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 |
1,357,658 |
G→A |
35.3% |
S488S (TCC→TCT) |
yehB ← |
predicted outer membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,357,658 | 0 | G | A | 35.3%
| 70.0
/ 54.3
| 96 | S488S (TCC→TCT) | yehB | predicted outer membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (24/38); new base A (24/10); total (48/48) |
| Fisher's exact test for biased strand distribution p-value = 5.15e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.23e-01 |
ACGTACTTAATGACACAGACCCCCAACCTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGTTTTC > minE/1357603‑1357723
|
aCGTACTTAATGACACAGACCCCCAACCTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTAtttt > 1:3389586/1‑69 (MQ=255)
aCGTACTTAATGACACAGACCCCCAACCTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTAtttt > 1:1885812/1‑69 (MQ=255)
gTACTTAAGGACACAGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTAttttt < 1:2241261/68‑1 (MQ=255)
gTACTTAAGGACACAGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTAttttt < 1:3196040/68‑1 (MQ=255)
gTACTTAAGGACACAGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTAttttt < 1:3115287/68‑1 (MQ=255)
gTACTTAAGGACACAGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTAttttt < 1:2927100/68‑1 (MQ=255)
gTACTTAAGGACACAGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTAttttt < 1:2499152/68‑1 (MQ=255)
gTACTTAAGGACACAGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTAttttt < 1:831685/68‑1 (MQ=255)
gTACTTAAGGACACAGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTAttttt < 1:1286219/68‑1 (MQ=255)
gTACTTAAGGACACAGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTAttttt < 1:115224/68‑1 (MQ=255)
tACTTAAGGACACAGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTAttttt < 1:3090883/67‑1 (MQ=255)
aCTTAAGGACACAGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTAttttt < 1:466182/66‑1 (MQ=255)
tAATGACACAGACCCCCAACCTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGc > 1:2151817/1‑68 (MQ=255)
tAATGACACAGACCCCCAACCTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGc > 1:1118018/1‑68 (MQ=255)
tAATGACACAGACCCCCAACCTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGc > 1:3221267/1‑68 (MQ=255)
cacaGAACCCCAGGCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATc > 1:546988/1‑69 (MQ=255)
cacaGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGaaa > 1:853398/1‑47 (MQ=25)
cacaGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATc > 1:2239027/1‑69 (MQ=255)
cacaGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATc > 1:2911088/1‑69 (MQ=255)
cacaGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATc > 1:2997955/1‑69 (MQ=255)
cacaGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATc > 1:2546857/1‑69 (MQ=255)
cacaGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATc > 1:3355810/1‑69 (MQ=255)
cacaGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATc > 1:2695743/1‑69 (MQ=255)
cacaGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATc > 1:3244417/1‑69 (MQ=255)
cacaGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATc > 1:1505019/1‑69 (MQ=255)
cacaGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATc > 1:1578874/1‑69 (MQ=255)
cacaGAACCCCAGCCTTCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATc > 1:2696574/1‑69 (MQ=255)
acaGACCCCCAACCTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCg > 1:1517152/1‑69 (MQ=255)
cccAACCTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGt < 1:482071/69‑1 (MQ=255)
cccAACCTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGt < 1:839273/69‑1 (MQ=255)
cccAACCTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGt < 1:2919100/69‑1 (MQ=255)
cccAACCTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGt < 1:2547312/69‑1 (MQ=255)
ccTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGtaataa > 1:700766/1‑69 (MQ=255)
ccTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGtaataa > 1:1087366/1‑69 (MQ=255)
ccTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGtaataa > 1:945887/1‑69 (MQ=255)
ttCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCaaa > 1:663810/1‑51 (MQ=255)
ttCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATCGTTCTGGTAATAATc > 1:1889626/1‑69 (MQ=255)
ttCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATCGTTCTGGTAATAATc > 1:2303503/1‑69 (MQ=255)
ttCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATCGTTCTGGTAATAATc > 1:2306662/1‑69 (MQ=255)
ttCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATCGTTCTGGTAATAATc > 1:2535246/1‑69 (MQ=255)
ttCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATCGTTCTGGTAATAATc > 1:2788566/1‑69 (MQ=255)
ttCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATCGTTCTGGTAATAATc > 1:2156822/1‑69 (MQ=255)
ttCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATCGTTCTGGTAATAATc > 1:1720188/1‑69 (MQ=255)
ttCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATCGTTCTGGTAATAATc > 1:152954/1‑69 (MQ=255)
ttCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATCGTTCTGGTAATAATc > 1:1518613/1‑69 (MQ=255)
ttCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATCGTTCTGGTAATAATc > 1:400223/1‑69 (MQ=255)
ttCTGGCAATGACTGACTCATATTGGCAGAAAAGCTATTTTTACGGCCAAAATCGTTCTGGTAATAATc > 1:1355142/1‑69 (MQ=255)
ggCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:947429/68‑1 (MQ=255)
ggCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:3046458/68‑1 (MQ=255)
ggCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:2453492/68‑1 (MQ=255)
ggCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:1054130/68‑1 (MQ=255)
ggCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:3235645/68‑1 (MQ=255)
ggCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:2629943/68‑1 (MQ=255)
ggCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:164335/68‑1 (MQ=255)
ggCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:1122404/68‑1 (MQ=255)
ggCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:2273310/68‑1 (MQ=255)
ggCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:1993626/68‑1 (MQ=255)
gCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:14537/67‑1 (MQ=255)
tGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGt > 1:1960271/1‑68 (MQ=255)
tGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCAAAAATCGTTCTGGTAATAATCGGCAATGt > 1:3340320/1‑68 (MQ=255)
tGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATa < 1:1009898/68‑1 (MQ=255)
ttGGCGGATAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:3030751/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:666665/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:3006030/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:1955527/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:2757297/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:1684483/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:1194492/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:3196660/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:1597151/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:929690/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:2505987/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:629539/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:1378444/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:2679953/50‑1 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGtt > 1:975511/1‑68 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGtt > 1:915689/1‑68 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGtt > 1:1630075/1‑68 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGtt > 1:175884/1‑68 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGtt > 1:2670122/1‑68 (MQ=255)
ttGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGtt > 1:239649/1‑68 (MQ=255)
tGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:3322218/49‑1 (MQ=255)
tGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGc < 1:1864328/49‑1 (MQ=255)
ggCGGAAAAGCTATTTTTGCGTCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGtttt < 1:140828/68‑1 (MQ=255)
ggCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGtttt < 1:2555571/68‑1 (MQ=255)
ggCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGtttt < 1:2726034/68‑1 (MQ=255)
ggCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGtttt < 1:1549830/68‑1 (MQ=255)
ggCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGtttt < 1:1090266/68‑1 (MQ=255)
ggCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGtttt < 1:957230/68‑1 (MQ=255)
ggCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGtttt > 1:1051144/1‑68 (MQ=255)
ggCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGTTTtc > 1:2099141/1‑69 (MQ=255)
ggCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGTTTtc > 1:2728305/1‑69 (MQ=255)
ggCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGTTTtc > 1:831744/1‑69 (MQ=255)
ggCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGTTTtc > 1:3368981/1‑69 (MQ=255)
ggCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGTTTtc > 1:1581392/1‑69 (MQ=255)
ggCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGTTTtc > 1:1503321/1‑69 (MQ=255)
|
ACGTACTTAATGACACAGACCCCCAACCTTCTGGCAATGACTGGCTCATATTGGCGGAAAAGCTATTTTTGCGGCCAAAATCGTTCTGGTAATAATCGGCAATGTCATAGACATCGTTTTC > minE/1357603‑1357723
|
| 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
