1 Description

Read distribution plot - plot shows number of reads assigned during read grouping
Filtered Reads - plot shows percentage of assigned reads that have been recognized as PRIMER DIMERS or filtered based on low alignment score
Cutting rates - plot gives overview of percentage of reads (not filtered as PRIMER DIMER) that have cut
Frameshift - plot shows what percentage of reads that have frameshift
Frameshift overlapping - shows what percentage of reads have frameshift counting only deletions and insertions that overlap expected cut site (should be more accurate when controls are not available)
Read heterogeneity plot - shows what is the share of each of the unique reads in total count of all reads. The more yellow each row, the less heterogeneity in the reads, more black means reads don’t repeat often and are unique
Top unassigned reads - take a look at the alignment of most abundant forward and reverse complemented reverse reads for each barcode, if you find that there is many unassigned reads you can ivestigate here.

2 Barcode Summary

2.1 Groups IDs

group IDs
barcode_1 ID_1, ID_2
barcode_2 ID_3, ID_4

2.2 Read distribution

2.3 Filtered Reads

2.4 Indel rates

2.5 Frameshift

2.6 Heterogeneity of reads

3 Top unassigned reads

3.1 barcode_1

Forward Reverse Counts Frequency
P1 S1 1 0.0714286 
 
P1                 1 AAAT--ACTGTCTTGTGACCAAACCTTCTTAAGGTGCTGTTTT-GATGAT     47
                     ||    || |     |||  |||   ||| ||    |||||   | || |
S1                 1 AAGCTGACGGCTAAATGA--AAAATATCTGAAACATCTGTTCCAGGTGCT     48

P1                48 AAACTTTATTGTGCTTTTGTAGTTGTGCCCCTTGTGTTGGCAGAGGGTCA     97
                          |    | ||    | ||  | | |      | |  | |  |||||
S1                49 GCGTATGCCAGGGCAGA-GAAGAAG-GTCAGGGAAGGTCACTGGAGGTCA     96

P1                98 ---GCAGACCAGTAAGTCTTCTCAATTTCTTTTATTTATGTATATGTAGT    144
                        | | |||  |   ||||| ||      |      | |  |       
S1                97 CTGGGATACCCTT---TCTTCCCACACCAATGGGGAAAGGAGTCCTGCCA    143

P1               145 GATAAA-A    151
                     ||| |  |
S1               144 GATGACCA    151