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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,155,591 |
T→A |
9.7% |
intergenic (+102/+84) |
dacB → / ← obgE |
D‑alanyl‑D‑alanine carboxypeptidase/GTPase involved in cell partioning and DNA repair |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,155,591 | 0 | T | A | 9.7%
| 166.6
/ 8.2
| 65 | intergenic (+102/+84) | dacB/obgE | D‑alanyl‑D‑alanine carboxypeptidase/GTPase involved in cell partioning and DNA repair |
| Reads supporting (aligned to +/- strand): ref base T (38/19); new base A (4/2); total (43/22) |
| 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 |
TCAGATTATTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGT > minE/2155522‑2155661
|
acAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATc > 1:1908706/2‑71 (MQ=255)
cAGATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATc < 1:2314111/70‑1 (MQ=255)
cAGATTATTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCg > 1:320434/1‑71 (MQ=255)
cAGATTATTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCg > 1:556950/1‑71 (MQ=255)
gATTGTTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTg > 1:986703/1‑71 (MQ=255)
ttgttGACAACGTACGCATTGTTCATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAACAGTGCa < 1:3369653/68‑1 (MQ=1)
ttGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAAt > 1:653638/1‑71 (MQ=255)
ttGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCaaa < 1:2719167/70‑1 (MQ=255)
tGACAAAGTGCGCGTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAGCGTGCAAAtt > 1:178360/1‑71 (MQ=255)
aCAAATTGCGCTTTATGT‑TGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCaa > 1:1098698/1‑71 (MQ=11)
aCAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAAtt < 1:1707583/69‑1 (MQ=39)
acaGTGCGCTTTGTTTATGCCAGATGCGGCGTAAACGCCTTATCCGGCCTACAAATTCTTCCAAATTCaat < 1:3620551/69‑2 (MQ=11)
aaaGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCaa > 1:2252239/1‑70 (MQ=25)
aaaGTGCGCTTTGTTTATGCCGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCaa > 1:2247584/1‑70 (MQ=25)
aaaGTGCGCTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCaa > 1:1649628/1‑70 (MQ=35)
aaaGTGCGCTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCaa > 1:1840022/1‑70 (MQ=35)
gTGCGCTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACata < 1:1502857/71‑1 (MQ=39)
tGCGCTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACatat > 1:3163074/1‑71 (MQ=39)
cgcTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTg > 1:592977/1‑71 (MQ=39)
tttATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATtc < 1:112347/70‑1 (MQ=255)
tATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTc‑tct > 1:160016/1‑71 (MQ=255)
ccGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAAt > 1:1427629/1‑47 (MQ=38)
ccGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTa < 1:757168/71‑1 (MQ=255)
cGGATGCGGCGTTAACGCCTTATCCGGCCTACAAAATCGTGCAAATTc < 1:3889732/48‑1 (MQ=255)
ggATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAg < 1:2820287/70‑1 (MQ=255)
gATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAgg > 1:378758/1‑71 (MQ=11)
tGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCt > 1:2547970/1‑71 (MQ=255)
gcggcgTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCt > 1:1473641/1‑70 (MQ=255)
ggcgTAAACGCCTTATCCGGCCTACAAAATCGTGCAAAtt > 1:924232/1‑40 (MQ=40)
ggcgTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGa > 1:1435700/1‑70 (MQ=255)
ggcgTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGAt < 1:2525497/71‑1 (MQ=255)
ggcgTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGa > 1:3172492/1‑71 (MQ=14)
cgTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTg < 1:204757/48‑1 (MQ=255)
cgTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATaa < 1:1881545/71‑1 (MQ=255)
gTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTc > 1:1065880/1‑38 (MQ=40)
aaCGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGc > 1:3349055/1‑60 (MQ=255)
aaCGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCg > 1:2966096/1‑70 (MQ=255)
aaCGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCg > 1:1649692/1‑70 (MQ=255)
aaCGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCg > 1:1818822/1‑70 (MQ=255)
aCGCCTTATCCGGCCTACAAAATCGTGCAAATTCCACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGtc > 1:900512/1‑70 (MQ=255)
aCGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCg > 1:505943/1‑69 (MQ=255)
ccTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAgcg > 1:1178601/1‑71 (MQ=255)
cTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCaa > 1:634349/1‑42 (MQ=40)
cTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCgca < 1:1723047/68‑3 (MQ=11)
tATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCAt > 1:3104888/1‑71 (MQ=255)
aTCCGGCCTACAAAATCGTGCAAATTCAACATATTGCTATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCAt > 1:828670/1‑70 (MQ=255)
cGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAgg < 1:669121/71‑1 (MQ=255)
gCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCt > 1:1363920/1‑71 (MQ=255)
ccTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGc > 1:627270/1‑69 (MQ=255)
ccTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCt > 1:1067304/1‑70 (MQ=255)
ccTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCt > 1:1387815/1‑70 (MQ=255)
cTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTg < 1:2097864/40‑1 (MQ=255)
cTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCATCAGGcaa > 1:1006971/1‑69 (MQ=2)
cAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGt > 1:2639210/1‑38 (MQ=255)
cAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGAt > 1:15816/1‑47 (MQ=255)
cAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGAttt > 1:380661/1‑71 (MQ=255)
cAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCAGCGCATCAGGcaat < 1:2393310/69‑4 (MQ=0)
aaaaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATa < 1:3633402/47‑1 (MQ=255)
aaaaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCg < 1:3844684/51‑1 (MQ=255)
aaaaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCa < 1:3614853/61‑1 (MQ=255)
aaaaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCa < 1:1851692/61‑1 (MQ=255)
aaaaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCa < 1:962781/61‑1 (MQ=255)
aaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGc > 1:227844/1‑71 (MQ=255)
aaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGc > 1:2928902/1‑71 (MQ=255)
aaTCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGc > 1:983841/1‑71 (MQ=255)
tCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGt > 1:725990/1‑71 (MQ=255)
tCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGt < 1:3388900/71‑1 (MQ=255)
tCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGt > 1:2420039/1‑71 (MQ=255)
|
TCAGATTATTGACAAAGTGCGCTTTGTTTATGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAATCGTGCAAATTCAACATATTGCAATTC‑TCTTGTAGGCCTGATAAGCGTAGCGCATCAGGCTGATTTGGCGT > minE/2155522‑2155661
|
| 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
