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 |
821,688 |
T→A |
10.1% |
intergenic (‑225/+229) |
ldrA ← / ← ldrC |
toxic polypeptide, small/toxic polypeptide, small |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 821,688 | 0 | T | A | 10.1%
| 158.0
/ 8.3
| 59 | intergenic (‑225/+229) | ldrA/ldrC | toxic polypeptide, small/toxic polypeptide, small |
| Reads supporting (aligned to +/- strand): ref base T (34/19); new base A (3/3); total (37/22) |
| Fisher's exact test for biased strand distribution p-value = 6.61e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCACCAGGGATAAAGCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGT > minE/821620‑821758
|
ccaccaGGGATAAAGCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGtc < 1:2098884/70‑1 (MQ=255)
ccaGGGATAAAGCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCaa > 1:2651770/1‑71 (MQ=255)
ccaGGGATAAAGCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCaa > 1:766583/1‑71 (MQ=255)
caGGGATAAAGCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAAt < 1:219669/71‑1 (MQ=255)
caGGGATAAAGCCCCCGCAACATTGCGCCTAACCGGATAACGCCGGCTTGGTGTGGATACTACGACTCAAt > 1:3360830/1‑71 (MQ=11)
aTAAAGCCCCCGCAACATTGCGCCTCACCGGATAACGCCGGCTTGGTGTGGATACTACGACTCAATTCATc > 1:3365683/1‑71 (MQ=11)
aTAAAGCCCCCGCAACATTGCGCCTCACCGGATAACGCCGGCTTGGTGTGGATACTACGACTCAATTCATc > 1:2131324/1‑71 (MQ=11)
aaGCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATctt > 1:735884/1‑70 (MQ=255)
ccGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATcttcacttca < 1:3508590/71‑1 (MQ=255)
gCAACATTGCGCCTCACCGGATAATTCCGGCTTTGTGTGGATACTACGTCTCAATTCATcttcac > 1:5191/1‑65 (MQ=255)
cAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATcc > 1:8343/1‑71 (MQ=255)
cATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCt > 1:548841/1‑70 (MQ=255)
ctccTCACCGGATAACTCCGGCTTGGTGTGGATACTACGACTCAATTCATCTTCACTTCATCCCTGAAAt < 1:3814752/68‑1 (MQ=11)
ccTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAAt < 1:443702/44‑1 (MQ=255)
cTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGttt > 1:1125969/1‑71 (MQ=255)
cTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGttt < 1:2547852/71‑1 (MQ=255)
cACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTg > 1:1923557/1‑70 (MQ=255)
cACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTg > 1:3850212/1‑70 (MQ=255)
aCCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGc > 1:3418216/1‑70 (MQ=255)
aCCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGc > 1:132844/1‑70 (MQ=255)
ccGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGa < 1:2700037/60‑1 (MQ=255)
ccGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCaa < 1:587324/71‑1 (MQ=255)
ccGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTAATCCCTGAAATGTTTGCa > 1:2164242/1‑70 (MQ=255)
cGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATctt < 1:2581294/45‑1 (MQ=255)
gATAATTCCGGCTTGGTGTGGATACTACGTCTCAAt < 1:2977120/36‑1 (MQ=255)
aTAATTCCGGCTTGGTGTGCATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGtt < 1:986188/62‑1 (MQ=255)
aaTTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTg > 1:663596/1‑62 (MQ=255)
aaTTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTg > 1:2637212/1‑62 (MQ=255)
aaTTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTg > 1:95301/1‑62 (MQ=255)
tCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAAt > 1:2033020/1‑54 (MQ=255)
tCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAAt < 1:1300771/54‑1 (MQ=255)
ccGGCTTGGTGTGGATACTACGTCTCAATTCATcttcac > 1:2129050/1‑39 (MQ=40)
ccGGCTTGGTGTGGATACTACGACTCAATTCATcttcacttca < 1:738422/43‑1 (MQ=255)
ccGGCTTGGTGTGGATACTACGACTCAATTCATcttcacttca < 1:3792300/43‑1 (MQ=255)
cGGCTTGGTGTGGATACTACGTCTCAATTCATctt > 1:1488630/1‑35 (MQ=40)
cGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGt > 1:596032/1‑54 (MQ=35)
cGGCTTGGTGTGGATACTACGTCT‑AATTCATCTTCACTTCATCCCTGAAATGt > 1:1887740/1‑53 (MQ=11)
ggCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTg > 1:3193887/1‑56 (MQ=35)
ggCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACAt < 1:3693528/71‑1 (MQ=39)
gCTTGGTCTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGaa > 1:1170739/1‑48 (MQ=255)
tGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCg > 1:300655/1‑71 (MQ=39)
gtgtGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCgg < 1:1936849/70‑1 (MQ=40)
gATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCtttt > 1:509117/1‑70 (MQ=40)
gATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCtttt > 1:804117/1‑70 (MQ=40)
gATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCttt > 1:1489830/1‑69 (MQ=40)
gATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCttt > 1:87792/1‑69 (MQ=40)
tactacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCtt < 1:198576/66‑1 (MQ=40)
tactacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCaa < 1:2913701/71‑1 (MQ=39)
ctacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCtttt > 1:66514/1‑66 (MQ=40)
tacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGc < 1:3239704/41‑1 (MQ=38)
acGTCTCAATTCATCTTCACTTCATCCCTGAAATGttt > 1:2209650/1‑38 (MQ=40)
acGTCTCAATTCATCTTCACTTCATCCCTGAAATGttt > 1:915968/1‑38 (MQ=40)
acGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGt > 1:254168/1‑50 (MQ=255)
acGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGt > 1:1683290/1‑50 (MQ=255)
cGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAAc > 1:2593556/1‑67 (MQ=40)
cGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAg < 1:2751842/69‑1 (MQ=40)
cGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGc < 1:586455/70‑1 (MQ=40)
cGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCt > 1:3906341/1‑71 (MQ=39)
gTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTg < 1:2767886/71‑1 (MQ=39)
gTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTg < 1:3762849/71‑1 (MQ=39)
tctcAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGt > 1:1724755/1‑71 (MQ=39)
|
CCACCAGGGATAAAGCCCCCGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATAAAGAGTACATTCCGGCTTTTCAACAGCTGT > minE/821620‑821758
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
