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 |
2,189,312 |
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%
| 72.9
/ NA
| 23 | T512A (ACC→GCC) | metG | methionine‑‑tRNA ligase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (10/13); total (10/13) |
TTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGACCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAG > NZ_CP009273/2189231‑2189395
|
ttCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGAt < 2:404828/90‑1 (MQ=255)
ttCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGAt < 2:129596/90‑1 (MQ=255)
cgcgTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGt < 2:84895/90‑1 (MQ=255)
cgcgTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGt < 2:435077/90‑1 (MQ=255)
cgcgTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGt > 2:230383/1‑90 (MQ=255)
gcgTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTa > 1:270646/1‑90 (MQ=255)
gaCTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAAcc < 1:230383/90‑1 (MQ=255)
aCCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCgctgc > 2:435914/1‑90 (MQ=255)
aCCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCgctgc < 1:9125/90‑1 (MQ=255)
gTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACaaa > 2:217571/1‑90 (MQ=255)
gCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGaa > 1:198923/1‑90 (MQ=255)
aGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGgcgc < 1:185631/90‑1 (MQ=255)
aGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGgcgc < 2:578582/90‑1 (MQ=255)
aGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGgcgc < 2:289614/90‑1 (MQ=255)
aGCGTGCAGAAGCATTCCTCAAAACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGgcgc < 1:478980/90‑1 (MQ=255)
gCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCt > 2:455935/1‑90 (MQ=255)
aTTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCAt > 2:63484/1‑90 (MQ=255)
ttCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATc < 1:79752/90‑1 (MQ=255)
ttCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATc < 1:518303/90‑1 (MQ=255)
tCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGata > 2:115648/1‑90 (MQ=255)
cGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGc > 2:19378/1‑90 (MQ=255)
cGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGc < 1:217571/90‑1 (MQ=255)
gAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAg > 1:429348/1‑90 (MQ=255)
|
TTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGACCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAG > NZ_CP009273/2189231‑2189395
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ 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
GCATCAACCTGTTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGACCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAGGTTGAAGCACTGGTGG > NZ_CP009273/2189220‑2189411
|
GCATCAACCTGTTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGA < SRR3722088.30491/100‑1 (MQ=60)
AACCTGTTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTA > SRR3722088.273261/1‑100 (MQ=60)
GACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGC < SRR3722088.232672/100‑1 (MQ=60)
ACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAA < SRR3722088.9240/100‑1 (MQ=60)
AGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAA > SRR3722088.200904/1‑100 (MQ=60)
tcggagatgtgtataagagacagATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAAC < SRR3722088.42901/77‑1 (MQ=60)
AGCGTGCAGAAGCATTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCG < SRR3722088.187492/100‑1 (MQ=60)
AGCGTGCAGAAGCATTCCTCAAAACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCG < SRR3722088.484675/100‑1 (MQ=60)
TTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGC < SRR3722088.524555/100‑1 (MQ=60)
TTCCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGC < SRR3722088.80557/100‑1 (MQ=60)
CCTCAATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAG > SRR3722088.434205/1‑100 (MQ=60)
ATACGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCctgtctc > SRR3722088.231954/1‑93 (MQ=60)
CGGAACTGGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAGGTTGAAGC < SRR3722088.219755/100‑1 (MQ=60)
GGCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCtgtctcttatacacatctccgagcccacga > SRR3722088.258676/1‑70 (MQ=60)
GCCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAGGTTGAAGCACTGGTGG < SRR3722088.268243/100‑1 (MQ=60)
|
GCATCAACCTGTTCCGCGTGCTGATGACTTACCTGAAGCCGGTACTGCCGAAACTGACCGAGCGTGCAGAAGCATTCCTCAATACGGAACTGACCTGGGATGGTATCCAGCAACCGCTGCTGGGCCACAAAGTGAATCCGTTCAAGGCGCTGTATAACCGCATCGATATGAGGCAGGTTGAAGCACTGGTGG > NZ_CP009273/2189220‑2189411
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
