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 |
1,517,661 |
A→C |
42.9% |
G178G (GGT→GGG) |
folC ← |
bifunctional folylpolyglutamate synthase and dihydrofolate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,517,661 | 0 | A | C | 42.9%
| 10.9
/ 74.2
| 70 | G178G (GGT→GGG) | folC | bifunctional folylpolyglutamate synthase and dihydrofolate synthase |
| Reads supporting (aligned to +/- strand): ref base A (10/30); new base C (27/3); total (37/33) |
| Fisher's exact test for biased strand distribution p-value = 4.08e-08 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.03e-01 |
CAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATCGGCGTCGACAA > minE/1517597‑1517722
|
cAATTGCCGGTTTTTCGCTGCGAAAGATACCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGCCcca < 1:1383689/69‑1 (MQ=255)
cAATTGCCGGTTTTTCGCTGCGAAAGATACCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGCCcca < 1:3204737/69‑1 (MQ=255)
cAATTGCCGGTTTTTCGCTGCGAAAGATACCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGCCcca < 1:739248/69‑1 (MQ=255)
gTTTTTCGCTGCGGTAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCgg < 1:1387789/69‑1 (MQ=255)
gTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCgg < 1:3001886/69‑1 (MQ=255)
gTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCgg < 1:2080945/69‑1 (MQ=255)
gTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCgg < 1:2220418/69‑1 (MQ=255)
gTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCgg < 1:2447068/69‑1 (MQ=255)
gTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCgg < 1:2883466/69‑1 (MQ=255)
gTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCgg < 1:1618575/69‑1 (MQ=255)
gTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCgg < 1:593902/69‑1 (MQ=255)
gTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCgg < 1:1551327/69‑1 (MQ=255)
gTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCgg < 1:679775/69‑1 (MQ=255)
gTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCgg < 1:680834/69‑1 (MQ=255)
gTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCgg < 1:877926/69‑1 (MQ=255)
gTTTTTCGCTGCGGAAGATGCATGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCgg < 1:1899391/69‑1 (MQ=255)
aaGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAgcgaa < 1:2740467/69‑3 (MQ=255)
aGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCATTCGGTATGATCCAGCGCaa < 1:1546370/69‑1 (MQ=255)
aGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCaa < 1:2559700/69‑1 (MQ=255)
aGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCaa < 1:936460/69‑1 (MQ=255)
aGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCaa < 1:2724197/69‑1 (MQ=255)
aGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCaa < 1:255258/69‑1 (MQ=255)
aGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCaa < 1:2549084/69‑1 (MQ=255)
aGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCaa < 1:2529804/69‑1 (MQ=255)
aGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCaa < 1:752175/69‑1 (MQ=255)
aGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCaa < 1:1981374/69‑1 (MQ=255)
aGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCaa < 1:1484902/69‑1 (MQ=255)
gATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAAt > 1:2018014/1‑69 (MQ=255)
gATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAAt > 1:863808/1‑69 (MQ=255)
gATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAAt > 1:625475/1‑69 (MQ=255)
gATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAAt > 1:3215438/1‑69 (MQ=255)
gATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAAt > 1:1686984/1‑69 (MQ=255)
gATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAAt > 1:1827224/1‑69 (MQ=255)
tGCTTTCTCGCGACCAATACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGt > 1:2989444/1‑69 (MQ=255)
tGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAATACTgg > 1:3023687/1‑68 (MQ=255)
tGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAATACTGGt > 1:1594387/1‑69 (MQ=255)
tGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAATACTGGt > 1:2596705/1‑69 (MQ=255)
tGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAATACTGGt > 1:980727/1‑69 (MQ=255)
ttCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATg < 1:261384/47‑1 (MQ=255)
ttCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTtac < 1:1415302/68‑1 (MQ=255)
ttCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTtac < 1:1621928/68‑1 (MQ=255)
tcGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTtactac < 1:1886334/68‑1 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCTCAATACTGGTTACTACCGCGACATc > 1:2511531/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATAc > 1:1941898/1‑49 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATAc > 1:2033952/1‑49 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACAt > 1:1939426/1‑67 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:853237/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:2214140/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:828071/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:1452718/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:1388487/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:2377907/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:1511991/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:1524887/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:660863/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:985904/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:3385844/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:471089/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:3424142/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:3338583/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:1594877/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:3142613/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:1926984/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:269594/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:2664435/1‑68 (MQ=255)
aTACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:2589828/1‑68 (MQ=255)
aTACTATCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATc > 1:2682472/1‑68 (MQ=255)
tACTTTCGCGATCTGGCCCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATCgg > 1:1305285/1‑69 (MQ=255)
gATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATCGGCGTCGACaa < 1:85657/69‑1 (MQ=255)
gATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATCGGCGTCGACaa < 1:171761/69‑1 (MQ=255)
|
CAATTGCCGGTTTTTCGCTGCGGAAGATGCCTGCTTTCTCGCGACCAATACTTTCGCGATCTGGACCCAGCCAGTCGGTATGATCCAGCGCAATACTGGTTACTACCGCGACATCGGCGTCGACAA > minE/1517597‑1517722
|
| 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
