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 F3 I95 R1
|
196 |
14.2 |
808436 |
96.0% |
776098 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,615,188 |
A→C |
S69R (AGT→AGG) |
eamA ← |
O‑acetylserine/cysteine exporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,615,188 | 0 | A | C | 100.0%
| 18.3
/ NA
| 7 | S69R (AGT→AGG) | eamA | O‑acetylserine/cysteine exporter |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (2/5); total (2/5) |
ACGCCTGTGCCTGTAACACCAGCGAAGCCAGTCCAGCAGGCATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAAACTGATGGTTAATCCATACCCCAGCAGCAAATTCAGTGGTACTTT > NZ_CP009273/1615103‑1615232
|
aCGCCTGTGCCTGTAACACCAGCGAAGCCAGTCCAGCAGGCATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAACCTGa < 2:200035/90‑1 (MQ=255)
tgtgcctgtAACACCAGCGAAGCCAGTCCAGCAGGCATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAACCTGATGGtt < 1:133399/90‑1 (MQ=255)
tgtgcctgtAACACCAGCGAAGCCAGTCCAGCAGGCATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAACCTGATGGtt < 1:154550/90‑1 (MQ=255)
tgtgcctgtAACACCAGCGAAGCCAGTCCAGCAGGCATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAACCTGATGGtt < 1:399042/90‑1 (MQ=255)
tgtgcctgtAACACCAGCGAAGCCAGTCCAGCAGGCATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAACCTGATGGtt < 2:309023/90‑1 (MQ=255)
cGAAGCCAGTCCAGCAGGCATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAACCTGATGGTTAATCCATACCCcagcag > 2:379041/1‑90 (MQ=255)
cATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAACCTGATGGTTAATCCATACCCCAGCAGCAAATTCAGTGGTACttt > 2:296362/1‑90 (MQ=255)
|
ACGCCTGTGCCTGTAACACCAGCGAAGCCAGTCCAGCAGGCATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAAACTGATGGTTAATCCATACCCCAGCAGCAAATTCAGTGGTACTTT > NZ_CP009273/1615103‑1615232
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TGTGCCTGTAACACCAGCGAAGCCAGTCCAGCAGGCATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAAACTGATGGTTAATCCATACCCCAGCAGCAAATTCAGTGGTACTTTCGGTCGTGCGACAAAAAAGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCG > NZ_CP009273/1615108‑1615287
|
TGTGCCTGTAACACCAGCGAAGCCAGTCCAGCAGGCATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAACCTGATGGTTAATCCATACC < SRR3722235.134954/100‑1 (MQ=60)
TGTGCCTGTAACACCAGCGAAGCCAGTCCAGCAGGCATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAACCTGATGGTTAATCCATACC < SRR3722235.156313/100‑1 (MQ=60)
TGTGCCTGTAACACCAGCGAAGCCAGTCCAGCAGGCATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAACCTGATGGTTAATCCATACC < SRR3722235.404805/100‑1 (MQ=60)
CNGCGCAAACCTGATGGTTAATCCATACCCCAGCAGCAAATTCAGTGGTACTTTCGGTCGTGCGACAAAAAAGATAGCCGGAAAAGCGACCAGCATAAAT > SRR3722235.228627/1‑100 (MQ=60)
CCTGATGGTTAATCCATACCCCAGCAGCAAATTCAGTGGTACTTTCGGTCGTGCGACAAAAAAGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCG > SRR3722235.27086/1‑100 (MQ=60)
|
TGTGCCTGTAACACCAGCGAAGCCAGTCCAGCAGGCATACCGAAGTTAATGGCACAAAAAAGAAAAGCAAACTGCGCAAAACTGATGGTTAATCCATACCCCAGCAGCAAATTCAGTGGTACTTTCGGTCGTGCGACAAAAAAGATAGCCGGAAAAGCGACCAGCATAAAGCGCAAACCG > NZ_CP009273/1615108‑1615287
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
