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 |
1,612,166 |
A→C |
57.0% |
L329L (CTT→CTG) |
eutA ← |
reactivating factor for ethanolamine ammonia lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,612,166 | 0 | A | C | 57.0%
| 34.0
/ 55.9
| 65 | L329L (CTT→CTG) | eutA | reactivating factor for ethanolamine ammonia lyase |
| Reads supporting (aligned to +/- strand): ref base A (26/2); new base C (32/5); total (58/7) |
| Fisher's exact test for biased strand distribution p-value = 6.89e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01 |
CCGTTTCATCAATCGGGATCGCCACCGGCAAATTGCGCAGCGGCAGTTGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTGGCGCGCA > minE/1612108‑1612230
|
ccGTTTCATCAATCGGGATCGCCACCGGCAAATTGCGCAGCGGCAGTTGTACGCCCTCAAGCCAGATtg > 1:591625/1‑69 (MQ=255)
ccGTTTCATCAATCGGGATCGCCACCGGCAAATTGCGCAGCGGCAGTTGTACGCCCTCAAGCCAGATtg > 1:531204/1‑69 (MQ=255)
ccGTTTCATAAATCGGGATCGCCACCGGCAAATTGCGCAGCGGCAGTTGTACGCCCTCAAGCCAGATtg > 1:2625591/1‑69 (MQ=255)
caATCGGGATCGCCACCGGCAAATTGCGCAGCGGCAGTTGTACGCCCTCAAGCCAGATTGtgctgc > 1:1489821/1‑66 (MQ=255)
caATCGGGATCGCCACCGGCAAATTGCGCAGCGGCAGTTGTACGCCCTCAAGCCAGATTGtgctgc > 1:2241363/1‑66 (MQ=255)
caATCGGGATCGCCACCGGCAAATTGCGCAGCGGCAGTTGTACGCCCTCAAGCCAGATTGtgctgc > 1:188545/1‑66 (MQ=255)
caATCGGGATCGCCACCGGCAAATTGCGCAGCGGCAGTTGTACGCCCTCAAGCCAGATTGtgctgc > 1:1920795/1‑66 (MQ=255)
gCGGCAGTTGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAggg > 1:152056/1‑51 (MQ=255)
gCGGCAGTTGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAggg > 1:922416/1‑51 (MQ=255)
gCGGCAGTTGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAggg > 1:2488898/1‑51 (MQ=255)
gCGGCAGTTGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAggg > 1:2434346/1‑51 (MQ=255)
gCGGCAGTTGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAggg > 1:2023468/1‑51 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGATAGGGTATGAGCACCCGCGCCaa > 1:3105535/1‑68 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCaa > 1:327672/1‑68 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCaa > 1:218769/1‑68 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCaa > 1:1852602/1‑68 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:313294/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:102936/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:3152731/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:3334848/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:866840/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:998095/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:1703795/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:1000425/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:1186498/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:1300854/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:1774492/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:1878216/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:1849652/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAA‑GGTATGAGCACCCGCGCCAATc > 1:1583815/1‑69 (MQ=255)
cAGTTGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCAc < 1:3023099/69‑1 (MQ=255)
aGTTGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCAc < 1:2871924/68‑1 (MQ=255)
tGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAggg > 1:3160942/1‑43 (MQ=255)
tGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAggg > 1:2864271/1‑43 (MQ=255)
tGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAggg > 1:45151/1‑43 (MQ=255)
tGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAggg > 1:1948440/1‑43 (MQ=255)
tGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAggg > 1:430853/1‑43 (MQ=255)
tGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAggg > 1:3344259/1‑43 (MQ=255)
tGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAggg > 1:30788/1‑43 (MQ=255)
tGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAggg > 1:3102812/1‑43 (MQ=255)
tGTACGCCCTCAAGCCAAATTGTGCTGCCAGAGAGCGAAAggg > 1:1247307/1‑43 (MQ=255)
gTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTgg > 1:1398582/1‑69 (MQ=255)
gTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTgg > 1:1602923/1‑69 (MQ=255)
gTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTgg > 1:3017057/1‑69 (MQ=255)
gTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTgg > 1:2911726/1‑69 (MQ=255)
gTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTgg > 1:764178/1‑69 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGagcacc > 1:2556952/1‑47 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATc > 1:1813478/1‑57 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTgg > 1:610329/1‑64 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:3176119/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:307398/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:403387/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:404915/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:425035/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:3028572/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:293919/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:2733493/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:2656726/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:1758738/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:784915/1‑65 (MQ=255)
ccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCa < 1:2138397/69‑1 (MQ=255)
ccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCa < 1:2479775/69‑1 (MQ=255)
ccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCa < 1:1206676/69‑1 (MQ=255)
ccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCa < 1:863950/69‑1 (MQ=255)
ccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCa < 1:1368181/69‑1 (MQ=255)
|
CCGTTTCATCAATCGGGATCGCCACCGGCAAATTGCGCAGCGGCAGTTGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTGGCGCGCA > minE/1612108‑1612230
|
| 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
