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 |
1,225,125 |
C→T |
63.2% |
F329F (TTC→TTT) |
yebU → |
predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,225,125 | 0 | C | T | 63.2%
| 18.3
/ 20.8
| 38 | F329F (TTC→TTT) | yebU | predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (7/7); new base T (11/13); total (18/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCCGCCTTACCCGCCCCCAAATACAAAGTCGGTAATTTTCCGTTCAGCCCGGTGAAAGATCGCGAAGCTGGACAAATTCGTCAGGCGGCTACAGGTGTTGG > minE/1225081‑1225181
|
cccGCCTTACCCGCCCCCAAATACAAAGTCGGTAATTTTCCGTTCAGCCCGGTGAAAGATCGCGAAGc > 1:2643875/1‑68 (MQ=255)
cccGCCTTACCCGCCCCCAAATACAAAGTCGGTAATTTTCCGTTCAGCCCGGTGAAAGATCGCGAAGc > 1:3302868/1‑68 (MQ=255)
cccGCGCCCAAATACAAAGTCGGTAATTTTCCGTTCAGccc < 1:1566297/41‑1 (MQ=255)
cccaAAATACAAAGTGGGCAATTTCCCGTTTAGCCCGGTTAAAGATCGCGAAGCCGGTCAAATTCGTCa < 1:1433232/69‑1 (MQ=255)
cccaAAATACAAAGTGGGCAATTTCCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCa < 1:367174/69‑1 (MQ=255)
cccaAAATACAAAGTGGGCAATTTCCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCa < 1:2892243/69‑1 (MQ=255)
cccaAAATACAAAGTGGGCAATTTCCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCa < 1:2877694/69‑1 (MQ=255)
cccaAAATACAAAGTGGGCAATTTCCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCa < 1:280742/69‑1 (MQ=255)
cccaAAATACAAAGTGGGCAATTTCCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCa < 1:2718581/69‑1 (MQ=255)
cccaAAATACAAAGTGGGCAATTTCCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCa < 1:2915736/69‑1 (MQ=255)
cccaAAATACAAAGTGGGCAATTTCCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCa < 1:2574778/69‑1 (MQ=255)
cccaAAATACAAAGTGGGCAATTTCCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCa < 1:2290201/69‑1 (MQ=255)
cccaAAATACAAAGTGGGCAATTTCCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCa < 1:374922/69‑1 (MQ=255)
cccaAAATACAAAGTGGGCAATTTCCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCa < 1:1405204/69‑1 (MQ=255)
cccaAAATACAAAGTGGGCAATTTCCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCa < 1:1326113/69‑1 (MQ=255)
cccaAAATACAAAGTGGGCAATTTCCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCa < 1:1210863/69‑1 (MQ=255)
aaGTCGGTAATTTTCCGTTCAGCCCGGTGAAAGATCGCGAAGCTGGACAAATTCGTCAGGCGGCTACa < 1:2521756/68‑1 (MQ=255)
aaGTCGGTAATTTTCCGTTCAGCCCGGTGAAAGATCGCGAAGCTGGACAAATTCGTCAGGCGGCTACa < 1:28168/68‑1 (MQ=255)
gTCGGTAATTTTCCGTTCAGCCCGGTGAAAGATCGCGAAGCTGGACAAATTCGTCAGGCGGCTACAGgt < 1:660482/69‑1 (MQ=255)
tCGGTAATTTTCCGTTCAGCCCTGTGAAAGATCGCGAAGCTGGACAAATTCGTCAGGCGGCTACAGgtg < 1:1165110/69‑1 (MQ=255)
tCGGTAATTTTCCGTTCAGCCCGGTGAAAGATCGCGAAGCTGGACAAATTCGTCAGGCGGCTACAGgtg < 1:1915852/69‑1 (MQ=255)
tCGGTAATTTTCCGTTCAGCCCGGTGAAAGATCGCGAAGCTGGACAAATTCGTCAGGCGGCTACAGgtg < 1:2592483/69‑1 (MQ=255)
aaTTTTCCGTTCAGCCCGGTGAAAGAACGCGAAGCTGGACAAATTCGTCAGGCGGCTACAGGTGTTgg > 1:1071348/1‑68 (MQ=255)
aaTTTTCCGTTCAGCCCGGTGAAAGAACGCGAAGCTGGACAAATTCGTCAGGCGGCTACAGGTGTTgg > 1:3209771/1‑68 (MQ=255)
aaTTTTCCGTTCAGCCCGGTGAAAGAACGCGAAGCTGGACAAATTCGTCAGGCGGCTACAGGTGTTgg > 1:791233/1‑68 (MQ=255)
aaTTTTCCGTTCAGCCCGGTGAAAGAACGCGAAGCTGGACAAATTCGTCAGGCGGCTACAGGTGTTgg > 1:2437888/1‑68 (MQ=255)
aaTATTCCGTTCAGCCAGGTGAAAGAACGCGAAGCTGGACAAATTCGTCAGGCGGCTAAAGGTGTTgg > 1:1638171/1‑68 (MQ=255)
tttcCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCAGGCGGCTGCAAGTGTTg > 1:264233/1‑65 (MQ=255)
tttcCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCAGGCGGCTGCAAGTGTTg > 1:2546941/1‑65 (MQ=255)
tttcCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCAGGCGGCTGCAAGTGTTg > 1:3419487/1‑65 (MQ=255)
tttcCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCAGGCGGCTGCAAGTGTTg > 1:2309988/1‑65 (MQ=255)
tttcCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCAGGCGGCTGCAAGTGTTg > 1:2067294/1‑65 (MQ=255)
tttcCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCAGGCGGCTGCAAGTGTTg > 1:744287/1‑65 (MQ=255)
tttcCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCAGGCGGCTGCAAGTGTTg > 1:102977/1‑65 (MQ=255)
tttcCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCAGGCGGCTGCAAGTGTTg > 1:840729/1‑65 (MQ=255)
tttcCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCAGGCGGCTGCAAGTGTTg > 1:878697/1‑65 (MQ=255)
tttcCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCAGGCGGCTGCAAGTGTTg > 1:913334/1‑65 (MQ=255)
tttcCCGTTTAGCCCGGTGAAAGATCGCGAAGCCGGTCAAATTCGTCAGGCGGCTGCAAGTGTTg > 1:985518/1‑65 (MQ=255)
|
CCCGCCTTACCCGCCCCCAAATACAAAGTCGGTAATTTTCCGTTCAGCCCGGTGAAAGATCGCGAAGCTGGACAAATTCGTCAGGCGGCTACAGGTGTTGG > minE/1225081‑1225181
|
| 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
