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 F1 I1 R1
|
343 |
268.7 |
10873516 |
97.0% |
10547310 |
150.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP009974 |
768,193 |
A→G |
G462G (GGT→GGC) |
RPPX_03350 ← |
acetolactate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP009974 | 768,193 | 0 | A | G | 94.4%
| 26.3
/ ‑6.3
| 18 | G462G (GGT→GGC) | RPPX_03350 | acetolactate synthase |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (8/9); total (8/10) |
| 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 |
GCAGCGGCAGCAGGCCTTCGGCGCTTTCCACGCGGTGGCCGTTTGCGCCGTAGGCTTCGGCATACTTGACGAAGTCCGGGTTGCCGTAGTCCAGGCCGAAATCGGTGAAGCCCATGTTGGCCTGCTTCCAGCGGATCATGCCGTAACCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCGAT > CP009974/768048‑768340
|
gcggcGGCAGCAGGCCTTCGGCGCTTTCCACGCGGTGGCCGTTTGCGCCGTAGGCTTCGGCATACTTGACGAAGTCCGGGTTGCCGTAGTCCAGGCCGAAATCGGTGAAGCCCATGTTGGCCTGCTTCCAGCGGATCATGCCGTAGCcgtc < 2:4406512/148‑1 (MQ=1)
tttaCGAAGTCGGGGTTGTCGTAGTCCAGGACGAAATCGGTGAAGACCATGTTGGCCTGCTTCCAGAGGAGCATGTCGTAACGGTGGCCACGCGGGAGCACCAAGGTGATGTGCATGCCCAGACGTACGGCAGTTTCCGGTTCCTGGCTGt < 2:4822925/148‑1 (MQ=1)
cATGCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCAtt > 2:440719/1‑151 (MQ=11)
cATGCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCAtt < 1:3319542/151‑1 (MQ=11)
aTGCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTg > 1:1212489/1‑151 (MQ=14)
aTGCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTg < 1:4707000/151‑1 (MQ=14)
aTGCCGGAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTg < 2:2327183/151‑1 (MQ=14)
tGCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACCCACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGc < 1:2196595/151‑1 (MQ=14)
tGCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGc > 2:539000/1‑151 (MQ=14)
tGCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGc < 1:3449472/151‑1 (MQ=14)
gCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGcc < 1:2739422/151‑1 (MQ=14)
ccGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCg > 2:1683760/1‑151 (MQ=14)
ccGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCg < 1:4551580/151‑1 (MQ=14)
ccGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCg > 1:1186344/1‑151 (MQ=17)
cGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCGa > 2:1030650/1‑151 (MQ=14)
cGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCGa < 2:425569/151‑1 (MQ=17)
gTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCGAt > 2:1729166/1‑151 (MQ=14)
gTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCGAt > 1:2661377/1‑151 (MQ=17)
|
GCAGCGGCAGCAGGCCTTCGGCGCTTTCCACGCGGTGGCCGTTTGCGCCGTAGGCTTCGGCATACTTGACGAAGTCCGGGTTGCCGTAGTCCAGGCCGAAATCGGTGAAGCCCATGTTGGCCTGCTTCCAGCGGATCATGCCGTAACCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCGAT > CP009974/768048‑768340
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
