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 |
|
A4 F60 I1 R1
|
17 |
33.2 |
1123130 |
98.8% |
1109652 |
138.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,153,675 |
G→T |
intergenic (‑577/+21) |
ppc ← / ← argE |
phosphoenolpyruvate carboxylase/acetylornithine deacetylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,153,675 | 0 | G | T | 93.3%
| 88.0
/ 1.6
| 30 | intergenic (‑577/+21) | ppc/argE | phosphoenolpyruvate carboxylase/acetylornithine deacetylase |
| Reads supporting (aligned to +/- strand): ref base G (1/1); new base T (14/14); total (15/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.92e-01 |
GGCGCGAGCGCCTTATCCGGCCTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCTGATTAATTGAGCCAG > NC_000913/4153545‑4153805
|
ggcgCGAGCGCCTTATCCGGCCTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATc > 1:72896/1‑140 (MQ=255)
cGGCCTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATg < 1:349609/140‑1 (MQ=255)
tGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAAt < 2:420131/140‑1 (MQ=255)
gggCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATg > 2:197277/1‑140 (MQ=255)
cGTTTGAGTCACTGTAGGTCGGATAGGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAAt > 2:384350/1‑140 (MQ=255)
gTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAAtt > 2:409704/1‑140 (MQ=255)
tttGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTa > 1:480636/1‑140 (MQ=255)
tGAGTCACTGTAGGTCGGATAGGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTAcc < 1:384350/140‑1 (MQ=255)
tGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTAcc < 2:480636/140‑1 (MQ=255)
aCTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGtt > 2:51699/1‑140 (MQ=255)
tcgatgTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTAt < 1:395918/135‑1 (MQ=255)
tGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTAt > 2:236895/1‑140 (MQ=255)
ggTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTAcc < 1:457494/128‑1 (MQ=255)
ggTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTAcc > 2:457494/1‑128 (MQ=255)
ggTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGt > 2:175388/1‑140 (MQ=255)
gTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGtt > 1:319919/1‑140 (MQ=255)
gTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGtt > 1:531946/1‑140 (MQ=255)
gTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGtt < 2:319919/140‑1 (MQ=255)
aTAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCgg > 1:446190/1‑140 (MQ=255)
aaGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGt < 1:236895/140‑1 (MQ=255)
gATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTgg < 1:409704/140‑1 (MQ=255)
aTGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTggg > 2:317939/1‑140 (MQ=255)
catcCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGGTTTAATGCCAGCAAAAATGGTGAATTACCTGGGGTATCAGTTCGCGGGAGGGCTTGATAAACCgtg > 1:171789/1‑140 (MQ=255)
gACATTATTGCGGCACTGGAGTTTGGCATCAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTcc < 1:503773/140‑1 (MQ=255)
gACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTcc < 2:72896/140‑1 (MQ=255)
gCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATtca < 1:481049/140‑1 (MQ=255)
ggCACTGGAGTTTGGCAACAGTGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATtcatc > 1:284802/1‑140 (MQ=255)
cACTGGAGTTTGGCAACAGTGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAg < 2:284802/140‑1 (MQ=255)
ggAGTTTGGCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTtg < 2:531946/140‑1 (MQ=255)
tttCGCAACAGCGGCGGATGCGTGCCTATCGCGGTAGCCGGTCTACGTTTCAATGCCAGCAGAAATGGTGAATTACCTGGGTTCTCAGTTCGCGTGTGGGCTTGATAAACCGTGTTTCCAGACATTCATCAGGTtgatga < 2:171789/140‑1 (MQ=255)
ggCAACAGCGCCGGATGCGGCGCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGcc > 2:220294/1‑140 (MQ=255)
gcggcgCGATCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCTGATTAATTGAGCCAg < 1:197277/140‑1 (MQ=255)
|
GGCGCGAGCGCCTTATCCGGCCTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCTGATTAATTGAGCCAG > NC_000913/4153545‑4153805
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
