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 |
|
A5 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,966,215 |
T→G |
17.6% |
K292N (AAA→AAC) |
ptsP ← |
fused PEP‑protein phosphotransferase (enzyme I) of PTS system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,966,215 | 0 | T | G | 17.6%
| 92.7
/ 29.8
| 57 | K292N (AAA→AAC) | ptsP | fused PEP‑protein phosphotransferase (enzyme I) of PTS system |
| Reads supporting (aligned to +/- strand): ref base T (13/34); new base G (3/7); total (16/41) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCTTGATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCC > W3110S.gb/2966147‑2966281
|
ccTTGATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCttt < 1:2545790/71‑1 (MQ=255)
ccTTGATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCttt < 1:2364255/71‑1 (MQ=255)
ttGATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCttt > 1:2195826/1‑69 (MQ=255)
aTTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTgaga > 1:734809/1‑70 (MQ=255)
aGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATatt > 1:3640474/1‑69 (MQ=255)
gCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGt < 1:1214890/70‑1 (MQ=255)
gTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTAt < 1:2957532/71‑1 (MQ=255)
gTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTAt < 1:262105/71‑1 (MQ=255)
gTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTAt < 1:1392910/71‑1 (MQ=255)
atcaAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCa < 1:896171/70‑1 (MQ=255)
atcaAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCAc > 1:3989988/1‑71 (MQ=255)
atcaAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCAc > 1:3406014/1‑71 (MQ=255)
tcaAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACt < 1:2959383/71‑1 (MQ=255)
aaGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTga < 1:3857874/56‑1 (MQ=255)
aaGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACt > 1:4117336/1‑69 (MQ=255)
aaGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACt > 1:2343318/1‑69 (MQ=255)
aGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAg < 1:1580779/71‑1 (MQ=255)
gATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAgc < 1:4169272/71‑1 (MQ=255)
aTGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAgcg < 1:271226/71‑1 (MQ=255)
aaaCAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAgcgc < 1:1883022/69‑1 (MQ=255)
aaCAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCttt < 1:1424711/47‑1 (MQ=255)
aaCAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCttt < 1:1305468/47‑1 (MQ=255)
aaCAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCa > 1:3929001/1‑60 (MQ=255)
cAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCa > 1:4369707/1‑70 (MQ=255)
aGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACt < 1:3870948/59‑1 (MQ=255)
aGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCa < 1:4133556/69‑1 (MQ=255)
gCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAAc < 1:2516426/71‑1 (MQ=255)
cAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAgcg > 1:4105980/1‑62 (MQ=255)
cAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAAc > 1:3532856/1‑70 (MQ=255)
cAATCGCTGACCCAGCGCAAGTAAATCGCCAGCCCGCTCTTTGAGATAGTTAT‑ACTTAGCGCGGCAAACTg < 1:2504195/71‑1 (MQ=255)
aaTCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTg < 1:517807/71‑1 (MQ=255)
aTCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGt < 1:1993432/71‑1 (MQ=255)
tCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCa < 1:955225/64‑1 (MQ=255)
tCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGtt < 1:4435283/71‑1 (MQ=255)
tCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGt < 1:4472393/70‑1 (MQ=255)
gCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCg < 1:4116624/71‑1 (MQ=255)
cTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATc < 1:2420473/48‑1 (MQ=255)
aCCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCg > 1:3981269/1‑67 (MQ=255)
aCCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCaa < 1:2604348/71‑1 (MQ=255)
aCCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCa > 1:976517/1‑70 (MQ=255)
cccAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCaaa < 1:3969866/71‑1 (MQ=255)
ccAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCa < 1:3909372/44‑1 (MQ=255)
cAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAAtt < 1:1980837/71‑1 (MQ=255)
aGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAAttt > 1:1590963/1‑71 (MQ=255)
aGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAAttt > 1:1585709/1‑71 (MQ=255)
aGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAAttt < 1:1996102/71‑1 (MQ=255)
gcgcACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTg < 1:3421364/58‑1 (MQ=255)
cgcACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGtt > 1:120580/1‑59 (MQ=255)
gcACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTc < 1:4340214/71‑1 (MQ=255)
cGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAAt < 1:1249127/71‑1 (MQ=255)
gTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACt < 1:2450207/37‑1 (MQ=255)
gTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATg < 1:1181109/71‑1 (MQ=255)
tAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGa < 1:2455823/71‑1 (MQ=255)
aaTCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCGAATTTTTCAATGAcc < 1:1742786/71‑1 (MQ=255)
aaTCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCa < 1:1600479/65‑1 (MQ=255)
tCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCaa < 1:789908/64‑1 (MQ=255)
tCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGTCCGt < 1:2702831/71‑1 (MQ=255)
gCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGtt < 1:1709456/70‑1 (MQ=255)
gCCAGCCCGCTCTTTGACATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGttt > 1:3765006/1‑71 (MQ=255)
gCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGttt < 1:1425888/71‑1 (MQ=255)
cAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGtt < 1:1061405/45‑1 (MQ=255)
cGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGtttt < 1:285844/65‑1 (MQ=255)
ctctTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGcc < 1:2542343/70‑1 (MQ=255)
tctTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGc > 1:2146050/1‑68 (MQ=255)
|
CCTTGATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCC > W3110S.gb/2966147‑2966281
|
| 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
