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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
833,357 |
C→A |
21.4% |
H605Q (CAC→CAA) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 833,357 | 0 | C | A | 21.4%
| 129.5
/ 20.4
| 56 | H605Q (CAC→CAA) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base C (26/18); new base A (6/6); total (32/24) |
| Fisher's exact test for biased strand distribution p-value = 7.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.56e-01 |
AAAACTGCGTCCGCAAACCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAACCGTCACGGCGGAAGAGT > minE/833288‑833427
|
aaaaCTGCGTCCGCAAACCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTcaca > 1:2860713/1‑71 (MQ=255)
aaCTGCGTCCGCAAACCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATg < 1:3900721/71‑1 (MQ=255)
aaCTGCGTCCGCAAACCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATg < 1:3706132/71‑1 (MQ=255)
aaCTGCGTCCGCAAACCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATg < 1:5646108/71‑1 (MQ=255)
aaCTGCGCCCACAAACCGGCTGGTTGCCACTGGCCTTTGCGCTCGACTGGAACCGACCACCGCGCCAAATg < 1:1513747/71‑1 (MQ=255)
gTCCGCAAACCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAg > 1:2884735/1‑70 (MQ=255)
tCCGCAAACCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCa > 1:327492/1‑71 (MQ=255)
cacAAACCGGCTGGTTGCCACTGGCCTTTGCGCTCGACTGGAACCGACCACCGCGCCAAATGAAcaccac > 1:657669/3‑70 (MQ=255)
cGCAAACCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCAct > 1:2537324/1‑71 (MQ=255)
acAAACCGGCTGGTTGCCACTGGCCTTTGCGCTCGACTGGAACCGACCACCGCGCCAAATGAACAGCAcc > 1:5181827/2‑69 (MQ=255)
aaaCCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATg < 1:1340339/59‑1 (MQ=255)
aaaCCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCActtct < 1:1205984/71‑1 (MQ=255)
aaaCCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCActtct < 1:5112745/71‑1 (MQ=255)
aaaCCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCActtct < 1:5119343/71‑1 (MQ=255)
aCCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGaa > 1:1047678/1‑59 (MQ=255)
aCCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTa > 1:697915/1‑71 (MQ=255)
gCTGGTTGCCACTGGCCTTTGCGCTCGACTGGAACCGACCACCGCGCCAAATGAACAGCACCTCGTTTTTc > 1:4419780/1‑71 (MQ=255)
gCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTc > 1:17889/1‑71 (MQ=255)
ccGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGTACAGc < 1:3527937/51‑1 (MQ=255)
gCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCa > 1:209608/1‑50 (MQ=255)
gCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCAc > 1:2019425/1‑51 (MQ=255)
gCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCAc > 1:3417849/1‑51 (MQ=255)
cGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTccagc < 1:1808947/71‑1 (MQ=255)
gTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTccagcc < 1:5274879/71‑1 (MQ=255)
ctttGCGCTCGACTGGAACCGACCACCGCGCCAAATGAACAGCACCTCGTTTTTCTACAATCATTccagcc < 1:3783453/70‑1 (MQ=255)
tttGCGCTCGACTGGAACCGACCACCGCGCCAAATGAACAGCACCTCGTTTTTCTACAATCa < 1:1780901/62‑1 (MQ=255)
tttGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGaa > 1:4972207/1‑38 (MQ=255)
tttGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGaa > 1:5567355/1‑38 (MQ=255)
ttGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTccagccag > 1:3296858/1‑71 (MQ=255)
ttGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTccagccag > 1:926560/1‑71 (MQ=255)
tGCGCTCGACTGGAACCGACCACCGCGCCAAATGAACAGCACCTCGTTTTTCTACAATCATTccagcc < 1:2288136/68‑1 (MQ=255)
