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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,845,199 |
G→T |
58.8% |
P266T (CCG→ACG) |
cysD ← |
sulfate adenylyltransferase, subunit 2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,845,199 | 0 | G | T | 58.8%
| 0.2
/ 106.9
| 68 | P266T (CCG→ACG) | cysD | sulfate adenylyltransferase, subunit 2 |
| Reads supporting (aligned to +/- strand): ref base G (13/15); new base T (29/11); total (42/26) |
| Fisher's exact test for biased strand distribution p-value = 4.27e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.31e-01 |
CGCGGTCAATCACGCGGCCCTGACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGCCCAGCGTACGGAAACGCAC > minE/1845133‑1845265
|
cgcgGTCAATCACGCGGCCCTGACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAgt > 1:3995339/1‑71 (MQ=255)
cgcgGTCAATCACGCGGCCCTGACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAgt > 1:1736184/1‑71 (MQ=255)
aaTCACGCGGCCCTGACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTtgtg < 1:3993707/71‑1 (MQ=255)
tCACGCGGCCCTGACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTtg > 1:1865864/1‑67 (MQ=255)
tCACGCGGCCCTGACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCa > 1:4055338/1‑71 (MQ=255)
gcgGCCCTGACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTg < 1:651525/71‑1 (MQ=255)
gcgGCCCTGACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTg < 1:537581/71‑1 (MQ=255)
gcgGCCCTGACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTg < 1:3843774/71‑1 (MQ=255)
gACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCcacc > 1:1509455/1‑71 (MQ=255)
gACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCcacc > 1:1608494/1‑71 (MQ=255)
gACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCcacc > 1:3611259/1‑71 (MQ=255)
gACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCcac > 1:1567048/1‑70 (MQ=255)
gACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCcac > 1:3978301/1‑70 (MQ=255)
gACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCcac > 1:2790119/1‑70 (MQ=255)
gACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCca > 1:3341279/1‑69 (MQ=255)
gACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCca > 1:1177856/1‑69 (MQ=255)
gACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCcacc > 1:848908/1‑71 (MQ=255)
gACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCcac > 1:1732141/1‑70 (MQ=255)
aCGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCcaccg > 1:3531633/1‑71 (MQ=255)
cGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCcaccgc < 1:3953593/71‑1 (MQ=255)
ttCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAgtgt < 1:2954971/48‑1 (MQ=255)
ttCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAgtgt < 1:3424284/48‑1 (MQ=255)
tCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCcaccgcacc > 1:1621804/1‑71 (MQ=255)
cACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCcaccgcacc < 1:2412911/70‑1 (MQ=255)
tggtggtggAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCAttt < 1:2952906/53‑1 (MQ=255)
tggtggtggAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCAttt < 1:2249635/53‑1 (MQ=255)
tggtggtggAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCAttt < 1:3479560/53‑1 (MQ=255)
tggtggtggAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCAttt < 1:2607283/53‑1 (MQ=255)
tggtggtggAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCAttt < 1:695844/53‑1 (MQ=255)
tggtggtggAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGt > 1:3778542/1‑70 (MQ=255)
tggtggtggAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCAttt < 1:1123/53‑1 (MQ=255)
gtggtggAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAg > 1:2354294/1‑71 (MQ=255)
gtggtggAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAg > 1:2666561/1‑71 (MQ=255)
gtggtggAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAg > 1:1783013/1‑71 (MQ=255)
gtggAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCgg > 1:567843/1‑71 (MQ=255)
gtggAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCgg > 1:2268850/1‑71 (MQ=255)
tggAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGc < 1:3006529/71‑1 (MQ=255)
tggAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGc < 1:206057/71‑1 (MQ=255)
tggAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGc < 1:2670776/71‑1 (MQ=255)
ggAAACCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCa < 1:207666/43‑1 (MQ=255)
ggAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGc > 1:1423812/1‑70 (MQ=255)
ggAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGc > 1:942381/1‑70 (MQ=255)
aCCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCcag > 1:1456385/1‑69 (MQ=255)
aCCAGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCcag > 1:1252290/1‑69 (MQ=255)
aGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCcagcaggc < 1:2180930/71‑3 (MQ=255)
aGCATCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGcc < 1:3532325/71‑1 (MQ=255)
aTCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGCCCAg > 1:988109/1‑71 (MQ=255)
aTCTCTTCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGCCCAg > 1:2159113/1‑71 (MQ=255)
aTCTCTTCGATGATTTCCGTCAGTGTTTGTACATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGCCCAg > 1:4118037/1‑71 (MQ=255)
tctcTTCGATGATTTCCGTCTGTGTTTGTGCATTTGa > 1:3315762/1‑37 (MQ=37)
tctcTTCGATGATTTCCGTCAGTGTTTGTGCATTTGa > 1:2599210/1‑37 (MQ=255)
tctcTTCGATGATTTCCGTCAGTGTTTGTGCATTTGa > 1:3226304/1‑37 (MQ=255)
tctcTTCGATGATTTCCGTCAGTGTTTGTGCATTTGa > 1:1650191/1‑37 (MQ=255)
ctTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCcaccg > 1:3150209/1‑42 (MQ=255)
ttCGATGATTTCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTAAGCGGCCAGGAGCCCAGCg < 1:2257988/68‑1 (MQ=255)
ttCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGCCCAGCGt < 1:3558351/69‑1 (MQ=255)
ttCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGCCCAGCGt < 1:111917/69‑1 (MQ=255)
ttCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGCCCAGCGt < 1:1999958/69‑1 (MQ=255)
ttCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGCCCAGCGt < 1:553640/69‑1 (MQ=255)
ttCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGAGGCCAGCAGCCCAGCGt < 1:1524598/69‑1 (MQ=255)
cGATGATTTCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGCCCAg > 1:1163989/1‑64 (MQ=255)
cGATGATTTCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGCCCAGCGTACg > 1:2748069/1‑70 (MQ=255)
cGATGATTTCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGCCCAGCGTACg > 1:3408517/1‑70 (MQ=255)
cGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCca > 1:1161504/1‑55 (MQ=255)
tCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCcagca > 1:1033795/1‑50 (MQ=255)
tCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCcagca > 1:2000910/1‑50 (MQ=255)
tCCGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCcagca > 1:2402332/1‑50 (MQ=255)
ccGTCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGCCCAGCGTACGGAAACGCAc > 1:1871381/1‑70 (MQ=255)
|
CGCGGTCAATCACGCGGCCCTGACGTTCACTGGTGGTGGAAACCAGCATCTCTTCGATGATTTCCGGCAGTGTTTGTGCATTTGACTCCACCGCACCGGTCAGCGGCCAGCAGCCCAGCGTACGGAAACGCAC > minE/1845133‑1845265
|
| 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
