Sample Summary Information For Experiment (Demo)

Project Summary

Project Name Demo
Machine HWI-BRUNOP20X
Run Folder 110120_P20_0993_A805CKABXX
Flow Cell ID A805CKABXX
Platform
Control Software SCS
Primary Analysis RTA 1.10.36.0
Secondary Analysis CASAVA-1.8.2

Project Results Summary

Clusters (Raw) Clusters(PF) Yield (MBases)
1,567,312 1,567,312 235

Barcode-Lane summary

Barcode-Lane Sample Barcode Lane Species Analysis Type Length Num Tiles Genome Directory
AR008_ACTTGA_L1 AR008 ACTTGA 1 human eland rna 75 75 1 /illumina/development/casava/Version_1_8_branch/share/CASAVA-1.8.2/examples/iGenomes/Homo_sapiens/UCSC/hg18/Sequence/Chromosomes/chr22.fa
PhiX_TTAGGC_L1 PhiX TTAGGC 1 phix eland pair 75 75 1 /illumina/development/casava/Version_1_8_branch/share/CASAVA-1.8.2/examples/iGenomes/PhiX/NCBI/1993-04-28/Sequence/Chromosomes/phix.fa

Sample Results Summary : Read 1

Sample Info
Sample Sample Yield (Mbases) Clusters (raw) Clusters (PF) 1st Cycle Int (PF) % intensity after 20 cycles (PF) % PF Clusters % Align (PF) Alignment Score (PF) % Mismatch Rate (PF) % >=Q30 bases (PF) Mean Quality SCore (PF)
AR008 114 1,518,208 1,518,208 472 98.55 100.00 4.15 10.15 3.51 90.95 35.59
PhiX 4 49,104 49,104 472 98.55 100.00 94.26 379.07 0.29 92.90 36.15

Sample Results Summary : Read 2

Sample Info
Sample Sample Yield (Mbases) Clusters (raw) Clusters (PF) 1st Cycle Int (PF) % intensity after 20 cycles (PF) % PF Clusters % Align (PF) Alignment Score (PF) % Mismatch Rate (PF) % >=Q30 bases (PF) Mean Quality SCore (PF)
AR008 114 1,518,208 1,518,208 329 83.72 100.00 4.03 9.61 4.00 82.93 33.29
PhiX 4 49,104 49,104 329 83.72 100.00 93.38 368.98 0.58 86.36 34.37

Expanded Sample Summary : Read 1

Sample Info Phasing Info Raw data Filtered data
Sample Clusters (raw) % Phasing % Prephasing % Mismatch Rate (raw) % PF Clusters Cycle 2-4 Av Int (PF) Cycle 2-10 Av % Loss (PF) Cycle 10-20 Av % Loss (PF) % Align (PF) % Mismatch Rate (PF) % >=Q30 bases (PF) Mean Quality SCore (PF)
AR008 1,518,208 0.18 0.25 3.51 100.00 579.66 2.35 0.91 4.15 3.51 90.95 35.59
PhiX 49,104 0.18 0.25 0.29 100.00 579.66 2.35 0.91 94.26 0.29 92.90 36.15

Expanded Sample Summary : Read 2

Sample Info Phasing Info Raw data Filtered data
Sample Clusters (raw) % Phasing % Prephasing % Mismatch Rate (raw) % PF Clusters Cycle 2-4 Av Int (PF) Cycle 2-10 Av % Loss (PF) Cycle 10-20 Av % Loss (PF) % Align (PF) % Mismatch Rate (PF) % >=Q30 bases (PF) Mean Quality SCore (PF)
AR008 1,518,208 0.13 0.22 4.00 100.00 311.45 2.35 0.91 4.03 4.00 82.93 33.29
PhiX 49,104 0.13 0.22 0.58 100.00 311.45 2.35 0.91 93.38 0.58 86.36 34.37

IVC Plots

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All Intensity Plots

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Mismatch Graphs

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Mismatch Curves

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Additional Paired Statistics

Sample Info Relative Orientation Statistics Insert Size Statistics (for relative orientation R+) Insert Statistics (% of individually uniquely alignable pairs)
Sample F-:
>R2 R1>		 F+:
>R1 R2>		 R-:
<R2 R1>		 R+:
>R1 R2<		 Total Median Below-median SD Above-median SD Low thresh. High thresh. Too small Too large Orientation and size OK
AR008 0
PhiX 13
(0.03%) 		8
(0.02%) 		993
(2.16%) 		44,862
(97.79%) 		45,876 196 26 31 84 272 58
(0.13%) 		62
(0.14%) 		44,742
(97.53%)

CASAVA-1.8.2