tGCGCTCGACTGGAACCGACCACCGCGCCAAATGAACAGCACCTCGTTTTTCTACAATCATTccagcc < 1:1474575/68‑1 (MQ=255)
tGCCATTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTAt > 1:1832980/1‑49 (MQ=255)
ccTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGc > 1:4594606/1‑71 (MQ=255)
ccTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGc < 1:1856097/71‑1 (MQ=255)
ttGACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGt > 1:4556130/1‑71 (MQ=255)
tGACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGt > 1:3218542/1‑70 (MQ=255)
gACTGGCAGCGTCCGGCTCGTCACATGAACAGCACTTCTTATTTCTATAACCACTccagcca > 1:2850527/1‑62 (MQ=255)
gACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCa > 1:436715/1‑53 (MQ=255)
gACTGGAACCGACCACCGCGCCAAATGAACAGCACCTCGTTTTTCTACAATCATTccagccaa > 1:3442579/1‑62 (MQ=255)
gACTGGAACCGACCACCGCGCCAAATGAACAGCACCTCGTTTTTCTACAATCATTCCAGCCAATGGCGCTa > 1:1517193/1‑71 (MQ=255)
cTGGCAGCGTCCGGCGCGTCCCATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTAt > 1:706975/1‑70 (MQ=255)
gCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGaaa < 1:4814578/71‑1 (MQ=255)
gCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATATCTATAACCa > 1:2405054/1‑48 (MQ=255)
cAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAAc > 1:674545/1‑71 (MQ=255)
cAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAAc > 1:416713/1‑71 (MQ=255)
aGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAAcc < 1:3192181/71‑1 (MQ=255)
tCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGaa < 1:1168531/64‑1 (MQ=255)
tCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGaa < 1:3531251/64‑1 (MQ=255)
caccgcgCCAAATGAACAGCACCTCGTTTTTCTACAATCATTCCAGCCAATGGCGCTATGaaa < 1:4525448/60‑1 (MQ=255)
cGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTa > 1:4357240/1‑58 (MQ=255)
ggCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAACCGTCAcgg > 1:114987/1‑71 (MQ=255)
gcgcCAAATGAACAGCACCTCGTTTTTCTACAATCATTccagccaa > 1:4170556/1‑45 (MQ=255)
gcgTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTAt < 1:2253670/55‑1 (MQ=255)
gcgTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAACCGTCAcggcg > 1:1445627/1‑70 (MQ=255)
cgTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAACCGTCACGGCGGa < 1:3839467/71‑1 (MQ=255)
tCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAACCGTCACGGCGGAag < 1:2050216/71‑1 (MQ=255)
cacaTGAACAGCACTTCTTATTTCTATAACCACTccag < 1:5281818/38‑1 (MQ=255)
acaTGAACAGCACTTCTTATTTCTATAACCACTccagcca > 1:547798/1‑40 (MQ=255)
acaTGAACAGCACTTCTTATTTCTATAACCACTccagcca > 1:5499084/1‑40 (MQ=255)
acaTGAACAGCACTTCTTATTTCTATAACCACTccagcca > 1:5628058/1‑40 (MQ=255)
acaTGAACAGCACTTCTTATTTCTATAACCACTccagcca > 1:1177539/1‑40 (MQ=255)
acaTGAACAGCACTTCTTATTTCTATAACCACTccagcca > 1:1170920/1‑40 (MQ=255)
acaTGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAAc > 1:3051946/1‑55 (MQ=255)
acaTGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAACCGTCACGGCGGaa > 1:5126154/1‑68 (MQ=255)
acaTGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAACCGTCACGGCGGaa > 1:2999371/1‑68 (MQ=255)
caTGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAACCGTCAcg < 1:3812713/61‑1 (MQ=255)
caTGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAACCGTCACGGCGGAAGAGt < 1:3012132/71‑1 (MQ=255)
|
AAAACTGCGTCCGCAAACCGGCTGGCAGCCGCTGGCGTTTGCCCTTGACTGGCAGCGTCCGGCGCGTCACATGAACAGCACTTCTTATTTCTATAACCACTCCAGCCAGTGGCGTTATGAAACCGTCACGGCGGAAGAGT > minE/833288‑833427
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
