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 |
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 | 85.7%
| 12.8
/ ‑0.8
| 14 | G462G (GGT→GGC) | RPPX_03350 | acetolactate synthase |
| Reads supporting (aligned to +/- strand): ref base A (0/2); new base G (5/7); total (5/9) |
| Fisher's exact test for biased strand distribution p-value = 5.05e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.09e-01 |
AGCAGCGGCAGCAGGCCTTCGGCGCTTTCCACGCGGTGGCCGTTTGCGCCGTAGGCTTCGGCATACTTGACGAAGTCCGGGTTGCCGTAGTCCAGGCCGAAATCGGTGAAGCCCATGTTGGCCTGCTTCCAGCGGATCATGCCGTAACCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCGAT > CP009974/768047‑768340
|
ggcggcGGCAGCAGGCCGTGGGGGCTTTCGACGCGGTGGCCGTGTGCGCCGTAGGCTTCGGCATACTTGACGAAGTCCGGGTTGCCGTAGTCCAGGCCGAAATCGGTGAAGCCCATGTTGGCCTGCTTCCAGCGGATCATGCCGTAACcgt < 2:6451478/147‑1 (MQ=1)
ccaggaggTGGCCGTTTGCGCCGTAGGCTTCGGCATACTTGACGAAGTCCGGGTTGCCGTAGTCCAGGCCGAAATCGGTGAAGCCCATGTTGGCCTGCTTCCAGCGTATCATGCCGTAGCCGTCGTCACGCAGGATCACCACGGTGAtgtg < 1:4922401/145‑1 (MQ=0)
ctggACGAAGTCCGGGTTGCCGTAGTCCAGGCCGAAATCGGTGAAGCCCATGTTGGCCTGCTTCCAGCGGATCATGCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTg < 2:534978/148‑1 (MQ=1)
aggccATGTTGGCCTGCTTCCAGCGGATCATGCCGTAACCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCg < 2:4991053/148‑1 (MQ=1)
cATGCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCAtt < 1:3538793/151‑1 (MQ=11)
cATGCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCAtt < 1:5026406/151‑1 (MQ=11)
cATGCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCAtt < 2:6359046/151‑1 (MQ=11)
gCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGcc > 1:6037915/1‑151 (MQ=17)
gCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGcc > 1:978435/1‑151 (MQ=17)
gCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGcc < 2:21150/151‑1 (MQ=14)
gCCGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGcc < 2:21173/151‑1 (MQ=14)
ccGTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCg > 1:2242309/1‑151 (MQ=14)
gTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCgct > 2:747710/1‑149 (MQ=14)
gTAGCCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCGAt > 1:4245759/1‑151 (MQ=17)
|
AGCAGCGGCAGCAGGCCTTCGGCGCTTTCCACGCGGTGGCCGTTTGCGCCGTAGGCTTCGGCATACTTGACGAAGTCCGGGTTGCCGTAGTCCAGGCCGAAATCGGTGAAGCCCATGTTGGCCTGCTTCCAGCGGATCATGCCGTAACCGTCGTCACGCAGGATCACCACGGTGATGTGCATGCCCAGACGTACTGCAGTTTCCAGTTCCTGGCTGTTCATCATGAAGCCGCCGTCGCCACACACCGAGATTACCGGGCGGTCCGGGTGCACCAGGTGCGCAGCCATTGCCGAT > CP009974/768047‑768340
|
| 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
