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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
281,478 |
T→C |
25.8% |
L179L (TTA→TTG) |
ampG ← |
muropeptide transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 281,478 | 0 | T | C | 25.8%
| 58.9
/ 18.5
| 54 | L179L (TTA→TTG) | ampG | muropeptide transporter |
| Reads supporting (aligned to +/- strand): ref base T (19/21); new base C (12/2); total (31/23) |
| Fisher's exact test for biased strand distribution p-value = 1.46e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
GGAATGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTACATGCCCTGCCAGCCCAGCCATTTATCTGCCAGCCACAGGGCTAGGCCGCC > minE/281410‑281537
|
ggAATGGTGTCGGTTGGTTCTGGTGCGAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCAtt > 1:2327439/1‑69 (MQ=255)
ggAATGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACGGTGCCGCCAtt > 1:3076646/1‑69 (MQ=255)
ggAATGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCAtt > 1:3193327/1‑69 (MQ=255)
ggAATGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCAtt > 1:2966599/1‑69 (MQ=255)
ggAATGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCAtt > 1:2881519/1‑69 (MQ=255)
ggAATGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCAtt > 1:478768/1‑69 (MQ=255)
ggAATGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCAtt > 1:3311158/1‑69 (MQ=255)
ggAATGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCAtt > 1:2600785/1‑69 (MQ=255)
ggAATGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCAtt > 1:2702835/1‑69 (MQ=255)
aTGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTa > 1:2052063/1‑67 (MQ=255)
aTGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTa > 1:2024702/1‑67 (MQ=255)
aTGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTa > 1:1958790/1‑67 (MQ=255)
aTGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTa > 1:2187735/1‑67 (MQ=255)
aTGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTa > 1:2551033/1‑67 (MQ=255)
aTGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTa > 1:2769641/1‑67 (MQ=255)
aTGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTa > 1:881674/1‑67 (MQ=255)
aTGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTa > 1:1356333/1‑67 (MQ=255)
aTGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTa > 1:1224604/1‑67 (MQ=255)
aTGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTa > 1:3041941/1‑67 (MQ=255)
aTGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTa > 1:3106592/1‑67 (MQ=255)
gtgtCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAg < 1:3254765/69‑1 (MQ=255)
gtgtCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAg < 1:2286368/69‑1 (MQ=255)
gtgtCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAg < 1:1792466/69‑1 (MQ=255)
gtCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTa < 1:1875300/69‑1 (MQ=255)
gtCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTa < 1:882946/69‑1 (MQ=255)
gtCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTa < 1:115679/69‑1 (MQ=255)
gtCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTa < 1:3050349/69‑1 (MQ=255)
gtCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTa < 1:1506766/69‑1 (MQ=255)
gtCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTa < 1:412492/69‑1 (MQ=255)
gtCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTa < 1:1687028/69‑1 (MQ=255)
gtCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTa < 1:186186/69‑1 (MQ=255)
ggttggttCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAAc < 1:181923/61‑1 (MQ=255)
ggttggttCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAAc < 1:582603/61‑1 (MQ=255)
ggttggttCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAAc < 1:3409504/61‑1 (MQ=255)
ggttggttCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAAc < 1:1098489/61‑1 (MQ=255)
ggttggttCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAAc < 1:1266137/61‑1 (MQ=255)
ggttggttCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTACAt > 1:2261835/1‑69 (MQ=255)
cTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGCGCCGCCATCAACCAGTACATGCCCTGcc > 1:249397/1‑69 (MQ=255)
cTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGCGCCGCCATCAACCAGTACATGCCCTGcc > 1:814367/1‑69 (MQ=255)
cTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGCGCCGCCATCAACCAGTACATGCCCTGcc > 1:1084346/1‑69 (MQ=255)
cTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGCGCCGCCATCAACCAGTACATGCCCTGcc > 1:3137295/1‑69 (MQ=255)
cTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGCGCCGCCATCAACCAGTACATGCCCTGcc > 1:3105012/1‑69 (MQ=255)
cTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGCGCCGCCATCAACCAGTACATGCCCTGcc > 1:1170801/1‑69 (MQ=255)
cTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGCGCCGCCATCAACCAGTACATGCCCTGcc > 1:1415965/1‑69 (MQ=255)
cTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGCGCCGCCATCAACCAGTACATGCCCTGcc > 1:335578/1‑69 (MQ=255)
cTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGCGCCGCCATCAACCAGTACATGCCCTGcc > 1:1515012/1‑69 (MQ=255)
gTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGCGCCGCCATCAACCAGTACATGCCCTGccag > 1:753285/1‑68 (MQ=255)
gTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGCGCCGCCATCAACCAGTACATGCCCTGccag > 1:2824454/1‑68 (MQ=255)
gTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGCGCCGCCATCAACCAGTACATGCCCTGccag > 1:1654413/1‑68 (MQ=255)
caagcaaCGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTACATGCCCTGccagccca > 1:1045652/1‑69 (MQ=255)
caagcaaCGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTACATGCCCTGccagccca > 1:361394/1‑69 (MQ=255)
caagcaaCGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTACATGCCCTGccagccca > 1:2491317/1‑69 (MQ=255)
caagcaaCGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTACATGCCCTGccagccca > 1:2108664/1‑69 (MQ=255)
gTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTACATGCCCTGCCAGCCCAGCCATTTa < 1:3219127/69‑1 (MQ=255)
gTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTACATGCCCTGCCAGCCCAGCCATTTa < 1:1488934/69‑1 (MQ=255)
gTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTACATGCCCTGCCAGCCCAGCCATTTa < 1:1013808/69‑1 (MQ=255)
ataCAGGGGATCAACAGTGCCGCCATTAACCAGTACATGCCCTGCCAGCCCAGCCATTTATCTgccagc < 1:2824793/69‑1 (MQ=255)
ataCAGGGGATCAACAGTGCCGCCATTAACCAGTACATGCCCTGCCAGCCCAGCCATTTATCTgccagc > 1:2615649/1‑69 (MQ=255)
aCAGGGGATCAACAGTGCCGCCATTAACCAGTACATGCCCTGCCAGCCCAGCCATTTATCTgccagc > 1:2838540/1‑67 (MQ=255)
cAGGGGATCAACAGTGTCGCCATTAACCAGTACATGCCCTGCCAGCCCAGCCATTTATCTGCCAGCcac < 1:2651231/69‑1 (MQ=255)
cAACAGCGCCGCCATCAACCAGTACATGCCCTGCCAGCCCAGCCATTTATCTGCCAGCCACAGGGCTaa < 1:2616209/69‑2 (MQ=255)
aaCAGCGCCGCCATCAACCAGTACATGCCCTGCCAGCCCAGCCATTTATCTGCCAGCCACAGGGCTaa < 1:2592896/68‑2 (MQ=255)
gccgccATTAACCAGTACATGCCCTGCCAGCCCAGCCATTTATCTGCCAGCCACAGGGCTAGgccgcc > 1:229712/1‑68 (MQ=255)
|
GGAATGGTGTCGGTTGGTTCTGGTGCAAGCAACGTCGCGATAATACAGGGGATCAACAGTGCCGCCATTAACCAGTACATGCCCTGCCAGCCCAGCCATTTATCTGCCAGCCACAGGGCTAGGCCGCC > minE/281410‑281537
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
