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 |
2,785,095 |
G→A |
50.0% |
I82I (ATC→ATT) |
pepE ← |
(alpha)‑aspartyl dipeptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,785,095 | 0 | G | A | 50.0%
| ‑4.8
/ 33.9
| 40 | I82I (ATC→ATT) | pepE | (alpha)‑aspartyl dipeptidase |
| Reads supporting (aligned to +/- strand): ref base G (11/9); new base A (13/7); total (24/16) |
| Fisher's exact test for biased strand distribution p-value = 7.48e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.51e-01 |
GTGCCAGCAGCCCGCGCTCGCGGCACTGTTTCAGCAACTGGAAAGTATTCCCGCCGCCGACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATACCGGTGACAGAAACA > minE/2785028‑2785158
|
gTGCCAGCAGCCCGCGCTCGCGGCACTGTTTCAGCAACTGGAAAGTATTCCCGCCGCCGACAATCACg < 1:838056/68‑1 (MQ=255)
gTGCCAGCAGCCCGCGCTCGCGGCACTGTTTCAGCAACTGGAAAGTATTCCCGCCGCCGACAATCACg < 1:238803/68‑1 (MQ=255)
gTGCCAGCAGCCCGCGCTCGCGGCACTGTTTCAGCAACTGGAAAGTATTCCCGCCGCCGACAATCACg < 1:2109782/68‑1 (MQ=255)
cccACGCTCGCGGCACTGTTTCAGCAACTGGAAAGTATTACCGCCGCCGACAATCACAATTTCCGCA‑tt < 1:1107389/69‑1 (MQ=37)
cccACGCTCGCGGCACTGTTTCAGCAACTGGAAAGTATTACCGCCGCCGACAATCACAATTTCCGCA‑tt < 1:2910625/69‑1 (MQ=37)
cccACGCTCGCGGCACTGTTTCAGCAACTGGAAAGTATTACCGCCGCCGACAATCACAATTTCCGCA‑tt < 1:299822/69‑1 (MQ=37)
cccACGCTCGCGGCACTGTTTCAGCAACTGGAAAGTATTACCGCCGCCGACAATCACAATTTCCGCA‑tt < 1:3171608/69‑1 (MQ=37)
cccACGCTCGCGGCACTGTTTCAGCAACTGGAAAGTATTACCGCCGCCGACAATCACAATTTCCGCA‑tt < 1:385098/69‑1 (MQ=37)
cccACGCTCGCGGCACTGTTTCAGCAACTGGAAAGTATTACCGCCGCCGACAATCACAATTTCCGCA‑tt < 1:1566189/69‑1 (MQ=37)
cccACGCTCGCGGCACTGTTTCAGCAACTGGAAAGTATTACCGCCGCCGACAATCACAATTTCCGCA‑tt < 1:1124274/69‑1 (MQ=37)
tttCAGCAACTGGAAAGTATTCCCGCCGCCGACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACggg > 1:3082237/1‑69 (MQ=255)
tCAGCAACTGGAAAGTATTCCCGCCGCCGACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACggg < 1:3175265/67‑1 (MQ=255)
tCAGCAACTGGAAAGTATTCCCGCCGCCGACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACggg < 1:7653/67‑1 (MQ=255)
ggAAAGTATTCCCGCCGCCGACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGc < 1:1426796/69‑1 (MQ=255)
gTATTCCCGCCGCCGACAATCACGATCTCAGCATTTTTCAATCGCGGCAACGGGATCGACAACGCTATg < 1:1931485/69‑1 (MQ=255)
gTATTCCCGCCGCCGACAATCACGATCTCAGCATTTTTCAATCGCGGCAACGGGATCGACAACGCTATg < 1:2660407/69‑1 (MQ=255)
ttCCCGCCGCCGACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATa > 1:2966455/1‑69 (MQ=255)
cccGCCGCCGACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATAcc > 1:432350/1‑69 (MQ=255)
cccGCCGCCGACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATAcc > 1:991799/1‑69 (MQ=255)
cccGCCGCCGACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATAcc > 1:2677328/1‑69 (MQ=255)
cccGCCGCCGACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATAc > 1:211033/1‑68 (MQ=255)
gccgccgACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATTCCGGt < 1:2052653/69‑1 (MQ=255)
gccgccgACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATACCGGt < 1:1107066/69‑1 (MQ=255)
gccgccgACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATACCGGt < 1:844598/69‑1 (MQ=255)
gccgccgACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACCCTATGAATACCGGt < 1:3110152/69‑1 (MQ=255)
aCAATCACAATTTCCGCA‑TTTTCAATCGCGGCAACGGGATc > 1:3192768/1‑41 (MQ=37)
aCAATCACAATTTCCGCA‑TTTTCAATCGCGGCAACGGGATCGACAACg > 1:2733842/1‑48 (MQ=255)
aCAATCACAATTTCCGCA‑TTTTCAATCGCGGCAACGGGATCGACAACg > 1:503066/1‑48 (MQ=255)
aCAATCACAATTTCCGCA‑TTTTCAATCGCGGCAACGGGATCGACAACg > 1:1949231/1‑48 (MQ=255)
aCAATCACAATTTCCGCA‑TTTTCAATCGCGGCAACGGGATCGACAACg > 1:389711/1‑48 (MQ=255)
aCAATCACAATTTCCGCA‑TTTTCAATCGCGGCAACGGGATCGACAACg > 1:3325535/1‑48 (MQ=255)
aCAATCACAATTTCCGCA‑TTTTCAATCGCGGCAACGGGATCGACAACg > 1:3168205/1‑48 (MQ=255)
aCAATCACAATTTCCGCA‑TTTTCAATCGCGGCAACGGGATCGACAACg > 1:3126565/1‑48 (MQ=255)
aCAATCACAATTTCCGCA‑TTTTCAATCGCGGCAACGGGATCGACAACg > 1:3075907/1‑48 (MQ=255)
aCAATCACAATTTCCGCA‑TTTTCAATCGCGGCAACGGGATCGACAACg > 1:2450975/1‑48 (MQ=255)
aCAATCACAATTTCCGCA‑TTTTCAATCGCGGCAACGGGATCGACAACg > 1:2508907/1‑48 (MQ=255)
aCAATCACAATTTCCGCA‑TTTTCAATCGCGGCAACGGGATCGACAACg > 1:2839614/1‑48 (MQ=255)
aCAATCACAATTTCCGCA‑TTTTCAATCGCGGCAAAGGGATCGACAACg > 1:2431656/1‑48 (MQ=255)
cACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATAcc > 1:3238512/1‑54 (MQ=255)
cACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATACCGGTGACAGAAaca > 1:2068848/1‑67 (MQ=255)
cACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATACCGGTGACAGAAaca > 1:2072882/1‑67 (MQ=255)
cACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATACCGGTGACAGAAaca > 1:1790843/1‑67 (MQ=255)
cACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATACCGGTGACAGAAaca > 1:1306543/1‑67 (MQ=255)
|
GTGCCAGCAGCCCGCGCTCGCGGCACTGTTTCAGCAACTGGAAAGTATTCCCGCCGCCGACAATCACGATCTCAGCA‑TTTTCAATCGCGGCAACGGGATCGACAACGCTATGAATACCGGTGACAGAAACA > minE/2785028‑2785158
|
| 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
