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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,264,229 |
C→T |
28.3% |
L172L (CTG→CTA) |
fruA ← |
fused fructose‑specific PTS enzyme IIB'BC components |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,264,229 | 0 | C | T | 28.3%
| 85.1
/ 36.7
| 53 | L172L (CTG→CTA) | fruA | fused fructose‑specific PTS enzyme IIB'BC components |
| Reads supporting (aligned to +/- strand): ref base C (20/18); new base T (9/6); total (29/24) |
| Fisher's exact test for biased strand distribution p-value = 7.62e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.13e-01 |
TGCGCGGTTTTCTTCAGCGCCAGACCGGTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGACTTCTTCGGGAGT > W3110S.gb/2264164‑2264291
|
tGCGCGGTTTTCTTCAGCGCCAGACCGGTAGAGGTACTATACATCGGTTTACCAGCAAATTTCGCTAg < 1:504509/68‑1 (MQ=255)
cgGTTTTCTTCAGCGCCAGACCGGTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCTAGATc < 1:3313342/67‑1 (MQ=255)
cgGTTTTCTTCAGCGCCAGACCGGTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCTAGATc < 1:1253396/67‑1 (MQ=255)
ttttCTTCAGCGCCAGACCGGTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCTAGATCCACt < 1:1230023/68‑1 (MQ=255)
tttCTTCAGCGCCAGACCGGTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTc > 1:3541376/1‑69 (MQ=255)
ttcttcAGCGCCAGACCGGTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCCAg > 1:118838/1‑59 (MQ=255)
ttcttcAGCGCCAGACCGGTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCCAg > 1:3597383/1‑59 (MQ=255)
ttcttcAGCGCCAGACCGGTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCCAg > 1:2128426/1‑59 (MQ=255)
ttcttcAGCGCCAGACCGGTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCCAg > 1:3722890/1‑59 (MQ=255)
ttcAGCGCCAGACCGGTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCTAGATCCACTTCGat < 1:740843/68‑1 (MQ=255)
cAGACCGGTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTGGATATCTgccg < 1:964632/68‑1 (MQ=255)
ggTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGata > 1:406797/1‑55 (MQ=255)
ggTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGata < 1:2374017/55‑1 (MQ=255)
ggTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGata > 1:1048026/1‑55 (MQ=255)
tAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATc > 1:320646/1‑68 (MQ=255)
tAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATc > 1:288984/1‑68 (MQ=255)
ggTACGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATc > 1:1243971/1‑64 (MQ=255)
ggTACGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATc > 1:3430980/1‑64 (MQ=255)
ggTACGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATc > 1:3212394/1‑64 (MQ=255)
aCGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATc > 1:2291587/1‑48 (MQ=255)
aCGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATc > 1:1112475/1‑69 (MQ=255)
aCGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATc > 1:3126288/1‑69 (MQ=255)
cGATACATCGGTTTACCAGCAAATTTCGCTAGATCCACTTCGATATCTGCCGCCACAATCACCAGATcc > 1:120285/1‑69 (MQ=255)
cGATACATCGGTTTACCAGCAAATTTCGCTAGATCCACTTCGATATCTGCCGCCACAATCACCAGATcc > 1:809541/1‑69 (MQ=255)
cGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATcc < 1:1040790/69‑1 (MQ=255)
aTACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCgc > 1:496929/1‑69 (MQ=255)
aTCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCcac < 1:53037/50‑1 (MQ=255)
aTCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCcac < 1:432736/50‑1 (MQ=255)
aTCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCcac < 1:726426/50‑1 (MQ=255)
aTCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCcac < 1:2465943/50‑1 (MQ=255)
aTCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCcac < 1:249172/50‑1 (MQ=255)
tCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCgctgct > 1:3365248/1‑68 (MQ=255)
cGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCtgctgc < 1:512391/69‑1 (MQ=255)
ggTTTACCAGCAAATTTCGCTAGATCCACTTTGata > 1:2269579/1‑36 (MQ=37)
ggTTTACCAGCAAATTTCGCTAGATCCACTTGGata > 1:633051/1‑36 (MQ=37)
ggTTTACCAGCAAATTTCGCTAGATCCACTTCGata > 1:2737634/1‑36 (MQ=255)
ggTTTACCAGCAAATTTCGCTAGATCCACTTCGata > 1:3644739/1‑36 (MQ=255)
ggTTTACCAGCAAATTTCGCTAGATCCACTTCGata > 1:1084387/1‑36 (MQ=255)
ggTTTACCAGCAAATTTCGCTAGATCCACTTCGATATCTGCCGCCACAATCACCAg > 1:2597912/1‑56 (MQ=255)
ggTTTACCAGCAAATTTCGCTAGATCCACTTCGATATCTGCCGCCACAATCACCAg > 1:385826/1‑56 (MQ=255)
ggTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCtgctgc < 1:1029983/68‑1 (MQ=255)
ttACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGAct < 1:2065716/69‑1 (MQ=255)
ttACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGAct < 1:1249165/69‑1 (MQ=255)
aGCAAATTTCGCTAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGActtctt < 1:3050423/68‑1 (MQ=255)
tttCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGACTTCTTCGGGAGt < 1:1256536/69‑1 (MQ=255)
tttCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGACTTCTTCGGGAGt < 1:2901592/69‑1 (MQ=255)
tttCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGACTTCTTCGGGAGt < 1:3072822/69‑1 (MQ=255)
ttCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGAct < 1:578421/57‑1 (MQ=255)
ttCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGAct < 1:1432226/57‑1 (MQ=255)
ttCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGAct > 1:287002/1‑57 (MQ=255)
ttCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGAct < 1:81341/57‑1 (MQ=255)
ttCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGAct > 1:894621/1‑57 (MQ=255)
ttCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGAct > 1:3000252/1‑57 (MQ=255)
|
TGCGCGGTTTTCTTCAGCGCCAGACCGGTAGAGGTACGATACATCGGTTTACCAGCAAATTTCGCCAGATCCACTTCGATATCTGCCGCCACAATCACCAGATCCGCTGCTGCGACTTCTTCGGGAGT > W3110S.gb/2264164‑2264291
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
