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 R1
|
87 |
56.5 |
4283937 |
98.6% |
4223961 |
62.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
267,502 |
G→T |
7.7% |
P228H (CCT→CAT) |
ykfA ← |
predicted GTP‑binding protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 267,502 | 0 | G | T | 7.7%
| 205.2
/ 2.4
| 64 | P228H (CCT→CAT) | ykfA | predicted GTP‑binding protein |
| Reads supporting (aligned to +/- strand): ref base G (29/30); new base T (3/2); total (32/32) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.67e-01 |
GAGTACGGCCCCGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCGGCC > W3110S.gb/267432‑267567
|
gAGTACGGCCCCGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCC‑GACTACCGTCGTGCGAaaggaag < 1:1605796/70‑1 (MQ=255)
cGGCCCCGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATg < 1:2909200/70‑1 (MQ=255)
cGGCCCCGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATg > 1:2683482/1‑70 (MQ=255)
ggCCCCGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATgg < 1:2280587/70‑1 (MQ=255)
cccGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGtt < 1:2443442/71‑1 (MQ=255)
cccGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGt > 1:1017009/1‑70 (MQ=255)
cGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGc < 1:1065632/71‑1 (MQ=255)
gACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGAGTTGCg < 1:2914986/71‑1 (MQ=255)
aCGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGt > 1:1814010/1‑66 (MQ=255)
aCGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGa > 1:698285/1‑71 (MQ=255)
aCGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGa > 1:646287/1‑71 (MQ=255)
ggTTTCACAAAAATCGCTACGAGCCTGTTCCCGGACTACAGTCGTGCGAAAGGAAGGATGGAGTTGCg > 1:182826/1‑68 (MQ=255)
gTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGacac < 1:3632019/71‑1 (MQ=255)
ttCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGAcacca > 1:4053378/1‑71 (MQ=255)
tCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATg < 1:515549/56‑1 (MQ=255)
tCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGa > 1:2690516/1‑65 (MQ=255)
tCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGa > 1:405412/1‑65 (MQ=255)
tCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGAcaccac > 1:3527152/1‑71 (MQ=255)
tCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGAcaccac > 1:942932/1‑71 (MQ=255)
cACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGAcaccac > 1:3635463/1‑70 (MQ=255)
aCCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGa < 1:1346177/56‑1 (MQ=255)
ccAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCg > 1:1494102/1‑70 (MQ=255)
cAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAg < 1:1495723/55‑1 (MQ=255)
cAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCggg > 1:2768509/1‑71 (MQ=255)
aaaaTCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAaacgaagg > 1:3104077/1‑48 (MQ=255)
aaaTCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGAg > 1:2361905/1‑53 (MQ=255)
aaaTCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGAGTTGCGACACCACCGGGCt > 1:1485415/1‑71 (MQ=255)
aaaTCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCt > 1:2624306/1‑71 (MQ=255)
aaaTCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCt < 1:3241527/71‑1 (MQ=255)
aaaTCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCt > 1:3408327/1‑71 (MQ=255)
aaTCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCtg < 1:3968995/71‑1 (MQ=255)
aTCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCggg > 1:2028930/1‑67 (MQ=255)
aTCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCtgg < 1:3220723/71‑1 (MQ=255)
cTACGAGCCTGTTCCCGGACTACCGTCGTGCGAaaggaagg < 1:3867329/41‑1 (MQ=255)
cTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATg < 1:2725677/44‑1 (MQ=255)
cGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCg > 1:506166/1‑49 (MQ=255)
cGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCt < 1:417358/70‑1 (MQ=255)
aGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCAc < 1:3433648/71‑1 (MQ=255)
tGTTCCCGGACTACCGTCGTGCGAAAGGAAGTATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTgg > 1:758466/1‑71 (MQ=255)
gTTCCCGGACTACCGTCGTGCGAAAGGAATGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCAc > 1:2874163/1‑66 (MQ=255)
gTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCtggtg < 1:989677/59‑1 (MQ=255)
gTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCtggtg < 1:2338295/59‑1 (MQ=255)
ttCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTggca < 1:3486187/71‑1 (MQ=255)
ttCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTggc < 1:3351901/70‑1 (MQ=255)
ttCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTggc < 1:2000545/70‑1 (MQ=255)
ttCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTggc < 1:2879343/70‑1 (MQ=255)
tCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCt > 1:690878/1‑61 (MQ=255)
ccGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTggcag < 1:471849/69‑1 (MQ=255)
cGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTggcaggca > 1:2739415/1‑71 (MQ=255)
ggACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTggcaggca > 1:126650/1‑70 (MQ=255)
ggACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCAc > 1:4205238/1‑71 (MQ=255)
gACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTggc < 1:2119007/64‑1 (MQ=255)
gACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACt < 1:295788/71‑1 (MQ=255)
aCTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACtt < 1:300689/71‑1 (MQ=255)
cTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTa < 1:1749605/71‑1 (MQ=255)
tACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACg > 1:3739390/1‑57 (MQ=255)
tACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACtt < 1:2627816/69‑1 (MQ=255)
ccGTCGTGCGAAAGGAATGATGGAGTTGCGACACCACCGGGCTGGTGGCCt < 1:1874479/51‑1 (MQ=255)
ccGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCAc > 1:2470061/1‑65 (MQ=255)
ccGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTaa < 1:1202146/69‑1 (MQ=255)
ccGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAat < 1:2829296/70‑1 (MQ=255)
ccGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAat < 1:3657460/70‑1 (MQ=255)
tcgtGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCtggt > 1:77676/1‑43 (MQ=255)
gtGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCtg > 1:4017324/1‑39 (MQ=255)
cGAAAGGAAGGATGGAGTTGCGACACCACCGGGCtg < 1:963877/36‑1 (MQ=255)
gAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCg > 1:3280822/1‑71 (MQ=255)
aaaGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTggc > 1:2527744/1‑49 (MQ=255)
aaggaatgATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCGGc > 1:2401154/1‑71 (MQ=255)
aggaaggaTGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCGGcc < 1:2763402/71‑1 (MQ=255)
aggaaggaTGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCGGcc < 1:3900597/71‑1 (MQ=255)
|
GAGTACGGCCCCGACGGTTTCACCAAAATCGCTACGAGCCTGTTCCCGGACTACCGTCGTGCGAAAGGAAGGATGGAGTTGCGACACCACCGGGCTGGTGGCCTCACGTGGCAGGCACTTAATCATCCGCTCGGCC > W3110S.gb/267432‑267567
|
| 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
