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 |
1,464,999 |
A→G |
47.5% |
T658T (ACT→ACC) |
gyrA ← |
DNA gyrase (type II topoisomerase), subunit A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,464,999 | 0 | A | G | 47.5%
| ‑1.8
/ 32.1
| 40 | T658T (ACT→ACC) | gyrA | DNA gyrase (type II topoisomerase), subunit A |
| Reads supporting (aligned to +/- strand): ref base A (3/18); new base G (10/9); total (13/27) |
| Fisher's exact test for biased strand distribution p-value = 1.71e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGCCGTCAACCAGTTTGATCGCCACTTTACCGGCGGTACGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAGACTTTCACGCCTTCTTCAAACTCGGT > minE/1464935‑1465061
|
cGCCTTCAACCAGTTTGATCGCCACTTTACCGGCGGTACGCAGACGGTTGAACTCGGTGAGGACGGttt < 1:1913329/69‑1 (MQ=255)
cGCCTTCAACCAGTTTGATCGCCACTTTACCGGCGGTACGCAGACGGTTGAACTCGGTGAGGACGGttt < 1:1070292/69‑1 (MQ=255)
cGCCTTCAACCAGTTTGATCGCCACTTTACCGGCGGTACGCAGACGGTTGAACTCGGTGAGGACGGttt < 1:60900/69‑1 (MQ=255)
cGCCTTCAACCAGTTTGATCGCCACTTTACCGGCGGTACGCAGACGGTTGAACTCGGTGAGGACGGttt < 1:2969692/69‑1 (MQ=255)
cGCCTTCAACCAGTTTGATCGCCACTTTACCGGCGGTACGCAGACGGTTGAACTCGGTGAGGACGGttt < 1:1876844/69‑1 (MQ=255)
cGCCTTCAACCAGTTTGATCGCCACTTTACCGGCGGTACGCAGACGGTTGAACTCGGTGAGGACGGttt < 1:1712061/69‑1 (MQ=255)
cGCCTTCAACCAGTTTGATCGCCACTTTACCGGCGGTACGCAGACGGTTGAACTCGGTGAGGACGGttt < 1:1176603/69‑1 (MQ=255)
cGCCTTCAACCAGTTTGATCGCCACTTTACCGGCGGTACGCAGACGGTTGAACTCGGTGAGGACGGttt < 1:601865/69‑1 (MQ=255)
cTTTACCGGCGGTACGCAGACGGTTGAACTCGGTGAGGACGGttt < 1:2444241/45‑1 (MQ=255)
tACCGGCGGTACGCAGACGGTTGAACTCGGTTAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGcc > 1:2270858/1‑68 (MQ=255)
tACCGGCGGTACGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGcc > 1:984892/1‑68 (MQ=255)
tACCGGCGGTACGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGcc > 1:898475/1‑68 (MQ=255)
gcggTACGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAg < 1:1689408/69‑1 (MQ=255)
gcggTACGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAg < 1:578045/69‑1 (MQ=255)
gcggTACGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAg < 1:369686/69‑1 (MQ=255)
gcggTACGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAg < 1:3351892/69‑1 (MQ=255)
gcggTACGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAg < 1:2245921/69‑1 (MQ=255)
gcggTACGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAg < 1:3072641/69‑1 (MQ=255)
gcggTACGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAg < 1:1250272/69‑1 (MQ=255)
gcggTACGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGAGGTCGCCATGAAg < 1:2284655/69‑1 (MQ=255)
gTACGCAGACGGTTGAACTCGGTGAGGACGGTTTTCTTCACAGTACCGTTAGCGGTCGCCa > 1:2715020/1‑61 (MQ=255)
gTACGCAGACGGTTGAACTCGGTGAGGACGGTTTTCTTCACAGTACCGTTAGCGGTCGCCATGAAGACt > 1:2868687/1‑69 (MQ=255)
gTACGCAGACGGTTGAACTCGGTGAGGACGGTTTTCTTCACAGTACCGTTAGCGGTCGCCATGAAGACt > 1:2899928/1‑69 (MQ=255)
gTACGCAGACGGTTGAACTCGGTGAGGACGGTTTTCTTCACAGTACCGTTAGCGGTCGCCATGAAGACt > 1:637687/1‑69 (MQ=255)
gTACGCAGACGGTTGAACTCGGTGAGGACGGTTTTCTTCACAGTACCGTTAGCGGTCGCCATGAAGACt > 1:2985555/1‑69 (MQ=255)
gTACGCAGACGGTTGAACTCGGTGAGGACGGTTTTCTTCACAGTACCGTTAGCGGTCGCCATGAAGACt > 1:219729/1‑69 (MQ=255)
gTACGCAGACGGTTGAACTCGGTGAGGACGGTTTTCTTCACAGTACCGTTAGCGGTCGCCATGAAGACt > 1:755809/1‑69 (MQ=255)
gTACGCAGACGGTTGAACTCGGTGAGGACGGTTTTCTTCACAGTACCGTTAGCGGTCGCCATGAAGACt > 1:1395707/1‑69 (MQ=255)
gTACGCAGACGGTTGAACTCGGTGAGGACGGTTTTCTTCACAGTACCGTTAGCGGTCGCCATGAAGACt > 1:1116656/1‑69 (MQ=255)
gTAAGCAGACGGTTGAACTCGGTGAGGACGGTTTTCTTCACAGTACCGTTAGCGGTCGCCATGAAGAc > 1:3052784/1‑68 (MQ=255)
aCGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAGACttt < 1:2865075/69‑1 (MQ=255)
aCGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAGACttt < 1:2635235/69‑1 (MQ=255)
aCGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAGACttt < 1:2630176/69‑1 (MQ=255)
aCGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAGACttt < 1:151345/69‑1 (MQ=255)
gAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAGACTTTCACGCCTTCTTCAAACTCGGt < 1:689657/69‑1 (MQ=255)
gAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAGACTTTCACGCCTTCTTCAAACTCGGt < 1:2023053/69‑1 (MQ=255)
gAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAGACTTTCACGCCTTCTTCAAACTCGGt < 1:858885/69‑1 (MQ=255)
gAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAGACTTTCACGCCTTCTTCAAACTCGGt < 1:1729975/69‑1 (MQ=255)
gAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAGACTTTCACGCCTTCTTCAAACTCGGt < 1:99244/69‑1 (MQ=255)
aGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAGACTTTCACGCCTTCTTCAAACTCGGt < 1:997902/68‑1 (MQ=255)
|
CGCCGTCAACCAGTTTGATCGCCACTTTACCGGCGGTACGCAGACGGTTGAACTCGGTGAGGACAGTTTTCTTCACGGTACCGTTAGCGGTCGCCATGAAGACTTTCACGCCTTCTTCAAACTCGGT > minE/1464935‑1465061
|
| 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
