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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,092,715 |
G→A |
33.5% |
A382V (GCG→GTG) |
gntT ← |
gluconate transporter, high‑affinity GNT I system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,092,715 | 0 | G | A | 33.5%
| 41.4
/ 32.8
| 39 | A382V (GCG→GTG) | gntT | gluconate transporter, high‑affinity GNT I system |
| Reads supporting (aligned to +/- strand): ref base G (12/13); new base A (3/10); total (15/24) |
| Fisher's exact test for biased strand distribution p-value = 1.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.73e-01 |
AAAGTACTCTTTGAACAGCCAGAAGCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATACCACCCGCAGTG > W3110S.gb/4092645‑4092783
|
aaaGTACTCTTTGAACAGCCAGAAGCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCg > 1:3111967/1‑71 (MQ=255)
tttGAACAGCCAGAAGCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCa > 1:3923796/1‑71 (MQ=255)
tttGAACAGCCAGAAGCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCa > 1:2905085/1‑71 (MQ=255)
ttGAACAGCCAGAAGCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAAc < 1:4080585/68‑1 (MQ=255)
aGCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCACAATAACCATCAGCTCCGGGCt < 1:904097/70‑1 (MQ=255)
gCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCACAATaa > 1:3588373/1‑53 (MQ=255)
ccGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGc < 1:3600405/46‑1 (MQ=255)
ccGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGc < 1:31233/46‑1 (MQ=255)
ccGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAaca < 1:3020279/71‑1 (MQ=255)
cGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGc < 1:367844/45‑1 (MQ=255)
aTCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCcg > 1:3191576/1‑71 (MQ=255)
tCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCAt > 1:1580406/1‑50 (MQ=255)
gTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCcgtcg > 1:2258377/1‑71 (MQ=255)
ttCACATGAGAGAAAATCACACTACCGGAACCAACCACAATAACCATCAGCTCCGGGCt < 1:951177/59‑1 (MQ=255)
ttCACATGAGAGAAAATCACACTACCGGAACCAACCACAATAACCATCAGCTCCGGGCt < 1:1020949/59‑1 (MQ=255)
ttCACATGAGAGAAAATCACACTACCGGAACCAACCACAATAACCATCAGCTCCGGGCTAaca < 1:319442/63‑1 (MQ=255)
caTGAGAGAAAATCACACTACCGGAACCAACCTCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCa < 1:3943234/71‑1 (MQ=255)
caTGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCa < 1:1380573/71‑1 (MQ=255)
caTGAGAGAAAATCACACTACCGGAACCAACCACAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCa < 1:2479932/71‑1 (MQ=255)
agagagaAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTaa > 1:2001021/2‑55 (MQ=255)
agagaAAATCACACTACCGGAACCAACCGCAATAACCATc > 1:3729156/1‑40 (MQ=255)
agaAAATCACACTACCGGAACCAACCACAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGc < 1:228019/71‑1 (MQ=255)
tCACACTACCGGAACCAACCACAATAACCATCAGCTCCGGGCt < 1:2012641/43‑1 (MQ=255)
tCACACTACCGGAACCAACCACAATAACCATCAGCTCCGGGCt < 1:427018/43‑1 (MQ=255)
acacTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCcgc < 1:3171782/71‑1 (MQ=255)
acacTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCcgc < 1:1419773/71‑1 (MQ=255)
acacTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCcgc < 1:655122/71‑1 (MQ=255)
cTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGAt < 1:2454985/71‑1 (MQ=255)
cTACCGGAACCAACCACAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGc < 1:2049097/53‑1 (MQ=255)
cTACCGGAACCAACCACAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGc < 1:1696099/53‑1 (MQ=255)
cTACCGGAACCAACCACAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGa > 1:2166050/1‑70 (MQ=255)
aCCGGAACCAACCACAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATac > 1:1651007/1‑71 (MQ=255)
ggAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTg > 1:1200409/1‑59 (MQ=255)
ggAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATaccac > 1:1765763/1‑71 (MQ=255)
ggAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATaccac > 1:843492/1‑71 (MQ=255)
ccaaccGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGc > 1:1146656/1‑56 (MQ=255)
ccaaccGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATaccac > 1:3943528/1‑67 (MQ=255)
accGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATACCACCCGCAGt < 1:3751811/71‑1 (MQ=255)
ccGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATACCACCCGCAGTg < 1:3900689/71‑1 (MQ=255)
ccGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATACCACCCGCAGTg < 1:3803592/71‑1 (MQ=255)
|
AAAGTACTCTTTGAACAGCCAGAAGCCCGGATCGTTCACATGAGAGAAAATCACACTACCGGAACCAACCGCAATAACCATCAGCTCCGGGCTAACACCCGTCGTTGCAATCAGCGGTGCCGCGATACCACCCGCAGTG > W3110S.gb/4092645‑4092783
|
| 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
