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 F28 I1 R2
|
328 |
63.0 |
4687567 |
98.0% |
4593815 |
65.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,549,754 |
G→A |
intergenic (+43/‑24) |
fimC → / → fimD |
chaperone, periplasmic/outer membrane usher protein, type 1 fimbrial synthesis |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,549,754 | 0 | G | A | 100.0%
| 125.6
/ NA
| 42 | intergenic (+43/‑24) | fimC/fimD | chaperone, periplasmic/outer membrane usher protein, type 1 fimbrial synthesis |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (18/24); total (18/24) |
AAAATGACGGGCGTAATGGAATAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCGGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGAAACACACA > W3110S.gb/4549688‑4549818
|
aaaaTGACGGGCGTAATGGAATAACGCATGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTg < 1:1797866/71‑1 (MQ=255)
aaaaTGACGGGCGTAATGGAATAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTg < 1:3509680/71‑1 (MQ=255)
aTGACGGGCGTAATGGAATAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGAtt > 1:1835546/1‑71 (MQ=255)
aTGGAATAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCggag > 1:3461297/1‑70 (MQ=255)
aTAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGaataa < 1:2620056/71‑1 (MQ=255)
tAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGaataat < 1:4498845/71‑1 (MQ=255)
aCGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGt > 1:675103/1‑71 (MQ=255)
aCGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGt > 1:4281095/1‑71 (MQ=255)
aCGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGt < 1:4149667/71‑1 (MQ=255)
aCGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGt > 1:3867432/1‑71 (MQ=255)
aCGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGt > 1:3536298/1‑71 (MQ=255)
aCGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGt < 1:2379623/71‑1 (MQ=255)
aCGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGt < 1:1764058/71‑1 (MQ=255)
aCGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGt > 1:1289825/1‑71 (MQ=255)
aCGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGt < 1:1698149/71‑1 (MQ=255)
aGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCat < 1:3406252/70‑1 (MQ=255)
gggggAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGaa < 1:3082020/60‑1 (MQ=255)
ggggAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGaat < 1:1169585/60‑1 (MQ=255)
gggAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATc > 1:1294179/1‑70 (MQ=255)
gAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCt > 1:487216/1‑69 (MQ=255)
gAATTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTg > 1:173827/1‑70 (MQ=255)
aaTTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTaa > 1:2862366/1‑45 (MQ=255)
aaTTTTTCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGaataa > 1:4164497/1‑58 (MQ=255)
tCGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTaa < 1:1477209/70‑1 (MQ=255)
cGCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAg < 1:1763788/70‑1 (MQ=255)
gCCTGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGAc < 1:1421079/71‑1 (MQ=255)
tGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGaat < 1:495268/45‑1 (MQ=255)
tGAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGaat < 1:2048137/45‑1 (MQ=255)
gAATAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGt < 1:4058546/49‑1 (MQ=255)
aaTAAAAAGAATTGACTGCCAGGTGATTTTAAGCCGGAGGaataa > 1:1587686/1‑45 (MQ=255)
aaaaGAATTGACTGCCAGGTGATTTTAAGCCggagg > 1:715365/1‑36 (MQ=255)
aaaaGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGc > 1:809309/1‑71 (MQ=255)
aaaGAATTGACTGCCAGGTGATTTTAAGCCGGAGGaat < 1:1990810/38‑1 (MQ=255)
aGAATTGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAg < 1:943948/57‑1 (MQ=255)
ttGACTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGAAaca > 1:2508133/1‑70 (MQ=255)
gACTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGaaa > 1:981784/1‑66 (MQ=255)
gACTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGAAacaca > 1:1114676/1‑70 (MQ=255)
aCTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTTAATTTAAGACTTTACCAGCGAAacacac < 1:884894/70‑1 (MQ=255)
aCTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGAAacacac < 1:4113999/70‑1 (MQ=255)
aCTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGAAacacac < 1:874971/70‑1 (MQ=255)
aCTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGAAacacac < 1:2338686/70‑1 (MQ=255)
aCTGCCAGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGAAAcacaca < 1:3355478/71‑1 (MQ=255)
|
AAAATGACGGGCGTAATGGAATAACGCAGGGGGAATTTTTCGCCTGAATAAAAAGAATTGACTGCCGGGTGATTTTAAGCCGGAGGAATAATGTCATATCTGAATTTAAGACTTTACCAGCGAAACACACA > W3110S.gb/4549688‑4549818
|
| 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
