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 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,204,267 |
C→T |
49.0% |
V82I (GTT→ATT) |
ymfK ← |
repressor protein phage e14 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,204,267 | 0 | C | T | 49.0%
| ‑0.4
/ 71.7
| 49 | V82I (GTT→ATT) | ymfK | repressor protein phage e14 |
| Reads supporting (aligned to +/- strand): ref base C (12/13); new base T (10/14); total (22/27) |
| Fisher's exact test for biased strand distribution p-value = 7.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTCCGGCCTGTACCCATGATATGACAGGGACTAATGTGATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGCCATCCTACAGGCAGGTCGAAAC > W3110S.gb/1204207‑1204335
|
cTCCGGCCTGTACCCATGATATGACAGGGACTAATGTGATTTGTTTATTAGTGATTGAAACATCAGGtttt < 1:96579/71‑1 (MQ=255)
cTCCGGCCTGTACCCATGATATGACAGGGACTAATGTGATTTGTTTATTAGTGATTGAAACATCAGGtttt < 1:523325/71‑1 (MQ=255)
atatGACAGGGACTAATGTGATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTc > 1:238413/1‑71 (MQ=255)
gACTAATGTGATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCtt > 1:1194905/1‑71 (MQ=255)
gACTAATGTGATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCtt > 1:408337/1‑71 (MQ=255)
gACTAATGTGATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCtt > 1:341517/1‑71 (MQ=255)
gACTAATGTGATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCtt > 1:1396422/1‑71 (MQ=255)
gACTAATGTGATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCtt > 1:300423/1‑71 (MQ=255)
gACTAATGTGATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCtt > 1:1534517/1‑71 (MQ=255)
aCTAATGTGATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTg < 1:1102319/71‑1 (MQ=255)
aCTAATGTGATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTg < 1:976218/71‑1 (MQ=255)
aCTAATGTGATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTg < 1:488592/71‑1 (MQ=255)
aCTAATGTGATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTg < 1:473241/71‑1 (MQ=255)
aCTAATGTGATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTg < 1:1892839/71‑1 (MQ=255)
aCTAATGTGATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTg < 1:1508728/71‑1 (MQ=255)
aCTAATGTGATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTg < 1:1146518/71‑1 (MQ=255)
aCTAATGTGATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTg < 1:149192/71‑1 (MQ=255)
aCTAATGTGATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTg < 1:1180302/71‑1 (MQ=255)
aCTAATGTGATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGATCTTg < 1:1760719/71‑1 (MQ=255)
aCTAATGTGATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGGCTGGTGTTCTTg < 1:1890721/71‑1 (MQ=255)
aCTAATGTGATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTg < 1:460380/71‑1 (MQ=255)
tgtgATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGgtg < 1:1603238/60‑1 (MQ=255)
tgtgATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGgtg < 1:127953/60‑1 (MQ=255)
tgtgATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGgtg < 1:1266273/60‑1 (MQ=255)
tgtgATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGgtg < 1:275969/60‑1 (MQ=255)
tgtgATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGgtg < 1:1467723/60‑1 (MQ=255)
tgtgATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGgtg < 1:1756157/60‑1 (MQ=255)
tgtgATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGgtg < 1:1752579/60‑1 (MQ=255)
tgtgATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGgtg < 1:1595117/60‑1 (MQ=255)
tgATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:159326/1‑71 (MQ=255)
tgATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:602923/1‑71 (MQ=255)
tgATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:1956277/1‑71 (MQ=255)
tgATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:1972795/1‑71 (MQ=255)
tgATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:557247/1‑71 (MQ=255)
tgATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:1418289/1‑71 (MQ=255)
tgATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:1548480/1‑71 (MQ=255)
tgATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:1325538/1‑71 (MQ=255)
tgATTTGTTTATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:172966/1‑71 (MQ=255)
tgATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:1101110/1‑71 (MQ=255)
tgATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:608061/1‑71 (MQ=255)
tgATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:1333344/1‑71 (MQ=255)
tgATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:1737909/1‑71 (MQ=255)
tgATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:1515377/1‑71 (MQ=255)
tgATATGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGc > 1:1470825/1‑71 (MQ=255)
tttATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGCCATCCt < 1:544361/70‑1 (MQ=255)
tttATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGCCATCCt < 1:257340/70‑1 (MQ=255)
tttATTAGTGATTGAAATATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGCCATCCt < 1:694114/70‑1 (MQ=255)
aaCATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGCCATCCTACAGGCAGGTCGAAAc < 1:427810/71‑1 (MQ=255)
aaCATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGCCATCCTACAGGCAGGTCGAAAc < 1:1526818/71‑1 (MQ=255)
|
CTCCGGCCTGTACCCATGATATGACAGGGACTAATGTGATTTGTTTATTAGTGATTGAAACATCAGGTTTTTTTGTGATGTTCGTTGTCTGGTGTTCTTGATCGAGCCATCCTACAGGCAGGTCGAAAC > W3110S.gb/1204207‑1204335
|
| 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
