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 |
|
A3 F1 I1 R1
|
368 |
332.2 |
13092066 |
97.0% |
12699304 |
150.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP009974 |
4,031,017 |
Δ1 bp |
intergenic (+159/‑625) |
RPPX_17905 → / → RPPX_17915 |
23S rRNA methyltransferase/sulfurtransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP009974 | 4,031,017 | 0 | A | . | 89.7%
| 111.1
/ 16.2
| 40 | intergenic (+159/‑625) | RPPX_17905/RPPX_17915 | 23S rRNA methyltransferase/sulfurtransferase |
| Reads supporting (aligned to +/- strand): ref base A (1/3); new base . (14/21); total (16/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTTCTGCTTCTGCTTCTGCTTCTGCTTCTGCTTCTGCTTTTGCTTCTAAGCGCGCGGTAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTGAGGCCCCAGGATGGGGCCTTCGGCGCGGTCCTGCCGGGAGCAAGGCCGGAGTGAGGGGACCCCGGAGCGCAGCGCAGGGGCCGGATGATGGGAGCGCAGCGTTTTTTGGTTACTTTTTGTCGCGTTTGACAAAAAGTGACTCGCCGTAAGG > CP009974/4030871‑4031167
|
gtTCTGCTTCTGCTTCTGCTTCTGCTTCTGCTTCTGCTTTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGccc > 2:4726782/1‑151 (MQ=255)
ttctgcttctgcttctgcttctgcttctgcttctgcTTTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGcccc > 1:5640218/1‑151 (MQ=255)
tctgcttctgcttctgcttctgcttctgcttctgctTTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCa < 1:1559876/151‑1 (MQ=12)
tctgcttctgcttctgcttctgcttctgcttctgctTTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCa < 1:4562159/151‑1 (MQ=16)
gctgctgctgcttctgcctctgcttctgcttctgccgTTGCCTCTACGCGGGAGATAGTCCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAGGGGAGGTGACGGGCATGCATGCCCGTCAAGCGCTG‑GGCCCCa < 2:3917900/150‑1 (MQ=11)
ttgcttctgcttctgcgtctgcctctgcttctggttTGGCTTGTAAGCGGGCGATGGTCCAGCCTACGCATATTGCGACTTCAGGAGGCCGAGTGGAGGGCTTGCGAAGGGAGGTGACGGCCATGGATGCCCGTCAAGCGCTGAGGCCCCa < 2:4049084/150‑1 (MQ=11)
ctgcttctgcttctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAg > 1:859387/1‑151 (MQ=255)
tgcttctgcttctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAgg > 2:3282437/1‑151 (MQ=12)
tgcttctgcttctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAgg < 1:6248101/151‑1 (MQ=19)
tgcttctgcttctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAgg < 1:6248100/151‑1 (MQ=16)
tgcttctgcttctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAgg < 1:1546503/151‑1 (MQ=12)
cttctgcttctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGa < 1:4530336/150‑1 (MQ=255)
cttctgcttctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGa > 2:4530336/1‑150 (MQ=255)
ttctgcttctgcttctgcttctgcttctgcttTTGCTTCTCAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGACCCAGGATg < 2:2529919/151‑1 (MQ=255)
ttctgcttctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATg < 1:3683921/151‑1 (MQ=16)
ttctgcttctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATg > 1:1950784/1‑151 (MQ=255)
tctgcttctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATgg < 1:4090221/151‑1 (MQ=12)
ctgcttctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATggg < 1:864851/151‑1 (MQ=16)
gcttctgcttctgctgctgcttctgcttTTGCTGCAAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACGTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGc < 2:2755958/151‑1 (MQ=11)
