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 |
|
A1 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
259,305 |
G→A |
A7V (GCA→GTA) |
phoE ← |
outer membrane phosphoporin protein E |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 259,305 | 0 | G | A | 100.0%
| 105.3
/ NA
| 34 | A7V (GCA→GTA) | phoE | outer membrane phosphoporin protein E |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (15/19); total (15/19) |
CCGTCTTTATTATATATTTCTGCAGCCTGTACAGATGCAGATGCCACAATGCCCATCACCACTAATGCCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAATATTCAGCGG > W3110S.gb/259239‑259364
|
ccGTCTTTATTATATATTTCTGCAGCCTGTACAGATGCAGATGCCACAATGCCCATCACCACTAATACCa < 1:1903274/70‑1 (MQ=255)
ccGTCTTTATTATATATTTCTGCAGCCTGTACAGATGCAGATGCCACAATGCCCATCACCACTAATACCa < 1:2045310/70‑1 (MQ=255)
tatatTTCTGCAGCCTGTACAGATGCAGATGCCACAATGCCCATCACCACTAATACCa < 1:86932/58‑1 (MQ=255)
tCTGCAGCCTGTACAGATGCAGATGCCACAATGCCCATCACCACTAATACCAGAGTGCTCTttttcatttt > 1:3533899/1‑71 (MQ=255)
cAGCCTTTACAGATGCAGATGCCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTttcattttcatt < 1:2048101/71‑1 (MQ=255)
cAGCCTGTACAGATGCAGATGCCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTttcattttcatt < 1:4114963/71‑1 (MQ=255)
cAGCCTGTACAGATGCAGATGCCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTttcattttcatt < 1:3181042/71‑1 (MQ=255)
cAGCCTGTACAGATGCAGATGCCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTttcattttcatt < 1:3118080/71‑1 (MQ=255)
cAGCCTGTACAGATGCAGATGCCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTttcattttcatt < 1:3105089/71‑1 (MQ=255)
cAGCCTGTACAGATGCAGATGCCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTttcattttcatt < 1:2829860/71‑1 (MQ=255)
cAGCCTGTACAGATGCAGATGCCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTttcattttcatt < 1:2538374/71‑1 (MQ=255)
aGCCTGTACAGATGCAGATGCCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTttcattttcatt < 1:1031950/70‑1 (MQ=255)
agatgcagatgcCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTtta < 1:3545468/71‑1 (MQ=255)
gatgcagatgcCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTtta < 1:22445/70‑1 (MQ=255)
gatgcCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAAcg > 1:2888434/1‑71 (MQ=255)
gatgcCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAAcg > 1:2425051/1‑71 (MQ=255)
gatgcCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAAcg > 1:1877406/1‑71 (MQ=255)
tgcCACAATGCCCATCACCACTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAAcgcg > 1:3811599/1‑71 (MQ=255)
aTGCCCATCACCACTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAatat < 1:3504329/71‑1 (MQ=255)
aTGCCCATCACCACTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAatat < 1:3508996/71‑1 (MQ=255)
tGCCCATCACCACTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGaa < 1:4123478/67‑1 (MQ=255)
tGCCCATCACCACTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGaa < 1:178262/67‑1 (MQ=255)
tGCCCATCACCACTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGaa < 1:1260830/67‑1 (MQ=255)
tGCCCATCACCACTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGaa < 1:367909/67‑1 (MQ=255)
cccATCACCACTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAata > 1:1849925/1‑67 (MQ=255)
accacTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAATATTCAGCgg > 1:1041638/1‑69 (MQ=255)
accacTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAATATTCAGCgg > 1:51094/1‑69 (MQ=255)
accacTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAATATTCAGCgg > 1:116626/1‑69 (MQ=255)
accacTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAATATTCAGCgg > 1:3837109/1‑69 (MQ=255)
accacTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAATATTCAGCgg > 1:3645087/1‑69 (MQ=255)
accacTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAATATTCAGCgg > 1:3623016/1‑69 (MQ=255)
accacTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAATATTCAGCgg > 1:1852826/1‑69 (MQ=255)
accacTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAATATTCAGCgg > 1:2223325/1‑69 (MQ=255)
accacTAATACCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAATATTCAGCgg > 1:228552/1‑69 (MQ=255)
|
CCGTCTTTATTATATATTTCTGCAGCCTGTACAGATGCAGATGCCACAATGCCCATCACCACTAATGCCAGAGTGCTCTTTTTCATTTTCATTCCTGATTTTAATTAACGCGCGAATATTCAGCGG > W3110S.gb/259239‑259364
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
