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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,724,748 |
T→C |
26.8% |
V305A (GTC→GCC) |
ydhK → |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,724,748 | 0 | T | C | 26.8%
| 62.8
/ 26.9
| 41 | V305A (GTC→GCC) | ydhK | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base T (17/13); new base C (5/6); total (22/19) |
| Fisher's exact test for biased strand distribution p-value = 7.25e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGTTCGCAAACAGATGTTTACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTGCCGCCTTTATCTGCAAAGTAGT > W3110S.gb/1724686‑1724818
|
cAGTTCGCAAACAGATGTTTACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGCCGCCGACt < 1:1628882/71‑1 (MQ=255)
cAGTTCGCAAACAGATGTTTACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGCCGCCGACt < 1:4985565/71‑1 (MQ=255)
aGTTCGCAAACAGATGTTTACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGTCGCCGACTa < 1:824971/71‑1 (MQ=255)
tCGCAAACAGATGTTTACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGTCGCCGACTAt > 1:4427037/1‑69 (MQ=255)
tCGCAAACAGATGTTTACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGCCGCCGACTATCg > 1:748814/1‑71 (MQ=255)
cAAACAGATGTTTACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAAcgccgc > 1:4464669/1‑59 (MQ=255)
cAAACAGATGTTTACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAAcgccgc > 1:256931/1‑59 (MQ=255)
cAAACAGATGTTTACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAAcgccgc > 1:250801/1‑59 (MQ=255)
aaaCAGATGTTTACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCAc < 1:3546296/71‑1 (MQ=255)
aCAGATGTTTACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGt > 1:1323931/1‑71 (MQ=255)
gTTTACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCtt > 1:5098088/1‑71 (MQ=255)
ttACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCt < 1:1885869/68‑1 (MQ=255)
ttACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCt < 1:3736853/68‑1 (MQ=255)
tACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGCCGCCGACTATCGGCACGTCGCCTTCTg > 1:2345969/1‑71 (MQ=255)
cGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGc < 1:3226147/71‑1 (MQ=255)
cGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGc < 1:2155287/71‑1 (MQ=255)
gCACGTATTATCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGAc > 1:5001419/1‑70 (MQ=255)
tattatCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGt > 1:1099309/1‑70 (MQ=255)
attatCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTa > 1:397323/1‑71 (MQ=255)
attatCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTa > 1:4492415/1‑71 (MQ=255)
ttatCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTa < 1:3251137/70‑1 (MQ=255)
ttatCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTAt < 1:3201870/71‑1 (MQ=255)
ttatCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTAt < 1:3665747/71‑1 (MQ=255)
ttatCGCCCCGCTACGCCCGACCAACGCCGCCGACTATCgg < 1:2907746/41‑1 (MQ=255)
ttatCGCCCCGCTACGCCCGACCAACGCCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTAt > 1:2356172/1‑71 (MQ=255)
atCGCCCCGCTGCGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTAttt > 1:3738196/1‑71 (MQ=255)
atCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTAttt > 1:886915/1‑71 (MQ=255)
atCGCCCCGCTACGCCCGACCAACGCCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTAttt > 1:3126299/1‑71 (MQ=255)
tCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTAtttt < 1:288772/71‑1 (MQ=255)
gCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGCCTACGTTAttttt < 1:5013714/70‑1 (MQ=255)
gCCCCGCTACGCCCGACCAACGCCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTAttttt < 1:634363/70‑1 (MQ=255)
gCCCCGCTACGCCCGACCAACGCCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTAttttt < 1:2405494/70‑1 (MQ=255)
ccGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTgcc > 1:3118554/1‑70 (MQ=255)
cGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGa > 1:1426729/1‑53 (MQ=255)
aCGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTGCCGCCtt > 1:10999/1‑70 (MQ=255)
aCGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTGCCGCCtt > 1:2764212/1‑70 (MQ=255)
cGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTGCCGCCttt < 1:4955413/70‑1 (MQ=255)
cccGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTGCCGCCTTTATc < 1:3193417/71‑1 (MQ=255)
gACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTgc > 1:52292/1‑58 (MQ=255)
aCCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTGCCGCCTTTATCTGc > 1:4325007/1‑70 (MQ=255)
ccAACGCCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTg > 1:4521006/1‑55 (MQ=255)
aaCGCCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTGCCGCCTTTATCTGCAAag < 1:2135074/71‑1 (MQ=255)
aCGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTgcc > 1:4241372/1‑54 (MQ=255)
aCGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTGCCGCCTTTATc > 1:2686055/1‑63 (MQ=255)
tCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTGCCGCCTTTATCTGCa < 1:2617967/64‑1 (MQ=255)
tCGCCGACTATCGGCACGTCGCCTTCTGGCAGCAACTACGTTATTTTTGCCGCCTTTATCTGCAAagtagt > 1:2190085/1‑71 (MQ=255)
|
CAGTTCGCAAACAGATGTTTACACCGTCGCACGTATTATCGCCCCGCTACGCCCGACCAACGTCGCCGACTATCGGCACGTCGCCTTCTGGCAGCGACTACGTTATTTTTGCCGCCTTTATCTGCAAAGTAGT > W3110S.gb/1724686‑1724818
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
