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 |
1,332,182 |
A→G |
44.4% |
A315A (GCT→GCC) |
cpsB ← |
mannose‑1‑phosphate guanyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,332,182 | 0 | A | G | 44.4%
| 11.7
/ 57.6
| 72 | A315A (GCT→GCC) | cpsB | mannose‑1‑phosphate guanyltransferase |
| Reads supporting (aligned to +/- strand): ref base A (26/14); new base G (12/20); total (38/34) |
| Fisher's exact test for biased strand distribution p-value = 3.20e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGG > minE/1332117‑1332246
|
aCCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCa < 1:242577/69‑1 (MQ=255)
aCCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCa < 1:246823/69‑1 (MQ=255)
aCCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCa < 1:3174710/69‑1 (MQ=255)
aCCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCa < 1:3238005/69‑1 (MQ=255)
aCCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCa < 1:1309103/69‑1 (MQ=255)
aCCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCa < 1:1310401/69‑1 (MQ=255)
aCCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCa < 1:3295030/69‑1 (MQ=255)
aCCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCa < 1:1332024/69‑1 (MQ=255)
aCCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCa < 1:3363261/69‑1 (MQ=255)
aCCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCa < 1:451879/69‑1 (MQ=255)
aCCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCa < 1:1447924/69‑1 (MQ=255)
tCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGCCGGTGGTGACCAGGCCAGATTCAGCATaca > 1:2173841/1‑67 (MQ=255)
tCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATaca > 1:570908/1‑67 (MQ=255)
tCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATaca > 1:1497621/1‑67 (MQ=255)
tCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATaca > 1:1396865/1‑67 (MQ=255)
tCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATaca > 1:1730724/1‑67 (MQ=255)
tCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATaca > 1:677271/1‑67 (MQ=255)
tCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATaca > 1:72466/1‑67 (MQ=255)
tCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATaca > 1:2812765/1‑67 (MQ=255)
tCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATaca > 1:979084/1‑67 (MQ=255)
tCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATaca > 1:1056690/1‑67 (MQ=255)
tCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATa > 1:3033337/1‑65 (MQ=255)
tCTTTGGTCTGCACCACTACCAGATCTCTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATaca > 1:688102/1‑67 (MQ=255)
tCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTa < 1:3310594/69‑1 (MQ=255)
cTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGAtt > 1:1070326/1‑67 (MQ=255)
cTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTa > 1:1153550/1‑68 (MQ=255)
cTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTa > 1:2860756/1‑68 (MQ=255)
cTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTa > 1:1817981/1‑68 (MQ=255)
cTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTa > 1:465881/1‑68 (MQ=255)
cTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTa > 1:2501133/1‑68 (MQ=255)
cAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCa < 1:2707866/63‑1 (MQ=255)
cAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCa < 1:2731328/63‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:3349373/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:3339547/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:1676947/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:1879754/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:1586155/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:1416056/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:3250367/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:1302209/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:1857478/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:887591/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:3216439/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:1874733/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:3164921/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:2994381/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:2354326/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:2029975/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:2556618/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:2568547/46‑1 (MQ=255)
gCCAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:1895147/46‑1 (MQ=255)
ccAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATc < 1:755074/45‑1 (MQ=255)
ccAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGccc > 1:2880747/1‑69 (MQ=255)
ccAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGccc > 1:417395/1‑69 (MQ=255)
ccAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGccc > 1:145579/1‑69 (MQ=255)
ccAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGccc > 1:2017526/1‑69 (MQ=255)
ccAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGccc > 1:605054/1‑69 (MQ=255)
cAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCATGGCAAACGTTGccgt > 1:2884101/1‑67 (MQ=255)
cAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCATGGCAAACGTTGccc > 1:282730/1‑68 (MQ=255)
cAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCATGGCAAACGTTGccc > 1:2888048/1‑68 (MQ=255)
cAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCATGGCAAACGTTGCCCt > 1:891927/1‑69 (MQ=255)
cAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCATGGCAAACGTTGCCCt > 1:894413/1‑69 (MQ=255)
cAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCATGGCAAACGTTGCCCt > 1:1245/1‑69 (MQ=255)
cAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCATGGCAAACGTTGCCCt > 1:2256002/1‑69 (MQ=255)
cAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCATGGCAAACGTTGCCCt > 1:1317233/1‑69 (MQ=255)
cAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCATGGCAAACGTTGCCCt > 1:590602/1‑69 (MQ=255)
cAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCATGGCAAACGTTGCCCt > 1:372471/1‑69 (MQ=255)
cAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCATGGCAAACGTTGCCCt > 1:3360490/1‑69 (MQ=255)
cAGATTCGGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCATGGCAAACGTTGCCCt > 1:2127714/1‑69 (MQ=255)
ttCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGtt > 1:2638752/1‑60 (MQ=255)
ttCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTcgg > 1:322672/1‑68 (MQ=255)
ttCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGAGGCAAACGTTGCCCTcgg > 1:2584829/1‑68 (MQ=255)
|
ACCGCATCTTTGGTCTGCACCACTACCAGATCTTTCACCCCGACGGTGGTGACCAGGCCAGATTCAGCATACACATAGCTGTTTTCAGTTTTGTGATTAATCACATCGCCGTGGCAAACGTTGCCCTCGG > minE/1332117‑1332246
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
