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 |
|
A2 F5 I178 R1
|
167 |
28.0 |
1137820 |
95.3% |
1084342 |
115.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
659,797 |
A→C |
S284A (TCG→GCG) |
rlpA ← |
endolytic peptidoglycan transglycosylase RlpA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 659,797 | 0 | A | C | 100.0%
| 62.1
/ NA
| 19 | S284A (TCG→GCG) | rlpA | endolytic peptidoglycan transglycosylase RlpA |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (9/10); total (9/10) |
ACCGCGCCATTTTGAGTTACGCGACCGGGGACGCCGAACTTCTGTCCCAGTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGAGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTCCAGTACACCAGGCGCTAAGGTCGTTGGTGCGCCGAGGA > NZ_CP009273/659667‑659931
|
aCCGCGCCATTTTGAGTTACGCGACCGGGGACGCCGAACTTCTGTCCCAGTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCtt < 1:500747/139‑1 (MQ=255)
aCCGCGCCATTTTGAGTTACGCGACCGGGGACGCCGAACTTCTGTCCCAGTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCtt < 2:323919/139‑1 (MQ=255)
ttttGAGTTACGCGACCGGGGACGCCGAACTTCTGTCCCAGTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCa > 2:458123/1‑139 (MQ=255)
tCCCAGTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGAc < 2:54200/136‑1 (MQ=255)
tCCCAGTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACg > 1:223523/1‑137 (MQ=255)
gTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCg > 1:327834/1‑123 (MQ=255)
gTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCg < 2:327834/123‑1 (MQ=255)
gtGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTaacaa < 2:355834/136‑1 (MQ=255)
ggTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACgg > 2:158736/1‑124 (MQ=255)
ggTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACgg < 1:158736/124‑1 (MQ=255)
gTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTgg > 2:45624/1‑139 (MQ=255)
cgcACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGc > 2:109178/1‑91 (MQ=255)
cgcACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGc < 1:109178/91‑1 (MQ=255)
gCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTg < 1:354209/139‑1 (MQ=255)
gCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTc > 1:541664/1‑137 (MQ=255)
gACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCg > 2:33545/1‑124 (MQ=255)
gACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCg < 1:33545/124‑1 (MQ=255)
cATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCGTTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTCCAGTACACCAGGCGCt < 2:223523/139‑1 (MQ=255)
tAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTCCAGTACACCAGGCGCt > 2:288466/1‑137 (MQ=255)
gcgcGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTCCAGTACACCAGGCGCTAAGGTCGTTGGTGCGCCGAGGa < 1:526658/138‑1 (MQ=255)
|
ACCGCGCCATTTTGAGTTACGCGACCGGGGACGCCGAACTTCTGTCCCAGTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGAGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTCCAGTACACCAGGCGCTAAGGTCGTTGGTGCGCCGAGGA > NZ_CP009273/659667‑659931
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GACCGCGCCATTTTGAGTTACGCGACCGGGGACGCCGAACTTCTGTCCCAGTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGAGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTCCAGTACACCAGGCGCTAAGGTCGTTGGTGCGCCGAGGAAACCGCTACTGGTT > NZ_CP009273/659666‑659945
|
GACCGCGCCATTTTGAGTTACGCGACCGGGGACGCCGAACTTCTGTCCCAGTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACC < SRR3722132.509630/151‑1 (MQ=60)
acggtctcgtgggctcggagatgtgtataagagacagTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGG < SRR3722132.111207/113‑1 (MQ=60)
CCGAACTTCTGTCCCAGTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGGCGACGG > SRR3722132.227714/1‑149 (MQ=60)
CTTCTGTCCCAGTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGActgtct > SRR3722132.333954/1‑145 (MQ=60)
gacagCAGTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAA < SRR3722132.161693/146‑1 (MQ=60)
gacaGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTCCAG < SRR3722132.34131/147‑1 (MQ=60)
GATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTCC > SRR3722132.551205/1‑149 (MQ=60)
CGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTCCAGTAC < SRR3722132.360752/151‑1 (MQ=60)
TTGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTCCAGTACACCAGGCGCTAAGGTCGTTGGTGCGCCGAGGAAACCGCTACTG > SRR3722132.137600/1‑151 (MQ=60)
TGCGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTCCAGTACACCAGGCGCTAAGGTCGTTGGTGCGCCGAGGAAACCGCTACTG < SRR3722132.535975/150‑1 (MQ=60)
CGCGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTCCAGTACACCAGGCGCTAAGGTCGTTGGTGCGCCGAGGAAACCGCTACTGGTT < SRR3722132.293947/151‑1 (MQ=60)
|
GACCGCGCCATTTTGAGTTACGCGACCGGGGACGCCGAACTTCTGTCCCAGTTGCTGTTGGTACTGTTGCGCACGAGCCTGATCGCTTACGGCCCCGACTTGCACCATAAAGTTGCCGCTGGCGCTTTGCGAGACGGCTTGCGGTGTCACCATTGCAGGCGAGGTTGCAGGCGTTGTCGACGGAGCTGTAACAACGGGCTGTGGCGCAGGCGTCGGTTCGCTGCCTTCCAGTACACCAGGCGCTAAGGTCGTTGGTGCGCCGAGGAAACCGCTACTGGTT > NZ_CP009273/659666‑659945
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
