGridSpacing 10 SnapsToGrid YES GuidesLocked NO GuidesVisible YES HPages 1 ImageCounter 1 KeepToScale Layers Lock NO Name Layer 1 Print YES View YES LayoutInfo Animate NO circoMinDist 18 circoSeparation 0.0 layoutEngine dot neatoSeparation 0.0 twopiSeparation 0.0 LinksVisible NO MagnetsVisible NO MasterSheets ModificationDate 2014-11-17 18:28:10 +0000 Modifier Heng Li NotesVisible NO Orientation 2 OriginVisible NO PageBreaks YES PrintInfo NSBottomMargin float 41 NSHorizonalPagination coded BAtzdHJlYW10eXBlZIHoA4QBQISEhAhOU051bWJlcgCEhAdOU1ZhbHVlAISECE5TT2JqZWN0AIWEASqEhAFxlwCG NSLeftMargin float 18 NSPaperSize size {612, 792} NSPrintReverseOrientation int 0 NSRightMargin float 18 NSTopMargin float 18 PrintOnePage ReadOnly NO RowAlign 1 RowSpacing 36 SheetTitle Canvas 1 SmartAlignmentGuidesActive YES SmartDistanceGuidesActive YES UniqueID 1 UseEntirePage VPages 1 WindowInfo CurrentSheet 0 ExpandedCanvases name Canvas 1 Frame {{367, 6}, {710, 872}} ListView OutlineWidth 142 RightSidebar ShowRuler Sidebar SidebarWidth 120 VisibleRegion {{0, 0}, {575, 733}} Zoom 1 ZoomValues Canvas 1 1 1