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 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,073,671 |
C→T |
24.4% |
G50S (GGC→AGC) |
ydhQ ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,073,671 | 0 | C | T | 24.4%
| 83.3
/ 25.8
| 45 | G50S (GGC→AGC) | ydhQ | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (14/20); new base T (6/5); total (20/25) |
| Fisher's exact test for biased strand distribution p-value = 5.00e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
AGCGTGCCATTGTTACCGTACTGTGTGCATTTGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCTTCAGTA > minE/1073607‑1073735
|
aGCGTGCCATTGTTACCGTACTGTGTGCATTTGGCGATCCCACCGGTTGCCACTTTCAACCAGCTAGccc > 1:2625274/1‑70 (MQ=255)
gCGTGCCATTGTTACCGTACTGTGTGCATTTGGCGATCCCACCGGTTGCCACTTTCAACCAGCTAGcccc < 1:3333390/70‑1 (MQ=255)
gCGTGCCATTGTTACCGTACTGTGTGCATTTGGCGATCCCACCGGTTGCCACTTTCAACCAGCTAGcccc < 1:1677669/70‑1 (MQ=255)
gCGTGCCATTGTTACCGTACTGTGTGCATTTGGCGATCCCACCGGTTGCCACTTTCAACCAGCTAGcccc < 1:670067/70‑1 (MQ=255)
tGTTACCGTACTGTGTGCATTTGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACg > 1:3595290/1‑71 (MQ=255)
gTTACCGTACTGTGTGCATTTGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACgg > 1:3331846/1‑71 (MQ=255)
gTTACCGTACTGTGTGCATTTGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACgg > 1:2833418/1‑71 (MQ=255)
ccGTACTGTGTGCATTTGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCATGGTAtt < 1:2573750/71‑1 (MQ=255)
tgtgCATTTGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGctc > 1:2271957/1‑71 (MQ=255)
tgCATTTGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGctct < 1:2173261/70‑1 (MQ=255)
tttGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGAc < 1:2576868/48‑1 (MQ=255)
tttGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTAtt < 1:1337583/57‑1 (MQ=255)
tttGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTAtt < 1:3829716/57‑1 (MQ=255)
tttGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTAtt < 1:3257521/57‑1 (MQ=255)
tttGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTAtt < 1:2906338/57‑1 (MQ=255)
tttGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGc < 1:2782318/71‑1 (MQ=255)
tGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGa > 1:2351355/1‑45 (MQ=255)
tGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGa > 1:1126862/1‑45 (MQ=255)
tGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGa > 1:2608161/1‑45 (MQ=255)
tGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGa > 1:659245/1‑45 (MQ=255)
tGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTAtttt > 1:2501768/1‑57 (MQ=255)
tGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTAtttt > 1:1432946/1‑57 (MQ=255)
gATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTAtt < 1:2750098/51‑1 (MQ=255)
gATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTAtt < 1:342550/51‑1 (MQ=255)
gATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTAtt < 1:2378052/51‑1 (MQ=255)
gATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTAtt < 1:2289192/51‑1 (MQ=255)
tCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTc > 1:1832922/1‑70 (MQ=255)
cGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTAtt < 1:2284530/43‑1 (MQ=255)
cGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATc < 1:3514359/71‑1 (MQ=255)
cTTTCAACCAGCTAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCt > 1:909830/1‑71 (MQ=255)
cTTTCAACCAGCTAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCt > 1:1363319/1‑71 (MQ=255)
cTTTCAACCAGCTAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCt > 1:565291/1‑71 (MQ=255)
cTTTCAACCAGCTAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCt > 1:3641074/1‑71 (MQ=255)
cTTTCAACCAGCTAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCt > 1:2257858/1‑71 (MQ=255)
cTTTCAACCAGCCAGCCCCCGTGAGCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCt > 1:3440647/1‑71 (MQ=255)
cTTTCAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCt > 1:4102344/1‑71 (MQ=255)
cTTTCAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCt > 1:4085024/1‑71 (MQ=255)
tCAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGctct < 1:712814/40‑1 (MQ=255)
tCAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGctct < 1:2413712/40‑1 (MQ=255)
tCAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGctct < 1:2052061/40‑1 (MQ=255)
tCAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCtt < 1:3332576/69‑1 (MQ=255)
cAACCAGCTAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCtt < 1:1033640/68‑1 (MQ=255)
cAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCtt < 1:3949419/68‑1 (MQ=255)
cAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCtt < 1:3776220/68‑1 (MQ=255)
aCCAGCTAGCCCCCGTGACCACGCTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCTTCAGTa < 1:2557705/71‑1 (MQ=255)
cagctagcCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATc < 1:2493597/54‑1 (MQ=255)
cagctagcCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATc < 1:2799182/54‑1 (MQ=255)
cagctagcCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATc < 1:634307/54‑1 (MQ=255)
cagctagcCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATc < 1:2455946/54‑1 (MQ=255)
cagctagcCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATc < 1:2705264/54‑1 (MQ=255)
cagctagcCCCCGTGACCACGGTATTTACGGCTCTTCCGCCAGCTTCAACAATc < 1:3452078/54‑1 (MQ=255)
|
AGCGTGCCATTGTTACCGTACTGTGTGCATTTGGCGATCCCACCGGTTGCCACTTTCAACCAGCCAGCCCCCGTGACCACGGTATTTTCGGCTCTTCCGCCAGCTTCAACAATCAACTCGCCTTCAGTA > minE/1073607‑1073735
|
| 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
