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 |
1,527,117 |
G→A |
39.9% |
G34G (GGG→GGA) |
trmC → |
fused 5‑methylaminomethyl‑2‑thiouridine forming enzyme methyltransferase and FAD‑dependent demodification enzyme |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,527,117 | 0 | G | A | 39.9%
| 29.1
/ 42.3
| 65 | G34G (GGG→GGA) | trmC | fused 5‑methylaminomethyl‑2‑thiouridine forming enzyme methyltransferase and FAD‑dependent demodification enzyme |
| Reads supporting (aligned to +/- strand): ref base G (16/23); new base A (16/10); total (32/33) |
| Fisher's exact test for biased strand distribution p-value = 1.32e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.55e-01 |
TGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCTTTCCTGAGCATCC > minE/1527057‑1527182
|
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:1750317/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:1889511/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:3026482/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:2613969/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:2348161/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:1796022/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:1787324/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:1776427/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:1762118/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:569115/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:1528659/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:756651/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:797692/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:26210/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTCGAaga > 1:1011357/1‑69 (MQ=255)
tGCTGAGGGTACACCTGTTTCCAGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAaga > 1:2620146/1‑69 (MQ=255)
gCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGGCTTGAaga < 1:2321035/68‑1 (MQ=255)
gCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGGCTGGAaga < 1:2315022/68‑1 (MQ=255)
acacCTGTTTCCTGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGGCTGGCAGAGACGCGatat > 1:1626070/1‑69 (MQ=255)
acacCTGTTTCCTGAGATTTT‑ACGATGTCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATg > 1:2230094/1‑69 (MQ=255)
acacCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTAt > 1:3092838/1‑69 (MQ=255)
acacCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTAt > 1:2730135/1‑69 (MQ=255)
acacCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTAt > 1:775981/1‑69 (MQ=255)
tCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCt > 1:3232994/1‑68 (MQ=255)
tCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCt > 1:3015066/1‑68 (MQ=255)
tCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCt > 1:472597/1‑68 (MQ=255)
tCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCt > 1:2704776/1‑68 (MQ=255)
cGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAAGAGACGCGTTATGTTTTTCTcgg < 1:2606933/68‑1 (MQ=255)
cGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAAGAGACGCGTTATGTTTTTCTcgg < 1:1143947/68‑1 (MQ=255)
cGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAAGAGACGCGTTATGTTTTTCTcgg < 1:2807854/68‑1 (MQ=255)
cGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAAGAGACGCGTTATGTTTTTCTcgg < 1:2130575/68‑1 (MQ=255)
cGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAAGAGACGCGTTATGTTTTTCTcgg < 1:298858/68‑1 (MQ=255)
cGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAAGAGACGCGTTATGTTTTTCTcgg < 1:2053813/68‑1 (MQ=255)
cGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAAGAGACGCGTTATGTTTTTCTcgg < 1:32455/68‑1 (MQ=255)
cGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAAGAGACGCGTTATGTTTTTCTcgg < 1:1637551/68‑1 (MQ=255)
cGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAAGAGACGCGTTATGTTTTTCTcgg < 1:1210891/68‑1 (MQ=255)
gagaTTTTGACGATGTCTATTTTTCCAACGATAACGGACTGGAAGAGACGCGTTATGTTTTTCTcgg < 1:2651552/67‑1 (MQ=255)
gTCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTag > 1:2168777/1‑67 (MQ=255)
tCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAgg < 1:3058430/69‑1 (MQ=255)
tCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAgg < 1:3346109/69‑1 (MQ=255)
tCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAgg > 1:2558117/1‑69 (MQ=255)
tCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAgg > 1:2070570/1‑69 (MQ=255)
tCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAgg < 1:1809937/69‑1 (MQ=255)
tCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAgg < 1:1820462/69‑1 (MQ=255)
tATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTTTGTTTTTCTGGGAGGCAACCAATTAGAGGt > 1:645850/1‑68 (MQ=255)
tATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCt > 1:1859498/1‑47 (MQ=255)
tATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTa > 1:1375563/1‑69 (MQ=255)
tATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTa > 1:2099880/1‑69 (MQ=255)
aTAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCTTTCCTGAGc < 1:906408/69‑1 (MQ=255)
aTAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCTTTCCTGAGc < 1:1275732/69‑1 (MQ=255)
aTAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCTTTCCTGAGc < 1:2756322/69‑1 (MQ=255)
aTAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCTTTCCTGAGc < 1:1586100/69‑1 (MQ=255)
aCGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACTCtt < 1:2630517/58‑1 (MQ=255)
aCGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCtt < 1:3184500/58‑1 (MQ=255)
aCGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCtt < 1:1894577/58‑1 (MQ=255)
aCGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCtt < 1:199770/58‑1 (MQ=255)
aCGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCtt < 1:593506/58‑1 (MQ=255)
aCGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCtt < 1:62409/58‑1 (MQ=255)
aCGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCtt < 1:634206/58‑1 (MQ=255)
aCGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCtt < 1:1422242/58‑1 (MQ=255)
aCGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCtt < 1:228163/58‑1 (MQ=255)
aCGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCtt < 1:2684762/58‑1 (MQ=255)
aCGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCtt < 1:949624/58‑1 (MQ=255)
aCGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCtt < 1:974038/58‑1 (MQ=255)
cGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCtt < 1:705950/57‑1 (MQ=255)
gggCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCTTTCCTGAGCATcc < 1:186705/68‑1 (MQ=255)
gggCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCTTTCCTGAGCATcc < 1:3293364/68‑1 (MQ=255)
gggCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCTTTCCTGAGCATcc < 1:2370637/68‑1 (MQ=255)
gggCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCTTTCCTGAGCATc < 1:2089901/67‑1 (MQ=255)
|
TGCTGAGGGTACACCTGTTTCCCGAGATTTTGACGATGTCTATTTTTCCAACGATAACGGGCTGGAAGAGACGCGTTATGTTTTTCTGGGAGGCAACCAATTAGAGGTACGCTTTCCTGAGCATCC > minE/1527057‑1527182
|
| 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
