Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A1 F2 I229 R1
|
214 |
17.4 |
943020 |
97.5% |
919444 |
87.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
674,442 |
T→G |
T141P (ACT→CCT) |
ybeT ← |
tetratricopeptide repeat protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 674,442 | 0 | T | G | 100.0%
| 53.1
/ NA
| 18 | T141P (ACT→CCT) | ybeT | tetratricopeptide repeat protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (7/11); total (7/11) |
TTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGTATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGACCCCCA > NZ_CP009273/674359‑674522
|
tttGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATtg < 1:341146/90‑1 (MQ=255)
gCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATtgagca < 2:10713/90‑1 (MQ=255)
cGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATtgagcat < 1:373936/90‑1 (MQ=255)
ggTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATtgagcatg < 1:440172/90‑1 (MQ=255)
cAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATtgagcatgagc < 1:136925/90‑1 (MQ=255)
gTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTgagcatgagcat < 1:151889/90‑1 (MQ=255)
gTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTgagcatgagcat < 2:256189/90‑1 (MQ=255)
tttttGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTc > 2:60527/1‑90 (MQ=255)
gagaTTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCT‑AAGGATATTGAGCATGAGCATACCCTTGTTCAgctgc < 1:462600/90‑1 (MQ=255)
gaTTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAgctgct < 2:1177/90‑1 (MQ=255)
gaTTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAgctgct < 2:170462/90‑1 (MQ=255)
ttAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCag > 2:237052/1‑90 (MQ=255)
aaTACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGc > 1:401459/1‑90 (MQ=255)
aaTACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGc > 2:48523/1‑90 (MQ=255)
gAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACgg > 2:139530/1‑90 (MQ=255)
aaCCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAgctgc > 2:264295/1‑43 (MQ=255)
aaCCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAgctgc < 1:264295/43‑1 (MQ=255)
aaCCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGACCCCCa > 2:246912/1‑90 (MQ=255)
|
TTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGTATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGCTTTACGGGTGTCGGGTTTGACCCCCA > NZ_CP009273/674359‑674522
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AATGTTGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGTATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGC > NZ_CP009273/674352‑674496
|
AATGTTGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGC < SRR3722113.85609/100‑1 (MQ=60)
TTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCA < SRR3722113.344626/100‑1 (MQ=60)
CGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCC < SRR3722113.377819/100‑1 (MQ=60)
GGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCT < SRR3722113.444828/100‑1 (MQ=60)
CAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGT < SRR3722113.138071/100‑1 (MQ=60)
GTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTC < SRR3722113.153151/100‑1 (MQ=60)
GAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCT‑AAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATAC < SRR3722113.467490/100‑1 (MQ=60)
ttagtctcgtgggctcggagatgtgtataagagacagCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATAC < SRR3722113.266619/63‑1 (MQ=60)
GGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGGATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGC > SRR3722113.405659/1‑100 (MQ=60)
|
AATGTTGTTTGGCGGTCAGTTTTAACCATTTTTGAGATTCATAATGGTTAACATTAATACCTGAGCCATTTCTGTAGATCAAACCTAAAGTATATTGAGCATGAGCATACCCTTGTTCAGCTGCTTCCTTATACCAGAGAATTGC > NZ_CP009273/674352‑674496
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
