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 |
|
A23 F10 I1 R1
|
17 |
30.2 |
1100966 |
93.3% |
1027201 |
143.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913_3_pae_tpiA |
2,817,170 |
C→A |
E112* (GAA→TAA) |
yqaB ← |
fructose‑1‑P and 6‑phosphogluconate phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913_3_pae_tpiA | 2,817,170 | 0 | C | A | 95.5%
| 54.0
/ NA
| 22 | E112* (GAA→TAA) | yqaB | fructose‑1‑P and 6‑phosphogluconate phosphatase |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base A (12/9); total (12/10) |
| Fisher's exact test for biased strand distribution p-value = 4.55e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
GGTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTCACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCGGCC > NC_000913_3_pae_tpiA/2817028‑2817315
|
ggTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTccc < 2:195868/149‑1 (MQ=255)
aCGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGCCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGCCGCTTTACCTCCCCGTTcc > 2:381941/1‑149 (MQ=255)
aaaaaTGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAAGCCCAGGTGCGCCAGCAAGGCCTCAGCGAGGGCGCTTTAACTCCCCGTTCCTATAGCCATGGGGCGACGACCATg > 1:149455/1‑149 (MQ=255)
tGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTca < 1:466663/149‑1 (MQ=255)
gcgcGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTcacc < 1:476750/149‑1 (MQ=255)
gcgcGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTcacc > 1:329509/1‑149 (MQ=255)
tgtTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTGAGCGATGGCGCTTTAACTGCCCGTTACTACAGCCATTGGGCGGCGACCATGCCAACTTTTGACAACGTCCACATGAgg > 2:156312/1‑149 (MQ=255)
ctGACGAGAACGGCAGCGACGAAGGCGTAAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTAAGCGATGGCGCTTTCACTCCCCATGCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAg < 2:237058/148‑1 (MQ=255)
gACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCCTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCg < 1:156681/149‑1 (MQ=255)
ggTGATCGGAAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACCCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGt < 2:305954/148‑1 (MQ=255)
gCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATc > 2:143579/1‑149 (MQ=255)
ggCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAgcagca > 1:135934/1‑149 (MQ=255)
aaaaTAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATActtc > 1:221526/1‑149 (MQ=255)
tGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAACGATGACGATTTAACTCACCCTATCGACAGCCATGCTGCGACGACCATGGCAAATTTTCACCACATCCACAAGAGGAAGCGGTTCGAAGCTTTCCAGCAGCATACATCTTCCTGc > 2:475394/1‑149 (MQ=255)
gCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCtt > 1:256516/1‑149 (MQ=255)
gTAATCCCAGGTGCGCCAGCAATGCCTCATCGATGGCGCTTTAACTCCCCGTTCCTACAGCCCTTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACTCTATCCAGCAGCATACTTCTTACTGCTTCt < 1:318627/149‑1 (MQ=255)
cccAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTATAACTCCCCTTTCCTACAGCCATTGGGCGACGACGATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTAGACTCTATCCCGCAGACTACGTCTTAGTGCTTATGtttt > 2:3273/1‑149 (MQ=255)
ccAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTGCTGttttt > 1:219209/1‑149 (MQ=255)
tggtcgcCAGCCATGCCTCAGCGATGCGGCTGTAGCTCCCCGTTCCTACAGCCATTGGGCGTCGACCATGTCAACTTTTCACTATATCAACAATAGGAAGCGGTTCGACGCTATTCAGCAGCATACTTGTTACTGCTTCTGTTTTTTCa < 2:190987/145‑1 (MQ=255)
cTCAGCGATGGCGCTTTAACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCTCTAACGCATGCg > 1:71566/1‑149 (MQ=255)
cgcTTTAACTCCCCGTTCCTTCAGCCATTGGGGGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCg < 1:439682/149‑1 (MQ=255)
tttAACCCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCGGcc < 1:374454/149‑1 (MQ=255)
|
GGTTGCACGCCCATACGCTGCGCGCACAACAAAAATGTGTCTGGCGCGGGTTTATGGTGTTTGACGTGATCGGCAGCGACGACGGCGTCAAAATAATGGCGTAATCCCAGGTGCGCCAGCAATGCCTCAGCGATGGCGCTTTCACTCCCCGTTCCTACAGCCATTGGGCGACGACCATGCCAACTTTTCACCACATCAACAAGAGGAAGCGGTTCGACGCTATCCAGCAGCATACTTCTTACTGCTTCTGTTTTTTCACGCGCTAACGCATGCGGGTCGAGATCGGCC > NC_000913_3_pae_tpiA/2817028‑2817315
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
