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 |
|
A17 F172 I0 R1
|
42 |
33.2 |
716278 |
96.8% |
693357 |
139.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
2,709,297 |
T→A |
28.0% |
K544* (AAA→TAA) |
oatA ← |
possible acetyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 2,709,297 | 0 | T | A | 28.0%
| 36.6
/ 16.1
| 25 | K544* (AAA→TAA) | oatA | possible acetyltransferase |
| Reads supporting (aligned to +/- strand): ref base T (6/12); new base A (2/5); total (8/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.83e-01 |
GCTTTACTACCTGCATATTCTAAGTGAATACCGTCATATGCAAAGTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAATAGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAA > CP000730/2709170‑2709416
|
gcTTTACTACCTGCATATTCTAAGTGAATACCGTCATATGCAAAGTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTAcc < 2:328857/140‑1 (MQ=255)
tttACTACCTGCATATTCTAAGTGAATACCGTCATATGCAAAGTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCtt < 2:71468/140‑1 (MQ=255)
ctacCTGCATATTATAAGTGAATACCGTCATATGCAAAGTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGATTTTCAGCTGACCCACCAGTTAATGTATTTATTCTACCTTCATa > 2:73819/1‑140 (MQ=255)
tacCTGCATATTCTAAGTGAATACCGTCATATGCAAAGTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATaa > 2:240550/1‑140 (MQ=255)
tGCATATTCTAAGTGAATACCGTCATATGCAAAGTATTCCGGATGACCTGCACAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCACAAtctc < 2:196380/140‑1 (MQ=255)
tCTAAGTGAATACCGTCATATGCAAAGTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATAATCTCTAGGTAc < 1:37346/140‑1 (MQ=255)
tAAGTGAATACCGTCATATGCAAAGTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATAATCTCTAGGTActc < 1:200119/140‑1 (MQ=255)
tAAGTGAATACCGTCATATGCAAAGTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTAATTTATTCTACCTTCATAATCTCTAGGTActc < 1:254030/140‑1 (MQ=255)
gAATACCGTCATATGCAAAGTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATCATCTCTAGGTACTCTAATa < 1:213580/140‑1 (MQ=255)
tGCAAAGTATTCCGGATGACCTGCAGAAGCATTATACCAATCGACTGGATGTACGTTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAatata > 2:162535/1‑140 (MQ=255)
aaGTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTc < 2:321078/140‑1 (MQ=255)
aaGTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTAATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTc < 2:97326/140‑1 (MQ=255)
aaGTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTAATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTc < 2:240710/140‑1 (MQ=255)
gTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTg < 2:279920/140‑1 (MQ=255)
aTTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCt < 1:314681/140‑1 (MQ=255)
ttCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCtt < 2:22003/140‑1 (MQ=255)
aCCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTAATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAAc < 2:196108/140‑1 (MQ=255)
cAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTAATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATcc > 2:52819/1‑140 (MQ=255)
taGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTAATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAAt < 1:103883/139‑1 (MQ=255)
cgttATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAATTGt < 2:5183/138‑1 (MQ=255)
cTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATATATTAATTTATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAATAGt < 2:195523/140‑1 (MQ=255)
taCCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATAATCTCTAGGTACGCTAATAGATACTAAATATATGTCTGCTTTTCTAAAACTATCCACTAGTTCAtt > 2:188335/1‑140 (MQ=255)
cATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAATAGTTCATTTAATTGATCTTTCGTAAAt > 1:185439/1‑140 (MQ=255)
gcgcTTTTCAGCTGCCTCATGAATTAATTAATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAATAGTTCATTAAATTGATCTTTCGTAAATGCCCCAt > 1:215846/1‑140 (MQ=255)
aGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAATAATTCATTTAATTGATCTTTCGTAAATCCCCCATTTGTACCaa > 1:23757/1‑140 (MQ=255)
|
GCTTTACTACCTGCATATTCTAAGTGAATACCGTCATATGCAAAGTATTCCGGATGACCTGCAGAAGCTTTATACCAATCGACTAGATGTACATTAGAGCGCTTTTCAGCTGCCTCATAAATTAATTTATTTATTCTACCTTCATAATCTCTAGGTACTCTAATAGAAACTAAATATATGTCTGCTTTTCCAAAACTATCCAATAGTTCATTTAATTGATCTTTCGTAAATGCCCCATTTGTACCAA > CP000730/2709170‑2709416
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
