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 |
2,495,805 |
A→G |
46.7% |
A173A (GCT→GCC) |
emrD ← |
multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,495,805 | 0 | A | G | 46.7%
| 9.6
/ 91.3
| 105 | A173A (GCT→GCC) | emrD | multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base A (42/14); new base G (29/20); total (71/34) |
| Fisher's exact test for biased strand distribution p-value = 9.76e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.67e-01 |
Only 100 of 105 total aligned reads displayed.
GGCGCGTGCGCGGTGCATCGACCGGACGCGTTTCCGGCATCCAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCCACATCGTATCCAGCAGACCGCCG > minE/2495738‑2495871
|
ggCGCGTGCGCGGTGCATCGACCGGACGCGTTTCCGGCATCCAGCGGGCCATACTGAAGGTCACACCAg < 1:5132/69‑1 (MQ=255)
ggCGCGTGCGCGGTGCATCGACCGGACGCGTTTCCGGCATCCAGCGGGCCATACTGAAGGTCACACCAg < 1:222689/69‑1 (MQ=255)
tGCATCGACCGGACGCGTTTCCGGCATCCAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACca > 1:306041/1‑68 (MQ=255)
cGGACGCGTTTCCGGCATCCAGCGGTCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAagag < 1:666969/69‑1 (MQ=255)
cGGACGCGTTTCCGGCATCCAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAagag < 1:3015757/69‑1 (MQ=255)
ggACGCGTTTCCGGCATCCAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAagag < 1:1929263/68‑1 (MQ=255)
gCATCCAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGcc < 1:3226441/69‑1 (MQ=255)
gCATCCAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGcc < 1:963020/69‑1 (MQ=255)
gCATCCAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGcc < 1:3222478/69‑1 (MQ=255)
aTCCAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAg < 1:2747729/69‑1 (MQ=255)
aTCCAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAg < 1:156088/69‑1 (MQ=255)
aTCCAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAg < 1:2052741/69‑1 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGAt > 1:2130457/1‑52 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGAt > 1:2193301/1‑52 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGAt > 1:2343101/1‑52 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGAt > 1:2632045/1‑52 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGAt > 1:2668477/1‑52 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGAt > 1:278711/1‑52 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGAt > 1:1777501/1‑52 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGAt > 1:1658166/1‑52 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGAt > 1:1431967/1‑52 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGAt > 1:1224803/1‑52 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGtt > 1:2388689/1‑68 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:3121353/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:3058501/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:2299709/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:1334713/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:460342/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:1525424/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:2112938/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:3042678/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:1534756/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:499243/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:1573857/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:1899884/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:2374508/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:3289840/1‑69 (MQ=255)
cAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTc > 1:957537/1‑69 (MQ=255)
gCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCca > 1:3087124/1‑69 (MQ=255)
gCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCca > 1:2878614/1‑69 (MQ=255)
gCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCca > 1:809541/1‑69 (MQ=255)
gCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCca > 1:1722535/1‑69 (MQ=255)
gCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCca > 1:3352675/1‑69 (MQ=255)
ccATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCCACATCg > 1:2079763/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCg > 1:1555726/1‑67 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGt > 1:9663/1‑68 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:2912159/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:1085166/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:2846673/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:2995633/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:3010094/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:3065942/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:3178733/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:448314/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:3269060/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:435823/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:3346340/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:3347539/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:2657431/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:1068872/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:1178878/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:1490561/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:155532/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:1593942/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:1629266/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:1697568/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:1792592/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:1950237/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:2098681/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:2323394/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:2333141/1‑69 (MQ=255)
aTACTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAACAGGCACGCCAGTTCCACATCGTa > 1:2437442/1‑69 (MQ=255)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATGAc < 1:2880041/44‑1 (MQ=37)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:2567216/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:2815050/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:1177856/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:1178601/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:2877012/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:473862/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:262165/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:449111/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:399925/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:3389413/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:2316075/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:1667151/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:1862474/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:3018771/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:3195899/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:1962366/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:1983385/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:3113728/44‑1 (MQ=38)
aCTGAAAGTCACACCGGCACAAAGAACCAACAAAAAGAGATAAc < 1:2233629/44‑1 (MQ=38)
cTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCCACATCGTATcc > 1:1990015/1‑69 (MQ=255)
cacaCCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGcc < 1:1183929/44‑1 (MQ=255)
cacaCCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCCACATCGTATCCAGCAGAcc > 1:3154017/1‑69 (MQ=255)
ccAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCCACATCGTATCCAGCAGAccgccg > 1:1920469/1‑69 (MQ=255)
ccAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCCACATCGTATCCAGCAGAccgccg > 1:2599431/1‑69 (MQ=255)
ccAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCCACATCGTATCCAGCAGAccgccg > 1:1198538/1‑69 (MQ=255)
ccAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCCACATCGTATCCAGCAGAccgccg > 1:951705/1‑69 (MQ=255)
ccAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCCACATCGTATCCAGCAGAccgccg > 1:1092748/1‑69 (MQ=255)
|
GGCGCGTGCGCGGTGCATCGACCGGACGCGTTTCCGGCATCCAGCGGGCCATACTGAAGGTCACACCAGCACAAAGAACCAACAAAAAGAGATAACAGGCGCGCCAGTTCCACATCGTATCCAGCAGACCGCCG > minE/2495738‑2495871
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
