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 |
1,971,856 |
G→A |
20.7% |
N350N (AAC→AAT) |
speA ← |
biosynthetic arginine decarboxylase, PLP‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,971,856 | 0 | G | A | 20.7%
| 104.2
/ 17.1
| 72 | N350N (AAC→AAT) | speA | biosynthetic arginine decarboxylase, PLP‑binding |
| Reads supporting (aligned to +/- strand): ref base G (38/19); new base A (2/13); total (40/32) |
| Fisher's exact test for biased strand distribution p-value = 2.86e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.69e-01 |
AGCACGGTGTGATGCGCAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGTATTCATTGAGGCCGTAGTT > minE/1971791‑1971921
|
aGCACGGTGTGATGCGCAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGttt > 1:2876539/1‑69 (MQ=255)
gtgATGCGCAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTctca < 1:1465710/69‑1 (MQ=255)
gtgATGCGCAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTcaca < 1:102579/69‑1 (MQ=255)
gtgATGCGCAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTcaca < 1:533952/69‑1 (MQ=255)
gtgATGCGCAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTcaca < 1:2165122/69‑1 (MQ=255)
gtgATGCGCAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTcaca < 1:1431266/69‑1 (MQ=255)
gtgATGCGCAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTcaca < 1:1426949/69‑1 (MQ=255)
tgATGCGCAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTcaca < 1:2892257/68‑1 (MQ=255)
aTGCGCAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGc > 1:1343666/1‑69 (MQ=255)
aTGCGCAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGc > 1:731/1‑69 (MQ=255)
aTGCGCAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGc > 1:489539/1‑69 (MQ=255)
cgcAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACGCGCATc > 1:1004015/1‑69 (MQ=255)
cgcAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATc > 1:2072249/1‑69 (MQ=255)
cgcAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATc > 1:2006646/1‑69 (MQ=255)
gTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCa < 1:1427251/69‑1 (MQ=255)
tCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCa < 1:2918839/68‑1 (MQ=255)
acagCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATc > 1:2234186/4‑69 (MQ=255)
aCCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACCCGCATCGCCAAt > 1:2003347/1‑68 (MQ=255)
aCCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATc > 1:741371/1‑69 (MQ=255)
aCCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATc > 1:377413/1‑69 (MQ=255)
aCCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATc > 1:2641252/1‑69 (MQ=255)
aCCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATc > 1:3281380/1‑69 (MQ=255)
aCCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATc > 1:96170/1‑69 (MQ=255)
aCCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATc > 1:2829949/1‑69 (MQ=255)
aCCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATc > 1:3239238/1‑69 (MQ=255)
aCCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATc > 1:1515087/1‑69 (MQ=255)
aCCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATc > 1:3224101/1‑69 (MQ=255)
cGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATc > 1:1873272/1‑67 (MQ=255)
cGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCg > 1:2819737/1‑68 (MQ=255)
cGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCg > 1:2417785/1‑68 (MQ=255)
cGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCg > 1:2627913/1‑68 (MQ=255)
cGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCg > 1:2500588/1‑68 (MQ=255)
cGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCg > 1:2491250/1‑68 (MQ=255)
cGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCg > 1:798861/1‑68 (MQ=255)
cGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCg > 1:2165584/1‑68 (MQ=255)
cGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCg > 1:1452869/1‑68 (MQ=255)
cGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCg > 1:1760512/1‑68 (MQ=255)
cGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCg > 1:1760810/1‑68 (MQ=255)
cGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTGTTCTTCACACGCATCGCCAATc > 1:2533810/1‑67 (MQ=255)
aCCCGATTCGGTGATTACCGTCGGATGCGGTAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGAt < 1:1122073/69‑1 (MQ=255)
aCCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGAt < 1:738248/69‑1 (MQ=255)
aCCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGAt < 1:1051191/69‑1 (MQ=255)
aCCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGAt < 1:3266813/69‑1 (MQ=255)
aCCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGAt < 1:3001552/69‑1 (MQ=255)
aCCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGAt < 1:773605/69‑1 (MQ=255)
aCCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGAt < 1:2399743/69‑1 (MQ=255)
aCCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGAt < 1:2403925/69‑1 (MQ=255)
aCCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCAAACGCATCGCCAATCGCCCAGAt < 1:3364/69‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2828910/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2128698/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:1681679/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2947501/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2988097/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:275733/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2720676/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:3168578/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:1075123/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2542734/68‑1 (MQ=255)
agATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:361707/68‑1 (MQ=255)
gATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:982124/68‑1 (MQ=255)
gATTCGGTGATTACCGTCGGATGTGGCAGACCATTTTCTTCACACGCATCACCAATCGCCCAgatgat < 1:2637126/68‑1 (MQ=255)
tCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAAtgttg > 1:1436253/1‑69 (MQ=255)
tCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAAtgtt > 1:3333425/1‑68 (MQ=255)
tACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCg > 1:1304559/1‑67 (MQ=255)
tACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGt > 1:3109256/1‑68 (MQ=255)
tACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGt > 1:257588/1‑68 (MQ=255)
tACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGt > 1:190338/1‑68 (MQ=255)
tACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGt > 1:1391267/1‑68 (MQ=255)
tACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGTa > 1:2424084/1‑69 (MQ=255)
ggCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGTAtt < 1:3362527/58‑1 (MQ=255)
aCCATTTTCTTCACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGtt > 1:1743462/1‑69 (MQ=255)
aCCATTTTCTTCACACGCATCACCAATCGCCCAGATGATGTTGTTGGCGTATTCATTGAGGCCGTAGtt > 1:840556/1‑69 (MQ=255)
|
AGCACGGTGTGATGCGCAGTCACCGCACGACCCGATTCGGTGATTACCGTCGGATGCGGCAGACCGTTTTCTTCACACGCATCGCCAATCGCCCAGATAATGTTGTTGGCGTATTCATTGAGGCCGTAGTT > minE/1971791‑1971921
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
