ERR844339.bam

1090872 reads, size:55938279 bytes, created 2017-04-03 12:48:03

Mapping stats:

Number of alignments in various mapping quality (MAPQ) intervals and number of unmapped sequences.

Number Percentage
MAPQ >= 30 1085522.0 99.5
MAPQ < 30 56.0 0.0
MAPQ < 20 0.0 0.0
MAPQ < 10 0.0 0.0
MAPQ < 3 0.0 0.0
Unmapped 5294.0 0.5
Total 1090872.0 100.0

Number of alignments in various mapping quality (MAPQ) intervals and number of unmapped sequences.

Read Length Distributions

  • MAPQ >= 30
  • MAPQ < 30
  • Unmapped
  • MAPQ >= 30
  • MAPQ < 30
  • Unmapped
  • MAPQ >= 30
  • MAPQ < 30
  • Unmapped
  • MAPQ >= 30
  • MAPQ < 30
  • Unmapped

Distribution of read lengths separated by mapping quality thresholds.

Base Quality Distributions

  • MAPQ >= 30
  • MAPQ < 30
  • Unmapped
  • MAPQ >= 30
  • MAPQ < 30
  • Unmapped
  • MAPQ >= 30
  • MAPQ < 30
  • Unmapped
  • MAPQ >= 30
  • MAPQ < 30
  • Unmapped
  • MAPQ >= 30
  • MAPQ < 30
  • Unmapped
  • MAPQ >= 30
  • MAPQ < 30
  • Unmapped

Base quality distributions separated by mapping quality thresholds.

Composition of MAPQ >= 20 Reads.

  • A
  • C
  • G
  • T
  • A
  • C
  • G
  • T

A HMM was trained on a subset of the sequences. Shown are log2 odds ratios comparing emission probabilities in match states to background nucleotide probabilities. Values above 0 indicate positional enrichment of a particular nucleotide. "L" indicates the emission probabilities for a state modelling residiues in the middle of the reads.

Composition of unmapped reads.

  • A
  • C
  • G
  • T
  • A
  • C
  • G
  • T

A HMM was trained on a subset of the sequences. Shown are log2 odds ratios comparing emission probabilities in match states to background nucleotide probabilities. Values above 0 indicate positional enrichment of a particular nucleotide. "L" indicates the emission probabilities for a state modelling residiues in the middle of the reads.

Distribution of Mismatches (MAPQ >= 30):

  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C

Distribution of Mismatches in MAPQ >= 30 reads.

Distribution of Mismatches (MAPQ < 30):

  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C

Distribution of Mismatches in MAPQ < 30 reads.

Distribution of Mismatches (MAPQ < 20):

  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C

Distribution of Mismatches in MAPQ < 20 reads.

Distribution of Mismatches (MAPQ < 10):

  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C

Distribution of Mismatches in MAPQ < 10 reads.

Distribution of Mismatches(MAPQ < 3):

  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C
  • A
  • C

Distribution of Mismatches in MAPQ < 3 reads.

Number of Errors Per Read (MAPQ >= 30):

  • Errors

Barplot shows the percentage of reads (y-axis) with 0, 1, 2 ... errors (x axis) for MAPQ >= 30 reads.

Number of Errors Per Read(MAPQ < 30):

  • Errors

Barplot shows the percentage of reads (y-axis) with 0, 1, 2 ... errors (x axis) for MAPQ < 30 reads.