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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
RA |
minE |
1,826,294 |
A→C |
27.2% |
S10R (AGT→AGG) ‡ |
hydN ← |
formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit |
|
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
* | minE | 1,826,294 | 0 | A | C | 27.2%
| 160.0
/ 107.8
| 136 | S10R (AGT→AGG) ‡ | hydN | formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit |
Reads supporting (aligned to +/- strand): ref base A (62/37); new base C (17/20); total (79/57) |
Fisher's exact test for biased strand distribution p-value = 1.18e-01 |
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
Only 100 of 138 total aligned reads displayed.
ATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCCGATACATT > minE/1826224‑1826362
|
aTGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTa > 1:1894282/1‑71 (MQ=255)
aTGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTa < 1:1973093/71‑1 (MQ=255)
caatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgc < 1:1102946/68‑1 (MQ=255)
caatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgc < 1:4541114/68‑1 (MQ=255)
caatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgc < 1:3192130/68‑1 (MQ=255)
aatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgca > 1:649410/3‑70 (MQ=255)
aatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgc < 1:2550428/68‑1 (MQ=255)
gTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt > 1:4059290/1‑66 (MQ=255)
atCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgcat > 1:4393609/2‑69 (MQ=255)
atCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgcat > 1:1623890/2‑69 (MQ=255)
atCCTGAATCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgcat < 1:1165970/70‑3 (MQ=255)
cTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAg > 1:880577/1‑71 (MQ=255)
cTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAg > 1:4335482/1‑71 (MQ=255)
cTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATccg > 1:1523518/1‑69 (MQ=255)
gATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt > 1:3681554/1‑61 (MQ=255)
gATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACt > 1:3799546/1‑61 (MQ=255)
gATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc > 1:5298515/1‑70 (MQ=255)
gATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGc > 1:4850430/1‑70 (MQ=255)
aTTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCaa > 1:5036326/1‑71 (MQ=255)
aTTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCa > 1:3737640/1‑70 (MQ=255)
aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTcg > 1:515577/1‑62 (MQ=255)
aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc < 1:602642/69‑1 (MQ=255)
aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc < 1:1264433/69‑1 (MQ=255)
aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGc < 1:4796910/69‑1 (MQ=255)
aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGc < 1:3267245/69‑1 (MQ=255)
aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCa < 1:3064599/70‑1 (MQ=255)
atgatgcGACACTGCGCAAGCCACTTCACAGGTACGGCACCCGATACATTTCGTCGCATCCGCaataata > 1:4067795/2‑69 (MQ=255)
atgatgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAataa < 1:2683741/67‑3 (MQ=255)
gatgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATaaac > 1:3092677/1‑70 (MQ=255)
gatgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATaaac > 1:1356230/1‑70 (MQ=255)
atgaGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAAc > 1:860411/1‑71 (MQ=255)
atgaGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAAc > 1:2564220/1‑71 (MQ=255)
tgaGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACg > 1:1061345/1‑71 (MQ=255)
agaAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGt > 1:4197328/1‑71 (MQ=255)
gaAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGt > 1:3715697/1‑70 (MQ=255)
aaaCCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTtc < 1:1646897/71‑1 (MQ=255)
aaaCCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAg < 1:5528802/54‑1 (MQ=255)
actgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcat > 1:1878049/4‑71 (MQ=255)
actgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcat < 1:846580/68‑1 (MQ=255)
aCCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCa > 1:1485272/1‑54 (MQ=255)
ctgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcatg < 1:437939/69‑2 (MQ=255)
ctgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcatg < 1:363866/69‑2 (MQ=255)
tgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAat < 1:863635/53‑1 (MQ=255)
gcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcatgat > 1:3055161/1‑68 (MQ=255)
gcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcatgat > 1:3596661/1‑68 (MQ=255)
