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 |
835,315 |
G→T |
36.3% |
L11L (CTG→CTT) |
narH → |
nitrate reductase 1, beta (Fe‑S) subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 835,315 | 0 | G | T | 36.3%
| 91.5
/ 51.8
| 66 | L11L (CTG→CTT) | narH | nitrate reductase 1, beta (Fe‑S) subunit |
| Reads supporting (aligned to +/- strand): ref base G (15/27); new base T (15/9); total (30/36) |
| Fisher's exact test for biased strand distribution p-value = 4.33e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.02e-01 |
GCGAAGGCAATGACCAGGTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCC > minE/835249‑835379
|
gCGAAGGCAATGACCAGGTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAAt < 1:3189656/70‑1 (MQ=255)
cGAAGGCAATGACCAGGTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAAtct > 1:3818181/1‑71 (MQ=255)
cGAAGGCAATGACCAGGTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAAtct < 1:1833539/71‑1 (MQ=255)
aaGGCAATGACCAGGTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAAtctc > 1:1295489/1‑70 (MQ=255)
aGGCAATGACCAGGTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAAtct > 1:1676601/1‑68 (MQ=255)
aGGCAATGACCAGGTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGa < 1:665169/71‑1 (MQ=255)
aGGCAATGACCAGGTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGa > 1:632673/1‑71 (MQ=255)
ggCAATGACCAGGTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGTCATGGTGCTGAAtc < 1:1098645/66‑1 (MQ=255)
cAATGACCAGGTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGAt > 1:2548940/1‑69 (MQ=255)
cAATGACCAGGTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATaa < 1:2397116/71‑1 (MQ=255)
tGACCAGGTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTg > 1:2816562/1‑71 (MQ=255)
tcAGGTACAGGAG‑GCGAA‑AAAATGAAAATCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTAt < 1:1038941/70‑1 (MQ=255)
cAGGTACAGGAG‑GCGAA‑AAAATGAAAATCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTAt > 1:322274/1‑70 (MQ=255)
aGGTACAGGAGAGTG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCAt < 1:3222746/69‑1 (MQ=255)
aGGTACAGGAG‑GCGAA‑AAAATGAAAATCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCg > 1:580056/1‑71 (MQ=255)
ggTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCgg < 1:2976711/71‑1 (MQ=255)
gTACAGGAG‑GCG‑AAAAAATGAAAATCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGc > 1:3140096/1‑71 (MQ=255)
aCAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCa < 1:1988319/64‑1 (MQ=255)
aCAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCa < 1:3797985/64‑1 (MQ=255)
cAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTg < 1:2270425/70‑1 (MQ=255)
gagaGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGcc > 1:3111585/1‑69 (MQ=255)
agagCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGc < 1:549269/58‑1 (MQ=255)
gagCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATaa > 1:681826/1‑53 (MQ=255)
cG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTg < 1:1840511/71‑1 (MQ=255)
gaaaaaaTGAAAATCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTg < 1:1483715/68‑1 (MQ=255)
aaaaaaTGAAAATCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGt < 1:3036642/69‑1 (MQ=255)
aaaaaTGAAAATCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGtt < 1:2435410/70‑1 (MQ=255)
aaaaaTGAAAATCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGt < 1:3089650/69‑1 (MQ=255)
aaaaTGAAAATCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTg > 1:969075/1‑59 (MQ=255)
aaaaTGAAAATCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGtt > 1:3637829/1‑70 (MQ=255)
aaaaTGAAAATCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTc > 1:3290229/1‑71 (MQ=255)
aaaTGAAAATCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTcg > 1:2703013/1‑70 (MQ=255)
aaaTGAAAATCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTcg < 1:2871943/71‑2 (MQ=255)
aaTGAAAATCCGTTCCCAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTcg < 1:3485491/70‑2 (MQ=255)
aTGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGt > 1:1483404/1‑71 (MQ=255)
tGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGt > 1:2539524/1‑70 (MQ=255)
aaaTTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTAc < 1:1770798/70‑1 (MQ=255)
aaaTCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTcg > 1:2777663/1‑64 (MQ=255)
aaaTCCGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTCGGTGAcc > 1:2993079/1‑71 (MQ=255)
aaTTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCacac < 1:290989/57‑1 (MQ=255)
aaTTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCt < 1:1588623/71‑1 (MQ=255)
aTTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATa < 1:1946984/37‑1 (MQ=255)
aTTCGTTCACAAGTCGGCATGGTGCGGAATCTCGATAAGTGCATCGGCTGc < 1:997862/51‑1 (MQ=255)
ccGTTCTCAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTCGGTGACCTGt > 1:507840/2‑70 (MQ=255)
ccGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTCGGTGACCTg > 1:1325990/2‑69 (MQ=255)
ccGTTCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTCGGTGACCTGt > 1:1927102/2‑70 (MQ=255)
ttCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCt < 1:3455879/53‑1 (MQ=255)
ttCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCt < 1:405315/53‑1 (MQ=255)
ttCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTaaaa < 1:1602300/71‑1 (MQ=255)
tCACAAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTCGGTGACCTGTaaaaa > 1:1401145/1‑71 (MQ=255)
tCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCcac < 1:2654955/48‑1 (MQ=255)
cacaAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGtt > 1:293543/1‑59 (MQ=255)
acaAGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTCGGTGACCTGTAAAAAc < 1:877137/70‑1 (MQ=255)
acaAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACg > 1:3793689/1‑71 (MQ=255)
acaAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACg > 1:214548/1‑71 (MQ=255)
caAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGt < 1:1160162/71‑1 (MQ=255)
aGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTCGGTGACCTGTAAAAACGTCt > 1:3677306/1‑71 (MQ=255)
aGTCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTCGGTGACCTGTAAAAACGTCt > 1:3672907/1‑71 (MQ=255)
aGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCt > 1:3855265/1‑71 (MQ=255)
gTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTg < 1:1312074/71‑1 (MQ=255)
gTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTg < 1:3680397/71‑1 (MQ=255)
gTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTg < 1:1227733/71‑1 (MQ=255)
gTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTg < 1:973566/71‑1 (MQ=255)
tCGGCATGGTGCTTAACCTCGACAAATGTATCGGCTGCCATACCTGTTCGGTGACCTGTAAAAACGTCTgg < 1:3619794/71‑1 (MQ=255)
gCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACATCTGTTCAGTTACCTGTAAAAACGTCTGGAcc < 1:1836487/71‑1 (MQ=255)
ggTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGcc > 1:52784/1‑71 (MQ=255)
gAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCt > 1:2396373/1‑56 (MQ=255)
|
GCGAAGGCAATGACCAGGTACAGGAGAGCG‑T‑AAAATGAAAATTCGTTCACAAGTCGGCATGGTGCTGAATCTCGATAAGTGCATCGGCTGCCACACCTGTTCAGTTACCTGTAAAAACGTCTGGACCAGCC > minE/835249‑835379
|
| 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
