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 I211 R1
|
223 |
18.0 |
1007644 |
96.3% |
970361 |
85.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,174,381 |
T→G |
C270G (TGC→GGC) |
yegU → |
ADP‑ribosylglycohydrolase family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,174,381 | 0 | T | G | 100.0%
| 39.2
/ NA
| 13 | C270G (TGC→GGC) | yegU | ADP‑ribosylglycohydrolase family protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (6/7); total (6/7) |
GGTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCTGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATGGC > NZ_CP009273/2174296‑2174464
|
ggTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGgcgc < 1:177967/90‑1 (MQ=255)
ggTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGgcgc < 1:63004/90‑1 (MQ=255)
gTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGcc > 2:353448/1‑90 (MQ=255)
gTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTa < 1:353448/90‑1 (MQ=255)
gCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTg < 1:22094/90‑1 (MQ=255)
ttGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGgcggcg < 1:489675/90‑1 (MQ=255)
gttccgtGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGac < 2:102899/90‑1 (MQ=255)
ggTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGAc > 2:332130/1‑90 (MQ=255)
gCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTgc > 2:333301/1‑90 (MQ=255)
gCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCAACACAGACACCATCGGTGCTATGGCGACGGCAATTTgc > 1:225144/1‑90 (MQ=255)
cGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATg < 2:363121/90‑1 (MQ=255)
gAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATgg > 2:64755/1‑90 (MQ=255)
aaTCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGGGACGGCAATTTGCGGCGCGTTGCATGGc > 1:340659/1‑90 (MQ=255)
|
GGTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCTGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATGGC > NZ_CP009273/2174296‑2174464
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GGTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCTGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATGGCGTTAACGCTATCGATC > NZ_CP009273/2174296‑2174480
|
GGTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGC < SRR3722094.180431/100‑1 (MQ=60)
GGTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGC < SRR3722094.63887/100‑1 (MQ=60)
GTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGG < SRR3722094.359357/100‑1 (MQ=60)
GCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACAC < SRR3722094.22414/100‑1 (MQ=60)
TTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACAC < SRR3722094.498309/100‑1 (MQ=60)
GGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCAACACAGACACCATCGGTGCTATGGCGACGGCAATTTGC > SRR3722094.228181/1‑100 (MQ=60)
AACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGGGACGGCAATTTGCGGCGCGTTGCATGGC > SRR3722094.346273/1‑100 (MQ=60)
GGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGTGCGTTGCATGGCGTTAACGCTATCGATC < SRR3722094.51320/100‑1 (MQ=60)
|
GGTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCTGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATGGCGTTAACGCTATCGATC > NZ_CP009273/2174296‑2174480
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
