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 |
|
A2 F17 I0 R1
|
71 |
95.7 |
2922988 |
91.7% |
2680379 |
65.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,722,197 |
A→T |
100% |
intergenic (‑5/+160) |
yfhG ← / ← yfhK |
conserved hypothetical protein/predicted sensory kinase in two‑component system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,722,197 | 0 | A | T | 86.0%
| 136.5
/ 14.0
| 50 | intergenic (‑5/+160) | yfhG/yfhK | conserved hypothetical protein/predicted sensory kinase in two‑component system |
| Reads supporting (aligned to +/- strand): ref base A (0/7); new base T (0/43); total (0/50) |
| 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 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GTTGAAAAATGTGTCGCATATTCACCAGACTTAAAGCCTATCCCAGTGGGCGTAATTGTTGCAGACAGTCTGGACATG > minE/1722174‑1722251
|
gTTGAAAAATGTGTCGCATATTTTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:1146806/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:2894176/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:1967482/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:1975145/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:2221145/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:496277/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:337900/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:2313262/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:2902997/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:2478762/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:1910977/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:2556457/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:2888480/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:2606713/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:2626563/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:2759478/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:2807884/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:2860359/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:1635788/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:1132447/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:992276/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:1290422/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:956897/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:1445221/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:899724/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:1514284/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:850025/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:503450/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:1656834/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:761952/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:74747/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:181892/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:1827799/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:722048/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGAGCGTAAt < 1:1142818/56‑1 (MQ=255)
gTTGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCACAGTGGGCGTAAt < 1:1774783/56‑1 (MQ=255)
ttGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGTGCGTAAt < 1:1443404/55‑1 (MQ=255)
ttGAAAAATGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:1506477/55‑1 (MQ=255)
tGAAAAATGTGTCGCATATTCTCCAGACATAAAGCCTATCCCAGTGGGCGTAAt < 1:2919543/54‑1 (MQ=255)
aaTGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:2411299/49‑1 (MQ=255)
aaTGTGTCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:455109/49‑1 (MQ=255)
aaTGTGTCGCATATTCACCAGACTTAAAGCCTATCCCAGTGGGCGTAATTGTTGCAGACAGTCtggacatg < 1:2515334/71‑1 (MQ=255)
aaTGTGTCGCATATTCACCAGACTTAAAGCCTATCCCAGTGGGCGTAATTGTTGCAGACAGTCtggacatg < 1:2264815/71‑1 (MQ=255)
aaTGTGTCGCATATTCACCAGACTTAAAGCCTATCCCAGTGGGCGTAATTGTTGCAGACAGTCtggacatg < 1:2263511/71‑1 (MQ=255)
aaTGTGTCGCATATTCACCAGACTTAAAGCCTATCCCAGTGGGCGTAATTGTTGCAGACAGTCtggacatg < 1:1550200/71‑1 (MQ=255)
aaTGTGTCGCATATTCACCAGACTTAAAGCCTATCCCAGTGGGCGTAATTGTTGCAGACAGTCtggacatg < 1:1152111/71‑1 (MQ=255)
aaTGTGGCGCATATTCACCAGACTTAAAGCCTATCCCAGTGGGCGTAATTGTTGCAGACAGTCtggacatg < 1:2603963/71‑1 (MQ=255)
aTGTGTCGCATATTCACCAGACTTAAAGCCTATCCCAGTGGGCGTAATTGTTGCAGACAGTCtggacatg < 1:1870436/70‑1 (MQ=255)
gtgtCGCATATTCTCCAGACTTAAAGCCTATCCCAGTGGGCGTAAt < 1:167737/46‑1 (MQ=255)
atTCTCCAGACTTAAAGCCTAACCCAGTGGGCGTAAt < 1:1948880/37‑1 (MQ=38)
|
GTTGAAAAATGTGTCGCATATTCACCAGACTTAAAGCCTATCCCAGTGGGCGTAATTGTTGCAGACAGTCTGGACATG > minE/1722174‑1722251
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
