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 |
|
A6 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,014,818 |
A→G |
7.4% |
H417H (CAT→CAC) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,014,818 | 0 | A | G | 7.4%
| 194.0
/ 5.3
| 67 | H417H (CAT→CAC) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base A (26/36); new base G (3/2); total (29/38) |
| Fisher's exact test for biased strand distribution p-value = 6.45e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGTGAGCAATA > minE/1014761‑1014887
|
aaGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACGCGCGTAGTAGATCGGGTGATCTTTGATGt < 1:2619708/71‑1 (MQ=255)
aaGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGATCGGGTGATCTTTGATg > 1:101962/1‑70 (MQ=255)
aaGTGAACCTGATGGATAACCGGCAGGGGTTTTCGCCGGACCCGCGTAGTAGATCGGGTGATCTTTGATg > 1:3567164/1‑70 (MQ=255)
aaGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGt < 1:1732437/71‑1 (MQ=255)
aaGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGt < 1:113606/71‑1 (MQ=255)
agagAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGt < 1:3653243/70‑1 (MQ=255)
gaACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTg < 1:611043/71‑1 (MQ=255)
gaACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTg > 1:1948386/1‑71 (MQ=255)
aaCCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGc > 1:2491710/1‑71 (MQ=255)
ccGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGt < 1:736646/64‑1 (MQ=255)
gAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTa > 1:584844/1‑62 (MQ=255)
gAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCgg > 1:1275875/1‑68 (MQ=255)
gAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCgg > 1:2820544/1‑68 (MQ=255)
ggCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGcc > 1:1218710/1‑71 (MQ=255)
gCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCttt < 1:1371049/53‑1 (MQ=255)
gCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCttt < 1:1933503/53‑1 (MQ=255)
gCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGccc > 1:323446/1‑71 (MQ=255)
aTAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCtt > 1:1414733/1‑71 (MQ=255)
tAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATg < 1:812547/54‑1 (MQ=255)
aaCCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCt > 1:551355/1‑68 (MQ=255)
aCCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGgatgat > 1:329019/1‑44 (MQ=255)
aCCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTa > 1:993509/1‑54 (MQ=255)
aCCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCtt > 1:1103119/1‑68 (MQ=255)
ttCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCtt < 1:2461649/44‑1 (MQ=255)
ccGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGtt < 1:2773770/70‑1 (MQ=255)
ccGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGtt < 1:2375409/70‑1 (MQ=255)
gCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGc < 1:1796592/53‑1 (MQ=255)
gCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGc < 1:776656/53‑1 (MQ=255)
gCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTat > 1:2638307/1‑69 (MQ=255)
cGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTg < 1:1724404/40‑1 (MQ=255)
cGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTg < 1:2583768/40‑1 (MQ=255)
cGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTg < 1:541624/40‑1 (MQ=255)
cGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTg < 1:1316758/40‑1 (MQ=255)
ttGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGa > 1:367144/1‑37 (MQ=255)
ttGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCg > 1:2329281/1‑71 (MQ=255)
tGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCg < 1:3097906/70‑1 (MQ=255)
tGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCg < 1:2192979/70‑1 (MQ=255)
gCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGctc < 1:1342874/71‑1 (MQ=255)
gCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGctc < 1:1733072/71‑1 (MQ=255)
cGGACCCGCGTAGTAGATCGGGTGATCTTTGATGTACTGCGGAAGTTCTTTACCGGCGTCAATCAGCTCtt < 1:2672719/71‑1 (MQ=255)
cGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTTCAGCAGCCCTTCACCGTTATCCATCCGCTCtt > 1:2900480/1‑71 (MQ=255)
ggACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCttt > 1:1026715/1‑71 (MQ=255)
ggACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCttt > 1:1813195/1‑71 (MQ=255)
ggACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCttt > 1:2808968/1‑71 (MQ=255)
ggACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCttt > 1:139355/1‑71 (MQ=255)
ggACCCGCGTAGTAAATAGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCttt > 1:1368526/1‑71 (MQ=255)
gACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCa > 1:2155113/1‑42 (MQ=255)
cccGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCa > 1:1869584/1‑70 (MQ=255)
ccGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGt < 1:2727957/71‑1 (MQ=255)
ccGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGt < 1:130702/71‑1 (MQ=255)
cgcgTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGtt < 1:1907587/71‑1 (MQ=255)
gcgTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGttt > 1:2412296/1‑71 (MQ=255)
gcgTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGttt < 1:2126898/71‑1 (MQ=255)
cgTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTg < 1:3120526/71‑1 (MQ=255)
gtagtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTc < 1:2240471/64‑1 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTGACCGtt < 1:475581/45‑1 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGtt < 1:1022622/45‑1 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGtt < 1:2298116/45‑1 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGt < 1:3463488/71‑1 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGt < 1:1039109/71‑1 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGt > 1:1711950/1‑71 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGt < 1:2491895/71‑1 (MQ=255)
gtaAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGt < 1:2272110/71‑1 (MQ=255)
aaTCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCg > 1:1540795/1‑40 (MQ=255)
aTCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGTGAGc < 1:3033100/71‑1 (MQ=255)
tCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGTGAGc > 1:613750/1‑70 (MQ=255)
tCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGTGAGCa < 1:3498900/71‑1 (MQ=255)
cGGGTGATCTTTGATGTACTGCGGAAGTTCTTTAcc > 1:2327366/1‑36 (MQ=9)
gatgatCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGTGAGCAata < 1:1651201/71‑1 (MQ=255)
|
AAGAGAACCGGAGGCATAACCTTCCGGCGTTTTGGCCGGACCCGCGTAGTAAATCGGATGATCTTTGATGTACTGCGGCAGCCCTTCACCGTTATCCATCCGCTCTTTCAGTTTGGCGTGAGCAATA > minE/1014761‑1014887
|
| 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
