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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
429,850 |
T→C |
47.2% |
Y8H (TAT→CAT) |
yajD → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 429,850 | 0 | T | C | 47.2%
| 1.8
/ 75.6
| 53 | Y8H (TAT→CAT) | yajD | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (14/14); new base C (15/10); total (29/24) |
| Fisher's exact test for biased strand distribution p-value = 5.83e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGC > W3110S.gb/429793‑429915
|
tGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAg > 1:1870039/1‑70 (MQ=255)
cgcgTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGa < 1:4316799/69‑1 (MQ=255)
cgcgTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGaa < 1:2828678/70‑1 (MQ=255)
gcgTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAg < 1:4234895/71‑1 (MQ=255)
aCATTTCATCCAGGTAACTTTTCATCGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATcgc > 1:1679996/1‑71 (MQ=255)
cATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATcgc > 1:807436/1‑70 (MQ=255)
aTTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGaa < 1:951937/57‑1 (MQ=255)
ttCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGaa > 1:3070266/1‑70 (MQ=255)
tCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGaaa > 1:2512757/1‑70 (MQ=255)
aTCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAg < 1:4974266/71‑1 (MQ=255)
cAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCAATCGCGAAAAAGCa > 1:1344234/1‑70 (MQ=255)
ggTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGt > 1:4718356/1‑42 (MQ=255)
gTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCa < 1:1874492/67‑1 (MQ=255)
gTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCa < 1:4790585/67‑1 (MQ=255)
gTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAg < 1:711315/44‑1 (MQ=255)
gTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTa > 1:1174988/1‑70 (MQ=255)
gTAACTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTa > 1:3558196/1‑70 (MQ=255)
tAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaa < 1:3068294/71‑1 (MQ=255)
aaCTTTTCATGGCTATGATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaa > 1:2224367/1‑70 (MQ=255)
aaCTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGaa > 1:4541843/1‑44 (MQ=255)
aaCTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGaa > 1:881925/1‑44 (MQ=255)
aaCTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGaa > 1:115530/1‑44 (MQ=255)
aaCTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGaa > 1:1967657/1‑44 (MQ=255)
aaCTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGaa > 1:2118556/1‑44 (MQ=255)
aaCTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaa > 1:4476173/1‑70 (MQ=255)
aCTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaaa < 1:515112/70‑1 (MQ=255)
aCTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaaa < 1:1494255/70‑1 (MQ=255)
aCTTTTCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaaa < 1:3755299/70‑1 (MQ=255)
cTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAAt > 1:1373591/1‑71 (MQ=255)
ttttCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATc > 1:2492415/1‑71 (MQ=255)
ttttCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAAt > 1:2373161/1‑70 (MQ=255)
tttCATGGCTATCATCCCAAAAAACCATGCGCGGTTAGaa > 1:4960112/1‑40 (MQ=255)
ttCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGaaa > 1:3331134/1‑55 (MQ=255)
ttCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGaa > 1:1005188/1‑54 (MQ=255)
tGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAg < 1:3444037/54‑1 (MQ=255)
tGGCTATCATCCCAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCg < 1:388764/71‑1 (MQ=255)
ggCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGt > 1:2052414/1‑71 (MQ=255)
cTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTgg < 1:2541812/71‑1 (MQ=255)
tATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCt < 1:2436813/38‑1 (MQ=255)
atcatcCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTggg > 1:697258/1‑70 (MQ=255)
catcCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCt > 1:4070478/1‑71 (MQ=255)
atcCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATc < 1:3733130/61‑1 (MQ=255)
atcCCAAAAAACCAT‑‑GCGGTTAGAAAGCGGCTATCGCGAAAAAg > 1:2200935/1‑44 (MQ=37)
tcCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaa < 1:832712/52‑1 (MQ=255)
tcCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaa < 1:4343022/52‑1 (MQ=255)
cccAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCg > 1:4645064/1‑61 (MQ=255)
cAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaaa < 1:1863127/50‑1 (MQ=255)
cAAAAAACCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTaaaa < 1:1343516/50‑1 (MQ=255)
aaaaaCTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTc < 1:2567007/70‑1 (MQ=255)
aaaaaCCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCAtt > 1:2953596/1‑44 (MQ=255)
aaaaaCCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTgg > 1:4579098/1‑60 (MQ=255)
aaaaaCCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCt < 1:3901221/64‑1 (MQ=255)
aaaaCCATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGc < 1:4160786/71‑1 (MQ=255)
|
TGCGCGTAACCCTACATTTCATCCAGGTAACTTTTCATGGCTATCATCCCAAAAAACTATGCGCGGTTAGAAAGCGGCTATCGCGAAAAAGCATTAAAAATCTATCCGTGGGTCTGCGGTCGC > W3110S.gb/429793‑429915
|
| 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
