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 |
1,867,299 |
G→A |
71.1% |
C18C (TGC→TGT) |
ygcS ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,867,299 | 0 | G | A | 71.1%
| 32.9
/ 13.6
| 38 | C18C (TGC→TGT) | ygcS | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base G (9/2); new base A (15/12); total (24/14) |
| Fisher's exact test for biased strand distribution p-value = 1.60e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.24e-01 |
ACCAATGACGCCGAGAACATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATGCGGCAGTGAAAACGGTTAAGCGGTAAATCATCCATTCGCACCGGTGAAGTGTTCATCTTTAC > minE/1867236‑1867358
|
aCCAATGACGCCGAGAACATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATGCGGCAGt > 1:2094494/1‑68 (MQ=255)
aCCAATGACGCCGAGAACATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATGCGGCAGt > 1:268067/1‑68 (MQ=255)
aCCAATGACGCCGAGAACATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATGCGGCAGt > 1:2694982/1‑68 (MQ=255)
aCCAATGACGCCGAGAACATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATGCGGCAGt > 1:3313739/1‑68 (MQ=255)
aCCAATGACGCCGAGAACATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATGCGGCAGt > 1:1829361/1‑68 (MQ=255)
aCCAATGACGCCGAGAACATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATGCGGCAGt > 1:864337/1‑68 (MQ=255)
aCCAATGACGCCGAGAACATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATGCGGCAGt > 1:1514271/1‑68 (MQ=255)
aCCAATGACGCCGAGAACATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATGCGGCAGt > 1:898133/1‑68 (MQ=255)
aCCAATGACGCCGAGAACATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATGCGGCAGt > 1:989710/1‑68 (MQ=255)
ccGAGAACATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATGCGGCAGTGAAAACGGTTa < 1:2294204/69‑1 (MQ=255)
cATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTa < 1:578419/69‑1 (MQ=255)
cATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTa < 1:1269732/69‑1 (MQ=255)
cATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTa < 1:552343/69‑1 (MQ=255)
cATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTa < 1:525929/69‑1 (MQ=255)
cATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTa < 1:3281515/69‑1 (MQ=255)
cATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTa < 1:3190791/69‑1 (MQ=255)
cATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTa < 1:914773/69‑1 (MQ=255)
cATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTa < 1:1198411/69‑1 (MQ=255)
cATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTa < 1:1281800/69‑1 (MQ=255)
cATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTa < 1:2618776/69‑1 (MQ=255)
cATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTa < 1:2612878/69‑1 (MQ=255)
cATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTa < 1:2458770/69‑1 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:465902/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:962168/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:1341497/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:1632231/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:2042484/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:557852/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:2110363/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:2673060/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:450208/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:3399695/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:3357742/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:324395/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:2640211/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:3014742/1‑69 (MQ=255)
aCCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATTCGACAGTGAAAACGGTTAAGCGGTAAatc > 1:2954121/1‑69 (MQ=255)
agcaATGCGGCAGTGAAAACGGTTAAGCGGTAAATCATCCATTCGCACAGGTGAAGTGTTCATCTTTAc < 1:980716/69‑1 (MQ=255)
|
ACCAATGACGCCGAGAACATAACCGTCGGTCAGGTGTGCGCCGAAAGTGAGCGCAGCAATGCGGCAGTGAAAACGGTTAAGCGGTAAATCATCCATTCGCACCGGTGAAGTGTTCATCTTTAC > minE/1867236‑1867358
|
| 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
