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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,487,774 |
T→G |
53.1% |
V418V (GTA→GTC) |
nuoM ← |
NADH:ubiquinone oxidoreductase, membrane subunit M |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,487,774 | 0 | T | G | 53.1%
| 9.2
/ 49.3
| 49 | V418V (GTA→GTC) | nuoM | NADH:ubiquinone oxidoreductase, membrane subunit M |
| Reads supporting (aligned to +/- strand): ref base T (13/10); new base G (20/6); total (33/16) |
| Fisher's exact test for biased strand distribution p-value = 2.22e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.61e-01 |
TAACATCGCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAACCTGGAAGCTGCCGAACAGAATCATAAATTCGCCGACGA > minE/1487708‑1487817
|
tAACATCGCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTAc < 1:2369600/69‑1 (MQ=255)
tAACATCGCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTAc < 1:2238524/69‑1 (MQ=255)
aaCATCGCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTAc < 1:2607628/68‑1 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACTAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAACCt > 1:1759892/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAAcc > 1:652305/1‑66 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAACCt > 1:459179/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAACCt > 1:1642332/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAACCt > 1:3320848/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAACCt > 1:3020440/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAACCt > 1:3010183/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAACCt > 1:1939102/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAACCt > 1:12824/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAACCt > 1:1191441/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCt > 1:33550/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCt > 1:936146/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCt > 1:3027587/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCt > 1:2650528/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCt > 1:899007/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCt > 1:2426305/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCt > 1:224742/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCt > 1:173391/1‑67 (MQ=255)
gCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACAGGGACAACCt > 1:2698951/1‑67 (MQ=255)
aTGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGa > 1:3079824/1‑63 (MQ=255)
aTGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGa > 1:121941/1‑63 (MQ=255)
aTGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGa > 1:818340/1‑63 (MQ=255)
aTGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGa > 1:616769/1‑63 (MQ=255)
aTGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGa > 1:513879/1‑63 (MQ=255)
aTGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGa > 1:3360629/1‑63 (MQ=255)
aTGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGa > 1:1737997/1‑63 (MQ=255)
aTGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGa > 1:1881203/1‑63 (MQ=255)
aTGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGa > 1:2957852/1‑63 (MQ=255)
aTGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGa > 1:2969332/1‑63 (MQ=255)
aTGCAAAGACAAGCCCAAAGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGa > 1:2577091/1‑63 (MQ=255)
ccAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAACCTGGAAGCTGCCGAACAGAATCATAAAtt > 1:2313499/1‑69 (MQ=255)
ccAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAACCTGGAAGCTGCCGAACAGAATCATAAAtt > 1:1844567/1‑69 (MQ=255)
aaGGTTGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGAACAGAATCATAAATTCGCcgacg < 1:838333/69‑1 (MQ=255)
aaGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGAACAGAATCATAAATTCGCcgacg < 1:3307732/69‑1 (MQ=255)
aaGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGAACAGAATCATAAATTCGCcgacg < 1:2767688/69‑1 (MQ=255)
aaGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGAACAGAATCATAAATTCGCcgacg < 1:1786582/69‑1 (MQ=255)
aaGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGAACAGAATCATAAATTCGCcgacg < 1:2427368/69‑1 (MQ=255)
aaGGTAGAGATAACGGTAATCACCGGGACAACCTGGAAGCTGCCGAACAGAATCATAAATTCGCcgacg < 1:1358274/69‑1 (MQ=255)
aGGTAGAGATAACGGTAATCACCGGTACAACCTGGAAGCTGCCGAACAGAATCATAAATTCGCcgacga < 1:1382102/69‑1 (MQ=255)
aGGTAGAGATAACGGTAATCACCGGTACAACCTGGAAGCTGCCGAACAGAATCATAAATTCGCcgacga < 1:711648/69‑1 (MQ=255)
ggTAGAGATAACGGTAATCACCGGTACAACCTGGAAGCTGCCGAACAGAATCATAAATTCGCcgacga < 1:2467996/68‑1 (MQ=255)
aCCGGTACAACCTGGAAGCTGCCGAACAGAATCATaa > 1:2327103/1‑37 (MQ=255)
aCCGGTACAACCTGGAAGCTGCCGAACAGAATCATaa < 1:3155886/37‑1 (MQ=255)
aCCGGTACAACCTGGAAGCTGCCGAACAGAATCATaa < 1:2652323/37‑1 (MQ=255)
aCCGGTACAACCTGGAAGCTGCCGAACAGAATCATaa < 1:1887029/37‑1 (MQ=255)
aCCGGTACAACCTGGAAGCTGCCGAACAGAATCATaa < 1:1565880/37‑1 (MQ=255)
|
TAACATCGCCAGCGAATAAACAGATGCAAAGACCAGCCCAAAGGTAGAGATAACGGTAATCACCGGTACAACCTGGAAGCTGCCGAACAGAATCATAAATTCGCCGACGA > minE/1487708‑1487817
|
| 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
