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 |
2,159,306 |
T→C |
53.4% |
Y168Y (TAT→TAC) |
ispB → |
octaprenyl diphosphate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,159,306 | 0 | T | C | 53.4%
| 10.1
/ 65.0
| 80 | Y168Y (TAT→TAC) | ispB | octaprenyl diphosphate synthase |
| Reads supporting (aligned to +/- strand): ref base T (24/13); new base C (22/20); total (47/33) |
| Fisher's exact test for biased strand distribution p-value = 3.61e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACGATCCGGACATCACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTCTGGCTGGCTGTACG > minE/2159262‑2159369
|
aaCGATCCGGACATCACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGt > 1:1028377/1‑64 (MQ=255)
aaCGATCCGGACATCACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAg > 1:2773112/1‑69 (MQ=255)
aaCGATCCGGACATCACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAg > 1:1002856/1‑69 (MQ=255)
aaCGATCCGGACATCACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAg > 1:2725862/1‑69 (MQ=255)
aaCGATCCGGACATCACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAg > 1:1423846/1‑69 (MQ=255)
tCCGGACATCACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTg > 1:364071/1‑68 (MQ=255)
ccGGACATCACTGAAGAAAACTACATTCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:3010681/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGcc > 1:912414/1‑69 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGcc > 1:53109/1‑69 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:2128005/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:2970614/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:311310/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:3198495/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:3264618/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:259015/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:2534863/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:3265777/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:3311624/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:335575/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:3410466/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:2146381/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:731390/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:723548/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:1803859/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:1401893/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:1780156/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGtt < 1:1833970/59‑1 (MQ=255)
ccGGACATCACTGAAGAAAACTACATGCGCGTTATCTACAGCAAGACTGAGCGTCTGtt < 1:1396449/59‑1 (MQ=255)
ccGGACATAACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAAcc > 1:321682/1‑48 (MQ=255)
aTCACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAg < 1:1590495/69‑1 (MQ=255)
aTCACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAg < 1:3055218/69‑1 (MQ=255)
aTCACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAg < 1:3089133/69‑1 (MQ=255)
cACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTg < 1:3429543/49‑1 (MQ=255)
cACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTg < 1:1833737/49‑1 (MQ=255)
aCTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAg > 1:622369/1‑66 (MQ=255)
gaagaaAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTcc > 1:2588689/1‑69 (MQ=255)
gaagaaAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTcc > 1:1775251/1‑69 (MQ=255)
gaaAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCggg > 1:2197288/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:3285346/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:469184/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:698735/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:710042/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:3413234/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:3136097/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:1308805/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:402494/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:1422769/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:1433622/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:1232388/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:1124293/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:1151930/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:1333437/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:2675892/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:154484/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:1965989/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:2353837/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:2309855/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:2937490/1‑69 (MQ=255)
cTACATGCGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:2112398/1‑69 (MQ=255)
cTACATGCGCGTTATCTAAAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:613303/1‑69 (MQ=255)
cTACATACGCGTTATCTACAGCAAGACTGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTct > 1:441200/1‑69 (MQ=255)
aCATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGc < 1:938797/46‑1 (MQ=255)
tGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTctggct < 1:3427795/68‑1 (MQ=255)
tGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTctggct < 1:2389233/68‑1 (MQ=255)
tGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTctggct < 1:3121982/68‑1 (MQ=255)
tGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTctggct < 1:681942/68‑1 (MQ=255)
aTCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCggg > 1:2743183/1‑51 (MQ=255)
aTCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGAt > 1:1926673/1‑53 (MQ=255)
aTCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGAt > 1:1354442/1‑53 (MQ=255)
aTCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGAt > 1:1719751/1‑53 (MQ=255)
aTCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGAt > 1:2497647/1‑53 (MQ=255)
aTCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGAt > 1:1226861/1‑53 (MQ=255)
aTCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTCTGgctggctg < 1:2258562/65‑1 (MQ=255)
aTCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTCTGgctggctg < 1:241508/65‑1 (MQ=255)
aTCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTCTGgctggctg < 1:616624/65‑1 (MQ=255)
aTCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTCTGGCTGGCTGTACg > 1:343077/1‑69 (MQ=255)
aTCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTCTGGCTGGCTGTACg > 1:461385/1‑69 (MQ=255)
aTCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTCTGGCTGGCTGTACg > 1:3252233/1‑69 (MQ=255)
aTCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTCTGGCTGGCTGTACg > 1:3124867/1‑69 (MQ=255)
aTCTATAGCAAAACAGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGAt > 1:2919305/1‑53 (MQ=255)
|
AACGATCCGGACATCACTGAAGAAAACTACATGCGCGTTATCTATAGCAAAACCGCGCGTCTGTTTGAGGCTGCCGCGCAGTGTTCCGGGATTCTGGCTGGCTGTACG > minE/2159262‑2159369
|
| 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
