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 I225 R1
|
227 |
21.4 |
1179702 |
97.1% |
1145490 |
86.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,189,312 |
A→G |
T512A (ACC→GCC) |
metG → |
methionine‑‑tRNA ligase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,189,312 | 0 | A | G | 100.0%
| 65.2
/ NA
| 21 | T512A (ACC→GCC) | metG | methionine‑‑tRNA ligase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (9/12); total (9/12) |
CTGTTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGACCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAGG > NZ_CP009273/2189228‑2189396
|
cTGTTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTgg < 1:481460/90‑1 (MQ=255)
gTTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGa > 1:247466/1‑90 (MQ=255)
cgcgTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGt > 2:304703/1‑90 (MQ=255)
ccGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCcac < 1:133181/90‑1 (MQ=255)
ggTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACaa > 1:258229/1‑90 (MQ=255)
cGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATc < 1:523812/90‑1 (MQ=255)
aaCTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGt > 2:527032/1‑90 (MQ=255)
gACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCaa < 2:494381/90‑1 (MQ=255)
aCCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCaa < 2:494190/89‑1 (MQ=255)
aCCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCaa > 1:494190/1‑89 (MQ=255)
cGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGgc < 1:13191/90‑1 (MQ=255)
cGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGgc > 2:34976/1‑90 (MQ=255)
cGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGgc < 1:65667/90‑1 (MQ=255)
aGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGgcgc < 2:214354/90‑1 (MQ=255)
aTTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCAt > 2:90140/1‑90 (MQ=255)
ttCCTCAGTACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATc < 1:362201/90‑1 (MQ=255)
ttCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATc < 1:147670/90‑1 (MQ=255)
ttCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATc < 1:120910/90‑1 (MQ=255)
gAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGgc > 1:464563/1‑62 (MQ=255)
gAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGgc < 2:464563/62‑1 (MQ=255)
aaCTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAgg > 2:377984/1‑90 (MQ=255)
|
CTGTTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGACCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAGG > NZ_CP009273/2189228‑2189396
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 30 ≤ 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
GCATCAACCTGTTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGACCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAGGTTGAAGCACTGGTGG > NZ_CP009273/2189220‑2189411
|
GCATCAACCTGTTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGA > SRR3722109.250370/1‑100 (MQ=60)
CTGTTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCC < SRR3722109.488711/100‑1 (MQ=60)
ACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAA > SRR3722109.261349/1‑100 (MQ=60)
CCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATC < SRR3722109.134822/100‑1 (MQ=60)
GCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAG > SRR3722109.501653/1‑100 (MQ=60)
CGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGC < SRR3722109.531792/100‑1 (MQ=60)
CGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAAC < SRR3722109.13372/100‑1 (MQ=60)
CGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAAC < SRR3722109.66447/100‑1 (MQ=60)
TTCCTCAGTACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGC < SRR3722109.367216/100‑1 (MQ=60)
TTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGC < SRR3722109.122402/100‑1 (MQ=60)
TTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGC < SRR3722109.149495/100‑1 (MQ=60)
CCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCtgtctcttatacacatc > SRR3722109.471543/1‑83 (MQ=60)
GGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCtgtctcttatacacatctgacgctgccgac > SRR3722109.526048/1‑70 (MQ=60)
GGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAGGTTGAAGCACTGGTG > SRR3722109.580990/1‑100 (MQ=60)
GCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAGGTTGAAGCACTGGTGG < SRR3722109.91263/100‑1 (MQ=60)
|
GCATCAACCTGTTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGACCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAGGTTGAAGCACTGGTGG > NZ_CP009273/2189220‑2189411
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
