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 I206 R1
|
206 |
23.7 |
1314362 |
96.8% |
1272302 |
86.2 |
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%
| 88.4
/ NA
| 28 | C270G (TGC→GGC) | yegU | ADP‑ribosylglycohydrolase family protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (15/13); total (15/13) |
GTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCTGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATGGC > NZ_CP009273/2174297‑2174464
|
gTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGcc > 1:186383/1‑90 (MQ=255)
gTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTc > 1:19195/1‑90 (MQ=255)
ttGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTcc > 1:559474/1‑90 (MQ=255)
ggCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCtg < 1:68211/90‑1 (MQ=255)
cTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTggcg > 1:203505/1‑90 (MQ=255)
cTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTggcg > 1:90933/1‑90 (MQ=255)
aTTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTggcggc > 2:200152/1‑90 (MQ=255)
gTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGacac > 2:298538/1‑90 (MQ=255)
gTCCGTTCCGTGCGCCATTGCGCTGGTTGAACCGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGacac > 1:656204/1‑90 (MQ=255)
cgttccgtGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGa > 2:469239/1‑90 (MQ=255)
ttccgtGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGaca > 2:472371/1‑90 (MQ=255)
ttccgtGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGaca < 2:254578/90‑1 (MQ=255)
tGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATc < 2:186383/90‑1 (MQ=255)
tGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATc < 1:469239/90‑1 (MQ=255)
tGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATc < 1:213117/90‑1 (MQ=255)
tGCGCCATCGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATc < 2:205502/90‑1 (MQ=255)
cTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCg < 2:19195/90‑1 (MQ=255)
ggTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGAc > 1:113184/1‑90 (MQ=255)
aCTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTTTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAAt > 2:301475/1‑90 (MQ=255)
gACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTg > 2:358658/1‑37 (MQ=255)
gACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTg < 1:358658/37‑1 (MQ=255)
gACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTg > 2:529991/1‑90 (MQ=255)
ccGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCAt < 1:533908/90‑1 (MQ=255)
ccaaTCGCGGCGCCGTCCGGTGCGCTAACCTTGGCGGCGACACCGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATg < 2:575409/88‑1 (MQ=255)
cGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATg < 1:627228/90‑1 (MQ=255)
cGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATg < 2:250450/90‑1 (MQ=255)
cGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATg < 1:523940/90‑1 (MQ=255)
aaTCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATGGc > 2:427730/1‑90 (MQ=255)
|
GTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCTGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATGGC > NZ_CP009273/2174297‑2174464
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 31 ≤ 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
GCTTTACCAGGTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCTGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATGGCGTTAACGC > NZ_CP009273/2174287‑2174472
|
GCTTTACCAGGTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCC > SRR3722088.188254/1‑100 (MQ=60)
TTACCAGGTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTC > SRR3722088.19399/1‑100 (MQ=60)
TACCAGGTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCC < SRR3722088.384249/100‑1 (MQ=60)
TACCAGGTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCC > SRR3722088.566352/1‑100 (MQ=60)
GGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACC < SRR3722088.68921/100‑1 (MQ=60)
GGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCG > SRR3722088.205543/1‑100 (MQ=60)
GGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCG > SRR3722088.91854/1‑100 (MQ=60)
tctagtacggtctcgtgggctcggagatgtgtataagagacagGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACAC < SRR3722088.362459/57‑1 (MQ=60)
GCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACCGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACAC > SRR3722088.664331/1‑100 (MQ=60)
TGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGG < SRR3722088.215256/100‑1 (MQ=60)
TGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGG < SRR3722088.474760/100‑1 (MQ=60)
CCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGAC > SRR3722088.114362/1‑100 (MQ=60)
CCGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATGGCGTTAACG < SRR3722088.540387/100‑1 (MQ=60)
CGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATGGCGTTAACGC < SRR3722088.530278/100‑1 (MQ=60)
CGAATCGCGGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATGGCGTTAACGC < SRR3722088.634982/100‑1 (MQ=60)
|
GCTTTACCAGGTCGTTGGCGCAGGTACCAGCACTATTGAGTCCGTTCCGTGCGCCATTGCGCTGGTTGAACTGGCACAAACCGACCCGAATCGCTGCGCCGTCCTGTGCGCTAACCTTGGCGGCGACACAGACACCATCGGTGCTATGGCGACGGCAATTTGCGGCGCGTTGCATGGCGTTAACGC > NZ_CP009273/2174287‑2174472
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
