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 |
2,087,622 |
G→A |
43.3% |
L39L (CTG→CTA) |
yhaH → |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,087,622 | 0 | G | A | 43.3%
| 15.6
/ 43.4
| 60 | L39L (CTG→CTA) | yhaH | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (23/11); new base A (22/4); total (45/15) |
| Fisher's exact test for biased strand distribution p-value = 2.28e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.29e-01 |
AAGAGTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTA > minE/2087567‑2087686
|
aaGAGTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGt < 1:3400366/69‑1 (MQ=255)
aaGAGTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGt < 1:2964988/69‑1 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTgg > 1:3148102/1‑59 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATaaaa > 1:2711065/1‑65 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:3094440/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:1949418/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:2274625/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:2579286/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:2742936/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:2903084/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:3024045/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:2838256/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:496913/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:555134/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:695515/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:841651/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:904113/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:1528762/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:1276352/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:1317976/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:134443/1‑69 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGt > 1:2024654/1‑68 (MQ=255)
agagTACTGGATGTTTATTCTGGTCAACAGCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:3110696/1‑69 (MQ=39)
agagTACTGGATGTTTATTCTGCTCAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGtt > 1:611062/1‑69 (MQ=39)
tACTGGATGTTTATTCTGGTCAACATTATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGc > 1:1337240/1‑69 (MQ=255)
tACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGc > 1:3411998/1‑69 (MQ=255)
tACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGc > 1:1474854/1‑69 (MQ=255)
tACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGc > 1:2957935/1‑69 (MQ=255)
tACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGc > 1:3208072/1‑69 (MQ=255)
tACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGc > 1:3312598/1‑69 (MQ=255)
tACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGc > 1:2648139/1‑69 (MQ=255)
tACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGc > 1:454029/1‑69 (MQ=255)
tACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGc > 1:2097921/1‑69 (MQ=255)
tACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGc > 1:862028/1‑69 (MQ=255)
tACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGc > 1:1126365/1‑69 (MQ=255)
ggATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTgg > 1:1629040/1‑68 (MQ=255)
ggATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGc > 1:3033915/1‑69 (MQ=255)
ggATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGc > 1:3029844/1‑69 (MQ=255)
ggATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGc > 1:2888437/1‑69 (MQ=255)
ggATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGc > 1:2221961/1‑69 (MQ=255)
ggATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGc > 1:1611453/1‑69 (MQ=255)
tATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAAcgcg > 1:3287471/1‑68 (MQ=255)
tATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACgcgc > 1:2597761/1‑69 (MQ=255)
ttCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCt < 1:1680653/68‑1 (MQ=255)
ttCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCt < 1:1624723/68‑1 (MQ=255)
gTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCtggtgg > 1:2009448/1‑68 (MQ=255)
cAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGTTAGGCTGGCAACGTGCCGGTGGCGa < 1:1615437/69‑1 (MQ=255)
cAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGTTAGGCTGGCAACGTGCCGGTGGCGa < 1:1974608/69‑1 (MQ=255)
cAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGTTAGGCTGGCAACGTGCCGGTGGCGa < 1:1208343/69‑1 (MQ=255)
cAACATCATCTTTACGTTCGTGCTGGGGCTACTGGATAAAATGTTAGGCTGGCAACGTGCCGGTGGCGa < 1:2239594/69‑1 (MQ=255)
tcatcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAAGGCGATGGTGGCGAAGGCa > 1:51440/1‑69 (MQ=255)
tcatcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGGTGGTGGCGAAGGCa > 1:890512/1‑69 (MQ=255)
tcatcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCa < 1:1027391/69‑1 (MQ=255)
tcatcTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCa > 1:2417298/1‑69 (MQ=255)
cGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTgacg < 1:2853171/68‑1 (MQ=255)
cGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTgacg < 1:651725/68‑1 (MQ=255)
cGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTgacg < 1:3366574/68‑1 (MQ=255)
tCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACaa < 1:790511/69‑1 (MQ=255)
tCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACaa < 1:1487476/69‑1 (MQ=255)
tCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCCGACGACaa < 1:1264850/69‑1 (MQ=255)
gctgctGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTa < 1:1682146/68‑1 (MQ=255)
gctgctGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTa < 1:1399122/68‑1 (MQ=255)
gctgctGGATAAAATGTTAGGCTAGCAACGCGCTGGTGTCGAAGGCACCCTGACGACAATCTACGGTa < 1:3045237/68‑1 (MQ=255)
ctgctgGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACaa < 1:3395913/58‑1 (MQ=255)
|
AAGAGTACTGGATGTTTATTCTGGTCAACATCATCTTTACGTTCGTGCTGGGGCTGCTGGATAAAATGTTAGGCTGGCAACGCGCTGGTGGCGAAGGCACCCTGACGACAATCTACGGTA > minE/2087567‑2087686
|
| 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
