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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,494,403 |
G→A |
42.6% |
L115L (CTG→TTG) |
yjgR ← |
predicted ATPase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,494,403 | 0 | G | A | 42.6%
| 21.2
/ 56.9
| 47 | L115L (CTG→TTG) | yjgR | predicted ATPase |
| Reads supporting (aligned to +/- strand): ref base G (15/12); new base A (8/12); total (23/24) |
| Fisher's exact test for biased strand distribution p-value = 3.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.53e-01 |
ATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATCCCACACCACCACCGGATTGGCA > W3110S.gb/4494339‑4494473
|
atatTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAAATCCg < 1:380451/70‑1 (MQ=255)
atatTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAAATCCg < 1:3620452/70‑1 (MQ=255)
tCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAAATCCGAAAc < 1:4446016/70‑1 (MQ=255)
cAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCg > 1:4000559/1‑71 (MQ=255)
aGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGt > 1:3669465/1‑71 (MQ=255)
cACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTc > 1:736585/1‑70 (MQ=255)
cACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCg > 1:3195794/1‑71 (MQ=255)
aCGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAAATCCGAAACCGTCGc < 1:3511209/71‑1 (MQ=255)
gCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAAATCCGa > 1:5129760/1‑60 (MQ=255)
gCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAAATCCGa > 1:481690/1‑60 (MQ=255)
cAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCg > 1:2070293/1‑70 (MQ=255)
aTTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAg > 1:3166038/1‑49 (MQ=255)
ttGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAAATCCGAAACCGTCGCCCGCACCg < 1:4744095/71‑1 (MQ=255)
aTCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGc < 1:1029902/71‑1 (MQ=255)
aTCGTTGAGATTCAACAGTAGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGc < 1:3821571/71‑1 (MQ=255)
gTTGAGATTCAACAGTCGTG‑CAGCAACAGCGGCCCCAAATCCGAAACCGTCGCCCGCACCGGATGGCCttt < 1:1694043/71‑1 (MQ=255)
ttGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAAATCCGAAACCGTCGCCCGCACCg < 1:1190188/61‑1 (MQ=255)
tGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGa > 1:3023886/1‑62 (MQ=255)
gagaTTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTtc < 1:4643915/70‑1 (MQ=255)
agaTTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAAc > 1:4756593/1‑44 (MQ=255)
agaTTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAAc > 1:4401117/1‑44 (MQ=255)
aTTCAACAGTCGTGCCAGCAACAGCGGCCCCAAATCCGAAACCGTCGCCCGCACCGGATGGCCt < 1:2246007/64‑1 (MQ=255)
cAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCa < 1:1941851/70‑1 (MQ=255)
aaCAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCaaa < 1:1185980/71‑1 (MQ=255)
aCAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAg < 1:4591706/71‑1 (MQ=255)
tCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGc < 1:4475361/39‑1 (MQ=255)
tCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCa > 1:586089/1‑44 (MQ=255)
tCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGatat < 1:1006398/71‑1 (MQ=255)
tCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGatat > 1:4816913/1‑71 (MQ=255)
tCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGatat > 1:1179730/1‑71 (MQ=255)
tCGTGCCAGCAACAGCGGCCCCAAATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGata > 1:2409994/1‑70 (MQ=255)
gTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGccc > 1:4296609/1‑39 (MQ=255)
gTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGAt > 1:1316085/1‑48 (MQ=255)
aGCAACAGCGGCCCCAAATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATCCCacac > 1:5067202/1‑71 (MQ=255)
gCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATCCCAcacc < 1:1030031/71‑1 (MQ=255)
gCAACAGCGGCCCCAAATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGa < 1:3479258/60‑1 (MQ=255)
cAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAg < 1:3213516/58‑1 (MQ=255)
cAACAGCGGCCCCAAATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATcc > 1:1165759/1‑64 (MQ=255)
aaCAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGa > 1:2396783/1‑39 (MQ=255)
aaCAGCGGCCCCAAATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGata > 1:77903/1‑60 (MQ=255)
aaCAGCGGCCCCAAATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGata > 1:1407572/1‑60 (MQ=255)
aCAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGcc < 1:2591561/52‑1 (MQ=255)
aCAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATCCCAcaccac > 1:2291936/1‑70 (MQ=255)
cGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATCCCACACCACCACCg < 1:4838539/71‑1 (MQ=255)
ggCCCCAAATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATccc > 1:4464597/1‑58 (MQ=255)
ccAAATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATCCca < 1:8320/55‑1 (MQ=255)
ccAAATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATCCCACACCACCACCg < 1:713564/66‑1 (MQ=255)
ccAAATCCGAAACCGTCGCCCGCACCGGATGACATTTCTCGCCAAAGATATCCCACACCACCACCg < 1:625665/66‑1 (MQ=255)
gATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATCCca > 1:4406663/1‑52 (MQ=255)
gATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATCCCACACCACCACCGGATTGGCa > 1:4883319/1‑71 (MQ=255)
|
ATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATCCCACACCACCACCGGATTGGCA > W3110S.gb/4494339‑4494473
|
| 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
