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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,966,215 |
T→G |
42.9% |
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 | 42.9%
| 3.5
/ 100.6
| 63 | K292N (AAA→AAC) | ptsP | fused PEP‑protein phosphotransferase (enzyme I) of PTS system |
| Reads supporting (aligned to +/- strand): ref base T (20/16); new base G (14/13); total (34/29) |
| Fisher's exact test for biased strand distribution p-value = 8.03e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCTTGATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCAC > W3110S.gb/2966147‑2966284
|
ccTTGATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCttt < 1:2678344/71‑1 (MQ=255)
ccTTGATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCttt < 1:2813241/71‑1 (MQ=255)
ccTTGATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCttt < 1:4198410/71‑1 (MQ=255)
ccTTGATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCttt < 1:3619194/71‑1 (MQ=255)
ccTTGATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCgtt > 1:5109901/1‑71 (MQ=255)
ttGATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCttt < 1:1859181/69‑1 (MQ=255)
gATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCgtt > 1:1599089/1‑67 (MQ=255)
gATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCgtt > 1:1590126/1‑67 (MQ=255)
gATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCgtt > 1:2274688/1‑67 (MQ=255)
gATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTgag < 1:3945683/70‑1 (MQ=255)
aTTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTga < 1:414504/68‑1 (MQ=255)
aTTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTga < 1:411332/68‑1 (MQ=255)
aGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGt > 1:4477842/1‑71 (MQ=255)
atcaAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCAc > 1:3996902/1‑71 (MQ=255)
atcaAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCAc > 1:3138633/1‑71 (MQ=255)
caAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCAc > 1:4082246/1‑69 (MQ=255)
caAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACt > 1:952115/1‑70 (MQ=255)
caAGATGAAACAGCAATCGCTGACACAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACt > 1:3718437/1‑70 (MQ=255)
aaGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACtt < 1:2292755/70‑1 (MQ=255)
aGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACTTAg > 1:4564360/1‑71 (MQ=255)
tGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAgcgc < 1:1410078/71‑1 (MQ=255)
aCAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCa < 1:2725941/71‑1 (MQ=255)
gCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGtt < 1:4454529/52‑1 (MQ=255)
gCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCaaa < 1:4809324/70‑1 (MQ=255)
gCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCaa < 1:484888/69‑1 (MQ=255)
gCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCAc < 1:347808/57‑1 (MQ=255)
cAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATa > 1:2614841/1‑48 (MQ=255)
tCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGt < 1:2357338/70‑1 (MQ=255)
tCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAg < 1:2122348/46‑1 (MQ=255)
tCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAg < 1:1809917/46‑1 (MQ=255)
tCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAg < 1:3216040/46‑1 (MQ=255)
tCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCa < 1:1177116/64‑1 (MQ=255)
tCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCa < 1:1222282/64‑1 (MQ=255)
cGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTAt > 1:2907087/1‑49 (MQ=255)
gCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCg > 1:1873541/1‑71 (MQ=255)
gCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCg > 1:4461100/1‑71 (MQ=255)
aCCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGt < 1:48340/41‑1 (MQ=255)
aCCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGt < 1:1790646/41‑1 (MQ=255)
cAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATa > 1:1856028/1‑36 (MQ=255)
aGCGCACGTAAATCGCCCGCCCGCTCTTTGAGATAGTTa > 1:1388126/1‑39 (MQ=255)
aGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAAttt > 1:226852/1‑71 (MQ=255)
gcgcACGTAAATCGCCAGCCCTCTCGTTGAGATAGTTATCACTTAGCGCGGCAAAc < 1:4867296/56‑1 (MQ=255)
gcgcACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTg > 1:3421806/1‑58 (MQ=255)
gcgcACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTg > 1:1829421/1‑58 (MQ=255)
gcgcACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTg > 1:1570842/1‑58 (MQ=255)
gcgcACGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAAtttt < 1:2086402/71‑1 (MQ=255)
cGTAAATCGCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAAt > 1:1471991/1‑71 (MQ=255)
gTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTa > 1:2785107/1‑39 (MQ=255)
tAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCaaa > 1:2172167/1‑48 (MQ=255)
aaaTCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAgcg > 1:263824/1‑40 (MQ=255)
aaaTCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCaaa > 1:2210858/1‑47 (MQ=255)
aaaTCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTc > 1:4320741/1‑65 (MQ=255)
aaaTCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTc > 1:4884222/1‑65 (MQ=255)
aaaTCGCCAGCCCGCTCTTAGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCaa > 1:267340/1‑67 (MQ=255)
aTCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCg > 1:4207276/1‑71 (MQ=255)
tCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGa > 1:2885023/1‑67 (MQ=255)
cGCCAGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGtt > 1:4200784/1‑71 (MQ=255)
gCCAGCCCGCTCTTTGAGATAGTTATCAGTTAGCGCGGCAAACTGTTGGGCAAATTTTTCaa > 1:3579174/1‑62 (MQ=255)
gCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCGAATTTTTCAATGACCGtt < 1:3647056/70‑1 (MQ=255)
ccAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGt < 1:3380279/45‑1 (MQ=255)
aGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTc > 1:4741888/1‑45 (MQ=255)
aGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTc > 1:3144826/1‑45 (MQ=255)
aGCCCGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTa < 1:1020146/71‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTc < 1:2985364/56‑1 (MQ=255)
gCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGttt > 1:5034760/1‑67 (MQ=255)
cccGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTAc < 1:2397225/70‑1 (MQ=255)
cccGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCa > 1:3183940/1‑56 (MQ=255)
cccGCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCa > 1:2036931/1‑56 (MQ=255)
gCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAAt < 1:1851529/47‑1 (MQ=255)
gCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAAt < 1:4849408/47‑1 (MQ=255)
gCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAAt < 1:2901193/47‑1 (MQ=255)
gCTCGTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGt < 1:4515051/61‑1 (MQ=255)
ctTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCAc > 1:2379535/1‑71 (MQ=255)
ctTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCAc > 1:497973/1‑71 (MQ=255)
tttGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTc < 1:4202717/48‑1 (MQ=255)
|
CCTTGATTAGCGTCATCAAGATGAAACAGCAATCGCTGACCCAGCGCACGTAAATCGCCAGCCCGCTCTTTGAGATAGTTATCACTTAGCGCGGCAAACTGTTCGGCAAATTTTTCAATGACCGTTTTTACCGCCCAC > W3110S.gb/2966147‑2966284
|
| 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
