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 |
1,423,342 |
C→A |
56.4% |
V177V (GTG→GTT) |
ccmC ← |
heme exporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,423,342 | 0 | C | A | 56.4%
| 7.8
/ 56.8
| 55 | V177V (GTG→GTT) | ccmC | heme exporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (14/10); new base A (13/18); total (27/28) |
| Fisher's exact test for biased strand distribution p-value = 2.82e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCCGGATCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAGGATACCTG > minE/1423283‑1423397
|
gCCGGATCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTa > 1:407240/1‑68 (MQ=255)
gCCGGATCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTa > 1:2120577/1‑68 (MQ=255)
gCCGGATCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTa > 1:3156405/1‑68 (MQ=255)
gCCGGATCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTa > 1:3238636/1‑68 (MQ=255)
gCCGGATCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTa > 1:1793981/1‑68 (MQ=255)
gCCGGATAGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTa > 1:953171/1‑68 (MQ=255)
tCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCAACGGAGTAATGaata > 1:2459301/1‑69 (MQ=255)
tCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCAACGGAGTAATGaata > 1:1989915/1‑69 (MQ=255)
tCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCAACGGAGTAATGaata > 1:880329/1‑69 (MQ=255)
tCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCAACGGAGTAATGaata > 1:740425/1‑69 (MQ=255)
tCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCAACGGAGTAATGaata > 1:3128184/1‑69 (MQ=255)
tCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCAACGGAGTAATGaata > 1:2240610/1‑69 (MQ=255)
tCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCAACGGAGTAATGaata > 1:1714939/1‑69 (MQ=255)
tCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCAACGGAGTAATGaata > 1:2831847/1‑69 (MQ=255)
tCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCAACGGAGTAATGaata > 1:1473992/1‑69 (MQ=255)
tCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCAACGGAGTAATGaata > 1:2602935/1‑69 (MQ=255)
tCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCAACGGAGTAATGaata > 1:1330377/1‑69 (MQ=255)
tCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCAACGGAGTAATGaata > 1:2829383/1‑69 (MQ=255)
tCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCAACGGAGTAATGaat > 1:1456870/1‑68 (MQ=255)
gcATCCGCGTTGATCCCTGATGCAGGGTGTTCGACCACTCCACGGAGTAATGAATAATCGGCAGATTca < 1:407283/69‑1 (MQ=255)
gcATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTAATGAATAATCGGCAGATTca < 1:1156629/69‑1 (MQ=255)
gcATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTAATGAATAATCGGCAGATTca < 1:2010297/69‑1 (MQ=255)
cgcgTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTAATGAATAATCGGCAGATTcaccac > 1:3270782/1‑68 (MQ=255)
cgcgTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTAATGAATAATCGGCAGATTcaccac > 1:1289059/1‑68 (MQ=255)
cgcgTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTAATGAATAATCGGCAGATTcaccac > 1:1263701/1‑68 (MQ=255)
cgcgTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTAATGAATAATCGGCAGATTcaccac > 1:1077718/1‑68 (MQ=255)
cgcgTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTAATGAATAATAGGCAGATTcaccac > 1:2700073/1‑68 (MQ=255)
gTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTAATGAATAATCGGCAGATTCACCACGCCa < 1:1610262/69‑1 (MQ=255)
gTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTAATGAATAATCGGCAGATTCACCACGCCa < 1:518087/69‑1 (MQ=255)
gTTGAT‑CCTGATGCAGGGTGTTCCACCACTCCACGGAGTAATGAATAATCGGCAGATTCACCACGCCa < 1:1515854/68‑1 (MQ=255)
gCAGGGTGTTCCACCACTCCACGGAGTAATGAATAATCGGCAGATTCACCACGCCa < 1:3010142/56‑1 (MQ=255)
tgtTCCACCACTCCACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAGGATACCTg > 1:190478/1‑69 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:3141003/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:3143318/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:3299741/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:700562/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:279785/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:2688211/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:2473472/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:1004177/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:1914529/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:1892922/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:1870847/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:1850523/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:1814376/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:1805495/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:1668577/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:1238531/53‑1 (MQ=255)
cacTCAACGGAGTAATGAATAATCGCCAGATTCACCACGCCAATCAGCACCAg < 1:482962/53‑1 (MQ=39)
acTCCACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAg > 1:282111/1‑46 (MQ=255)
acTCCACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAg < 1:1117461/46‑1 (MQ=255)
acTCCACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAg < 1:1410219/46‑1 (MQ=255)
acTCCACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAg < 1:2858684/46‑1 (MQ=255)
acTCCACGGAGTAATGAATAATCGGCAGATTCACCACG‑CAATCAg > 1:1021373/1‑45 (MQ=255)
acTCAACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAg < 1:2022908/52‑1 (MQ=255)
cACGGAGTAATGAATAATCGGCAGATTCCCCACGCCAATCAGCACCAgg > 1:1755259/1‑49 (MQ=255)
cACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAGGa > 1:193415/1‑50 (MQ=255)
|
GCCGGATCGATACTTTGCTGCATCCGCGTTGATCCCTGATGCAGGGTGTTCCACCACTCCACGGAGTAATGAATAATCGGCAGATTCACCACGCCAATCAGCACCAGGATACCTG > minE/1423283‑1423397
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
