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 |
|
A8 F1 I1 R1
|
771 |
44.8 |
2153074 |
94.1% |
2026042 |
109.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,811,495 |
G→A |
L23L (CTG→CTA) |
emrA → |
multidrug efflux system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,811,495 | 0 | G | A | 89.8%
| 120.2
/ 6.5
| 49 | L23L (CTG→CTA) | emrA | multidrug efflux system |
| Reads supporting (aligned to +/- strand): ref base G (2/3); new base A (22/22); total (24/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.87e-01 |
GCTGGCCTTTTTGGCAAGCAGGTCGGCTCAGCCGATGAGTTAAGAAGATCGTGGAGAACAATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTGCTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGACGCATACGTGGCAGGGAATCAAATTCAAAT > NC_000913/2811365‑2811617
|
gCTGGCCTTTTTGGCAAGCAGGTCGGCTCAGCCGATGAGTTAAGAAGATCGTGGAGAACAATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTActcct < 2:338110/136‑1 (MQ=255)
gCTGGCCTTTTTGGCAAGCAGGTCGGCTCAGCCGATGAGTTAAGAAGATCGTGGAGAACAATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTActcct > 1:338110/1‑136 (MQ=255)
tGGCCTTTTTTGCAAGCAAGTCGGCTCAACCGATGAGTTAAGAAAATCCTTGAGAACCATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTtc < 1:248761/139‑1 (MQ=255)
ggCCTTTTTGGCAAGCAGGTCGGCTCAGCCGATGAGTTAAGAAGATCGTGGAGAACAATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTtct < 1:449373/139‑1 (MQ=255)
gCCTTTTTGGCAAGCAGGTCGGCTCAGCCGATGAGTTAAGAAGATCGTGGAGAACAATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTGCTCCTCCTtc < 1:848360/137‑1 (MQ=255)
gCCTTTTTGGCAAGCAGGTCGGCTCAGCCGATGAGTTAAGAAGATCGTGGAGAACAATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTGCTCCTCCTtc > 2:848360/1‑137 (MQ=255)
ttGGCAAGCAGGTCGGCTCAGCCGATGAGTTAAGAAGATCGTGGAGAACAATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTGCTCCTCCTTCTCACCTTg < 2:910460/139‑1 (MQ=255)
ccGATGAGTTAAGAAGATCGTGGAGAACAATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTa > 1:14785/1‑139 (MQ=255)
gTTAAGAAGATCGTGGAGAACAATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAg < 2:14785/139‑1 (MQ=255)
aTCGTGGAGAACAATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACGTTGCTCTTTATAATTATTGCCGTa > 1:267177/1‑123 (MQ=255)
aTCGTGGAGAACAATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTCCTCACCTTGCTCTTTATAATTATTGCCGTa < 2:267177/123‑1 (MQ=255)
tGGAGAACAATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGtt > 1:247188/1‑139 (MQ=255)
tGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTg > 2:446917/1‑86 (MQ=255)
tGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTg < 1:446917/86‑1 (MQ=255)
gAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTg > 2:279708/1‑85 (MQ=255)
gAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTg < 1:279708/85‑1 (MQ=255)
gcgcAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCa > 1:212407/1‑139 (MQ=255)
gcAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCAcc > 1:215688/1‑78 (MQ=255)
gcAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCAcc < 2:215688/78‑1 (MQ=255)
cAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTg < 1:1071304/80‑1 (MQ=255)
cAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTg > 2:1071304/1‑80 (MQ=255)
cAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTgg > 1:333345/1‑126 (MQ=255)
cAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTgg < 2:333345/126‑1 (MQ=255)
aaTGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGct < 2:128397/80‑1 (MQ=255)
aaTGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGct > 1:128397/1‑80 (MQ=255)
tGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCgaa < 1:61140/139‑1 (MQ=255)
cGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCgaaga > 2:426353/1‑139 (MQ=255)
gagaCTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTGCTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGa < 2:791885/97‑1 (MQ=255)
gagaCTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTGCTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGa > 1:791885/1‑97 (MQ=255)
aCTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCg < 2:247188/139‑1 (MQ=255)
aaaCCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGa > 1:321440/1‑139 (MQ=255)
cccGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGACGCa < 2:212407/139‑1 (MQ=255)
cGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTg > 2:938562/1‑97 (MQ=255)
cGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTg < 1:938562/97‑1 (MQ=255)
cGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGACGCATa > 2:975536/1‑139 (MQ=255)
cagcaACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCgaag < 1:834810/121‑1 (MQ=255)
cagcaACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCgaag > 2:834810/1‑121 (MQ=255)
cagcaACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGACGCATACg < 1:975536/139‑1 (MQ=255)
aagaGCGGCAAACGTAAGCGTCTACT‑CTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGAc > 2:417666/1‑116 (MQ=255)
aagaGCGGCAAACGTAAGCGTCTACT‑CTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGAc > 2:573635/1‑116 (MQ=255)
aagaGCGGCAAACGTAAGCGTCTACT‑CTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGAc < 1:573635/116‑1 (MQ=255)
aagaGCGGCAAACGTAAGCGTCTACT‑CTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGAc < 1:417666/116‑1 (MQ=255)
agagCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGACGCATACGTGGCAgg < 1:670944/130‑1 (MQ=255)
agagCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGACGCATACGTGGCAgg > 2:670944/1‑130 (MQ=255)
gagCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGACGCATACGTGGCAGGGAAtcaaatt > 2:876073/1‑139 (MQ=255)
gCGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGACGCATACGTGGCAGGGAAtcaaattca > 1:104790/1‑139 (MQ=255)
cGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTtat > 2:548517/1‑45 (MQ=255)
cGGCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTtat < 1:548517/45‑1 (MQ=255)
gCAAACGTAAGCGTCTACTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGACGCATACGTGGCAGGGAAtcaaattcaaat < 1:261451/139‑1 (MQ=255)
|
GCTGGCCTTTTTGGCAAGCAGGTCGGCTCAGCCGATGAGTTAAGAAGATCGTGGAGAACAATATGAGCGCAAATGCGGAGACTCAAACCCCGCAGCAACCGGTAAAGAAGAGCGGCAAACGTAAGCGTCTGCTCCTCCTTCTCACCTTGCTCTTTATAATTATTGCCGTAGCGATAGGGATTTATTGGTTTTTGGTACTGCGTCACTTCGAAGAAACCGATGACGCATACGTGGCAGGGAATCAAATTCAAAT > NC_000913/2811365‑2811617
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
