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 |
1,826,256 |
G→A |
32.3% |
A23V (GCG→GTG) |
hydN ← |
formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,826,256 | 0 | G | A | 32.3%
| 76.9
/ 53.0
| 62 | A23V (GCG→GTG) | hydN | formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit |
| Reads supporting (aligned to +/- strand): ref base G (26/16); new base A (10/10); total (36/26) |
| Fisher's exact test for biased strand distribution p-value = 4.19e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.71e-01 |
ACATGGATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAA > minE/1826187‑1826326
|
aCATGGATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACcgc > 1:3304531/1‑71 (MQ=255)
aCATGGATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACcgc > 1:2569633/1‑71 (MQ=255)
aTGGATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCgcgc < 1:437912/71‑1 (MQ=255)
gATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACg > 1:2184299/1‑71 (MQ=255)
tACGCGGTAAAAAAGTTTCCGGGGTCAGCTATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCa < 1:3552862/67‑1 (MQ=255)
tACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCt < 1:3196766/71‑1 (MQ=255)
cgGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACtt < 1:843693/71‑1 (MQ=255)
aaaaGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAgg < 1:340263/71‑1 (MQ=255)
aaaaGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAgg > 1:158531/1‑71 (MQ=255)
aaaaGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAgg > 1:2277659/1‑71 (MQ=255)
aaaGTTTCCGGGGTCAGCGATGAACAGTCCTGATTTTCCTGATGAGAAACAGCGCACGCTACTTCACAgg > 1:2851255/1‑70 (MQ=255)
aGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTAc > 1:3113173/1‑71 (MQ=255)
aGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAg > 1:4043734/1‑67 (MQ=255)
tttCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACg < 1:2726939/70‑1 (MQ=255)
tttCCGGGGTCAGCGATGCACAGTCCTGA‑TTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACg < 1:110761/69‑1 (MQ=255)
tCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGc < 1:1274855/70‑1 (MQ=255)
tCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGc < 1:1558496/70‑1 (MQ=255)
ggggTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAAcc < 1:2179737/71‑1 (MQ=255)
tCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCAc < 1:257502/44‑1 (MQ=255)
tCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAAc < 1:2993132/66‑1 (MQ=255)
aTGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCaa > 1:1007957/1‑59 (MQ=255)
aTGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAAcc < 1:3346515/61‑1 (MQ=255)
aTGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTAATTCACAGGTACGGCAACCAATACATTTa > 1:3282187/1‑71 (MQ=255)
gCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTcaca > 1:2153449/1‑47 (MQ=255)
gCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt > 1:591218/1‑71 (MQ=255)
cacaGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCaa > 1:2279165/1‑60 (MQ=255)
cacaGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTc > 1:1911597/1‑71 (MQ=255)
acaGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTa > 1:92698/1‑38 (MQ=255)
acaGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTcg > 1:1977199/1‑71 (MQ=255)
caatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACa > 1:2551913/4‑62 (MQ=255)
aGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATAc < 1:3663530/60‑1 (MQ=255)
tCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACgg > 1:1371467/1‑48 (MQ=255)
tCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGt > 1:2465707/1‑70 (MQ=255)
ccTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATc > 1:2025834/1‑70 (MQ=255)
cTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCa > 1:1776352/1‑52 (MQ=255)
cTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAg > 1:3722088/1‑71 (MQ=255)
cTGATTTTCCTGATGAGAAACCACTCACGCTACTTCACAGGTACgg > 1:196872/1‑46 (MQ=39)
cTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGc > 1:3217621/1‑47 (MQ=255)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATccg > 1:418110/1‑69 (MQ=255)
tGATTTTCCTGATGAGTAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCa < 1:3630492/69‑1 (MQ=255)
tGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCaa > 1:2706893/1‑52 (MQ=255)
tGATTTTCCTGATGAGAAACCGCGAACGCTACTTCACAGGTACGGCAACCAATACAttt < 1:178181/59‑1 (MQ=255)
gATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACAtt > 1:2293343/1‑57 (MQ=255)
gATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTa < 1:2537935/59‑1 (MQ=255)
gATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc > 1:2662702/1‑70 (MQ=255)
gATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTa < 1:2375934/59‑1 (MQ=255)
aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc < 1:3131823/69‑1 (MQ=255)
aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc < 1:4064495/69‑1 (MQ=255)
ttttCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAat < 1:1333237/71‑1 (MQ=255)
tttCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAat > 1:2002547/1‑70 (MQ=255)
tttCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAat > 1:246115/1‑70 (MQ=255)
ttCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAatg < 1:1890953/70‑1 (MQ=255)
cTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAAtgatga < 1:3990270/71‑1 (MQ=255)
tgatgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATa < 1:585440/45‑1 (MQ=255)
gatgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATa > 1:3579189/1‑44 (MQ=16)
agaAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGaaa > 1:1496109/1‑67 (MQ=255)
agaAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGt > 1:251758/1‑71 (MQ=255)
agaAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGt > 1:2057456/1‑71 (MQ=255)
gaAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGtt > 1:811174/1‑71 (MQ=255)
aaaCCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAatgat < 1:1169741/61‑1 (MQ=255)
aaaCCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGtt > 1:1822717/1‑70 (MQ=255)
aaaCCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGtt > 1:2894175/1‑70 (MQ=255)
aaaCCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTtc < 1:3534467/71‑1 (MQ=255)
aCCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTtcat > 1:3215940/1‑71 (MQ=255)
ctgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCg < 1:557322/62‑1 (MQ=255)
ccGCGCACGCTACTTCACAGGTACGGCAACCAATACAtt < 1:4057081/39‑1 (MQ=255)
cgcgCACGCTACTTCACAGGTACGGCAACCAATACAtt < 1:3038027/38‑1 (MQ=255)
gcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcatgat > 1:2577913/1‑68 (MQ=255)
|
ACATGGATACGCGGTAAAAAAGTTTCCGGGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAA > minE/1826187‑1826326
|
| 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
