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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
438,507 |
T→A |
31.1% |
intergenic (+8/‑206) |
pgm → / → ybfP |
phosphoglucomutase/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 438,507 | 0 | T | A | 31.1%
| 26.4
/ 17.0
| 29 | intergenic (+8/‑206) | pgm/ybfP | phosphoglucomutase/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (7/13); new base A (3/6); total (10/19) |
| 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 |
GCAAGCAGATTGAGAAAGAAGCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACAAACACAGAATTGCCT > minE/438441‑438568
|
gCAAGCAGATTGAGAAAGAAGCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACACAttt > 1:297891/1‑67 (MQ=255)
gCAAGCAGATTGAGAAAGAAGCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACACATTta > 1:269295/1‑68 (MQ=255)
tGAGAAAGAAGCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACATATCAAATaa‑gaaaaag > 1:1492657/1‑67 (MQ=255)
tGAGAAAGAAGCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACATATCAAATaa‑gaaaaag > 1:1109989/1‑67 (MQ=255)
tGAGAAAGAAGCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACATATCAAATaa‑gaaaaag > 1:3335822/1‑67 (MQ=255)
gagaAAGAAGCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACACATTtaa > 1:1879168/1‑58 (MQ=255)
gagaAAGAAGCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAggg > 1:1357749/1‑69 (MQ=255)
gagaAAGAAGCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAggg > 1:1375096/1‑69 (MQ=255)
gCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACATATCAAATAAGAAAAAGGGCGGTCgga < 1:1257676/69‑3 (MQ=255)
gCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACATATCAAATAAGAAAAAGGGCGGTCgga < 1:795937/69‑3 (MQ=255)
gCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACATATCAAATAAGAAAAAGGGCGGTCgga < 1:2778334/69‑3 (MQ=255)
gCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACATATCAAATAAGAAAAAGGGCGGTCgga < 1:1874269/69‑3 (MQ=255)
cGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACATATCAAATAAGAAAAAGGGCGGTCgga < 1:1460281/68‑3 (MQ=255)
cGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAg < 1:3026723/69‑1 (MQ=255)
cGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAg < 1:3269572/69‑1 (MQ=255)
cGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAg < 1:174884/69‑1 (MQ=255)
ggTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACATATCAAATAAGAAAAAGGGCGGTCgga < 1:3118976/67‑3 (MQ=255)
aTTGTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAGATCGccc < 1:757561/68‑1 (MQ=255)
ttGTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCtt < 1:2409325/69‑1 (MQ=255)
ttGTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCtt < 1:2045583/69‑1 (MQ=255)
gTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCttt > 1:2594602/1‑68 (MQ=255)
gTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCttt > 1:1568046/1‑68 (MQ=255)
gTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCttt > 1:3224179/1‑68 (MQ=255)
gTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCttt > 1:1372543/1‑68 (MQ=255)
cTGAAAAACGCGTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACa > 1:25963/1‑69 (MQ=255)
cgTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACAAACACAGAAt < 1:3268941/69‑1 (MQ=255)
aaCACATTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACAAACACAGAATTGcc < 1:2806864/69‑1 (MQ=255)
aaCACATTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACAAACACAGAATTGcc < 1:2568863/69‑1 (MQ=255)
cacaTTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACAAACACAGAATTGCCt < 1:259803/68‑1 (MQ=255)
aTTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACa < 1:2357238/50‑1 (MQ=255)
aTTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACa < 1:1383829/50‑1 (MQ=255)
aTTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACa < 1:849871/50‑1 (MQ=255)
tttAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACa < 1:2833887/49‑1 (MQ=255)
taataa‑AAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTAt > 1:91446/1‑43 (MQ=255)
|
GCAAGCAGATTGAGAAAGAAGCGGTTGAGATTGTTAGCGAAGTTCTGAAAAACGCGTAAACACATTTAATAA‑AAAAAGGGCGGTCGCAAGATCGCCCTTTTTTACGTATGACAAACACAGAATTGCCT > minE/438441‑438568
|
| 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
