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 F3 I0 R1
|
328 |
90.1 |
2317887 |
85.2% |
1974839 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
300,036:1 |
+TGT |
100% |
coding (932/1782 nt) |
mdlB → |
fused predicted multidrug transporter subunits and ATP binding components of ABC superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 300,036 | 1 | . | T | 98.1%
| 179.5
/ ‑3.2
| 53 | coding (932/1782 nt) | mdlB | fused predicted multidrug transporter subunits and ATP binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base T (52/0); total (53/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
| * | minE | 300,036 | 2 | . | G | 98.1%
| 179.4
/ ‑3.1
| 53 | coding (932/1782 nt) | mdlB | fused predicted multidrug transporter subunits and ATP binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base G (52/0); total (53/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
| * | minE | 300,036 | 3 | . | T | 98.1%
| 180.0
/ ‑3.2
| 53 | coding (932/1782 nt) | mdlB | fused predicted multidrug transporter subunits and ATP binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base T (52/0); total (53/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
ACCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGC‑‑‑TGTTGTTGCTGGTGAGCGCG > minE/299992‑300056
|||
acaaTTAATCGAACTGACCACGCAACAGGCGATGCTGCAACACGCTGTTGTTGTTGCTGGTGAgcgc > 1:1150025/4‑67 (MQ=255)
aCCATTGATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:396037/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:562065/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:2147109/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:219071/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:2235403/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:2289532/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:246764/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:286719/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:319100/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:364334/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:377608/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:432696/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:43519/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:449409/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:2098236/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:638030/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:640292/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:713166/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:715026/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:756050/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:773339/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:815085/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:854628/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:873092/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:927666/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:930279/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1605965/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1031559/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1061585/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1156410/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1235342/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1242411/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1286380/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1336341/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1432695/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1451222/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1492320/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1005902/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1694567/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1710341/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:174214/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:175247/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1755084/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1822083/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1832609/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1892369/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1922565/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1953474/1‑67 (MQ=255)
aCCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGC‑‑‑TGTTGTTGTTGCTg > 1:1404894/1‑59 (MQ=39)
aCCATTAATCGAACTGACCACGCAACAGGCGA‑GCTGCAACAGGCTGTTGTTGTTGCTGGTGAGcgcg > 1:182613/1‑67 (MQ=255)
aCCATTAATCGAACTGACCAAGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:1567430/1‑67 (MQ=255)
aCCAGTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGTTGCTGGTGAgcgc > 1:294364/1‑67 (MQ=255)
|||
ACCATTAATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGC‑‑‑TGTTGTTGCTGGTGAGCGCG > minE/299992‑300056
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
