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 |
1,631,410 |
T→C |
22.2% |
E128E (GAA→GAG) |
aegA ← |
fused predicted FeS binding subunit and predicted NAD/FAD‑binding subunit of oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,631,410 | 0 | T | C | 22.2%
| 64.1
/ 15.5
| 36 | E128E (GAA→GAG) | aegA | fused predicted FeS binding subunit and predicted NAD/FAD‑binding subunit of oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base T (16/12); new base C (5/3); total (21/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
CGGAGAGTGCGACGTCAGTGACCAGTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCTTTTACTTTTCCTGCCGCGACGGGTGTCAGGA > minE/1631340‑1631480
|
cGGAGAGTGCGACGTCAGTGACCAGTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGttt < 1:3554292/71‑1 (MQ=255)
gTGCGACGTCAGTGACCAGTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGttt < 1:423475/65‑1 (MQ=255)
gTGCGACGTCAGTGACCAGTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGttt < 1:205845/65‑1 (MQ=255)
cGACGTCAGTGACCAGTTGCAGCGCGTCCGGCGGGCAATTCTCAACACAGGCAGGACCGTTCTCGCGcccc > 1:3671550/1‑71 (MQ=255)
cGTCAGTGACCAGTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTCTCGCGCCCCGca > 1:2025305/1‑71 (MQ=255)
gTCAGTGACCAGTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGca > 1:2251832/1‑70 (MQ=255)
aGTGACCAGTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGcaca > 1:2908388/1‑69 (MQ=255)
gTGACCAGTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAg < 1:1187495/71‑1 (MQ=255)
tGACCAGTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAgg < 1:858635/71‑1 (MQ=255)
ccAGTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCg > 1:3164279/1‑71 (MQ=255)
cAGTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTc > 1:3731809/1‑51 (MQ=255)
cAGTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTc > 1:2851924/1‑51 (MQ=255)
gTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCAt > 1:31327/1‑71 (MQ=255)
gCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCAttt < 1:2029058/70‑1 (MQ=255)
gCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCAttt < 1:2272105/70‑1 (MQ=255)
gCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTCTCGCGCCCCGCACAAAGGTCGCAttt < 1:2868656/70‑1 (MQ=255)
aGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATg < 1:586090/71‑1 (MQ=255)
cgTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATGCGcc < 1:142837/71‑1 (MQ=255)
gTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCg > 1:3247097/1‑71 (MQ=255)
ccgGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCt < 1:783107/71‑1 (MQ=255)
cgGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCAttt > 1:3663783/1‑57 (MQ=255)
ttCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCTTTTACttt > 1:2739374/1‑71 (MQ=255)
ttCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCTTTTACttt > 1:639888/1‑71 (MQ=255)
ttCTCAACACAGGCAGGACCGTTCTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCTTTTACttt > 1:3248370/1‑71 (MQ=255)
tctcAACACAGGCAGGACCGTTTTCGCGCCCCGCACaaa > 1:2381198/1‑39 (MQ=255)
tctcAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCTTTTACtttt > 1:1119072/1‑71 (MQ=255)
ctcAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATgc > 1:1263081/1‑52 (MQ=255)
ctcAACACAGGCAGGACCGTTCTCGCGCCCCGCACAAAGGTCGCAt > 1:1753559/1‑46 (MQ=255)
aaCACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCa > 1:1076904/1‑42 (MQ=255)
aaCACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATgc > 1:3367759/1‑49 (MQ=255)
aaCACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATgc > 1:2363017/1‑49 (MQ=255)
aaCACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCTTTTAc < 1:3918098/63‑1 (MQ=255)
aaCACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCTTTTACTTTTcc < 1:842149/69‑1 (MQ=255)
aaCACAGGCAGGACCGTTCTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCTTTTACTTTTcc < 1:1419129/69‑1 (MQ=255)
cacaGGCAGGACCGTTTTCGCGCCCCGCTCAAAGGTCGCATTTATGCGCCGTGGCTTTTa < 1:2675030/60‑1 (MQ=255)
cacaGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCTTTTa < 1:3700739/60‑1 (MQ=255)
caggcaggACCGTTCTCGCGCCCCGCACAAAGGTCGCATTTAt < 1:552845/43‑1 (MQ=255)
ggcaggACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCTTTTACtt < 1:1415623/59‑1 (MQ=255)
aggACCGTTCTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCTTTTACTTTTCCt > 1:1692980/1‑61 (MQ=255)
ttttCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCt > 1:3938523/1‑42 (MQ=255)
ttttCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCt > 1:499777/1‑42 (MQ=255)
ttttCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCt > 1:79932/1‑42 (MQ=255)
ttCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCTTTTACTTTTCCTGCCGCGACGGGTGTCAGGa > 1:1537793/1‑71 (MQ=255)
|
CGGAGAGTGCGACGTCAGTGACCAGTTGCAGCGCGTCCGCCGGGCAATTCTCAACACAGGCAGGACCGTTTTCGCGCCCCGCACAAAGGTCGCATTTATGCGCCGTGGCTTTTACTTTTCCTGCCGCGACGGGTGTCAGGA > minE/1631340‑1631480
|
| 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
