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 |
667,181 |
T→C |
36.5% |
S173S (AGT→AGC) |
uup → |
fused predicted transporter subunits and ATP‑binding components of ABC superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 667,181 | 0 | T | C | 36.5%
| 43.8
/ 37.5
| 63 | S173S (AGT→AGC) | uup | fused predicted transporter subunits and ATP‑binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base T (12/28); new base C (14/9); total (26/37) |
| Fisher's exact test for biased strand distribution p-value = 3.23e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTGTCGTCGCTTTCCGGCGGCTGGTTGCGTAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGACT > minE/667122‑667242
|
cTGTCGTCGCTTTCCGGCGGCTGGTTGCGTAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCcgcgc > 1:2596288/1‑69 (MQ=255)
cTGTCGTCGCTTTCCGGCGGCTGGTTGAGTAAATCGGCATTAGGACGCGCGCTGGTGAGTAATCcgcgc > 1:775733/1‑69 (MQ=255)
tAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAacca < 1:754027/69‑1 (MQ=255)
tAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAacca < 1:2383042/69‑1 (MQ=255)
tAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAacca < 1:2140134/69‑1 (MQ=255)
tAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAacca < 1:213087/69‑1 (MQ=255)
tAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAacca < 1:93299/69‑1 (MQ=255)
tAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAacca < 1:148241/69‑1 (MQ=255)
ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa < 1:1612659/69‑1 (MQ=255)
ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa < 1:2278230/69‑1 (MQ=255)
ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa < 1:539736/69‑1 (MQ=255)
ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa < 1:2218883/69‑1 (MQ=255)
ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa < 1:432259/69‑1 (MQ=255)
ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa < 1:2085175/69‑1 (MQ=255)
ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa < 1:2082279/69‑1 (MQ=255)
ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa < 1:2078241/69‑1 (MQ=255)
ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa < 1:2910455/69‑1 (MQ=255)
ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa < 1:1454586/69‑1 (MQ=255)
ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa < 1:1901771/69‑1 (MQ=255)
ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa < 1:3066584/69‑1 (MQ=255)
ggCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGa < 1:1587939/69‑1 (MQ=255)
aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa > 1:278094/1‑69 (MQ=255)
aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa > 1:479633/1‑69 (MQ=255)
aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa > 1:2727131/1‑69 (MQ=255)
aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa > 1:3176883/1‑69 (MQ=255)
aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa > 1:2468840/1‑69 (MQ=255)
aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa > 1:2422555/1‑69 (MQ=255)
aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa > 1:1337583/1‑69 (MQ=255)
aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa > 1:2177903/1‑69 (MQ=255)
aGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGa > 1:2055440/1‑69 (MQ=255)
cgcgcgCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAAcc > 1:3154142/1‑69 (MQ=255)
gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc < 1:961651/69‑1 (MQ=255)
gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc < 1:700485/69‑1 (MQ=255)
gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc < 1:696481/69‑1 (MQ=255)
gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc < 1:1853036/69‑1 (MQ=255)
gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc < 1:298459/69‑1 (MQ=255)
gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc < 1:1987580/69‑1 (MQ=255)
gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc < 1:2728768/69‑1 (MQ=255)
gcgcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATc < 1:2499306/69‑1 (MQ=255)
gcTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGa < 1:1053652/69‑1 (MQ=255)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:420757/1‑69 (MQ=18)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:2399708/1‑69 (MQ=18)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:636333/1‑69 (MQ=18)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:563901/1‑69 (MQ=18)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:556943/1‑69 (MQ=18)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:10772/1‑69 (MQ=18)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:1207253/1‑69 (MQ=18)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:2220447/1‑69 (MQ=18)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:3380215/1‑69 (MQ=18)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:3232348/1‑69 (MQ=18)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:1697239/1‑69 (MQ=18)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:1814099/1‑69 (MQ=18)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:2659817/1‑69 (MQ=18)
gcTGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGa > 1:2935919/1‑69 (MQ=18)
tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct < 1:923040/69‑1 (MQ=18)
tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct < 1:825662/69‑1 (MQ=18)
tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct < 1:2655021/69‑1 (MQ=18)
tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct < 1:734046/69‑1 (MQ=18)
tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct < 1:3170519/69‑1 (MQ=18)
tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct < 1:3018352/69‑1 (MQ=18)
tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct < 1:1912247/69‑1 (MQ=18)
tGGTGAGCAATCCGCGCGTATTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct < 1:1065511/69‑1 (MQ=18)
tGAGCAATCCGCGCGTTTTGCTGCTCGACGAACCGACTAACCACCTGGATATTGAAACCATCGAct < 1:2833382/66‑1 (MQ=18)
|
CTGTCGTCGCTTTCCGGCGGCTGGTTGCGTAAAGCGGCATTAGGACGCGCGCTGGTGAGTAATCCGCGCGTGCTGTTGCTTGATGAACCGACAAACCACCTGGATATTGAAACCATCGACT > minE/667122‑667242
|
| 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
