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 |
|
A4 F21 I0 R1
|
1009 |
73.8 |
4146436 |
87.4% |
3623985 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,694,258 |
C→T |
41.7% |
E124K (GAA→AAA) |
yrfF ← |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,694,258 | 0 | C | T | 41.7%
| 49.5
/ 100.6
| 84 | E124K (GAA→AAA) | yrfF | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (23/26); new base T (23/12); total (46/38) |
| Fisher's exact test for biased strand distribution p-value = 1.20e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.58e-01 |
AAATAACCAGCGGCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGATCGTCGGTAGA > minE/2694192‑2694327
|
aaaTAACCAGCGGCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTc > 1:1892661/1‑67 (MQ=255)
aaTAACCAGCGGCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGa < 1:2244884/71‑1 (MQ=255)
aaTAACCAGCGGCAGCGAATCAGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGa < 1:812739/71‑1 (MQ=255)
aTAACCAGCGGCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGa > 1:2809193/1‑70 (MQ=255)
aTAACCAGCGGCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGa > 1:562708/1‑70 (MQ=255)
aTAACCAGCGGCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGa > 1:97513/1‑70 (MQ=255)
aaCCAGCGGCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAg > 1:753006/1‑71 (MQ=255)
aCCAGCGGCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGaaa > 1:528971/1‑69 (MQ=255)
aCCAGCGGCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGaaa > 1:1645815/1‑69 (MQ=255)
aCCAGCGGCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGaa > 1:2450331/1‑68 (MQ=255)
aCCAGCGGCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAgg > 1:1982441/1‑71 (MQ=255)
gCGGCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAggggg > 1:1661255/1‑70 (MQ=255)
ggCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGAAAGGGGGCAg < 1:3675182/71‑1 (MQ=255)
gCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGAAAGGGGGCAgg < 1:244265/71‑1 (MQ=255)
gCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGAAAGGGGGCAgg > 1:2736972/1‑71 (MQ=255)
gCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGa < 1:2038554/60‑1 (MQ=255)
gCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAgg > 1:666811/1‑71 (MQ=255)
aGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTg < 1:1340754/71‑1 (MQ=255)
aGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTg < 1:2154592/71‑1 (MQ=255)
gCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTg > 1:990529/1‑70 (MQ=255)
cGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGa > 1:2059313/1‑71 (MQ=255)
gAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGa > 1:1591368/1‑70 (MQ=255)
gAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGAc > 1:3416137/1‑71 (MQ=255)
aaTCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACt > 1:3597109/1‑71 (MQ=255)
aTCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAg > 1:1732298/1‑56 (MQ=255)
aTCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAg > 1:686939/1‑56 (MQ=255)
tCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAggggg < 1:638844/59‑1 (MQ=255)
ggTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTc > 1:742373/1‑45 (MQ=255)
ggTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTa > 1:3414894/1‑71 (MQ=255)
tATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAATGGGGCAGGTGGACTTCTAcc < 1:3028824/71‑1 (MQ=255)
tGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGaa < 1:3478996/47‑1 (MQ=255)
tGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCg < 1:3305551/70‑1 (MQ=255)
aaTCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAAt > 1:840066/1‑71 (MQ=255)
cAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCg < 1:385438/70‑1 (MQ=255)
aGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGaaa > 1:1049634/1‑42 (MQ=255)
aGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGaaa > 1:1287041/1‑42 (MQ=255)
aGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGaaa > 1:734605/1‑42 (MQ=255)
aGTTCAACGGTATTCTCATCGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAg > 1:2001489/1‑71 (MQ=255)
aGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCa > 1:1021109/1‑38 (MQ=255)
gTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCg < 1:3591184/63‑1 (MQ=255)
gTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAgg < 1:3974459/71‑1 (MQ=255)
gTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAgg < 1:3834560/71‑1 (MQ=255)
ttCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAgg < 1:3138413/42‑1 (MQ=255)
gaaCGGTATTCTCATCGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGgtag > 1:3042192/2‑71 (MQ=255)
cAACGGTATTCTCATCGTTGATGTACTGTTTCCAGAAAggg > 1:1322733/1‑41 (MQ=255)
cAACGGTATTCTCATCGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGAc > 1:3159500/1‑52 (MQ=255)
cAACGGTATTCTCATCGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGgta < 1:505403/70‑1 (MQ=255)
cAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAgg > 1:3258748/1‑68 (MQ=255)
cAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGgtag > 1:1337984/1‑71 (MQ=255)
aaCGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCg < 1:3595948/59‑1 (MQ=255)
cGGTATTCTCATCGTTGATGTACTGTTTCCAGaaa > 1:2470081/1‑35 (MQ=255)
cGGTATTCTCATCGTTGATGTACTGTTTCCAGaaa > 1:3785055/1‑35 (MQ=255)
ttCTCATCGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGgtagta < 1:326741/65‑1 (MQ=255)
ttCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGa < 1:1539968/53‑1 (MQ=255)
ctcATCGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCAtt > 1:3413063/1‑71 (MQ=255)
ctcATCGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCAtt > 1:2562158/1‑71 (MQ=255)
ctcATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGgt > 1:3162253/1‑59 (MQ=255)
ctcATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGgt > 1:1000358/1‑59 (MQ=255)
ctcATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCAtt > 1:143239/1‑71 (MQ=255)
tcATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTaa > 1:3089855/1‑63 (MQ=255)
aTCGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGa < 1:3947122/48‑1 (MQ=255)
aTCGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTa < 1:2052324/70‑1 (MQ=255)
aTCGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTAt > 1:1039223/1‑71 (MQ=255)
tCGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTAtt > 1:1201338/1‑71 (MQ=255)
tCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTAtt < 1:354524/71‑1 (MQ=255)
cGTTGATGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTc > 1:1936108/1‑71 (MQ=255)
gTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTc < 1:3688976/70‑1 (MQ=255)
gTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGAAGTAACGCCATTTATTc < 1:3828716/70‑1 (MQ=255)
ttGATGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCg < 1:622119/70‑1 (MQ=255)
gATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGa < 1:3997730/70‑1 (MQ=255)
tGTACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGa < 1:3110362/40‑1 (MQ=255)
tGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGa > 1:36979/1‑45 (MQ=255)
tGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTaa < 1:2768851/53‑1 (MQ=255)
gTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATc < 1:3381061/42‑1 (MQ=255)
tACTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGAtcgtc > 1:2575376/1‑71 (MQ=255)
tACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGgta < 1:2838418/47‑1 (MQ=255)
aCTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGAtc > 1:1216741/1‑67 (MQ=255)
aCTGTTCCCAGAAAGGGGGCAGGTGGACTTATACCGAATCGAGGTAGTAACGCCATTTATTCGGAtcgtcg > 1:2565569/1‑71 (MQ=255)
cTGTTTCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGATCGTCgg < 1:2793854/71‑1 (MQ=255)
cTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGATCGTCgg < 1:2289528/71‑1 (MQ=255)
cTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGATCGTCgg > 1:1537991/1‑71 (MQ=255)
cTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGATCGTCgg < 1:392486/71‑1 (MQ=255)
ttCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGgt < 1:556490/41‑1 (MQ=255)
ttCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGATCGTCGGTag < 1:647874/71‑1 (MQ=255)
ttCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGATCGTCGGTag < 1:3876857/71‑1 (MQ=255)
ttCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGATCGTCGGTa < 1:926584/70‑1 (MQ=255)
cccATAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGATCGTCGGTaga < 1:2848583/70‑1 (MQ=255)
cccAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGATCGTCGGTaga < 1:3938370/70‑1 (MQ=255)
|
AAATAACCAGCGGCAGCGAATCGGTATGAATCAGTTCAACGGTATTCTCATCGTTGATGTACTGTTCCCAGAAAGGGGGCAGGTGGACTTCTACCGAATCGAGGTAGTAACGCCATTTATTCGGATCGTCGGTAGA > minE/2694192‑2694327
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
