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 |
1,530,171 |
G→C |
100% |
V214V (GTC→GTG) |
yfcA ← |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,530,171 | 0 | G | C | 83.8%
| 88.2
/ 8.9
| 43 | V214V (GTC→GTG) | yfcA | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (0/7); new base C (36/0); total (36/7) |
| Fisher's exact test for biased strand distribution p-value = 3.10e-08 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TGCTCAACACCAGTCGTGAACCCATGCGCGCGCCGAGGAACTGCCCCACCAGCATGACAAAGCCCGTCGCCCAAATCACTTTGCCGCCGAGAATAAACAGCAGTA > minE/1530116‑1530220
|
tGCTCAACACCAGTCTTGACCCCCTGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:1695944/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:110387/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:2714545/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:2611841/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:2566363/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:444492/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:2424449/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:2278113/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:2230380/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:2193400/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:1935997/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:1764979/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:1384973/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:132774/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:12825/1‑64 (MQ=255)
tGCTCAACACCAGTCTTGACCCCATGCGCGCGCCGAGGAACTGTCCTACCAACATCACAAATcctg > 1:1164705/1‑64 (MQ=255)
tGCTCAACACCAGTCTTG‑ACCCATGCGCGCGCCGAGGAACTGTCCGACCAACATCACAAATcctg > 1:3256294/1‑63 (MQ=255)
ccAGTCGTGAACCCATGCGCGCGCCGAGGAACTGCCCCACCAGCATGACAAATCCCGTCGCCCAAATCa < 1:1342324/69‑1 (MQ=255)
ccAGTCGTGAACCCATGCGCGCGCCGAGGAACTGCCCCACCAGCATGACAAAGCCCGTCGCCCAAATCa < 1:702636/69‑1 (MQ=255)
ccAGTCGTGAACCCATGCGCGCGCCGAGGAACTGCCCCACCAGCATGACAAAGCCCGTCGCCCAAATCa < 1:552087/69‑1 (MQ=255)
ccAGTCGTGAACCCATGCGCGCGCCGAGGAACTGCCCCACCAGCATGACAAAGCCCGTCGCCCAAATCa < 1:1931418/69‑1 (MQ=255)
ccAGTCGTGAACCCATGCGCGCGCCGAGGAACTGCCCCACCAGCATGACAAAGCCCGTCGCCCAAATCa < 1:2464927/69‑1 (MQ=255)
ccAGTCGTGAACCCATGCGCGCGCCGAGGAACTGCCCCACCAGCATGACAAAGCCCGTCGCCCAAATCa < 1:3414275/69‑1 (MQ=255)
ccAGTCGTGAACCCATGCGCGCGCCGAGGAACTGCCCCACCAGCATGACAAAGCCCGTCGCCCAAATCa < 1:361465/69‑1 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCCCCgaga > 1:2883605/1‑56 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:3342856/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:348363/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:995878/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:39789/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:1045303/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:883012/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:697596/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:3289835/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:3226122/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:3055395/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:2884694/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:2638091/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:2500953/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:1926696/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:1905094/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:1896842/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:1732022/1‑67 (MQ=255)
ggAACTGTCCTACCAACATCACAAATCCTGTCGCCCAAATCACTTTGCCACCGAGAATAAAcagcagca > 1:1162714/1‑67 (MQ=255)
|
TGCTCAACACCAGTCGTGAACCCATGCGCGCGCCGAGGAACTGCCCCACCAGCATGACAAAGCCCGTCGCCCAAATCACTTTGCCGCCGAGAATAAACAGCAGTA > minE/1530116‑1530220
|
| 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
