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 |
2,475,894 |
T→C |
38.6% |
G342G (GGT→GGC) |
pstS → |
phosphate transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,475,894 | 0 | T | C | 38.6%
| 17.5
/ 26.6
| 44 | G342G (GGT→GGC) | pstS | phosphate transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (14/13); new base C (13/4); total (27/17) |
| Fisher's exact test for biased strand distribution p-value = 1.24e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.92e-01 |
TGTAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCATCCGG > minE/2475840‑2475950
|
cgtAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTaat > 1:1847705/2‑66 (MQ=255)
cgtAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACt > 1:1070836/2‑68 (MQ=255)
cgtAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACt > 1:1048603/2‑68 (MQ=255)
cgtAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACt > 1:903891/2‑68 (MQ=255)
cgtAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACt > 1:769023/2‑68 (MQ=255)
cgtAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACt > 1:497106/2‑68 (MQ=255)
cgtAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACt > 1:2846159/2‑68 (MQ=255)
cgtAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACt > 1:2657719/2‑68 (MQ=255)
cgtAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACt > 1:1645933/2‑68 (MQ=255)
cgtAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACt > 1:2640731/2‑68 (MQ=255)
cgtAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACt > 1:2576746/2‑68 (MQ=255)
cgtAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACt > 1:2443059/2‑68 (MQ=255)
cgtAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACt > 1:2327961/2‑68 (MQ=255)
cAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACTAATAAAACTcc < 1:982252/69‑1 (MQ=255)
cAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACTAATAAAACTcc < 1:2411608/69‑1 (MQ=255)
cAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACTAATAAAACTcc < 1:2091154/69‑1 (MQ=255)
aGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGCAAGCCGCTGTACTAATAAAACTcc < 1:570448/68‑1 (MQ=255)
cgcgCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATaaaa < 1:2098308/59‑1 (MQ=255)
cgcgCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATaaaa < 1:869780/59‑1 (MQ=255)
cgcgCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATaaaa < 1:2997036/59‑1 (MQ=255)
cgcgCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATaaaa < 1:297575/59‑1 (MQ=255)
cgcgCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATaaaa < 1:2078442/59‑1 (MQ=255)
cgcgCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATaaaa < 1:2346959/59‑1 (MQ=255)
gAAGACCAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGgtgt > 1:946749/1‑68 (MQ=255)
ccAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACt > 1:2039805/1‑45 (MQ=255)
ccAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTAcg > 1:185087/1‑69 (MQ=255)
ccAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTAcg > 1:1473846/1‑69 (MQ=255)
ccAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTAcg > 1:1353648/1‑69 (MQ=255)
ccAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTAcg > 1:727033/1‑69 (MQ=255)
ccAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTAc > 1:2127817/1‑68 (MQ=255)
atTAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCa < 1:1575876/69‑1 (MQ=255)
atTAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCa < 1:520589/69‑1 (MQ=255)
ttAAAGACAGTAGCGGTAAGCCGCTGTACtaataa > 1:1276337/1‑35 (MQ=255)
ttAAAGACAGTAGCGGTAAGCCGCTGTACtaataa > 1:1429555/1‑35 (MQ=255)
ttAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTATGCCGCAt > 1:859472/1‑69 (MQ=255)
ttAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCAt > 1:1267950/1‑69 (MQ=255)
ttAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCAt > 1:795569/1‑69 (MQ=255)
ttAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCAt > 1:2634133/1‑69 (MQ=255)
gACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCATCCgg < 1:2379422/68‑1 (MQ=255)
gACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCATCCgg < 1:846885/68‑1 (MQ=255)
gACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCATCCgg < 1:24330/68‑1 (MQ=255)
gACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCATCCgg < 1:2701050/68‑1 (MQ=255)
gACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCATCCgg < 1:2546514/68‑1 (MQ=255)
aGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCATCCgg > 1:521334/1‑62 (MQ=255)
tAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCATCCgg < 1:2508910/57‑1 (MQ=255)
|
TGTAGTTGAACAGGTTCGCGCTGCGTGGAAGACCAATATTAAAGACAGTAGCGGTAAGCCGCTGTACTAATAAAACTCCAGGCCGGGTACGGTGTTTTACGCCGCATCCGG > minE/2475840‑2475950
|
| 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
