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 |
2,534,728 |
T→A |
32.1% |
V107V (GTT→GTA) |
rfaG → |
glucosyltransferase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,534,728 | 0 | T | A | 32.1%
| 54.3
/ 36.1
| 53 | V107V (GTT→GTA) | rfaG | glucosyltransferase I |
| Reads supporting (aligned to +/- strand): ref base T (16/20); new base A (11/6); total (27/26) |
| Fisher's exact test for biased strand distribution p-value = 2.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01 |
TAATAAGATGCCTGGCCTGGATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTTATATCGTTTAACATCACGATATCGCCATTATGCCGCATTTGAGCGA > minE/2534668‑2534794
|
taataaGATGCCTGGCCTGGATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAg > 1:3297807/1‑68 (MQ=255)
taataaGATGCCTGGCCTGGATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAg > 1:2617548/1‑68 (MQ=255)
taataaGATGCCTGGCCTGGATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAg > 1:2506974/1‑68 (MQ=255)
taataaGATGCCTGGCCTGGATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAg > 1:2395635/1‑68 (MQ=255)
aaaaTGCCGGGGCTGGACGTTTATTATGCCGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGagaa < 1:2979534/65‑1 (MQ=255)
aaaaTGCCGGGGCTGGACGTTTATTATGCCGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGagaa < 1:2885633/65‑1 (MQ=255)
aaaaTGCCGGGGCTGGACGTTTATTATGCCGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGagaa < 1:2703397/65‑1 (MQ=255)
aaaaTGCCGGGGCTGGACGTTTATTATGCCGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGagaa < 1:1460004/65‑1 (MQ=255)
aaaaTGCCGGGGCTGGACGTTTATTATGCCGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGagaa < 1:1605723/65‑1 (MQ=255)
aaaaTGCCGGGGCTGGACGTTTATTATGCCGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGagaa < 1:1910814/65‑1 (MQ=255)
aGATGCCTGGCCTGGATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAg > 1:917974/1‑69 (MQ=255)
aGATGCCTGGCCTGGATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAg > 1:881626/1‑69 (MQ=255)
aGATGCCTGGCCTGGATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAg > 1:3335647/1‑69 (MQ=255)
aGATGCCTGGCCTGGATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAg > 1:479151/1‑69 (MQ=255)
gATGCCTGGCCTGGATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAgg > 1:3159161/1‑69 (MQ=255)
gcctggcctgGATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGtt > 1:3049928/1‑68 (MQ=255)
ggcctggATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTta < 1:424304/69‑1 (MQ=255)
ggcctggATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTta < 1:23520/69‑1 (MQ=255)
ggcctggATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTta < 1:1971976/69‑1 (MQ=255)
ggcctggATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTta < 1:2435760/69‑1 (MQ=255)
ggcctggATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTta < 1:2899366/69‑1 (MQ=255)
ggcctggATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTta < 1:3380674/69‑1 (MQ=255)
ggcctggATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTta < 1:1081220/69‑1 (MQ=255)
ggcctggATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGGTTTTta < 1:91605/69‑1 (MQ=255)
gcctggATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTta < 1:1407054/68‑1 (MQ=255)
gATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTTATATCg > 1:1186593/1‑68 (MQ=255)
gATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTTATATCg > 1:255853/1‑68 (MQ=255)
tGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTTATATCGttt < 1:2011566/69‑1 (MQ=255)
tttATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTTATATCGTTTaa < 1:493144/69‑1 (MQ=255)
tttATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTTATATCGTTTaa < 1:1366827/69‑1 (MQ=255)
tttATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTTATATCGTTTaa < 1:3414289/69‑1 (MQ=255)
cGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGAGAAAGGCTTTTTCTATCgcc > 1:2505501/1‑54 (MQ=255)
cGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGAGAAAGGCTTTTTCTATCGCCTGACGTCACGtta > 1:84776/1‑69 (MQ=255)
cGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGAGAAAGGCTTTTTCTATCGCCTGACGTCACGtta > 1:816921/1‑69 (MQ=255)
cGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGAGAAAGGCTTTTTCTATCGCCTGACGTCACGtta > 1:3286031/1‑69 (MQ=255)
cGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGAGAAAGGCTTTTTCTATCGCCTGACGTCACGtta > 1:370144/1‑69 (MQ=255)
cGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGAGAAAGGCTTTTTCTATCGCCTGACGTCACGtta > 1:2559078/1‑69 (MQ=255)
cGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGAGAAAGGCTTTTTCTATCGCCTGACGTCACGtta > 1:2729634/1‑69 (MQ=255)
cGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGAGAAAGGCTTTTTCTATCGCCTGACGTCACGtta > 1:2691857/1‑69 (MQ=255)
cGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGAGAAAGGCTTTTTCTATCGCCTGACGTCACGtta > 1:1792444/1‑69 (MQ=255)
cGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGAGAAAGGCTTTTTCTATCGCCTGACGTCACGtta > 1:1741560/1‑69 (MQ=255)
cGCTGATGTTTGTTATGCCGAGAAAGTAGCGCAGGAGAAAGGCTTTTTCTATCGCCTGACGTCACGtta > 1:1157282/1‑69 (MQ=255)
cGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTTATATCGTTTAACATCACGat < 1:2003054/68‑1 (MQ=255)
gATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTTATATCGTTTAACATCACGATATCGc < 1:1419719/69‑1 (MQ=255)
tgttACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTta < 1:1956919/39‑1 (MQ=255)
tgttACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTTATATCGTTTAACATCACGATATCGc > 1:696207/1‑63 (MQ=255)
tgttACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTTATATCGTTTAACATCACGATATCGCCATTAt > 1:847416/1‑69 (MQ=255)
gaAAGTTGCGCAAGAAAAAGGTTTTTTATATCGTTTAACATCACGATATCGCCATTATGCCGCATTTga < 1:2542783/69‑1 (MQ=255)
gaAAGTTGCGCAAGAAAAAGGTTTTTTATATCGTTTAACATCACGATATCGCCATTATGCCGCATTTga < 1:2076322/69‑1 (MQ=255)
gaAAGTTGCGCAAGAAAAAGGTTTTTTATATCGTTTAACATCACGATATCGCCATTATGCCGCATTTga < 1:1899643/69‑1 (MQ=255)
gaAAGTTGCGCAAGAAAAAGGTTTTTTATATCGTTTAACATCACGATATCGCCATTATGCCGCATTTga < 1:1830803/69‑1 (MQ=255)
gTTGCGCAAGAAAAAGGTTTTTTATATCGTTTAACATCACGATATCGCCATTATGCCGCATTTgagcga > 1:2798889/1‑69 (MQ=255)
gTTGCGCAAGAAAAAGGTTTTTTATATCGTTTAACATCACGATATCGCCATTATGCCGCATTTgagcga > 1:2386947/1‑69 (MQ=255)
|
TAATAAGATGCCTGGCCTGGATGTTTATTTTGCCGCTGATGTTTGTTACGCCGAGAAAGTTGCGCAAGAAAAAGGTTTTTTATATCGTTTAACATCACGATATCGCCATTATGCCGCATTTGAGCGA > minE/2534668‑2534794
|
| 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
