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 |
|
A91 F1 I1 R1
|
18 |
55.4 |
3661525 |
95.1% |
3482110 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,169,030 |
T→A |
I1357N (ATC→AAC) |
rpoC → |
DNA‑directed RNA polymerase subunit beta' |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,169,030 | 0 | T | A | 97.6%
| 153.4
/ ‑3.5
| 41 | I1357N (ATC→AAC) | rpoC | DNA‑directed RNA polymerase subunit beta' |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base A (27/13); total (28/13) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.60e-01 |
ACCGAAGCAGCCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGATCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGTGAAGCTCCGGCTG > REL606/4168957‑4169101
|
aCCGAAGAAGCCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAAcc > 1:655263/1‑76 (MQ=255)
ccGAAGCAGCCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAAccc > 1:150428/1‑76 (MQ=255)
gcagcCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAg < 2:5293/76‑1 (MQ=255)
cagcCTGTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAgg < 2:1804626/76‑1 (MQ=255)
cagcCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAgg > 1:1627925/1‑76 (MQ=255)
cagcCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGCCTGAACCCGGCAgg > 1:663646/1‑76 (MQ=255)
agcCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAggg > 2:854447/1‑75 (MQ=255)
ccGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTAc < 2:891651/76‑1 (MQ=255)
ccGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTAc < 2:796769/76‑1 (MQ=255)
gTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCg < 1:696464/76‑1 (MQ=255)
gCGGGCAAACTCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGtt < 2:1268635/76‑1 (MQ=255)
cGGGCAAGCGCGGCGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTa < 2:79967/76‑1 (MQ=255)
cGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTa > 2:579283/1‑76 (MQ=255)
cGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTa < 2:1132770/76‑1 (MQ=255)
cGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGCACCGGTTa < 2:25560/76‑1 (MQ=255)
cAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTAcgcg > 1:1476614/1‑76 (MQ=255)
aaaCGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGt < 2:791816/76‑1 (MQ=255)
aaaCGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGt > 1:673448/1‑76 (MQ=255)
gcgACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTacca < 1:818312/76‑1 (MQ=255)
nacgaACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTaccacc > 1:117491/2‑76 (MQ=255)
acgaACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTAccacca < 1:485403/76‑1 (MQ=255)
gaACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAgg > 1:201725/1‑76 (MQ=255)
aaCTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGAACCGGTTACGCGAAACAACAGGa > 2:676866/1‑76 (MQ=255)
aCTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGAt > 2:1152842/1‑76 (MQ=255)
ccTGAAAGAGAACGTTATCGTGGGTCGTCTGATCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGt > 2:1038227/1‑76 (MQ=255)
cTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTc > 1:1623609/1‑76 (MQ=255)
cTGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTc > 2:360566/1‑76 (MQ=255)
tGAAAGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCg > 1:1319496/1‑76 (MQ=255)
aaaGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGcc > 1:737840/1‑76 (MQ=255)
aaaGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGcc > 1:899451/1‑76 (MQ=255)
aaaGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGcc > 2:156113/1‑76 (MQ=255)
aaGAGAACGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCg > 2:205779/1‑76 (MQ=255)
aaCGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGtgctg > 2:465562/1‑76 (MQ=255)
aaCGTTATCGGGGGTCGTCTGACCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGtgctg < 1:645072/76‑1 (MQ=255)
aCGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGtgctgc > 2:1038900/1‑76 (MQ=255)
cGTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCg < 2:1181508/76‑1 (MQ=255)
gTTATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCgg > 1:1191774/1‑76 (MQ=255)
tATCGTGGGTCGTCTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCgggg > 1:134467/1‑75 (MQ=255)
tATCGTGGGGCGTCTGCACCCGGCAGGTACCGGTTACGCGCACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGt < 2:1620066/76‑1 (MQ=255)
cGTGGGTCGTCTGCACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCGGCGGGGGaa > 1:1214060/1‑76 (MQ=255)
cgtcTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGTGAAGCTCCgg > 1:1685767/1‑76 (MQ=255)
cgtcTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGTGAAGCTCCgg > 1:1650868/1‑76 (MQ=255)
cgtcTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGGGCTGCGGGTGAAGCGCCgg > 1:111061/1‑76 (MQ=255)
tcTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGGGAAGCTCCGGCt > 1:716238/1‑76 (MQ=255)
tcTGAACCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGGGAAGCTCCGGCt > 1:278743/1‑76 (MQ=255)
cTGATCCCGGCCGGAACCGGGTACGCGTACCACCAGGATCGAATGCGTCGCCGTGCTGCGGGGGAAGCTCCGGcgg > 2:623131/1‑74 (MQ=255)
|
ACCGAAGCAGCCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGATCCCGGCAGGTACCGGTTACGCGTACCACCAGGATCGTATGCGTCGCCGTGCTGCGGGTGAAGCTCCGGCTG > REL606/4168957‑4169101
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
