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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
913,779 |
A→G |
68.1% |
L153P (CTG→CCG) |
hcp ← |
hybrid‑cluster [4Fe‑2S‑2O] protein in anaerobic terminal reductases |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 913,779 | 0 | A | G | 68.1%
| 59.7
/ 38.7
| 47 | L153P (CTG→CCG) | hcp | hybrid‑cluster [4Fe‑2S‑2O] protein in anaerobic terminal reductases |
| Reads supporting (aligned to +/- strand): ref base A (10/5); new base G (18/14); total (28/19) |
| Fisher's exact test for biased strand distribution p-value = 5.42e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.49e-01 |
ACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTC > W3110S.gb/913718‑913837
|
aCCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAg > 1:481889/1‑69 (MQ=255)
aCCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAg > 1:485843/1‑69 (MQ=255)
aCCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAg > 1:1867361/1‑69 (MQ=255)
aCCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAg > 1:1909547/1‑69 (MQ=255)
aCCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAg > 1:3395531/1‑69 (MQ=255)
aaCATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCa > 1:2927200/1‑62 (MQ=255)
aaCATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCgag < 1:3403422/69‑1 (MQ=255)
aTGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAAt > 1:3297211/1‑69 (MQ=255)
aTGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAAt > 1:2492769/1‑69 (MQ=255)
cgcgTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGtt > 1:707345/1‑69 (MQ=255)
cgcgTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGtt > 1:3022500/1‑69 (MQ=255)
cgcgTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGtt > 1:2976308/1‑69 (MQ=255)
ttCCATATAGGCCGCCTCACCTTTCAGGCCATACAGGCACAGCGGATGCAGGCCGAGAATGTTTTCGcc > 1:22534/1‑69 (MQ=255)
ttCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGcc > 1:1924822/1‑69 (MQ=255)
tCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGcc < 1:1942751/68‑1 (MQ=255)
taGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATcgcc > 1:2064943/1‑69 (MQ=255)
taGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATcgcc > 1:459107/1‑69 (MQ=255)
cgccgcACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCttt < 1:1942977/69‑1 (MQ=255)
cgccgcACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCttt < 1:2273641/69‑1 (MQ=255)
ccgcACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTa < 1:754397/68‑1 (MQ=255)
cgcACCTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATc < 1:3153293/69‑1 (MQ=255)
gcACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGtt < 1:856009/47‑1 (MQ=255)
cTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt < 1:392398/69‑1 (MQ=255)
cTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt < 1:608591/69‑1 (MQ=255)
cTTTCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt < 1:700193/69‑1 (MQ=255)
cTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt < 1:68594/69‑1 (MQ=255)
ttCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTa > 1:688626/1‑69 (MQ=255)
ttCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTa > 1:903143/1‑69 (MQ=255)
tCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAg > 1:926669/1‑69 (MQ=255)
tCAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAg > 1:1750975/1‑69 (MQ=255)
cgggCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt < 1:2552826/63‑1 (MQ=255)
cAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt > 1:213941/1‑65 (MQ=255)
cAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt < 1:1145596/65‑1 (MQ=255)
cAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt > 1:80149/1‑65 (MQ=255)
cAGGCCATACAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGt < 1:2216148/65‑1 (MQ=255)
aCAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTAt > 1:913188/1‑51 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAAt > 1:642242/1‑39 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTa < 1:2477253/64‑1 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTa < 1:915163/64‑1 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAAtt > 1:2056393/1‑68 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAAt < 1:3488343/67‑1 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTc < 1:2435653/69‑1 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTc < 1:1829976/69‑1 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTc > 1:2789228/1‑69 (MQ=255)
cAGGCACAGCGGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTc > 1:1624123/1‑69 (MQ=255)
cAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAAtt > 1:469378/1‑68 (MQ=255)
cAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAAtt > 1:2898301/1‑68 (MQ=255)
|
ACCGAGAACATGCGCGTGTTCCATATAGGCCGCCGCACCTTTCAGGCCATACAGGCACAGCAGACGCAGGCCGAGAATGTTTTCGCCAATCGCCGCTTTATCTTTGTTAGGGGTAAATTC > W3110S.gb/913718‑913837
|
| 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
