What does yield refer to in demultiplexing statistics
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8.7 years ago

Dear all,

After sequencing step completion, I demultiplexed the sequencing data using bcl2fastq program. I got the below barcode statistics based on lanes.

N in control refers to the sample.

Yield refers to "the sum of all bases in clusters that passed filtering for the entire project.

  1. I don't understand clearly. But I could see some relation between yield and reads (9,989 Mbases, 98,901,978 reads) Can anyone explain it clearly?
  2. What could be the reason for very low yield value for WN34?

Barcode lane statistics

Lane   Sample ID   Sample Ref   Index          Control   Project                Yield (Mbases)       # Reads        % of raw clusters per lane   % Perfect Index Reads   % One Mismatch Reads (Index)   % of >= Q30 Bases (PF)   Mean Quality Score (PF)
1      AS3                      TAAGGC         N         Libseq                 9,989                98,901,978     24.92                        99.51                   0.49                           91.89                    35.55
1      CE3                      CGTACT         N         Libseq                 5,986                59,268,804     14.93                        99.67                   0.33                           92.44                    35.74
1      CN1                      TCCTGA         N         Libseq                 11,950               118,312,224     29.81                       99.6                    0.4                            92.58                    35.76
1      WE3                      TAGGCA         N         Libseq                 11,911               117,927,062     29.71                       99.39                   0.61                           92.04                    35.58
1      lane1       unknown      Undetermined   N         Undetermined_indices   249                   2,461,256       0.62                       0                       0                              81.93                    31.96
7      CE8                      TCCTGA         N         Libseq                 13,792               136,550,386     33.91                       99.52                   0.48                           92.67                    35.83
7      WE31                     CGTACT         N         Libseq                 12,940               128,120,332     31.82                       99.61                   0.39                           92.08                    35.66
7      WN34                     AGGCAG         N         Libseq                 1                    10,996            0                         4.17                    95.83                          60.27                    23.81
7      lane7       unknown      Undetermined   N         Undetermined_indices   13,932               137,944,756      34.26                      0                       0                              91.8                     35.58
NGS fastq RNA-seq • 4.0k views
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Hi, Did you figure this out?

thank you.

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5.3 years ago
bmahesh07 • 0

Yield in illumina sequencing terminology refers to the total number of bases (nucleotides) sequenced per sequencing run or per lane. (https://help.basespace.illumina.com/articles/descriptive/run-summary/)

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