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 F3 I122 R1
|
193 |
20.9 |
1228102 |
94.7% |
1163012 |
84.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,459,020 |
T→C |
Y527H (TAC→CAC) |
mgtA → |
magnesium‑translocating P‑type ATPase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,459,020 | 0 | T | C | 100.0%
| 132.1
/ NA
| 36 | Y527H (TAC→CAC) | mgtA | magnesium‑translocating P‑type ATPase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (19/17); total (19/17) |
TTAAGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATTACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATCCGCCAAAAGAGACAACCGCTCC > NZ_CP009273/4458934‑4459099
|
ttAAGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCAcc > 1:465892/1‑90 (MQ=255)
aaGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAg > 2:284672/1‑90 (MQ=255)
aaGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAg > 1:150814/1‑90 (MQ=255)
aaGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAg > 2:176787/1‑90 (MQ=255)
aaGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAg > 1:399754/1‑90 (MQ=255)
ggTTACTGATACGCTGAATCGTCAGGGGCTGCGGGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAgcggg < 1:377796/89‑1 (MQ=255)
ggTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAgcggg > 2:377796/1‑89 (MQ=255)
aCTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGAt < 1:201903/90‑1 (MQ=255)
gATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGaa > 2:190390/1‑90 (MQ=255)
tACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATc < 2:399754/90‑1 (MQ=255)
cTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGAt > 2:267741/1‑81 (MQ=255)
cTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGAt < 1:267741/81‑1 (MQ=255)
tGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGAcc > 2:267265/1‑90 (MQ=255)
gTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATcc > 1:157984/1‑90 (MQ=255)
tCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCt < 1:506070/90‑1 (MQ=255)
tCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCt < 1:176787/90‑1 (MQ=255)
cAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTc > 1:115896/1‑90 (MQ=255)
gggCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCTGCGGGCGGATGAATCCGACCTGATCCTCGaa < 2:465892/90‑1 (MQ=255)
gcgcGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAgcgggcgggt > 1:406221/1‑62 (MQ=255)
gcgcGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGAt < 2:406221/64‑1 (MQ=255)
gcgcGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGa < 1:248115/84‑1 (MQ=255)
gcgcGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGa > 2:248115/1‑84 (MQ=255)
gcgcGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAg > 1:358248/1‑86 (MQ=255)
gcgcGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAg < 2:358248/86‑1 (MQ=255)
gcgcGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGata > 1:396540/1‑90 (MQ=255)
ggTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGc > 2:544508/1‑90 (MQ=255)
ggTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGc > 2:237077/1‑90 (MQ=255)
ggTTGCGGTGGCGACGAAATACCTGCCAGCGCGCGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGc < 2:466248/90‑1 (MQ=255)
ggCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGa > 1:212716/1‑90 (MQ=255)
ggCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGa > 2:483057/1‑90 (MQ=255)
gacgaAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATcc < 1:575013/90‑1 (MQ=255)
gacgaAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATcc < 1:111764/90‑1 (MQ=255)
aaTACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATCCGCCaa < 2:500138/90‑1 (MQ=255)
cTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATCCGCCAAAagag < 1:364749/90‑1 (MQ=255)
tGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATCCGCCAAAAGAGACAACCGCTcc < 2:186168/90‑1 (MQ=255)
tGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATCCGCCAAAAGAGACAACCGCTcc < 2:115896/90‑1 (MQ=255)
|
TTAAGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATTACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATCCGCCAAAAGAGACAACCGCTCC > NZ_CP009273/4458934‑4459099
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ 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
ATGCTGCGTAAGATTAAGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATTACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATCCGCCAAAAGAGACAACCGCTCCGGCACTGAAGGC > NZ_CP009273/4458921‑4459111
|
gacagGCGTAAGATTAAGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGTTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATC < SRR3721989.280521/95‑1 (MQ=60)
CTGCGTAAGATTAAGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACC > SRR3721989.475678/1‑100 (MQ=60)
CTGCGTAAGATTAAGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACC < SRR3721989.296540/100‑1 (MQ=60)
GCGTAAGATTAAGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAG > SRR3721989.97789/1‑100 (MQ=60)
GCGTAAGATTAAGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAG > SRR3721989.153552/1‑100 (MQ=60)
GCGTAAGATTAAGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAG > SRR3721989.407899/1‑100 (MQ=60)
GGGTTACTGATACGCTGAATCGTCAGGGGCTGCGGGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATC < SRR3721989.385310/100‑1 (MQ=60)
ACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACC < SRR3721989.205580/100‑1 (MQ=60)
ACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACC < SRR3721989.272499/100‑1 (MQ=60)
ACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCC > SRR3721989.160852/1‑100 (MQ=60)
GCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTC > SRR3721989.118018/1‑100 (MQ=60)
ATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCtgtctcttatacacatctgacgctgccgacg > SRR3721989.314993/1‑69 (MQ=60)
GTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGGTGAATCCGACCctgtctcttatacaca > SRR3721989.414535/1‑84 (MQ=60)
GTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATA > SRR3721989.365143/1‑100 (MQ=60)
GTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATA > SRR3721989.404590/1‑100 (MQ=60)
TCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATAT < SRR3721989.180022/100‑1 (MQ=60)
TCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATAT < SRR3721989.516864/100‑1 (MQ=60)
GGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATT < SRR3721989.252529/100‑1 (MQ=60)
TGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGA > SRR3721989.216565/1‑100 (MQ=60)
GACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATCCGCCAAAAGAG < SRR3721989.587490/100‑1 (MQ=60)
GACGAAATACCTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATCCGCCAAAAGAG < SRR3721989.113805/100‑1 (MQ=60)
CTGCCAGCGCGTGAAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATCCGCCAAAAGAGACAACCGCTC < SRR3721989.371851/100‑1 (MQ=60)
AAGGAGATCACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATCCGCCAAAAGAGACAACCGCTCCGGCACTGAAGGC > SRR3721989.593616/1‑100 (MQ=60)
|
ATGCTGCGTAAGATTAAGCGGGTTACTGATACGCTGAATCGTCAGGGGCTGCGCGTGGTTGCGGTGGCGACGAAATACCTGCCAGCGCGTGAAGGAGATTACCAGCGGGCGGATGAATCCGACCTGATCCTCGAAGGATATATTGCTTTTCTTGATCCGCCAAAAGAGACAACCGCTCCGGCACTGAAGGC > NZ_CP009273/4458921‑4459111
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
