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 |
|
A3 F2 I1 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
Exported |
204,556 |
A→G |
100% |
intergenic (+156/‑28) |
alaV → / → rrlH |
tRNA‑Ala/23S ribosomal RNA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | Exported | 204,556 | 0 | A | G | 100.0%
| 194.5
/ NA
| 66 | intergenic (+156/‑28) | alaV/rrlH | tRNA‑Ala/23S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (35/31); total (35/31) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TGAAACACTGAACAACGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGAATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTGGCAGT > Exported/204496‑204623
|
tGAAACACTGAACAATGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGa > 1:3073887/1‑70 (MQ=255)
gAAACACTGAACAATGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGaa < 1:103027/70‑1 (MQ=255)
aaaCACTGAACAATGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAAc < 1:4305989/71‑1 (MQ=255)
acTGAACAATGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCt < 1:5428026/71‑1 (MQ=255)
cTGAACAATGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGc < 1:2260424/59‑1 (MQ=11)
cTGAACAATGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCtt > 1:3805454/1‑71 (MQ=255)
tGAACAATGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGTAACACGATGATGGATCGCAAGa < 1:2128849/62‑1 (MQ=11)
gAACAATGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCg > 1:695245/1‑71 (MQ=255)
aacaatGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGa > 1:1082513/1‑60 (MQ=11)
aacaatGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCgg > 1:283622/1‑71 (MQ=255)
acaatGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCggg > 1:1808740/1‑71 (MQ=255)
tgAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTtgt < 1:4956627/70‑1 (MQ=19)
tgAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTtgt < 1:2960745/70‑1 (MQ=19)
tgAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTtgt < 1:3678676/70‑1 (MQ=19)
aaaGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGtt > 1:3096480/1‑67 (MQ=25)
aaaGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATAGCAAGAAACATCTTCGGGTtgtg < 1:2229885/70‑1 (MQ=255)
aaGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAg > 1:3650994/1‑71 (MQ=21)
aaGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAg > 1:2487864/1‑71 (MQ=21)
aaGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAg > 1:434001/1‑71 (MQ=21)
gttgttCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTtgt < 1:5503465/66‑1 (MQ=25)
ttgttCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTtgt < 1:1381739/65‑1 (MQ=25)
ttgttCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGtt < 1:3599524/71‑1 (MQ=21)
tgttCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAAc > 1:246855/1‑51 (MQ=255)
tgttCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAAc > 1:2956093/1‑51 (MQ=255)
tgttCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAAc > 1:2989664/1‑51 (MQ=255)
gttCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTa < 1:379787/70‑1 (MQ=25)
tCGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGa < 1:5312705/63‑1 (MQ=25)
cGTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGc < 1:600441/70‑1 (MQ=25)
gTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAgg > 1:3232284/1‑63 (MQ=25)
gTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAgg > 1:4533319/1‑63 (MQ=25)
gTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAgg > 1:4566319/1‑63 (MQ=25)
gTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGa < 1:4640420/71‑1 (MQ=21)
gTGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGa > 1:5201589/1‑71 (MQ=21)
tGAGTCTCTCAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCtt > 1:1012031/1‑50 (MQ=255)
aGTCTCTCAAATTTTCGCAACACGATGATGGATCGCaa > 1:5290091/1‑38 (MQ=255)
tctcAAATTTTCGCAACACGATGATGGATCGCAAGAAACATc < 1:564331/42‑1 (MQ=255)
tctcAAATTTTCGCAACACGATGATGGATCGCAAGAAACATc < 1:3085906/42‑1 (MQ=255)
tctcAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGa > 1:2560189/1‑54 (MQ=255)
tcAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCg < 1:5272111/69‑1 (MQ=25)
tcAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTa > 1:1024869/1‑71 (MQ=21)
cAAATTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTa > 1:4367233/1‑70 (MQ=25)
aaaTTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTaca > 1:314407/1‑71 (MQ=21)
aaaTTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTaca > 1:1632794/1‑71 (MQ=21)
aaaTTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTaca > 1:696960/1‑71 (MQ=21)
aaaTTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTac > 1:2889595/1‑70 (MQ=25)
aaaTTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTa < 1:2738691/69‑1 (MQ=25)
aaaTTTTCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCCACTAAGCGTaca > 1:4679335/1‑71 (MQ=255)
ttttCGCAACACGATGATGGATCGCAAGAAACATc < 1:5409151/35‑1 (MQ=255)
ttttCGCAACACGATGATGGATCGCAAGAAACATc < 1:5489593/35‑1 (MQ=255)
ttttCGCAACACGATGATGGATCGCAAGAAACATc < 1:1704504/35‑1 (MQ=255)
ttttCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGc < 1:1555115/55‑1 (MQ=255)
ttttCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGc < 1:5231658/55‑1 (MQ=255)
tttCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGt > 1:3692634/1‑71 (MQ=21)
tttCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGt > 1:5253148/1‑71 (MQ=21)
tCGCAACACGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTg < 1:4958894/70‑1 (MQ=25)
acacGATGATGGATCGCAAGAAACATCTTCGGGTtgt < 1:4663076/37‑1 (MQ=255)
cacGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTa < 1:1552123/57‑1 (MQ=255)
cacGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGccc > 1:2070743/1‑71 (MQ=21)
cacGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGccc > 1:3993116/1‑71 (MQ=21)
cacGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGccc > 1:2045522/1‑71 (MQ=21)
acGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCt < 1:843185/71‑1 (MQ=21)
cGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACg > 1:2319779/1‑59 (MQ=255)
cGATGATGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTg > 1:5359421/1‑71 (MQ=21)
gatgatGGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTgg < 1:3164908/71‑1 (MQ=21)
atgatgGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCg < 1:2621546/51‑1 (MQ=255)
atgatgGATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTgg > 1:750669/1‑70 (MQ=25)
tgatggATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCg < 1:982704/50‑1 (MQ=255)
gatggATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTa > 1:744245/1‑45 (MQ=255)
gatggATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTGGCa < 1:543624/70‑1 (MQ=25)
gatggATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTGGCAg > 1:4836916/1‑71 (MQ=21)
gatggATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTGGCAg > 1:4637587/1‑71 (MQ=21)
atggATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTGGCAGt < 1:3272733/71‑1 (MQ=21)
atggATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTGGCAGt < 1:1779135/71‑1 (MQ=21)
atggATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTGGCAGt > 1:1023181/1‑71 (MQ=21)
|
TGAAACACTGAACAACGAAAGTTGTTCGTGAGTCTCTCAAATTTTCGCAACACGATGATGAATCGCAAGAAACATCTTCGGGTTGTGAGGTTAAGCGACTAAGCGTACACGGTGGATGCCCTGGCAGT > Exported/204496‑204623
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
