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 |
|
A4 F1 I0 R1
|
70 |
84.3 |
4123603 |
97.0% |
3999894 |
62.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,892,019:1 |
+GC |
100% |
intergenic (‑437/+54) |
gudP ← / ← ygdL |
predicted D‑glucarate transporter/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,892,019 | 1 | . | G | 100.0%
| 209.3
/ NA
| 60 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (33/27); total (33/27) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
| * | minE | 1,892,019 | 2 | . | C | 100.0%
| 208.5
/ NA
| 60 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (33/27); total (33/27) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CTGGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTAA > minE/1891951‑1892076
||
cTGGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCag < 1:789688/70‑2 (MQ=255)
gCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagct < 1:1225496/69‑4 (MQ=255)
ccTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAg > 1:414005/1‑70 (MQ=255)
tGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAc > 1:2487044/1‑71 (MQ=255)
tGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAc > 1:2364049/1‑71 (MQ=255)
gAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc > 1:913381/1‑71 (MQ=255)
gAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc > 1:3827292/1‑71 (MQ=255)
aaaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc < 1:3916246/70‑1 (MQ=255)
aaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCgg > 1:335679/1‑71 (MQ=255)
aGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGt < 1:285135/71‑1 (MQ=255)
gattcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTc > 1:1044333/1‑71 (MQ=255)
gattcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTc > 1:122424/1‑71 (MQ=255)
gattcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTc > 1:2337461/1‑71 (MQ=255)
ttcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCgg < 1:1180183/71‑1 (MQ=255)
ttcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCgg < 1:3999776/71‑1 (MQ=255)
ttcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCg > 1:42657/1‑70 (MQ=255)
tcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGa > 1:220326/1‑71 (MQ=255)
gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGAt < 1:2595183/70‑1 (MQ=255)
gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGAt > 1:1632627/1‑70 (MQ=255)
gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATa < 1:1289629/71‑1 (MQ=255)
gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATa < 1:4113041/71‑1 (MQ=255)
attcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca > 1:3111225/1‑55 (MQ=255)
attcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca > 1:1596669/1‑55 (MQ=255)
attcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATaa < 1:64744/71‑1 (MQ=255)
ttcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGAt > 1:308400/1‑68 (MQ=255)
ttcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATAAGCTAAGCACAGAACCGGGTCGGATaaa > 1:3507146/1‑70 (MQ=255)
tcAGCACCTCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGa > 1:836157/1‑71 (MQ=255)
tcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAg > 1:2323771/1‑70 (MQ=255)
cAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGa < 1:3947748/70‑1 (MQ=255)
cAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGAc > 1:907608/1‑71 (MQ=255)
cAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGAc > 1:1707263/1‑71 (MQ=255)
cACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGtt > 1:640098/1‑71 (MQ=255)
cGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgc < 1:1336674/71‑1 (MQ=255)
gCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATaa > 1:2442540/1‑61 (MQ=255)
cTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTc < 1:460337/54‑1 (MQ=255)
cTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCg < 1:2883854/55‑1 (MQ=255)
tAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGAt < 1:2452528/57‑1 (MQ=255)
aaaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct > 1:2008661/1‑71 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAg < 1:4094262/42‑1 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAg < 1:150945/42‑1 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtctc < 1:4092920/71‑1 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct > 1:1143293/1‑70 (MQ=255)
aaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg > 1:486456/1‑46 (MQ=255)
aCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGAt < 1:1200719/53‑1 (MQ=255)
aCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGAt < 1:487517/53‑1 (MQ=255)
aCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgc > 1:2580096/1‑64 (MQ=255)
aCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCAt < 1:1076995/71‑1 (MQ=255)
aCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCAt < 1:1657670/71‑1 (MQ=255)
cGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATc > 1:1708637/1‑71 (MQ=255)
cATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCggg < 1:1326638/43‑1 (MQ=255)
aTTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCg < 1:1061905/69‑1 (MQ=255)
aTTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGAc < 1:745883/71‑1 (MQ=255)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGGTa > 1:3461465/1‑48 (MQ=255)
tACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGCTa > 1:2983141/1‑46 (MQ=255)
tACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCt < 1:1835633/70‑1 (MQ=255)
tACCGCTCGCTGAACATATCAGCTAAGCACAGAACAGGGTCGGATAAGACGTTCGCGTCTCATCCGACCt > 1:833959/1‑70 (MQ=255)
cgctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGa > 1:3084193/1‑69 (MQ=255)
gctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTg < 1:2490622/71‑1 (MQ=39)
tcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGtt > 1:2917436/1‑71 (MQ=255)
gctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGttt < 1:3200323/70‑1 (MQ=38)
gctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGtt < 1:1473672/69‑1 (MQ=255)
ctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTaa > 1:2653013/1‑71 (MQ=255)
||
CTGGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTAA > minE/1891951‑1892076
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
