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 F21 I0 R1
|
1009 |
73.8 |
4146436 |
87.4% |
3623985 |
60.3 |
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%
| 183.1
/ NA
| 52 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (20/32); total (20/32) |
| 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%
| 181.6
/ NA
| 52 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (20/32); total (20/32) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
ACTGGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTAAC > minE/1891950‑1892077
||
aCTGGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCa > 1:740926/1‑70 (MQ=255)
cTGGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagc > 1:1629793/1‑69 (MQ=255)
gCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagct < 1:1745533/69‑4 (MQ=255)
ccTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAg < 1:2957963/70‑1 (MQ=255)
aaaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc < 1:143175/70‑1 (MQ=255)
aaaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCg > 1:336790/1‑71 (MQ=255)
aaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCag > 1:536265/1‑54 (MQ=255)
aaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCggg > 1:3010603/1‑71 (MQ=255)
aaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCggg < 1:393377/71‑1 (MQ=255)
gattcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTc < 1:312230/71‑1 (MQ=255)
ttcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCgg < 1:557825/71‑1 (MQ=255)
ttcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCg > 1:3286337/1‑70 (MQ=255)
tcgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCgg < 1:3942488/70‑1 (MQ=255)
cgattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGa < 1:1175395/70‑1 (MQ=255)
ttcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATaa < 1:2652314/70‑1 (MQ=255)
tcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCgg > 1:3517014/1‑60 (MQ=255)
tcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGGTa > 1:3352307/1‑68 (MQ=255)
aCCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGcaca > 1:829440/1‑48 (MQ=255)
ccGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAc > 1:1228281/1‑51 (MQ=255)
cGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgc < 1:3899473/71‑1 (MQ=255)
gCTAAAACGACATTTACCGCTCGCTGAACATATCag > 1:837498/1‑35 (MQ=255)
gCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc > 1:370766/1‑50 (MQ=255)
gCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc > 1:3669917/1‑50 (MQ=255)
gCTAAAACGACATTTAACGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgcg > 1:2022162/1‑71 (MQ=255)
gCTAAAACGACATTTAACGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgcg > 1:2026961/1‑71 (MQ=255)
cTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAc > 1:793316/1‑48 (MQ=255)
cTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGt < 1:3546789/71‑1 (MQ=255)
cTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGt > 1:702564/1‑71 (MQ=255)
aaaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAg > 1:2819454/1‑43 (MQ=255)
aaaCGACATTTACCTCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtctc < 1:2006219/71‑1 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct < 1:539328/70‑1 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct > 1:3718435/1‑70 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct < 1:1878400/70‑1 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct < 1:1545806/70‑1 (MQ=255)
aaCGACATTTACCGCTCGCTTAACATATCAGCTAAGCACAGAACCGGGTCGGAt < 1:1148882/54‑1 (MQ=255)
aaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCg < 1:2246974/51‑1 (MQ=255)
aaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCg < 1:1898920/51‑1 (MQ=255)
aaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct < 1:572696/69‑1 (MQ=255)
aCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGa < 1:2584143/41‑1 (MQ=255)
aCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCa > 1:1584394/1‑70 (MQ=255)
cGACATTTTCCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGGCGGATAAGACGTTCGCGTCTCATc < 1:378932/71‑1 (MQ=255)
gACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATcc < 1:2899970/71‑1 (MQ=255)
aCATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGAc < 1:3135646/55‑1 (MQ=255)
cATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCg < 1:2989768/70‑1 (MQ=255)
cATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGa < 1:841773/71‑1 (MQ=255)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtctc < 1:2889541/63‑1 (MQ=255)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCg < 1:686545/68‑1 (MQ=255)
ttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCt > 1:3285646/1‑71 (MQ=255)
tACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATa > 1:1318459/1‑46 (MQ=255)
aCCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgcg > 1:3978994/1‑56 (MQ=255)
ccGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTg < 1:2408022/69‑1 (MQ=255)
cgctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGAc > 1:4141772/1‑47 (MQ=255)
cgctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGAtt < 1:3892839/71‑1 (MQ=255)
ctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGt < 1:1032648/71‑1 (MQ=255)
ctcgctGAACATATCAGCTAAGCAC‑‑AACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGttt < 1:1684202/71‑1 (MQ=255)
tcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGa < 1:1604156/38‑1 (MQ=25)
aaCATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTAAc < 1:881496/69‑1 (MQ=38)
||
ACTGGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTAAC > minE/1891950‑1892077
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
