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 F2 I74 R1
|
158 |
13.7 |
815430 |
95.7% |
780366 |
86.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,330,415 |
A→G |
intergenic (‑77/+122) |
adiA ← / ← melR |
arginine decarboxylase/transcriptional regulator MelR |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,330,415 | 0 | A | G | 100.0%
| 43.2
/ NA
| 14 | intergenic (‑77/+122) | adiA/melR | arginine decarboxylase/transcriptional regulator MelR |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (7/7); total (7/7) |
TTTCATCATTGCTTACCCGGTTATGAAGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGAAAAACAAACATTTTTGAAATATTTAGTTTTATAAACAATACGTTATGTGATTATTTTAAATTATTTTCACTGCTTATTATCGA > NZ_CP009273/4330333‑4330498
|
tttCATCATTGCTTACCCGGTTATGAAGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAaaacaa > 1:224038/1‑90 (MQ=255)
tGCTTACCCGGTTATGAAGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTg > 2:400269/1‑90 (MQ=255)
cGGTTCTGAAGGAGTCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATAttt < 2:230321/90‑1 (MQ=255)
cGGTTATGAAGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATAttt < 1:35194/90‑1 (MQ=255)
ttATGAAGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGt > 2:356201/1‑90 (MQ=255)
aaGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTtat < 1:356201/90‑1 (MQ=255)
aGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTtata < 1:143037/90‑1 (MQ=255)
ggAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTTATaa < 2:35127/90‑1 (MQ=255)
aaTCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTTATAAAc > 1:148040/1‑90 (MQ=255)
tCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTta < 1:145487/80‑1 (MQ=255)
tCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTta > 2:145487/1‑80 (MQ=255)
aGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTTATAAACAATACGTTATGTGatta < 1:120977/90‑1 (MQ=255)
gCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTTATAAACAATACGTTATGTGATTATTTTAAattat > 2:260740/1‑90 (MQ=255)
cgcgTGGAAAACAAACATTTTTGAAATATTTAGTTTTATAAACAATACGTTATGTGATTATTTTAAATTATTTTCACTGCTTATTATCGa > 2:155500/1‑90 (MQ=255)
|
TTTCATCATTGCTTACCCGGTTATGAAGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGAAAAACAAACATTTTTGAAATATTTAGTTTTATAAACAATACGTTATGTGATTATTTTAAATTATTTTCACTGCTTATTATCGA > NZ_CP009273/4330333‑4330498
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CAATTAATACTTTCATCATTGCTTACCCGGTTATGAAGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGAAAAACAAACATTTTTGAAATATTTAGTTTTATAAACAATACGTTATGTGATTATTTTAAATTA > NZ_CP009273/4330323‑4330478
|
CAATTAATACTTTCATCATTGCTTACCCGGTTATGAAGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAA > SRR3722212.226766/1‑100 (MQ=60)
CGGTTATGAAGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTTATAA < SRR3722212.35610/100‑1 (MQ=60)
GTTATGAAGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTTATAAAC > SRR3722212.149737/1‑100 (MQ=60)
GAAGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTTATAAACAATAC < SRR3722212.147161/100‑1 (MQ=60)
AAGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTTATAAACAATACG < SRR3722212.361194/100‑1 (MQ=60)
AGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTTATAAACAATACGT < SRR3722212.144691/100‑1 (MQ=60)
AGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGGAAAACAAACATTTTTGAAATATTTAGTTTTATAAACAATACGTTATGTGATTATTTTAAATTA < SRR3722212.122377/100‑1 (MQ=60)
|
CAATTAATACTTTCATCATTGCTTACCCGGTTATGAAGGAATCTTCGTTGCGGGCAAGTATCTTCCGGCCTTTTCGGGCTGTAAAGCGCGTGAAAAACAAACATTTTTGAAATATTTAGTTTTATAAACAATACGTTATGTGATTATTTTAAATTA > NZ_CP009273/4330323‑4330478
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
