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 |
2,277,555 |
T→C |
26.2% |
E398E (GAA→GAG) |
btuB ← |
vitamin B12/cobalamin outer membrane transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,277,555 | 0 | T | C | 26.2%
| 60.8
/ 19.9
| 57 | E398E (GAA→GAG) | btuB | vitamin B12/cobalamin outer membrane transporter |
| Reads supporting (aligned to +/- strand): ref base T (14/28); new base C (4/11); total (18/39) |
| Fisher's exact test for biased strand distribution p-value = 7.53e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCCCCAGATTTGGTGCCTTATAAGATGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGTC > minE/2277491‑2277611
|
gCCCCAGATTTGGTGCCTTATAAGATGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTccc < 1:1478500/69‑1 (MQ=255)
cccAGATTTGGTGCCTTATAAGATGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTCCCa < 1:3296656/68‑1 (MQ=255)
cccAGATTTGGTGCCTTATAAGATGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTCCCa < 1:2651555/68‑1 (MQ=255)
cccAGATTTGGTGCCTTATAAGATGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTCCCa < 1:2339538/68‑1 (MQ=255)
cccAGATTTGGTGCCTTATAAGATGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTCCCa < 1:858752/68‑1 (MQ=255)
aaGATTTGGTGCCTTATAAGATGTTCCGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAAcc > 1:298350/2‑69 (MQ=255)
aaGATTTGGTGCCTTATAAGATGTTCCGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAAcc > 1:1842369/2‑69 (MQ=255)
aaGATTTGGTGCCTTATAAGATGTTCCGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAAcc > 1:2737387/2‑69 (MQ=255)
aaGATTTGGTGCCTTATAAGATGTTCCGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAAc > 1:370574/2‑68 (MQ=255)
ttGGTGCCTTATAAGATGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTCCCAACCGgcgc > 1:2459959/1‑69 (MQ=255)
aTGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTc > 1:1599941/1‑69 (MQ=255)
aTGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTc > 1:2550440/1‑69 (MQ=255)
aTGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTc > 1:60552/1‑69 (MQ=255)
aTGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTc > 1:558927/1‑69 (MQ=255)
aTGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTc > 1:2251240/1‑69 (MQ=255)
aTGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTc > 1:2179826/1‑69 (MQ=255)
gttccGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAACCGGCGCTGGTTTGc < 1:2551495/57‑1 (MQ=255)
gttccGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAACCGGCGCTGGTTTGc < 1:902010/57‑1 (MQ=255)
gttccGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAACCGGCGCTGGTTTGc < 1:2958202/57‑1 (MQ=255)
gttccGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAACCGGCGCTGGTTTGc < 1:2607605/57‑1 (MQ=255)
gttccGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAACCGGCGCTGGTTTGc < 1:307051/57‑1 (MQ=255)
gttccGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAACCGGCGCTGGTTTGc < 1:2993824/57‑1 (MQ=255)
gttccGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAACCGGCGCTGGTTTGc < 1:1829107/57‑1 (MQ=255)
gttccGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAACCGGCGCTGGTTTGc < 1:1797997/57‑1 (MQ=255)
gttccGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAACCGGCGCTGGTTTGc < 1:637438/57‑1 (MQ=255)
gttccGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAACCGGCGCTGGTTTGc < 1:1599714/57‑1 (MQ=255)
gttccGTAGGAAGCAATAAAGCGATAACCTTCGATGAACTCCCAACCAGCGCTGGTTTGc < 1:15644/57‑1 (MQ=255)
tCCCGTAGGAAGCAATGAAGCGATAACCTTCGATTAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCAt < 1:657398/69‑1 (MQ=255)
aGCAATGAAGCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTc < 1:1337766/56‑1 (MQ=255)
aGCAATGAAGCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTc < 1:218826/56‑1 (MQ=255)
aGCAATGAAGCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTc < 1:502965/56‑1 (MQ=255)
aGCAATGAAGCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTc < 1:1135569/56‑1 (MQ=255)
gCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGtt < 1:1156755/69‑1 (MQ=255)
gCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGtt < 1:2910390/69‑1 (MQ=255)
aTAACCTTCGATGAATTCCCAACCGGCTCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATc > 1:1156907/1‑69 (MQ=255)
aTAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGtt < 1:1718846/66‑1 (MQ=255)
aTAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATc < 1:2015337/69‑1 (MQ=255)
aTAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATc > 1:2518156/1‑69 (MQ=255)
taCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:175132/68‑1 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:176609/69‑1 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:96220/69‑1 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt > 1:1208041/1‑69 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:747021/69‑1 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:163970/69‑1 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:1692704/69‑1 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt > 1:636213/1‑69 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:515162/69‑1 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:49696/69‑1 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:376700/69‑1 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:1822995/69‑1 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:3136614/69‑1 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:189982/69‑1 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:2272650/69‑1 (MQ=255)
aaCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGt < 1:2322560/69‑1 (MQ=255)
aCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGTc > 1:1841791/1‑69 (MQ=255)
aCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGTc > 1:807695/1‑69 (MQ=255)
aCCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGTc > 1:2017643/1‑69 (MQ=255)
|
GCCCCAGATTTGGTGCCTTATAAGATGTCCCGTAGGAAGCAATGAAGCGATAACCTTCGATGAATTCCCAACCGGCGCTGGTTTGCCAGGTTCCATGACGACCAAACTGTGAGTTATCGTC > minE/2277491‑2277611
|
| 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
