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 |
2,694,489 |
G→A |
25.5% |
P47S (CCT→TCT) |
yrfF ← |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,694,489 | 0 | G | A | 25.5%
| 89.7
/ 24.8
| 74 | P47S (CCT→TCT) | yrfF | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (42/13); new base A (9/10); total (51/23) |
| Fisher's exact test for biased strand distribution p-value = 2.43e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.08e-01 |
GCCAGGCACCTGTAATACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAGGGCAGCTGACGCCGTCTGGAT > minE/2694424‑2694553
|
gCCAGGCACCTGTAATACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGgtg < 1:2051567/68‑1 (MQ=255)
gCCAGGCACCTGTAATACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGgtg < 1:1600875/68‑1 (MQ=255)
aCCTGTAATACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTa > 1:630736/1‑69 (MQ=255)
aCCTGTAATACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTa > 1:2728564/1‑69 (MQ=255)
aCCTGTAATACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTa > 1:1035381/1‑69 (MQ=255)
ccTGTAATACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAg > 1:82578/1‑64 (MQ=255)
ccTGTAATACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAg > 1:311526/1‑64 (MQ=255)
ccTGTAATACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAg > 1:2393884/1‑64 (MQ=255)
ccTGTAATACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAg > 1:1838279/1‑64 (MQ=255)
ccTGTAATACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAg > 1:973902/1‑64 (MQ=255)
aTACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGtgtg > 1:868947/1‑56 (MQ=255)
aTACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGtgtg > 1:3180384/1‑56 (MQ=255)
aTACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGtgtg > 1:2730815/1‑56 (MQ=255)
aTACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGtgtg > 1:920551/1‑56 (MQ=255)
aTACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGtgtg > 1:971383/1‑56 (MQ=255)
aTACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGtgtg > 1:2196053/1‑56 (MQ=255)
aTACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGttt > 1:3059977/1‑69 (MQ=255)
aTACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGttt > 1:2500944/1‑69 (MQ=255)
aCCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGtt > 1:1534630/1‑58 (MQ=255)
aCCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGtt > 1:1219496/1‑58 (MQ=255)
ccTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGtt < 1:456701/57‑1 (MQ=255)
tCAGGCTCTCAAGATAATTTTCAACGGGGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATcc < 1:1303165/68‑1 (MQ=255)
tCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATcc < 1:3020480/68‑1 (MQ=255)
tCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATcc < 1:324383/68‑1 (MQ=255)
tCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATcc < 1:3052000/68‑1 (MQ=255)
tCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATcc < 1:3039333/68‑1 (MQ=255)
tCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATcc < 1:1928247/68‑1 (MQ=255)
tCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATcc < 1:1927046/68‑1 (MQ=255)
tCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATcc < 1:1635883/68‑1 (MQ=255)
tCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATcc < 1:679576/68‑1 (MQ=255)
gCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGa > 1:1816737/1‑68 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAgg < 1:609199/65‑1 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAgg < 1:2825919/65‑1 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAgg < 1:2620725/65‑1 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAgg < 1:1488918/65‑1 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAgg < 1:779762/65‑1 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAATGCGtt > 1:633111/1‑69 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGtt > 1:2756827/1‑69 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGtt > 1:408485/1‑69 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGtt > 1:982593/1‑69 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGtt > 1:974277/1‑69 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGtt > 1:3164653/1‑69 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGtt > 1:488625/1‑69 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGtt > 1:3435949/1‑69 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGtt > 1:1504206/1‑69 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGtt > 1:1477783/1‑69 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGtt > 1:1721485/1‑69 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGtt > 1:1225059/1‑69 (MQ=255)
aaGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGtt > 1:1772487/1‑69 (MQ=255)
aaGATAAATTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGtt > 1:2601403/1‑69 (MQ=255)
aGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAgg < 1:3225217/64‑1 (MQ=255)
tAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTgg > 1:2349629/1‑67 (MQ=255)
tAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTgg > 1:924374/1‑67 (MQ=255)
tttCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAg < 1:2847965/68‑1 (MQ=255)
tttCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAg < 1:783875/68‑1 (MQ=255)
tttCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAg < 1:909892/68‑1 (MQ=255)
tttCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAg < 1:1262930/68‑1 (MQ=255)
tttCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAg < 1:1162279/68‑1 (MQ=255)
cGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATCCACGAAGGCGTTGGTCCAGGGCAGc > 1:218484/1‑68 (MQ=255)
cGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATCCACGAAGGCGTTGGTCCAGGGCAGCt > 1:1345787/1‑69 (MQ=255)
cGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATCCACGAAGGCGTTGGTCCAGGGCAGCt > 1:1205589/1‑69 (MQ=255)
cGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATCCACGAAGGCGTTGGTCCAGGGCAGCt > 1:3028005/1‑69 (MQ=255)
cGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATCCACGAAGGCGTTGGTCCAGGGCAGCt > 1:1102189/1‑69 (MQ=255)
cGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATCCACGAAGGCGTTGGTCCAGGGCAGCt > 1:617175/1‑69 (MQ=255)
cGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATCCACGAAGGCGTTGGTCCAGGGCAGCt > 1:2044181/1‑69 (MQ=255)
cGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATCCACGAAGGCGTTGGTCCAGGGCAGCt > 1:25159/1‑69 (MQ=255)
cGGCGCTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATCCACGAAGGCGTTGGTCCAGGGCAGCt > 1:2781338/1‑69 (MQ=255)
cTACGTTCTTCAGATGTGAGTTTACGCGTTTGCGCATcc < 1:803264/39‑1 (MQ=255)
aCGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAGGGCAGCTGccgccg > 1:941767/1‑69 (MQ=255)
cGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAgt < 1:2813962/43‑2 (MQ=255)
cAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAGGGCAGCTGACGCCGTCTGGAt > 1:1482280/1‑68 (MQ=255)
cAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAGGGCAGCTGACGCCGTCTGGAt > 1:1563939/1‑68 (MQ=255)
cAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAGGGCAGCTGACGCCGTCTGGAt > 1:1759979/1‑68 (MQ=255)
cAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAGGGCAGCTGACGCCGTCTGGAt > 1:189358/1‑68 (MQ=255)
cAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAGGGCAGCTGACGCCGTCTGGAt > 1:2203197/1‑68 (MQ=255)
cAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAGGGCAGCTGACGCCGTATGGAt > 1:822611/1‑68 (MQ=255)
|
GCCAGGCACCTGTAATACCTGCGTCAGGCTCTCAAGATAATTTTCAACGGCGCTACGTTCTTCAGGTGTGAGTTTACGCGTTTGCGCATCCGCGAAGGCGTTGGTCCAGGGCAGCTGACGCCGTCTGGAT > minE/2694424‑2694553
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
