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 I205 R1
|
220 |
17.5 |
961422 |
97.1% |
933540 |
86.5 |
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%
| 69.2
/ NA
| 21 | E215G (GAA→GGA) | folC | bifunctional tetrahydrofolate synthase/dihydrofolate synthase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (18/3); total (18/3) |
GTGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTTCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTT > NZ_CP009273/2425691‑2425860
|
gTGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTccc < 2:19571/90‑1 (MQ=255)
ccGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTgc > 2:72714/1‑90 (MQ=255)
tCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCa > 2:409275/1‑90 (MQ=255)
aGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAg > 1:324340/1‑90 (MQ=255)
gATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCAttt > 1:256866/1‑90 (MQ=255)
cGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCg > 2:382556/1‑90 (MQ=255)
gTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGc > 2:362248/1‑90 (MQ=255)
aGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACaa > 2:480533/1‑90 (MQ=255)
cACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGcc < 2:324340/90‑1 (MQ=255)
aCTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCg > 2:229111/1‑90 (MQ=255)
aCTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCg > 2:205876/1‑90 (MQ=255)
aCTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCg > 2:74435/1‑90 (MQ=255)
ttGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGaa > 2:29229/1‑90 (MQ=255)
cAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGcc < 2:295610/90‑1 (MQ=255)
aGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCt < 2:4320/90‑1 (MQ=255)
gTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTg > 1:415682/1‑90 (MQ=255)
gTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTg > 2:445752/1‑90 (MQ=255)
gTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTg > 1:262558/1‑90 (MQ=255)
gCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCt > 2:458113/1‑90 (MQ=255)
gCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCt > 1:302217/1‑90 (MQ=255)
gCACCTTTTCCCTGCACCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCt > 1:239568/1‑90 (MQ=255)
aCCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCttt > 2:52697/1‑90 (MQ=255)
|
GTGCCGTGAGCATCGCTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTTCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTT > NZ_CP009273/2425691‑2425860
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 33 ≤ 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
CTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTTCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAA > NZ_CP009273/2425706‑2425871
|
CTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAG > SRR3722087.327863/1‑100 (MQ=60)
GCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTT > SRR3722087.259354/1‑100 (MQ=60)
CGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTG > SRR3722087.265127/1‑100 (MQ=60)
CGTTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTG > SRR3722087.420527/1‑100 (MQ=60)
TTGTAACAGTGCACCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCT > SRR3722087.305352/1‑100 (MQ=60)
TTGTAACAGTGCACCTTTTCCCTGCACCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCT > SRR3722087.241828/1‑100 (MQ=60)
GTGCACCTTTTCCCTGCGCCATATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCG > SRR3722087.44848/1‑100 (MQ=60)
CCTTTTCCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAA > SRR3722087.142103/1‑100 (MQ=60)
|
CTAAACGCCCAGTCATGATCGGTGACGGAATAGTTCCACTCAACGCCCCGACGTTGTAACAGTGCACCTTTTTCCTGCGCCACATCAGCAATGGTAGAAGGCATTTCCGGCTCACCGACAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAA > NZ_CP009273/2425706‑2425871
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
