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 I211 R1
|
223 |
18.0 |
1007644 |
96.3% |
970361 |
85.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,818,451 |
T→C |
E162G (GAA→GGA) |
mltB ← |
lytic murein transglycosylase B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,818,451 | 0 | T | C | 100.0%
| 68.2
/ NA
| 22 | E162G (GAA→GGA) | mltB | lytic murein transglycosylase B |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (10/12); total (10/12) |
ACTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTTCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGATT > NZ_CP009273/2818365‑2818533
|
aCTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCaa < 2:197495/90‑1 (MQ=255)
aCTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCaa > 2:169766/1‑90 (MQ=255)
gcgcgGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCg > 1:277900/1‑90 (MQ=255)
gACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTcc < 1:210762/90‑1 (MQ=255)
aGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCcggc > 1:257665/1‑90 (MQ=255)
aGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCcggc > 1:484763/1‑90 (MQ=255)
cGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCcggcgg < 2:319536/90‑1 (MQ=255)
ttGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTa < 1:43125/90‑1 (MQ=255)
tGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTAc < 1:414908/90‑1 (MQ=255)
tGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTAc < 2:339301/90‑1 (MQ=255)
tGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTAc < 2:348388/90‑1 (MQ=255)
gcgcATCGAGGATGCGAGTTTTCCCCATCCCGTGCCCCCAGCGGGTTCCACCGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCAt < 1:265933/90‑1 (MQ=255)
gCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTAc < 1:318095/72‑1 (MQ=255)
gCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTAc > 2:318095/1‑72 (MQ=255)
gAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCAcgcgc > 1:18836/1‑90 (MQ=255)
ccATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACg > 2:426020/1‑90 (MQ=255)
cATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGc < 2:484763/90‑1 (MQ=255)
cgcgCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCtt < 1:426020/90‑1 (MQ=255)
cAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGa > 1:319379/1‑90 (MQ=255)
gCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGAtt > 1:352732/1‑90 (MQ=255)
gTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTAc > 1:339366/1‑41 (MQ=255)
gTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTAc < 2:339366/41‑1 (MQ=255)
|
ACTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTTCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGATT > NZ_CP009273/2818365‑2818533
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GAAATACTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTTCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGATTCCAG > NZ_CP009273/2818360‑2818537
|
GAAATACTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCG > SRR3722094.282071/1‑100 (MQ=60)
GTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGC > SRR3722094.261474/1‑100 (MQ=60)
GTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGC > SRR3722094.493316/1‑100 (MQ=60)
GACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTC < SRR3722094.213605/100‑1 (MQ=60)
TTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACAC < SRR3722094.43731/100‑1 (MQ=60)
agagacaGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACC < SRR3722094.323165/93‑1 (MQ=60)
TGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACC < SRR3722094.422130/100‑1 (MQ=60)
GCGCATCGAGGATGCGAGTTTTCCCCATCCCGTGCCCCCAGCGGGTTCCACCGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCA < SRR3722094.269897/100‑1 (MQ=60)
TCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGC > SRR3722094.19115/1‑100 (MQ=60)
CACGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGA > SRR3722094.324483/1‑100 (MQ=60)
CGCGCCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGATT > SRR3722094.358623/1‑100 (MQ=60)
CGCGCCCCCAGCGGGTTCCAACGCCGATAACCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGATT < SRR3722094.433459/100‑1 (MQ=60)
CCCCCAGCGGGTTCCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCctggctcttatacacatctgacgctgccgacgaccatct > SRR3722094.344953/1‑61 (MQ=60)
|
GAAATACTCCGCGCGGCGTGGGTAGTTAAATGACAGCGTTGCCAGCGCATCGAGGATGCGAGTTTTCCCCATCACGCGCCCCCAGCGGGTTTCAACGCCGATAATCCCGACGATAATTTCCGGCGGTACTCCATACACCTGCCACGCGCGATTCAACGCATCTTCATACTGATTCCAG > NZ_CP009273/2818360‑2818537
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
