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 |
566,936 |
T→C |
78.2% |
L271L (CTA→CTG) |
poxB ← |
pyruvate dehydrogenase (pyruvate oxidase), thiamin‑dependent, FAD‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 566,936 | 0 | T | C | 78.2%
| 53.1
/ 9.0
| 41 | L271L (CTA→CTG) | poxB | pyruvate dehydrogenase (pyruvate oxidase), thiamin‑dependent, FAD‑binding |
| Reads supporting (aligned to +/- strand): ref base T (7/2); new base C (8/24); total (15/26) |
| Fisher's exact test for biased strand distribution p-value = 6.46e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.47e-01 |
AATCTGAATGATTTTGGCATCGGTCGGGTAGAAGGCGCGGTAGGGAAATTGCGTGCCGAGTAGCACTAACGTGTCGGCGTTCATCATGGTATGGAAACCTGACGAGAAGCCGATTAACCCGGTCATTCC > minE/566876‑567004
|
aaTCTGAATGATTTTGGCATCGGTCGGGTAGAAGGCGCGGTAGGGAAATTGCGTGCCGAGTAGCACTaa > 1:1111108/1‑69 (MQ=255)
aaTCTGAATGATTTTGGCATCGGTCGGGTAGAAGGCGCGGTAGGGAAATTGCGTGCCGAGTAGCACTaa > 1:838329/1‑69 (MQ=255)
aaTCTGAATGATTTTGGCATCGGTCGGGTAGAAGGCGCGGTAGGGAAATTGCGTGCCGAGTAGCACTaa > 1:1787030/1‑69 (MQ=255)
aaTCTGAATGATTTTGGCATCGGTCGGGTAGAAGGCGCGGTAGGGAAATTGCGTGCCGAGTAGCACTaa > 1:2297283/1‑69 (MQ=255)
cggtcggGTAGAACGCGCGGTAGGGAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATgg > 1:986470/1‑69 (MQ=255)
cggtcggGTAGAACGCGCGGTAGGGAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATgg > 1:720410/1‑69 (MQ=255)
cggtcggGTAGAACGCGCGGTAGGGAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATgg > 1:446939/1‑69 (MQ=255)
cggtcggGTAGAACGCGCGGTAGGGAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATgg > 1:3219690/1‑69 (MQ=255)
cggtcggGTAGAACGCGCGGTAGGGAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATgg > 1:3035766/1‑69 (MQ=255)
cggtcggGTAGAACGCGCGGTAGGGAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATgg > 1:3021591/1‑69 (MQ=255)
cggtcggGTAGAACGCGCGGTAGGGAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATgg > 1:2827293/1‑69 (MQ=255)
cggtcggGTAGAACGCGCGGTAGGGAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATgg > 1:1932861/1‑69 (MQ=255)
tAGAAGGCGCGGTAGGGAAATTGCGTGCCGAGTAGCACTAACGTGTCGGCGTTCATCATGGTATGGaaa < 1:1987816/69‑1 (MQ=255)
aGGGAAATTGCGTGCCGAGTAGCACTAACGTGTCGGCGTTCATCATGCTATGGAAACCTGACGAGAAg > 1:1823821/1‑68 (MQ=255)
gggAAATTGCGTGCCGAGTAGCACTAACGTGTCGGCGTTCATCATGGTATGGAAACCTGACGAGAAGcc > 1:3054387/1‑69 (MQ=255)
gggAAATTGCGTGCCGAGTAGCACTAACGTGTCGGCGTTCATCATGGTATGGAAACCTGACGAGAAGcc > 1:470475/1‑69 (MQ=255)
gAAATTGCGTGCCTAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:3170452/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCTGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:811185/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATTGTATGGAAACCTGACgag < 1:2388992/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGTAAACCTGACgag < 1:777726/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:1322649/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:158949/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:3248004/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:3303434/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:618905/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:3163611/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:1123677/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:857454/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:861180/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:1062042/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:3163586/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:3146839/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:1691910/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:2855362/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:2767341/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:2612634/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:2556271/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:2538240/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACCTGACgag < 1:2204804/62‑1 (MQ=255)
gAAATTGCGTGCCGAGCAGCACTAACGTATCGGCATTCATCATGGTATGGAAACATGACgag < 1:2189757/62‑1 (MQ=255)
ttGCGTGCCGAGTAGCACTAACGTGTCGGCGTTCATCATGGTATGGAAACCTGACGAGAAGCCGATTaa < 1:2716202/69‑1 (MQ=255)
tAGCACTAACGTGTCGGCGTTCATCATGGTATGGAAACCTGACGAGAAGCCGATTAACCCGGTCATTcc < 1:2128776/69‑1 (MQ=255)
tAGCACTAACGTGTCGGCGTTCATCATGGTATGGAAACCTGACGAGAAGCCGATTAACCCGGTCATTcc < 1:1410407/69‑1 (MQ=255)
tAGCACTAACGTGTCGGCGTTCATCATGGTATGGAAACCTGACGAGAAGCCGATTAACCCGGTCATTcc < 1:654316/69‑1 (MQ=255)
tAGCACTAACGTGTCGGCGTTCATCATGGTATGGAAACCTGACGAGAAGCCGATTAACCCGGTCATTcc < 1:688510/69‑1 (MQ=255)
|
AATCTGAATGATTTTGGCATCGGTCGGGTAGAAGGCGCGGTAGGGAAATTGCGTGCCGAGTAGCACTAACGTGTCGGCGTTCATCATGGTATGGAAACCTGACGAGAAGCCGATTAACCCGGTCATTCC > minE/566876‑567004
|
| 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
