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 |
832,250 |
T→C |
18.9% |
T236T (ACT→ACC) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 832,250 | 0 | T | C | 18.9%
| 155.7
/ 30.6
| 74 | T236T (ACT→ACC) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (22/38); new base C (6/8); total (28/46) |
| Fisher's exact test for biased strand distribution p-value = 7.63e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01 |
CTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGC > minE/832180‑832317
|
cTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACt < 1:3917703/71‑1 (MQ=255)
gCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTg < 1:700467/69‑1 (MQ=255)
cTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTg < 1:1064268/68‑1 (MQ=255)
cTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACg < 1:1482933/71‑1 (MQ=255)
tAAGTTTCTACGACTGGTATTGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTa > 1:1842024/1‑71 (MQ=255)
cTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCTCAAACCTGGGGCGAGCAAACTGACGTACCgg < 1:375734/71‑1 (MQ=255)
tCTACGACTGGTATTGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGa < 1:3881838/70‑1 (MQ=255)
tCTACGACTGGTATTGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGa > 1:2231834/1‑70 (MQ=255)
tCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGaa > 1:902386/1‑71 (MQ=255)
cTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGa < 1:877986/69‑1 (MQ=255)
cTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAAt > 1:1349517/1‑71 (MQ=255)
aCGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAAt > 1:3906156/1‑69 (MQ=255)
cGACTGGTATTGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGAATctg > 1:2893140/1‑71 (MQ=255)
cGACTGGTATTGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGAATct < 1:3163374/70‑1 (MQ=255)
cGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAAt < 1:3273029/68‑1 (MQ=255)
cTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATctgctg < 1:2482226/71‑1 (MQ=255)
attGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGAATctgc < 1:3019215/62‑1 (MQ=255)
attGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGAATCTGCCGACTgg > 1:1164402/3‑71 (MQ=255)
tGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGa < 1:3892563/56‑1 (MQ=255)
gCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGa < 1:3828782/55‑1 (MQ=255)
gCGACTTGCCTCATGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTa > 1:1000755/1‑70 (MQ=255)
cGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTAc < 1:3645032/70‑1 (MQ=255)
cGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTAc < 1:1217644/70‑1 (MQ=255)
cGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGAATCTGCCGACTGGTat < 1:3768923/70‑2 (MQ=255)
ttGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTc > 1:2335376/1‑71 (MQ=255)
gCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTgg < 1:313955/61‑1 (MQ=255)
gCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTgg < 1:2292016/61‑1 (MQ=255)
cctcctGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCa > 1:1639362/1‑70 (MQ=255)
tcctGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCa < 1:2338139/68‑1 (MQ=255)
tcctGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCa < 1:2042996/68‑1 (MQ=255)
ctGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTAc < 1:2468480/71‑1 (MQ=255)
gCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTAcat > 1:2493073/1‑71 (MQ=255)
cGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTAcat > 1:2353916/1‑70 (MQ=255)
cGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTAca < 1:3653117/69‑1 (MQ=255)
gTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTAcatca < 1:784003/71‑1 (MQ=255)
gTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTAcatc > 1:3764119/1‑70 (MQ=255)
tctcCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTgg < 1:971659/51‑1 (MQ=255)
ccGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCt > 1:2402554/1‑61 (MQ=255)
ccGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACatcatc < 1:2893811/69‑1 (MQ=255)
ccGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGc > 1:3814001/1‑71 (MQ=255)
cGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATctgctg < 1:678182/42‑1 (MQ=255)
gCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGc > 1:907856/1‑69 (MQ=255)
gCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCt < 1:700540/71‑1 (MQ=255)
gCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCt < 1:844787/71‑1 (MQ=255)
cAAACCTGGGGCGAGCAAACTGACGTACCGTAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTg < 1:2627818/71‑1 (MQ=255)
cAAACCTGGGGCGAGCAAACTGACGTACCGTAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTg < 1:1783589/71‑1 (MQ=255)
cAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTg > 1:457520/1‑71 (MQ=255)
atgaCCTGGGGCGAGCAAACCGACGTACCGGAATCTGCCGACTGGTATAACTCCAGCTACATCATCGCCTg < 1:634745/68‑1 (MQ=255)
aaaCCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTgg < 1:2405470/71‑1 (MQ=255)
aaaCCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTgg > 1:224929/1‑71 (MQ=255)
aaaCCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTg < 1:1740443/70‑1 (MQ=255)
gaCCTGGGGCGAGCAAACCGACGTACCGGAATCTGCCGACTGGTATAACTCCAGCTACATCATCGCCTggg > 1:2159452/2‑71 (MQ=255)
aCCTGGGGCGAGCAAACTGACGTACCGGAATctgctg < 1:1945852/37‑1 (MQ=255)
aCCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACaa < 1:403347/47‑1 (MQ=255)
aCCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTgggg > 1:1181728/1‑71 (MQ=255)
aCCTGGGGCGAGCAAACCGACGTACCGGAATCTGCCGACTGGTATAACTCCAGCTACATCATCGCCTgggg < 1:216741/71‑1 (MQ=255)
cTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTgggg > 1:3310098/1‑69 (MQ=255)
tGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGt > 1:2265544/1‑70 (MQ=255)
gggCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCa < 1:3753141/70‑1 (MQ=255)
gggCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCa < 1:3053453/70‑1 (MQ=255)
gCGAGCAAACCGACGTACCGGAATCTGCCGACTGGTat < 1:1616344/38‑2 (MQ=37)
gCGAGCAAACCGACGTACCGGAATCTGCCGACTGGTat < 1:2570036/38‑2 (MQ=37)
cGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACg < 1:259794/71‑1 (MQ=255)
gAGCAAACCGACGTACCGGAATCTGCCGACTGGTATAACTCCAGCTACATCATCGCCTGGGGGTCTAACg > 1:98572/1‑70 (MQ=255)
gctaaCTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGc < 1:1355083/68‑1 (MQ=255)
gCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGc < 1:2662689/71‑1 (MQ=255)
cAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGcc < 1:618696/71‑1 (MQ=255)
cAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGcc > 1:1545580/1‑71 (MQ=255)
cAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGcc < 1:1191578/71‑1 (MQ=255)
cAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGc > 1:1217330/1‑70 (MQ=255)
aaaCTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCaa < 1:2915844/63‑1 (MQ=255)
aaCTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGc < 1:3461661/71‑1 (MQ=255)
aaCTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGC‑ACATCATCGCCTGGGGGTCAAAc > 1:2409408/1‑63 (MQ=255)
aaCTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGC‑ACATCATCGCCTGGGGGTCAAAc > 1:2568647/1‑63 (MQ=255)
aCTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCg > 1:2502871/1‑69 (MQ=255)
|
CTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTACATCATCGCCTGGGGGTCAAACGTGCCGC > minE/832180‑832317
|
| 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
