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 |
1,612,205 |
G→A |
84.1% |
G316G (GGC→GGT) |
eutA ← |
reactivating factor for ethanolamine ammonia lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,612,205 | 0 | G | A | 84.1%
| 90.4
/ 7.4
| 56 | G316G (GGC→GGT) | eutA | reactivating factor for ethanolamine ammonia lyase |
| Reads supporting (aligned to +/- strand): ref base G (7/2); new base A (31/16); total (38/18) |
| Fisher's exact test for biased strand distribution p-value = 7.03e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
CGGCAGTTGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTGGCGCGCACGGTTTGCGCCGGAAACTGTACGTTCATCTCACGCAGGCGCG > minE/1612148‑1612272
|
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 > 1:102936/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:998095/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:866840/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:3334848/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:3152731/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:313294/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:1878216/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:1849652/1‑69 (MQ=255)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAAt > 1:1774492/1‑69 (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)
cGGCAGTTGTACGCCCTCCAGCCAGATTGTGCTGCCAGAGAGCGAAA‑GGTATGAGCACCCGCGCCAATc > 1:1583815/1‑69 (MQ=255)
cAGTTGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCAc < 1:3023099/69‑1 (MQ=255)
aGTTGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCAc < 1:2871924/68‑1 (MQ=255)
gTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTgg > 1:3017057/1‑69 (MQ=255)
gTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTgg > 1:764178/1‑69 (MQ=255)
gTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTgg > 1:1602923/1‑69 (MQ=255)
gTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTgg > 1:2911726/1‑69 (MQ=255)
gTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTgg > 1:1398582/1‑69 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGagcacc > 1:2556952/1‑47 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATc > 1:1813478/1‑57 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTgg > 1:610329/1‑64 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:784915/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:1758738/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:307398/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:403387/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:2656726/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:2733493/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:425035/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:3028572/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:293919/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:404915/1‑65 (MQ=255)
cccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGgc > 1:3176119/1‑65 (MQ=255)
ccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCa < 1:1206676/69‑1 (MQ=255)
ccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCa < 1:2138397/69‑1 (MQ=255)
ccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCa < 1:1368181/69‑1 (MQ=255)
ccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCa < 1:2479775/69‑1 (MQ=255)
ccTCCAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCa < 1:863950/69‑1 (MQ=255)
ccaGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCACgg < 1:579800/67‑1 (MQ=255)
ccaGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCACgg < 1:346073/67‑1 (MQ=255)
ccaGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCACgg < 1:1666298/67‑1 (MQ=255)
ccaGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCACgg < 1:3182869/67‑1 (MQ=255)
ccaGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCACgg < 1:1109757/67‑1 (MQ=255)
ccaGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCACgg < 1:1399003/67‑1 (MQ=255)
ccaGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCACgg < 1:1281533/67‑1 (MQ=255)
ccaGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCACgg < 1:1887369/67‑1 (MQ=255)
ccaGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCACgg < 1:3182068/67‑1 (MQ=255)
ccaGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCACgg < 1:2232249/67‑1 (MQ=255)
ccaGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGAGCACCCGCGCCAATCACCGTGGCGCGCACgg < 1:2405097/67‑1 (MQ=255)
gTATGCGCGCCCGCGCCAATCACCGTGGCGCGCACGGTTTGCGCCGGAAACTGTACGTTCATCTCACGc > 1:1975564/1‑69 (MQ=255)
gTATGCGCGCCCGCGCCAATCACCGTGGCGCGCACGGTTTGCGCCGGAAACTGTACGTTCATCTCACGc > 1:88357/1‑69 (MQ=255)
cgcgcccgcgccAATCACCGTGGCGCGCACGGTTTGCGCCGGAAACTGTACGTTCATCTCACGCAGgcg > 1:2506186/1‑69 (MQ=255)
cgcgcccgcgccAATCACCGTGGCGCGCACGGTTTGCGCCGGAAACTGTACGTTCATCTCACGCAGgcg > 1:1045077/1‑69 (MQ=255)
cgcgcccgcgccAATCACCGTGGCGCGCACGGTTTGCGCCGGAAACTGTACGTTCATCTCACGCAGgcg > 1:77917/1‑69 (MQ=255)
cgcgcccgcgccAATCACCGTGGCGCGCACGGTTTGCGCCGGAAACTGTACGTTCATCTCACGCAGgcg > 1:2498585/1‑69 (MQ=255)
cgcgcccgcgccAATCACCGTGGCGCGCACGGTTTGCGCCGGAAACTGTACGTTCATCTCACGCAGgcg > 1:3382777/1‑69 (MQ=255)
cgcgcccgcgccAATCACCGTGGCGCGCACGGTTTGCGACGGAAACTGTACGTTCATCTCACGCAGgcg > 1:1103679/1‑69 (MQ=255)
cgcccgcgccAATCACCGTGGCGCGCACGGTTTGCGCCGGAAACTGTACGTTCATCTCACGCAGGcgcg < 1:1081036/69‑1 (MQ=255)
gcccgcgccAATCACCGTGGCGCGCACGGTTTGCGCCGGAAACTGTACGTTCATCTCACGCAGGcgcg < 1:2980047/68‑1 (MQ=255)
|
CGGCAGTTGTACGCCCTCAAGCCAGATTGTGCTGCCAGAGAGCGAAAGGGTATGCGCGCCCGCGCCAATCACCGTGGCGCGCACGGTTTGCGCCGGAAACTGTACGTTCATCTCACGCAGGCGCG > minE/1612148‑1612272
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
