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 |
1,292,843 |
A→G |
33.9% |
N105N (AAT→AAC) |
yeeO ← |
predicted multidrug efflux system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,292,843 | 0 | A | G | 33.9%
| 37.9
/ 29.2
| 56 | N105N (AAT→AAC) | yeeO | predicted multidrug efflux system |
| Reads supporting (aligned to +/- strand): ref base A (12/25); new base G (7/12); total (19/37) |
| Fisher's exact test for biased strand distribution p-value = 7.72e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.29e-01 |
CATCGCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGAACAACACTTT > minE/1292777‑1292899
|
cATCGCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCAtt > 1:1340942/1‑69 (MQ=255)
cGCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc < 1:3082106/69‑1 (MQ=255)
cGCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc < 1:3395713/69‑1 (MQ=255)
gCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc > 1:3413127/1‑68 (MQ=255)
gCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc < 1:2039599/68‑1 (MQ=255)
gCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc < 1:2223871/68‑1 (MQ=255)
gCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc > 1:2845641/1‑68 (MQ=255)
gCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc < 1:3130664/68‑1 (MQ=255)
gCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc > 1:505939/1‑68 (MQ=255)
gCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc < 1:1414220/68‑1 (MQ=255)
gCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc < 1:688291/68‑1 (MQ=255)
gCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc > 1:1322292/1‑68 (MQ=255)
gCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc > 1:122370/1‑68 (MQ=255)
gCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtcta > 1:2761426/1‑67 (MQ=255)
gCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATTCTcc > 1:736969/1‑69 (MQ=255)
cagcTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACa < 1:1290474/69‑1 (MQ=255)
cagcTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACa < 1:1926693/69‑1 (MQ=255)
cagcTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACa < 1:1946089/69‑1 (MQ=255)
agcTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc < 1:935427/52‑1 (MQ=255)
gcTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGc < 1:1672170/69‑1 (MQ=255)
gcTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGc < 1:2005163/69‑1 (MQ=255)
gcTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGc < 1:1285985/69‑1 (MQ=255)
gcTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGc < 1:723048/69‑1 (MQ=255)
gcTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGc < 1:2375096/69‑1 (MQ=255)
gcTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGc < 1:2931023/69‑1 (MQ=255)
gcTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGc < 1:2887273/69‑1 (MQ=255)
gcTGACCAGAAAAGCGCTCAGAACCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGc < 1:204171/69‑1 (MQ=255)
ttaCCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATtctc < 1:2769238/47‑1 (MQ=255)
ccAGAAAAGTGCTCAGGACCCCCATCAACAGGACACAGGCGTTCTCCATGAAGATAGGAACAGCAAGCg < 1:433646/69‑1 (MQ=255)
aaaGTGCTCAGGACCCCCATCAACAGGACACAGGCGTTCTCCATGAAGATAGGAACAGCAAGCg < 1:2643761/64‑1 (MQ=255)
aaaGTGCTCAGGACCCCCATCAACAGGACACAGGCGTTCTCCATGAAGATAGGAACAGCAAGCg < 1:3242847/64‑1 (MQ=255)
aaaGTGCTCAGGACCCCCATCAACAGGACACAGGCGTTCTCCATGAAGATAGGAACAGCAAGCg < 1:3312380/64‑1 (MQ=255)
aaaGTGCTCAGGACCCCCATCAACAGGACACAGGCGTTCTCCATGAAGATAGGAACAGCAAGCg < 1:1673703/64‑1 (MQ=255)
aaaGTGCTCAGGACCCCCATCAACAGGACACAGGCGTTCTCCATGAAGATAGGAACAGCAAGCg < 1:3380068/64‑1 (MQ=255)
aaaGTGCTCAGGACCCCCATCAACAGGACACAGGCGTTCTCCATGAAGATAGGAACAGCAAGCg < 1:153266/64‑1 (MQ=255)
aaaGTGCTCAGGACCCCCATCAACAGGACACAGGCGTTCTCCATGAAGATAGGAACAGCAAGCg < 1:2769259/64‑1 (MQ=255)
aaaGTGCTCAGGACCCCCATCAACAGGACACAGGCGTTCTCCATGAAGATAGGAACAGCAAGCg < 1:652061/64‑1 (MQ=255)
aaaGTGCTCAGGACCCCCATCAACAGGACACAGGCGTTCTCCATGAAGATAGGAACAGCAAGCg < 1:2113885/64‑1 (MQ=255)
aaaGTGCTCAGGACCCCCATCAACAGGACACAGGCGTTCTCCATGAAGATAGGAACAGCAAGCg < 1:2077922/64‑1 (MQ=255)
aaaGTGCTCAGGACCCCCATCAACAGGACACAGGCGTTCTCCATGAAGATAGGAACAGCAAGCg < 1:2034303/64‑1 (MQ=255)
aCCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAg < 1:1341148/69‑1 (MQ=255)
cccccATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGa < 1:2067688/69‑1 (MQ=255)
ccccATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGa < 1:2247676/68‑1 (MQ=255)
cATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGaacaa < 1:1013821/69‑1 (MQ=255)
cATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGaacaa < 1:2608332/69‑1 (MQ=255)
aaCAGGACACAGGCATTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGAACAacac > 1:2020347/1‑68 (MQ=255)
aaCAGGACACAGGCATTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGAACAACACt > 1:1687313/1‑69 (MQ=255)
aaCAGGACACAGGCATTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGAACAACACt > 1:1946391/1‑69 (MQ=255)
aaCAGGACACAGGCATTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGAACAACACt > 1:2252507/1‑69 (MQ=255)
aGGCGTTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGAACAACACttt > 1:3280502/1‑61 (MQ=255)
aGGCGTTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGAACAACACttt > 1:3200621/1‑61 (MQ=255)
aGGCGTTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGAACAACACttt > 1:3068264/1‑61 (MQ=255)
aGGCGTTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGAACAACACttt > 1:1561256/1‑61 (MQ=255)
aGGCGTTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGAACAACACttt > 1:1557224/1‑61 (MQ=255)
aGGCGTTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGAACAACACttt > 1:2982774/1‑61 (MQ=255)
aGGCGTTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGAACAACACttt > 1:234588/1‑61 (MQ=255)
|
CATCGCATCTTTTCCCAGCCAGCTGACCAGAAAAGTGCTCAGAACCCCCATCAACAGGACACAGGCATTCTCCATGAAGATAGGAACAGCAAGCGGGGTTATCTCGCGCCAGAACAACACTTT > minE/1292777‑1292899
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
