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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,960,746 |
A→C |
11.1% |
intergenic (+196/+224) |
yjjV → / ← yjjW |
predicted DNase/predicted pyruvate formate lyase activating enzyme |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,960,746 | 0 | A | C | 11.1%
| 112.2
/ 9.0
| 45 | intergenic (+196/+224) | yjjV/yjjW | predicted DNase/predicted pyruvate formate lyase activating enzyme |
| Reads supporting (aligned to +/- strand): ref base A (16/24); new base C (3/2); total (19/26) |
| Fisher's exact test for biased strand distribution p-value = 6.36e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.15e-01 |
GGCAGTTGGCGCACAATGCCTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGGCGCATAATGCCTGATGCGACGCTT > minE/2960679‑2960812
|
ggCAGTTGGCGCACAATGCCTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCg > 1:1519038/1‑71 (MQ=39)
cAGTTGGCGCACAATGCCTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTa < 1:1158872/71‑1 (MQ=39)
cAGTTGGCGCACAATGCCTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTa < 1:2366611/71‑1 (MQ=39)
ggCGCACAATGCCTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGcc < 1:522082/70‑1 (MQ=255)
gcgcACAATGCCTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGcctg < 1:2138097/71‑3 (MQ=255)
cgcACAATGCCTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGa < 1:3105339/71‑1 (MQ=255)
gcACAATGCCTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGAt < 1:1050671/71‑1 (MQ=255)
cacaATGCCTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATa < 1:2414918/71‑1 (MQ=255)
caATGCCTGATGCGACGC‑TGTCGCGTCTTATCAGGCCTACAACTAT‑TGCCGACCTGTAGGCCGGATAAgg > 1:1629148/1‑70 (MQ=11)
aTGCCTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGc < 1:2031189/71‑1 (MQ=39)
aTGCCTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGc < 1:549425/71‑1 (MQ=39)
aTGCCTGATGCGACGC‑TGTCGCGTCTTATCAGGCCTACAACTGT‑TGCCGACCTGTAGGCCGGATAAGGcac > 1:1028695/1‑69 (MQ=2)
tGCCTGATGCGACGC‑TGTCGCGTCTTATCAGGCCTACAACTGT‑TGCCGACCTGTAGGCCGGATAAGGcact > 1:619685/1‑68 (MQ=0)
tGCCTGATGCGACGC‑TGTCGCGTCTTATCAGGCCTACAACTGT‑TGCCGACCCGTAGGCCGGATAAGGCgc < 1:636913/70‑2 (MQ=11)
ccTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGtt < 1:227800/71‑1 (MQ=39)
ccTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGtt < 1:2200443/71‑1 (MQ=39)
cTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTc < 1:1549748/71‑1 (MQ=39)
cTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTc < 1:3634524/71‑1 (MQ=39)
cTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTc < 1:2483357/71‑1 (MQ=39)
cTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTc < 1:422685/71‑1 (MQ=39)
gCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCAcgc > 1:1879315/1‑70 (MQ=255)
gACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCccgccg > 1:3668052/1‑70 (MQ=255)
gCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAAc > 1:491565/1‑40 (MQ=255)
gCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATc > 1:204965/1‑71 (MQ=255)
ttGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGc > 1:3877196/1‑45 (MQ=255)
ttGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCg > 1:1175304/1‑71 (MQ=255)
ttGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCg > 1:1713907/1‑71 (MQ=255)
ctGTCGCGTCTTATCAGGCCTACAACTGT‑TGCCGACCTGTAGGCCGGATa < 1:1403060/49‑1 (MQ=2)
tCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCa < 1:1050223/71‑1 (MQ=40)
gTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCg > 1:3188691/1‑71 (MQ=255)
aTCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCgg < 1:3010247/60‑1 (MQ=255)
aTCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCgg < 1:1795392/60‑1 (MQ=255)
aTCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCgg < 1:1270326/60‑1 (MQ=255)
aTCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGGCGCa > 1:887940/1‑71 (MQ=255)
cATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGtt > 1:2011826/1‑44 (MQ=255)
cATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTc > 1:2168649/1‑63 (MQ=255)
aTGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCgg < 1:3715563/57‑1 (MQ=255)
tACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGc < 1:949416/35‑1 (MQ=255)
aCAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGGCGCATAATGCCt > 1:673345/1‑70 (MQ=255)
cAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGGCGCATAATGCCt < 1:1884132/69‑1 (MQ=255)
cAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGGCGCATAATGCCTGa < 1:1546678/71‑1 (MQ=255)
cAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGGCGCATAATGCCTGa < 1:1265104/71‑1 (MQ=255)
tgtgCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGGCGCATAATGCCTGATGCGAc > 1:3556926/1‑71 (MQ=39)
tgtgCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGGCGCATAATGCCTGATGCGAc > 1:2020011/1‑71 (MQ=39)
ccGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGGCGCATAATGCCTGATGCGACGCtt > 1:561821/1‑71 (MQ=39)
|
GGCAGTTGGCGCACAATGCCTGATGCGACGCTTGTCGCGTCTTATCATGCCTACAAGTCTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTCGGCGCATAATGCCTGATGCGACGCTT > minE/2960679‑2960812
|
| 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
