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 |
1,090,837 |
A→G |
45.0% |
F288F (TTT→TTC) |
sufB ← |
component of SufBCD complex |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,090,837 | 0 | A | G | 45.0%
| 7.4
/ 48.2
| 60 | F288F (TTT→TTC) | sufB | component of SufBCD complex |
| Reads supporting (aligned to +/- strand): ref base A (6/27); new base G (10/17); total (16/44) |
| Fisher's exact test for biased strand distribution p-value = 1.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.97e-01 |
TTCGCCTTCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACTTCCACCACTGC > minE/1090771‑1090902
|
ttCGCCTTCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGaa > 1:2554292/1‑68 (MQ=255)
ttCGCCTTCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGa > 1:2558226/1‑67 (MQ=255)
ttCGGACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:1503515/69‑1 (MQ=255)
ttCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:1180195/69‑1 (MQ=255)
ttCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:2398891/69‑1 (MQ=255)
ttCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:1956366/69‑1 (MQ=255)
ttCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:1782099/69‑1 (MQ=255)
ttCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:2496266/69‑1 (MQ=255)
ttCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:256180/69‑1 (MQ=255)
ttCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:2733074/69‑1 (MQ=255)
ttCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:2750429/69‑1 (MQ=255)
ttCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:2997663/69‑1 (MQ=255)
ttCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:528922/69‑1 (MQ=255)
ttCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:661977/69‑1 (MQ=255)
ttCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:80149/69‑1 (MQ=255)
tCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:812721/68‑1 (MQ=255)
tCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:2182396/68‑1 (MQ=255)
acaAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCTGTGTTGTTATCGCCAGGGAACCAAtt < 1:1479191/64‑1 (MQ=255)
cACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGGAACCAAtt < 1:1888437/58‑1 (MQ=255)
cGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGaa < 1:1792398/69‑1 (MQ=255)
cGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGaa < 1:1811377/69‑1 (MQ=255)
gCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGaa < 1:2687044/68‑1 (MQ=255)
aCGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGa > 1:1777241/1‑59 (MQ=255)
aCGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCAcc > 1:1638752/1‑69 (MQ=255)
aCGAAGGTGAGAATACCGCCGGTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCAcc > 1:435175/1‑69 (MQ=255)
aaTACCGCCGGTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGtttt < 1:995354/68‑1 (MQ=255)
aaTACCGCCGGTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGtttt < 1:407400/68‑1 (MQ=255)
tACCGCCGGTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTGTTTa > 1:2737171/1‑68 (MQ=255)
aCCGCCGGTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATg < 1:1228184/69‑1 (MQ=255)
ccgccgGTGTTGTTATCGCCAGGACACCAGTTTTGTACCGTGGAat < 1:3368327/46‑1 (MQ=255)
ccgccgGTGTTGTTATCGCCAGGAAACCAGTTTTg > 1:780659/1‑35 (MQ=255)
ccgccgGTGTTGTTATCGCCAGGAAACCAGTTTTg > 1:2858103/1‑35 (MQ=255)
ccgccgGTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAat < 1:199535/46‑1 (MQ=255)
ggTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:159179/69‑1 (MQ=255)
ggTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:652572/69‑1 (MQ=255)
ggTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:3185818/69‑1 (MQ=255)
ggTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:857410/69‑1 (MQ=255)
ggTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:2829190/69‑1 (MQ=255)
ggTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:1431013/69‑1 (MQ=255)
ggTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:106760/69‑1 (MQ=255)
gtgtTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:880721/68‑1 (MQ=255)
tgttgtTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGAtgatga < 1:1292803/69‑1 (MQ=255)
ttgttATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATg < 1:1317569/59‑1 (MQ=255)
ttgttATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:874287/65‑1 (MQ=255)
ttgttATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:2952533/65‑1 (MQ=255)
ttgttATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:748279/65‑1 (MQ=255)
ttgttATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGTATGATGACt < 1:1184301/69‑1 (MQ=255)
ttgttATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACt < 1:2679018/69‑1 (MQ=255)
ttgttATCGCCAGGAAACAAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:2564934/65‑1 (MQ=255)
tgttATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:2907149/64‑1 (MQ=255)
tgttATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGgatgat < 1:2582539/64‑1 (MQ=255)
gttATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACTTc < 1:1278360/69‑1 (MQ=255)
aGGGAACCAATTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACTTccacc > 1:662360/1‑64 (MQ=255)
aGGGAACCAATTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACTTCcaccaccg > 1:2529995/1‑66 (MQ=255)
aGGGAACCAATTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACTTCcaccaccg > 1:3240794/1‑66 (MQ=255)
aGGGAACCAATTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACTTCCACCACCGc > 1:1722107/1‑69 (MQ=255)
aGGGAACCAATTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACTTCCACCACCGc > 1:735165/1‑69 (MQ=255)
aGGGAACCAATTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACTTCCACCACCGc > 1:3251393/1‑69 (MQ=255)
aGGGAACCAATTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACTTCCACCACCGc > 1:3143555/1‑69 (MQ=255)
aGGGAACCAATTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACTTCCACCACCGc > 1:3012062/1‑69 (MQ=255)
aGGGAACCAATTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACTTCCACCACCGc > 1:2838428/1‑69 (MQ=255)
aGGGAACCAATTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACTTCCACCACCGc > 1:1406453/1‑69 (MQ=255)
|
TTCGCCTTCGCACAAAGCACGCTTGGTGACGAAGTTGAGAATACCGCCGGTGTTGTTATCGCCAGGAAACCAGTTTTGTACCGTGGAATATTTCACCTCGGCGTTTTTATGGATGATGACTTCCACCACTGC > minE/1090771‑1090902
|
| 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
