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 |
3,483,721 |
G→C |
R156R (CGC→CGG) |
pabA ← |
aminodeoxychorismate synthase component 2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,483,721 | 0 | G | C | 100.0%
| 97.1
/ NA
| 30 | R156R (CGC→CGG) | pabA | aminodeoxychorismate synthase component 2 |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base C (14/16); total (14/16) |
CAGGAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGGCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCAGGTTCCACCACC > NZ_CP009273/3483634‑3483799
|
cAGGAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACtggcgatgccg > 1:474197/1‑90 (MQ=255)
aGGAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACtggcgatgccga < 1:204653/90‑1 (MQ=255)
ggAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGaa < 2:612607/90‑1 (MQ=255)
gAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAAt < 2:301661/90‑1 (MQ=255)
gAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAAt < 2:49364/90‑1 (MQ=255)
gAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAAt < 2:283502/90‑1 (MQ=255)
gAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAAt < 1:286714/90‑1 (MQ=255)
aaaTTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATc < 2:400941/90‑1 (MQ=255)
ttAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATcccc > 1:489555/1‑90 (MQ=255)
agcagTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAAtc < 2:567429/90‑1 (MQ=255)
agcagTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAAtc < 2:541970/90‑1 (MQ=255)
gcagTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAAtct > 1:249009/1‑90 (MQ=255)
tGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCgg > 2:497144/1‑90 (MQ=255)
tCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTc < 1:239896/90‑1 (MQ=255)
tCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTc < 1:541140/90‑1 (MQ=255)
ttGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCt > 1:319141/1‑90 (MQ=255)
tggatggaACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCa > 2:501878/1‑90 (MQ=255)
atggaACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGc < 2:401808/90‑1 (MQ=255)
cTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTaa > 2:537211/1‑90 (MQ=255)
cTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTaa < 2:489555/90‑1 (MQ=255)
gCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGTTAATg > 2:44086/1‑90 (MQ=255)
gCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATg < 2:603057/90‑1 (MQ=255)
acCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTc < 1:78007/90‑1 (MQ=255)
ccTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGc > 2:417428/1‑73 (MQ=255)
ccTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGc < 1:417428/73‑1 (MQ=255)
ccTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCa > 1:359142/1‑90 (MQ=255)
ttCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCAgg > 1:415342/1‑90 (MQ=255)
cccACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCAGGTTccacca > 2:515105/1‑90 (MQ=255)
cccACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCAGGTTccacca > 2:165162/1‑90 (MQ=255)
cACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCAGGTTccaccacc > 2:287069/1‑90 (MQ=255)
cTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTcc < 2:548021/41‑1 (MQ=255)
cTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTcc > 1:548021/1‑41 (MQ=255)
|
CAGGAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGGCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCAGGTTCCACCACC > NZ_CP009273/3483634‑3483799
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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
ATCAGCGATGCAGGAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGGCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCAGGTTCCACCACCAGCGAATGGTAGCGTGTCAC > NZ_CP009273/3483624‑3483819
|
ATCAGCGATGCAGGAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCG > SRR3722088.479824/1‑100 (MQ=60)
ATGCAGGAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCC > SRR3722088.495389/1‑100 (MQ=60)
AGGAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAA < SRR3722088.206704/100‑1 (MQ=60)
GAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATC < SRR3722088.289472/100‑1 (MQ=60)
AAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCT > SRR3722088.251443/1‑100 (MQ=60)
GTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCT > SRR3722088.322381/1‑100 (MQ=60)
TCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCC < SRR3722088.242258/100‑1 (MQ=60)
TCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCC < SRR3722088.547734/100‑1 (MQ=60)
gtgggctcggagatgtgtataagagacagTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGC < SRR3722088.318754/71‑1 (MQ=60)
gagacaGGAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAA < SRR3722088.422061/94‑1 (MQ=60)
GAACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCA > SRR3722088.362950/1‑100 (MQ=60)
ACTGCACACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCAGG > SRR3722088.419939/1‑100 (MQ=60)
ACCTTCCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCAGGTTCCACC < SRR3722088.78798/100‑1 (MQ=60)
CCAGATCCCACTGGCGATGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACctgtctcttatacacatctccgagcccacgagaccgtac > SRR3722088.554708/1‑61 (MQ=60)
TGCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCAGGTTCCACCACCAGCGAATGGTAGCGTGTCA > SRR3722088.56441/1‑100 (MQ=60)
GCCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCAGGTTCCACCACCAGCGAATGGTAGCGTGTCAC > SRR3722088.519306/1‑100 (MQ=60)
|
ATCAGCGATGCAGGAAATTAGCCAGCAGTTGATGTCCTTGTTCGCTAAGAATACTTTCTGGATGGAACTGCACACCTTCCAGATCCCACTGGCGATGGCGAATCCCCATAATCTCTCGGGTTTCGCTCCAGGCCGTCACGTCAAAGCACGCTGGTAATGAGTCAGGTTCCACCACCAGCGAATGGTAGCGTGTCAC > NZ_CP009273/3483624‑3483819
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