cttctgcttcttcttctgcttctgcttTTGATTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGcc < 1:436604/151‑1 (MQ=255)
cttctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGcc < 2:2130052/151‑1 (MQ=16)
cttctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGcc > 1:3334901/1‑151 (MQ=12)
tctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGcccc < 2:680441/138‑1 (MQ=255)
tctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGcccc > 1:680441/1‑138 (MQ=255)
tctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGCCtg < 1:4089164/151‑2 (MQ=16)
tctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGCCtg > 1:6472640/1‑150 (MQ=16)
tctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGCCtg < 1:4602315/151‑2 (MQ=255)
ctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGCAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCT‑CGGCCCCAGGATGGGGCCtgc > 2:3709867/1‑149 (MQ=11)
ctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGCTGGGGcgtgc > 2:676060/1‑147 (MQ=255)
ctgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGCCtgc > 2:3686264/1‑149 (MQ=9)
tgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGCCtgca < 2:1835848/151‑4 (MQ=255)
tgcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGCCtgca > 1:435104/1‑148 (MQ=255)
gcttctgcttctgcttctgcttTTGGTTCTAAGCGGGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGCCtgcag < 1:5427682/151‑5 (MQ=1)
gcttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGCCtgcag > 2:2794366/1‑147 (MQ=255)
cttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGCCtgcagc < 1:3317236/151‑6 (MQ=255)
cttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGCCtgcagc > 2:4436173/1‑146 (MQ=255)
ttctgcttctgcttctgcttTTGCTTCTAAGCGCGCGATAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTG‑GGCCCCAGGATGGGGCCtgcagcg < 2:180719/151‑7 (MQ=0)
gaggggAATTGATCCACGTAAAGCGCTGAGGCCCGAGGATGGGGCGTTCGGGGCGGTGCTGCCGGGAGCAAGGCCGAAGTGAGGGGACCCCGGAGCGAAGCGCAGGGGCCGGATGATGGGAGCGCAGCGTTTTTTGGTTACTTTTTGTcgc < 1:437105/148‑1 (MQ=1)
gAGGCCCGAGGATGGGGCCGTCGGCGCGGTCCGGCCGGGAGCAAGGCCGGAGTGAGGGGACCCCGGAGCGCAGCGCAGGCGCCGGATGATGGGAGCGCAGCGTTTTTTGGTTACTTTTTGTAGCGAAAGACAAAAAGTGACTCGCCGTAAg < 2:1708737/151‑1 (MQ=11)
gAGGCCCCAGGATGGGGCCTTCGGCGCGGTCCTGCCGGGAGCAAGGCCGGAGTGAGGGGACCCCGGAGCGCAGCGCAGGGGCCGGATGATGGGAGCGCAGCGTTTTTTGGTTACTTTTTGTCGCGTTTGACAAAAAGTGACTCGCCGTAAg > 1:6498490/1‑151 (MQ=11)
aGGCCCCAGGATGGGGCCTTCGGCGCGGTCCTGCCGGGAGCAAGGCCGGAGTGAGGGGACCCCGGAGCGCAGCGCAGGGGCCGGATGATGGGAGCGCAGCGTTTTTTGGTTACTTTTTGTCGCGTTTGACAAAAAGTGACTCGCCGTAAgg < 2:4224923/151‑1 (MQ=31)
aGGCCCCAGGATGGGGCCTTCGGCGCGGTCCTGCCGGGAGCAAGGCCGGAGTGAGGGGACCCCGGAGCGCAGCGCAGGGGCCGGATGATGGGAGCGCAGCGTTTTTTGGTTACTTTTTGTCGCGTTTGACAAAAAGTGACTCGCCGTAAgg > 1:4224923/1‑151 (MQ=31)
|
GTTCTGCTTCTGCTTCTGCTTCTGCTTCTGCTTCTGCTTTTGCTTCTAAGCGCGCGGTAGTTCAGGCGACGCAGATTGCGACTTCAGGAGGCCGAGTGCAGGGCTTGCGAAGGGAGGTGACGGGCATGGATGCCCGTCAAGCGCTGAGGCCCCAGGATGGGGCCTTCGGCGCGGTCCTGCCGGGAGCAAGGCCGGAGTGAGGGGACCCCGGAGCGCAGCGCAGGGGCCGGATGATGGGAGCGCAGCGTTTTTTGGTTACTTTTTGTCGCGTTTGACAAAAAGTGACTCGCCGTAAGG > CP009974/4030871‑4031167
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
