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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
756,802 |
T→C |
74.8% |
T76T (ACT→ACC) |
lolE → |
outer membrane‑specific lipoprotein transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 756,802 | 0 | T | C | 74.8%
| 96.4
/ 26.8
| 79 | T76T (ACT→ACC) | lolE | outer membrane‑specific lipoprotein transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (9/11); new base C (30/29); total (39/40) |
| Fisher's exact test for biased strand distribution p-value = 7.97e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.47e-01 |
ACAACCGTATTCTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTGGATCACGTGCAAAAAGTGCCGGGTATT > minE/756741‑756847
|
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGATCAACTGGc > 1:1962097/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:3205318/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:1851772/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:1726757/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:1604241/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:2480785/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:2485396/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:2496292/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:3097310/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:3348333/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:3369553/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:3395298/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:431358/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:1370479/3‑69 (MQ=255)
ataacCGCATTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGc > 1:643823/3‑69 (MQ=255)
caacCGTATTCTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGc > 1:92325/1‑68 (MQ=255)
caacCGTATTCTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGc > 1:1641517/1‑68 (MQ=255)
caacCGTATTCTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGc > 1:535677/1‑68 (MQ=255)
caacCGTATTCTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGc > 1:2692861/1‑68 (MQ=255)
caacCGTATTCTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGc > 1:463153/1‑68 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAg > 1:574101/2‑68 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:48117/2‑69 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:573864/2‑69 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:2169032/2‑69 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:2000885/2‑69 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:799365/2‑69 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:1859803/2‑69 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:2176237/2‑69 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:1412418/2‑69 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:1766529/2‑69 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:1446554/2‑69 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:118646/2‑69 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:1194334/2‑69 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:1549970/2‑69 (MQ=255)
caTTCTGGCGGTAGTACCGCACGGTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGc > 1:1268327/2‑69 (MQ=255)
cTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACt > 1:1086869/1‑68 (MQ=255)
cTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTg > 1:1828168/1‑69 (MQ=255)
cTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTg < 1:3068324/69‑1 (MQ=255)
cTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTg < 1:2940535/69‑1 (MQ=255)
cTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTg > 1:352955/1‑69 (MQ=255)
cTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTg < 1:386464/69‑1 (MQ=255)
cTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTg < 1:254092/69‑1 (MQ=255)
cTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTg < 1:2415337/69‑1 (MQ=255)
cTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTg < 1:1758355/69‑1 (MQ=255)
cTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTg < 1:1148013/69‑1 (MQ=255)
cTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTg < 1:1599146/69‑1 (MQ=255)
cTGGCGGTAGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTg > 1:351712/1‑69 (MQ=255)
tGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTg < 1:1576130/68‑1 (MQ=255)
gTGAAATTGAGGCGGTAGATCAGCCGTTGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGc < 1:2656106/69‑1 (MQ=255)
gTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGTAAGTGc < 1:439973/69‑1 (MQ=255)
gTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGc < 1:353259/69‑1 (MQ=255)
gTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGc < 1:1134456/69‑1 (MQ=255)
gTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGc < 1:1571300/69‑1 (MQ=255)
gTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGc < 1:2208094/69‑1 (MQ=255)
gTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGc < 1:3147865/69‑1 (MQ=255)
gTGAAATTGAGGCGGTAGATCAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGc < 1:1442706/69‑1 (MQ=255)
aTCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTGGATCACGTGCAAAAAGTGCCggg < 1:1013386/68‑1 (MQ=255)
aTCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTGGATCACGTGCAAAAAGTGCCggg < 1:3047302/68‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:1285697/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:1239736/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:1775642/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:1354342/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:1018152/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:1423956/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:2957536/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:1534650/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:2659632/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:2655149/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:2600867/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:2419307/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:2327068/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:2194064/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:2064549/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:1726109/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:1734598/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:1902775/57‑1 (MQ=255)
cAGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:1862054/57‑1 (MQ=255)
aGCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:2132318/56‑1 (MQ=255)
gCCGTGGACCAACTGGCAGGAAGCACTGGATAACGTGCAGAAAGTGCCGGGCAtt < 1:487119/55‑1 (MQ=255)
|
ACAACCGTATTCTGGCGGTGGTGCCGCATGGTGAAATCGAGGCGGTGGATCAGCCGTGGACTAACTGGCAGGAAGCACTGGATCACGTGCAAAAAGTGCCGGGTATT > minE/756741‑756847
|
| 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
