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 |
835,918 |
C→T |
14.8% |
I212I (ATC→ATT) |
narH → |
nitrate reductase 1, beta (Fe‑S) subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 835,918 | 0 | C | T | 14.8%
| 183.2
/ 20.7
| 74 | I212I (ATC→ATT) | narH | nitrate reductase 1, beta (Fe‑S) subunit |
| Reads supporting (aligned to +/- strand): ref base C (29/34); new base T (6/5); total (35/39) |
| Fisher's exact test for biased strand distribution p-value = 7.47e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.94e-01 |
CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTT > minE/835849‑835983
|
cccGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCg < 1:982906/71‑1 (MQ=255)
cGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGAc > 1:3930504/1‑71 (MQ=255)
cATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAg > 1:1687624/1‑71 (MQ=255)
tgtgGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAgaga > 1:1414510/1‑67 (MQ=255)
tgtgGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGAt < 1:3621278/70‑1 (MQ=255)
cgtgGCGACCTGCCCAAGCGGCGCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATa < 1:2255555/70‑1 (MQ=255)
gtgGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATc > 1:804926/1‑60 (MQ=255)
tgGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATaaa < 1:3425337/71‑1 (MQ=255)
tgGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATaaa < 1:1143689/71‑1 (MQ=255)
ggCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAAt > 1:1969010/1‑71 (MQ=255)
ggCGACCTGCCCAAGCGGCGCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAAt > 1:820397/1‑71 (MQ=255)
gCGACCTGCCCAAGCGGCGCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAATg > 1:2882119/1‑71 (MQ=255)
cGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGc < 1:3429905/71‑1 (MQ=255)
aCCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCg > 1:728049/1‑71 (MQ=255)
aCCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCg > 1:1984304/1‑71 (MQ=255)
ccTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGt < 1:529350/71‑1 (MQ=255)
cccGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGcc > 1:2063342/1‑65 (MQ=255)
ccGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATaaa > 1:354336/1‑60 (MQ=255)
caaGCGGCGCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAATGCCGtggctgg < 1:3365225/69‑1 (MQ=255)
caaGCGGCGCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAATGCCGtggctg > 1:780153/3‑70 (MQ=255)
caaGCGGCGCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAATGCCGtggctg > 1:1106065/3‑70 (MQ=255)
gcggcgCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAATGCCGTGGCTGGCGt < 1:2485156/71‑1 (MQ=255)
gcggcgCTATCTACAAACGCGAAGAAGACGGCATTGTGCTGATTGATCAGGATAAATGCCGTGGCTGGCGt < 1:423219/71‑1 (MQ=255)
cGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGt < 1:3323047/70‑1 (MQ=255)
tGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTa < 1:1792878/68‑1 (MQ=255)
tGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTa < 1:2532702/68‑1 (MQ=255)
gCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTAtgtg > 1:3399541/1‑71 (MQ=255)
cGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTAtgtg < 1:2331074/70‑1 (MQ=255)
cGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTAtgtg > 1:3524678/1‑70 (MQ=255)
cGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTAtg > 1:2190091/1‑68 (MQ=255)
cGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTAtg > 1:2288057/1‑68 (MQ=255)
cGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTAt > 1:943696/1‑67 (MQ=255)
aTTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGAt < 1:1692177/45‑1 (MQ=255)
aTTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCAt > 1:163782/1‑71 (MQ=255)
tttACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATa > 1:3559595/1‑45 (MQ=255)
tttAAAAGCGTGAAGAAGATGGCATCGTCCTGATCGCCCAGGATa > 1:1291911/1‑45 (MQ=255)
ttACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATaa > 1:3580415/1‑45 (MQ=255)
ttACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCa > 1:2083247/1‑71 (MQ=255)
actaGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCAc < 1:1885904/67‑1 (MQ=255)
aCAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGt < 1:2037880/50‑1 (MQ=255)
cAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACt < 1:293862/70‑1 (MQ=255)
gCGTGAAGAAGATGGCATCGTCCTGATCGACCAgg < 1:545146/35‑1 (MQ=255)
gCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGAt < 1:364089/71‑1 (MQ=255)
gCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGAt < 1:2115226/71‑1 (MQ=255)
gCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGAt < 1:2449836/71‑1 (MQ=255)
gCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGAt < 1:2291124/71‑1 (MQ=255)
tGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCg < 1:1785532/51‑1 (MQ=255)
gaagaaGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTg < 1:1989575/64‑1 (MQ=255)
gaagaaGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTg < 1:2415818/64‑1 (MQ=255)
gaagaaGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGccc > 1:3641783/1‑71 (MQ=255)
gaagaaGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGccc > 1:1734274/1‑71 (MQ=255)
aagaagATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCg < 1:3582159/71‑1 (MQ=255)
aagaagATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCg < 1:986271/71‑1 (MQ=255)
agaagaTGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCg > 1:3266908/1‑70 (MQ=255)
aagaTGGCATCGTCCTGATCGACCAGGATAAATGCCGtggctgg < 1:1841925/44‑1 (MQ=255)
aagaTGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTgg < 1:1780459/61‑1 (MQ=255)
agaTGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGa > 1:933712/1‑61 (MQ=255)
gacggCATTGTGCTGATTGATCAGGATAAATGCCGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACa > 1:2196522/4‑70 (MQ=255)
gaTGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACaa < 1:781931/71‑1 (MQ=255)
tGGCATCGTCCTGATCGACCAGGATAAATGCCGtg > 1:1358608/1‑35 (MQ=255)
tGGCATCGTCCTGAACGACCAGGATAAATGCCGTGGCTGGCGTAtgt > 1:2608690/1‑47 (MQ=255)
cggCATTGTGCTGATTGATCAGGATAAATGCCGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACaaa > 1:155852/2‑70 (MQ=255)
ggCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACaaaa > 1:1867789/1‑70 (MQ=255)
gCATTGTGCTGATTGATCAGGATAAATGCCGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACaaaaaa < 1:71648/71‑1 (MQ=255)
gCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACaaaaaa < 1:3279261/71‑1 (MQ=255)
gCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACaaaaaa < 1:635731/71‑1 (MQ=255)
cATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTAt > 1:3091753/1‑42 (MQ=255)
cATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACaaaaaaa < 1:177164/71‑1 (MQ=255)
tCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATc > 1:3691146/1‑71 (MQ=255)
gTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCt < 1:2782806/70‑1 (MQ=255)
tCCTGATCGACCAGGATAAATGCCGTGGCTGGCTTATGTGCATCACTGGATGCCCGTACAAAAAAATCTAc < 1:925842/71‑1 (MQ=255)
cTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACt < 1:219070/70‑1 (MQ=255)
cTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACt < 1:100622/70‑1 (MQ=255)
tGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACtt > 1:2159777/1‑70 (MQ=255)
gATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGccc > 1:256887/1‑51 (MQ=255)
|
CCCGGCATGTGTGGCGACCTGCCCGAGCGGTGCGATTTACAAGCGTGAAGAAGATGGCATCGTCCTGATCGACCAGGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTT > minE/835849‑835983
|
| 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
