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 |
831,492 |
T→C |
15.1% |
intergenic (+465/‑51) |
narK → / → narG |
nitrate/nitrite transporter/nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 831,492 | 0 | T | C | 15.1%
| 75.3
/ 4.6
| 46 | intergenic (+465/‑51) | narK/narG | nitrate/nitrite transporter/nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (26/13); new base C (4/3); total (30/16) |
| Fisher's exact test for biased strand distribution p-value = 6.81e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.55e-01 |
CCCCATCACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGATTTATCAGAGGGCCGACAGGCTCCCACAGGAGAAAACCGATGAGTAAATT > minE/831427‑831553
|
ccccATCACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGc < 1:1105379/69‑1 (MQ=255)
ccccATCACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGc < 1:839195/69‑1 (MQ=255)
ccccATCACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGc < 1:765831/69‑1 (MQ=255)
ccccATCACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGc < 1:2621705/69‑1 (MQ=255)
ccccATCACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGc < 1:1320065/69‑1 (MQ=255)
ccccATCACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGc < 1:1157931/69‑1 (MQ=255)
ccccATCACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCATAAACATTAGc < 1:770254/69‑1 (MQ=255)
cACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCaa > 1:669979/1‑65 (MQ=255)
cACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCaa > 1:2562072/1‑65 (MQ=255)
cACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCaa > 1:2242704/1‑65 (MQ=255)
cACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCaa > 1:2418872/1‑65 (MQ=255)
cACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCaa > 1:3339636/1‑65 (MQ=255)
aCTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCg > 1:3360360/1‑69 (MQ=255)
tCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGa > 1:1793583/1‑56 (MQ=255)
tCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGATTTATCAGAggg > 1:2767337/1‑68 (MQ=255)
tCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGATTTATCAGAggg > 1:322852/1‑68 (MQ=255)
tCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGATTTATCAGAggg > 1:1405530/1‑68 (MQ=255)
tCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGATTTATCAGAggg > 1:671993/1‑68 (MQ=255)
tCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGATTTATCAGAggg > 1:2373698/1‑68 (MQ=255)
cAATTCCCACGCTGTTTCAGCGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:1283298/1‑58 (MQ=255)
cAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:3402179/1‑58 (MQ=255)
cAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:331870/1‑58 (MQ=255)
cAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:569375/1‑58 (MQ=255)
cAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:1100638/1‑58 (MQ=255)
cAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:3153206/1‑58 (MQ=255)
cAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:2947076/1‑58 (MQ=255)
cAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:1335786/1‑58 (MQ=255)
cAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:2717475/1‑58 (MQ=255)
cAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:2626410/1‑58 (MQ=255)
cAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:1250225/1‑58 (MQ=255)
cAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:2474365/1‑58 (MQ=255)
cAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:2275491/1‑58 (MQ=255)
cAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGAttt > 1:2077029/1‑58 (MQ=255)
cccACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATCAGCAATGTCGATTTATCAGAGGGCCGACAg > 1:1338329/1‑69 (MQ=255)
cccACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATCAGCAATGTCGATTTATCAGAGGGCCGACAg > 1:1514420/1‑69 (MQ=255)
cccACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATCAGCAATGTCGATTTATCAGAGGGCCGACAg > 1:2261098/1‑69 (MQ=255)
cccACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATCAGCAATGTCGATTTATCAGAGGGCCGACAg > 1:749773/1‑69 (MQ=255)
ccTTAAACATTAGCAATGTCGATTTATCAGAGGGCCGACAGGCTCCCACAGGAGAAAACCGATGAGTa < 1:893024/68‑1 (MQ=255)
ccTTAAACATTAGCAATGTCGATTTATCAGAGGGCCGACAGGCTCCCACAGGAGAAAACCGATGAGTa < 1:1545139/68‑1 (MQ=255)
ttAAACATCAGCAATGTCGATTTATCAGAGGGCCGACAGGCTCCCACAGGAGAAAACCGATGAGTAAAt < 1:2250242/69‑1 (MQ=255)
ttAAACATCAGCAATGTCGATTTATCAGAGGGCCGACAGGCTCCCACAGGAGAAAACCGATGAGTAAAt < 1:3061013/69‑1 (MQ=255)
tcaaaCATCAGCAATGTCGATTTATCAGAGGCCCGACAGGCTCCCACAGGAGAAAACCGATGAGTAAAt < 1:3230210/67‑1 (MQ=255)
tAAACATTAGCAATGTCGATTTATCAGAGGGCCGACAGGCTCCCACAGGAGAAAACCGATGAGTAAAtt < 1:194405/69‑1 (MQ=255)
tAAACATTAGCAATGTCGATTTATCAGAGGGCCGACAGGCTCCCACAGGAGAAAACCGATGAGTAAAtt < 1:1586028/69‑1 (MQ=255)
tAAACATTAGCAATGTCGATTTATCAGAGGGCCGACAGGCTCCCACAGGAGAAAACCGATGAGTAAAtt < 1:3100885/69‑1 (MQ=255)
tAAACATTAGCAATGTCGATTTATCAGAGGGCCGACAGGCTCCCACAGGAGAAAACCGATGAGTAAAtt < 1:298327/69‑1 (MQ=255)
|
CCCCATCACTCTTGATCGTTATCAATTCCCACGCTGTTTCAGAGCGTTACCTTGCCCTTAAACATTAGCAATGTCGATTTATCAGAGGGCCGACAGGCTCCCACAGGAGAAAACCGATGAGTAAATT > minE/831427‑831553
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
