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 |
|
A5 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,564,985 |
T→C |
11.1% |
F21L (TTT→CTT) |
yihS → |
predicted glucosamine isomerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,564,985 | 0 | T | C | 11.1%
| 163.5
/ 12.6
| 63 | F21L (TTT→CTT) | yihS | predicted glucosamine isomerase |
| Reads supporting (aligned to +/- strand): ref base T (28/28); new base C (2/5); total (30/33) |
| Fisher's exact test for biased strand distribution p-value = 4.29e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.76e-01 |
ATAAAAGGAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAGGGCAAATCA > W3110S.gb/3564916‑3565051
|
aTAAAAGGAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCtt > 1:4293772/1‑71 (MQ=255)
tAAAAGGAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCtt < 1:4429998/70‑1 (MQ=255)
aGGAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGAtt > 1:823562/1‑71 (MQ=255)
aGGAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGAtt < 1:1961512/71‑1 (MQ=255)
ggAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGAttt < 1:1289491/71‑1 (MQ=255)
aTGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTgg > 1:2683154/1‑71 (MQ=255)
aaaTGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTa < 1:712962/70‑1 (MQ=255)
aaaTGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTa > 1:180208/1‑70 (MQ=255)
aaTGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTaaa < 1:2079373/71‑1 (MQ=255)
aTGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTaaa > 1:3071793/1‑70 (MQ=255)
tttAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAAtt < 1:3839123/70‑1 (MQ=255)
ttAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTaa > 1:71471/1‑64 (MQ=255)
tAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTgg > 1:1789263/1‑60 (MQ=255)
aaCACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCg < 1:3259557/70‑1 (MQ=255)
acacCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGCCCGCATCTTTg > 1:1939196/1‑51 (MQ=255)
acacCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTaaaa > 1:3784561/1‑63 (MQ=255)
acacCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGt < 1:1992138/70‑1 (MQ=255)
acacCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGt < 1:2737687/70‑1 (MQ=255)
cccTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGAttt > 1:2540093/1‑52 (MQ=255)
ccTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTc < 1:2476993/63‑1 (MQ=255)
ccTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGc > 1:2970742/1‑71 (MQ=255)
ccTAAGCCACAACC‑TTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGTAg < 1:4409477/67‑1 (MQ=255)
cTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGcc < 1:4180512/71‑1 (MQ=255)
tAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGAttt < 1:3723819/49‑1 (MQ=255)
tAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGAttt > 1:501572/1‑49 (MQ=255)
tAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGcc > 1:2638092/1‑70 (MQ=255)
aGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAgaga > 1:1660167/1‑64 (MQ=255)
acaACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGt < 1:923471/47‑1 (MQ=255)
acaACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTaaa < 1:1872682/50‑1 (MQ=255)
acaACCGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGt < 1:1425666/71‑1 (MQ=255)
caACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGtt < 1:1337454/71‑1 (MQ=255)
aaCCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAAt < 1:2737976/51‑1 (MQ=255)
aaCCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTcc > 1:682267/1‑54 (MQ=255)
aaCCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGttt < 1:1679833/71‑1 (MQ=255)
aaCCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGttt < 1:4223309/71‑1 (MQ=255)
aaCCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGtt < 1:3578276/70‑1 (MQ=255)
aCCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGAttt > 1:1105966/1‑40 (MQ=255)
aCCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCTTAGTGCCGACTGGtttt < 1:762792/71‑1 (MQ=255)
cGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTgg < 1:606733/71‑1 (MQ=255)
cGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGTAg < 1:1634492/55‑1 (MQ=255)
ttGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTa < 1:4499125/52‑1 (MQ=255)
ggCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTgg > 1:3151819/1‑71 (MQ=255)
ggCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTgg > 1:4535636/1‑71 (MQ=255)
ggCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTgg > 1:3454736/1‑71 (MQ=255)
cTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGt < 1:1934764/47‑1 (MQ=255)
tGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGt < 1:4593622/46‑1 (MQ=255)
gAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAgg > 1:4248318/1‑71 (MQ=255)
aCAGGAAACCGTCCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAg < 1:4395735/68‑1 (MQ=255)
aCAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGc > 1:217913/1‑61 (MQ=255)
cAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTa > 1:2423005/1‑42 (MQ=255)
aGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGc > 1:653636/1‑45 (MQ=255)
ggAAACCGACAGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAg > 1:3008781/1‑65 (MQ=255)
gAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATaa < 1:1870827/71‑1 (MQ=255)
aaaCCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGa > 1:2922118/1‑45 (MQ=255)
aaaCCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGa > 1:917744/1‑45 (MQ=255)
aaaCCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATaaa < 1:4478676/71‑1 (MQ=255)
aaaCCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATaaa < 1:894624/71‑1 (MQ=255)
aaaCCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATa < 1:630018/69‑1 (MQ=255)
aaCCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAg < 1:2633438/71‑1 (MQ=255)
gaccgCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAGGGc > 1:2300993/1‑70 (MQ=255)
accgCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAGGGCa > 1:1724915/1‑70 (MQ=255)
cgCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAGGGCAAAt > 1:4220883/1‑71 (MQ=255)
cATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGttt > 1:449899/1‑42 (MQ=255)
cATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAGGGCAAATCa < 1:4207656/71‑1 (MQ=255)
tCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAGGGCAAATCa > 1:1303636/1‑69 (MQ=255)
|
ATAAAAGGAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAGGGCAAATCA > W3110S.gb/3564916‑3565051
|
| 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