gcgcAAGCCACTTCACAGGTACGGCAACCGATACAATTCGTCGCATCCGCAATAATAAACCgg > 1:2367061/1‑63 (MQ=255)
acgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTtcatca > 1:4714803/2‑70 (MQ=255)
acgcACGCTACTTCACAGGTACGGCAACCAATACAATTACTCCCGTCAGCa > 1:1079576/2‑51 (MQ=255)
cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTcgc < 1:975174/43‑1 (MQ=255)
cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTcgc < 1:1759731/43‑1 (MQ=255)
cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTcgc < 1:3769048/43‑1 (MQ=255)
cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGt > 1:2429850/1‑45 (MQ=255)
cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGt > 1:4551204/1‑45 (MQ=255)
cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGt > 1:2350963/1‑45 (MQ=255)
cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGaaa > 1:2286834/1‑59 (MQ=255)
gcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAatgatg < 1:227899/55‑1 (MQ=255)
gcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataataa < 1:3399526/56‑3 (MQ=255)
gcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataataa < 1:2872217/56‑3 (MQ=255)
cACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAAtt < 1:4459305/71‑1 (MQ=255)
aCGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATtc < 1:1406533/71‑1 (MQ=255)
tACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAAtt > 1:2931810/1‑66 (MQ=255)
cTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataata < 1:683848/47‑2 (MQ=255)
cTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataata < 1:3698722/47‑2 (MQ=255)
cTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaataata < 1:1849232/47‑2 (MQ=255)
cTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGaaa > 1:2833369/1‑50 (MQ=255)
cTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGc < 1:4611331/71‑1 (MQ=255)
ttCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAAc < 1:780530/50‑1 (MQ=255)
tCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaa > 1:1186528/1‑40 (MQ=255)
cacaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACgg > 1:2277003/1‑50 (MQ=255)
cacaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACgg > 1:1649699/1‑50 (MQ=255)
cacaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACTGTTCATCAAATTCTCCAGCAAt > 1:2634725/1‑71 (MQ=255)
cacaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCaa > 1:761459/1‑70 (MQ=255)
cacaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAAt > 1:4893344/1‑71 (MQ=255)
cacaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAAt > 1:3200815/1‑71 (MQ=255)
acaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCGAGCAAt < 1:4551119/70‑1 (MQ=255)
acaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAAt < 1:1570595/70‑1 (MQ=255)
aGGTACGGCAACCGATACATTTCGTCGCATCCGCAat > 1:2481015/1‑37 (MQ=16)
ggTACGGCAACCAATACATTTACTCGCGTCAGCAatgat > 1:4438090/1‑39 (MQ=255)
ggTACGGCAACCAATACATTTACTCGCGTCAGCAatgat > 1:3002386/1‑39 (MQ=255)
ggTACGGCAACCAATACATTTACTCGCGTCAGCAatgat > 1:4887213/1‑39 (MQ=255)
tACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGt < 1:3427/71‑1 (MQ=255)
aCGGCAACCAATACATTTACTCGCGTCAGCAAttatga < 1:4235802/38‑1 (MQ=255)
aCGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGt < 1:3380428/70‑1 (MQ=255)
cGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGtt < 1:2694846/70‑1 (MQ=255)
ggCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGAc < 1:2180224/65‑1 (MQ=255)
ggCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGAc < 1:266824/65‑1 (MQ=255)
gCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTaa > 1:3059631/1‑70 (MQ=255)
aCCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATgcg > 1:5187152/1‑71 (MQ=255)
cAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGcc > 1:3609962/1‑71 (MQ=255)
aTACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGt < 1:4153070/60‑1 (MQ=255)
aTACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCCGa > 1:533537/1‑71 (MQ=255)
aTACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCCGa > 1:5391877/1‑71 (MQ=255)
aCATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCCGATa > 1:3074050/1‑71 (MQ=255)
cATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATtct > 1:5587444/1‑43 (MQ=255)
cATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTcc > 1:2136589/1‑45 (MQ=255)
aTTTACTCGCGTCAGCAATGATGAAACGGTTCATCaaa < 1:4338875/38‑1 (MQ=255)
aTTTACTCGCGTCAGCAATGATGAAACGGTTCATCaaa < 1:3890578/38‑1 (MQ=255)
ttACTCGCGTCAGCAATGATGAAACGGTTCATCAAAtt > 1:3844548/1‑38 (MQ=255)
ttACTCGCGTCAGCAATGATGAAACGGTTCATCAAAt > 1:4324407/1‑37 (MQ=255)
ttACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCCGATACAtt > 1:1775688/1‑71 (MQ=255)
|
ATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCCGATACATT > minE/1826224‑1826362
|
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