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 I184 R1
|
278 |
29.6 |
1166432 |
97.3% |
1134938 |
124.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
668,149 |
A→G |
N697N (AAT→AAC) |
leuS ← |
leucine‑‑tRNA ligase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 668,149 | 0 | A | G | 100.0%
| 85.0
/ NA
| 23 | N697N (AAT→AAC) | leuS | leucine‑‑tRNA ligase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (13/10); total (13/10) |
CATCGGTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGATTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCATTCGAGAG > NZ_CP009273/668013‑668276
|
cATCGGTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGtt > 2:456035/1‑139 (MQ=255)
cATCGGTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGtt > 2:223542/1‑139 (MQ=255)
cATCGGTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGtt > 1:34775/1‑139 (MQ=255)
ttGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTtcagt < 1:174479/139‑1 (MQ=255)
tCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCAt > 1:69226/1‑138 (MQ=255)
gTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGtt < 2:196024/139‑1 (MQ=255)
cTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACa > 2:539116/1‑139 (MQ=255)
cATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATc < 1:287772/138‑1 (MQ=255)
gcAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCtg > 1:28700/1‑139 (MQ=255)
cgacgGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGa < 2:514111/139‑1 (MQ=255)
gacgGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGac < 1:456035/139‑1 (MQ=255)
gTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAgcg > 1:140895/1‑46 (MQ=255)
gTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAgcg < 2:140895/46‑1 (MQ=255)
gTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCt < 1:456075/81‑1 (MQ=255)
gTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCt > 2:456075/1‑81 (MQ=255)
aTCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCt > 2:218252/1‑70 (MQ=255)
aTCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCt < 1:218252/70‑1 (MQ=255)
aTCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGt < 2:71513/113‑1 (MQ=255)
aTCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGt > 1:71513/1‑113 (MQ=255)
aTCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGc > 2:465989/1‑139 (MQ=255)
aTCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGc > 1:99169/1‑139 (MQ=255)
cGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCATTCga < 2:69226/139‑1 (MQ=255)
aGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCATTCGagag > 1:306368/1‑139 (MQ=255)
|
CATCGGTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGATTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCATTCGAGAG > NZ_CP009273/668013‑668276
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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
ATCCTGCTCGCCATCGGTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGATTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCATTCGAGAGT > NZ_CP009273/668002‑668277
|
ATCCTGCTCGCCATCGGTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTT > SRR3722139.35150/1‑151 (MQ=60)
GGTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATC > SRR3722139.70039/1‑150 (MQ=60)
GTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAA < SRR3722139.176658/151‑1 (MQ=60)
CCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGT > SRR3722139.29026/1‑151 (MQ=60)
CCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTG < SRR3722139.291401/150‑1 (MQ=60)
cgagatctagtacggtctcgtgggctcggagatgtgtataagagacagCTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTA < SRR3722139.461426/103‑1 (MQ=60)
aagacggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacagGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTA < SRR3722139.220924/92‑1 (MQ=60)
CGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGA < SRR3722139.461386/151‑1 (MQ=60)
CTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCctgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaacac > SRR3722139.142594/1‑68 (MQ=60)
GTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCctgtctcttatacac > SRR3722139.72353/1‑135 (MQ=60)
GTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCC > SRR3722139.100345/1‑151 (MQ=60)
CATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCATTCGAGAGT > SRR3722139.310163/1‑151 (MQ=60)
|
ATCCTGCTCGCCATCGGTTGGTGCTTTCGCCAGTTTGTTCATCAGCTCCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGATTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCCCTTCCACACCGGATTCCTGCCATTCGAGAGT > NZ_CP009273/668002‑668277
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
