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 I206 R1
|
206 |
23.7 |
1314362 |
96.8% |
1272302 |
86.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,425,778 |
T→C |
E215G (GAA→GGA) |
folC ← |
bifunctional tetrahydrofolate synthase/dihydrofolate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,425,778 | 0 | T | C | 100.0%
| 52.4
/ NA
| 17 | E215G (GAA→GGA) | folC | bifunctional tetrahydrofolate synthase/dihydrofolate synthase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (14/3); total (14/3) |
GTGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTTCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCG > NZ_CP009273/2425691‑2425864
|
gTGCCGTGAGCATCGCTAAACGCCCAGTCCTGATCGGTGGCGGAATAGTTCCCCTCAACGCCCCGACGTTGTAACAGTGCACCTTTTccc < 1:20155/90‑1 (MQ=255)
tGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCt > 2:382412/1‑90 (MQ=255)
ccGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTgc < 1:382412/90‑1 (MQ=255)
aaaCGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAAt < 1:535466/90‑1 (MQ=255)
cccAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAg > 2:133539/1‑90 (MQ=255)
cAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGaa > 2:644519/1‑90 (MQ=255)
aGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAg > 2:500936/1‑90 (MQ=255)
aGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAg > 2:396765/1‑90 (MQ=255)
aGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAg > 1:471077/1‑90 (MQ=255)
gTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGc > 1:480188/1‑90 (MQ=255)
gTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGc > 2:133308/1‑90 (MQ=255)
aCTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCg > 2:170296/1‑90 (MQ=255)
aCTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCg > 2:352014/1‑90 (MQ=255)
aCGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGtttt > 1:58190/1‑90 (MQ=255)
gTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGa > 1:327779/1‑90 (MQ=255)
cAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGcc < 2:634740/90‑1 (MQ=255)
gTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTg > 1:285024/1‑90 (MQ=255)
gCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCt > 1:490057/1‑90 (MQ=255)
tttcCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTcg < 1:349459/90‑1 (MQ=255)
|
GTGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTTCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCG > NZ_CP009273/2425691‑2425864
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ 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
ATTTTCCAGCGTGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTTCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATAC > NZ_CP009273/2425681‑2425874
|
ATTTTCCAGCGTGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCC < SRR3722088.421199/100‑1 (MQ=60)
ATTTTCCAGCGTGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCC < SRR3722088.656627/100‑1 (MQ=60)
GTGCCGTGAGCATCGCTAAACGCCCAGTCCTGATCGGTGGCGGAATAGTTCCCCTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACAT < SRR3722088.20365/100‑1 (MQ=60)
CCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAG < SRR3722088.386463/100‑1 (MQ=60)
CTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAG > SRR3722088.476638/1‑100 (MQ=60)
AAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGC < SRR3722088.541970/100‑1 (MQ=60)
GTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGC > SRR3722088.485906/1‑100 (MQ=60)
GTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTT > SRR3722088.58810/1‑100 (MQ=60)
CCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGA > SRR3722088.331153/1‑100 (MQ=60)
CGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTG > SRR3722088.287765/1‑100 (MQ=60)
TTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCT > SRR3722088.495898/1‑100 (MQ=60)
TTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATAC < SRR3722088.353146/100‑1 (MQ=60)
|
ATTTTCCAGCGTGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTTCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATAC > NZ_CP009273/2425681‑2425874
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
