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 |
1,882,495 |
T→G |
52.2% |
R213R (CGA→CGC) |
relA ← |
(p)ppGpp synthetase I/GTP pyrophosphokinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,882,495 | 0 | T | G | 52.2%
| 15.5
/ 92.7
| 86 | R213R (CGA→CGC) | relA | (p)ppGpp synthetase I/GTP pyrophosphokinase |
| Reads supporting (aligned to +/- strand): ref base T (28/13); new base G (17/27); total (45/41) |
| Fisher's exact test for biased strand distribution p-value = 8.95e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.74e-01 |
ACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTAATCTTCCAGTTCCCATTTCAGTTGT > minE/1882440‑1882558
|
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:609138/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:1744934/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:1748761/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:1953317/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:1958920/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:1499234/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:1960610/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:2527941/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:2685614/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:2918376/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:2953200/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:3033302/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:3137745/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:105451/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCgg > 1:40370/1‑69 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCg > 1:494796/1‑68 (MQ=255)
aCTCTTCGATATAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGACGCGTTTGTATTCgg > 1:1684632/1‑69 (MQ=255)
ctctTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGt > 1:1020897/1‑69 (MQ=255)
ctctTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGt > 1:2556375/1‑69 (MQ=255)
ctctTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGt > 1:3075952/1‑69 (MQ=255)
ctctTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGt > 1:44130/1‑69 (MQ=255)
ctctTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGt > 1:1026804/1‑69 (MQ=255)
ctTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTtg < 1:572079/69‑1 (MQ=255)
ctTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTtg < 1:1227256/69‑1 (MQ=255)
ctTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTtg < 1:2942334/69‑1 (MQ=255)
ctTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTtg < 1:1587166/69‑1 (MQ=255)
ctTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTtg < 1:257554/69‑1 (MQ=255)
ctTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTtg < 1:203926/69‑1 (MQ=255)
ctTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTtg < 1:2285505/69‑1 (MQ=255)
tatAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCGGtc < 1:3365970/60‑2 (MQ=255)
tatAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCGGtc < 1:1258621/60‑2 (MQ=255)
tatAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCGGtc < 1:635111/60‑2 (MQ=255)
tatAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCGGtc < 1:695325/60‑2 (MQ=255)
tatAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATGCGTTTGTATTCGGtc < 1:1831722/60‑2 (MQ=255)
tatAGTGTTCGCGGTCGAGACGGCGTTCATGCAGCAGTTTTGCGATACGTTTGTATTCGGtc < 1:1335950/60‑2 (MQ=255)
tAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAg > 1:95214/1‑68 (MQ=255)
ttCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAAc > 1:2099099/1‑68 (MQ=255)
ttCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAAc > 1:587110/1‑68 (MQ=255)
ttCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAAc > 1:1015467/1‑68 (MQ=255)
ttCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAAc > 1:2492542/1‑68 (MQ=255)
ttCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAAc > 1:3058751/1‑68 (MQ=255)
ttCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAAc > 1:303488/1‑68 (MQ=255)
ttCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAAc > 1:490955/1‑68 (MQ=255)
ttCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAAc > 1:1232638/1‑68 (MQ=255)
cGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGt > 1:2202785/1‑69 (MQ=255)
cGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGt > 1:1149590/1‑69 (MQ=255)
cGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGt > 1:718776/1‑69 (MQ=255)
gagaCGCCGTTCATGCAGCAGTTTGTCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTa < 1:3299596/69‑1 (MQ=255)
gagaCGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTa < 1:1889420/69‑1 (MQ=255)
gagaCGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTa < 1:727243/69‑1 (MQ=255)
gaCGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTaa < 1:111208/68‑1 (MQ=255)
aCGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTaa < 1:704680/67‑1 (MQ=255)
ttCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTAATCTTCCAg < 1:130944/69‑1 (MQ=255)
cATGCAGCAGTTTTGCGATGCGTTTGTATTCGGtc < 1:3133216/35‑2 (MQ=21)
cATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTtgga > 1:2985487/1‑38 (MQ=255)
cagcagTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTAATCTTCCAGTTCCCa > 1:3377752/1‑69 (MQ=255)
cagcagTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTAATCTTCCAGTTCCCa > 1:2261358/1‑69 (MQ=255)
cagcagTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTAATCTTCCAGTTCCCa > 1:2380264/1‑69 (MQ=255)
cagcagTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTAATCTTCCAGTTCCCa > 1:1214323/1‑69 (MQ=255)
cagcagTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTAATCTTCCAGTTCCCa > 1:1388132/1‑69 (MQ=255)
cagcagTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTAATCTTCCAGTTCCCa > 1:1940723/1‑69 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:82555/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:969835/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:608927/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:676439/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:932736/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:814666/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:2676234/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:1158111/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:1582224/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:1737417/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:1752842/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:1816819/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:2043337/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:41924/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:2720051/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:2906138/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:3250587/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:3325428/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:3357433/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:3378177/69‑1 (MQ=255)
agTTTTGCGATGCGTTTGTATTCGGTCGGGTGCAGATAACGGAAGCAGTAATCTTCCAGCTCCCATTTc < 1:3425352/69‑1 (MQ=255)
gCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTAATCTTCCAGTTCCCATTTCAGTTGt > 1:2763577/1‑69 (MQ=255)
gCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTAATCTTCCAGTTCCCATTTCAGTTGt > 1:2573965/1‑69 (MQ=255)
gCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTAATCTTCCAGTTCCCATTTCAGTTGt > 1:1259529/1‑69 (MQ=255)
gCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTAATCTTACAGTTCCCATTTCAGTTg > 1:2082731/1‑68 (MQ=255)
|
ACTCTTCGATGTAGTGTTCGCGGTCGAGACGCCGTTCATGCAGCAGTTTGGCAATTCGTTTGTATTCGGTTGGATGGAGGTAACGGAAGCAGTAATCTTCCAGTTCCCATTTCAGTTGT > minE/1882440‑1882558
|
| 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
