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 |
2,296,088 |
C→T |
48.0% |
E661E (GAG→GAA) |
katG ← |
catalase/hydroperoxidase HPI(I) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,296,088 | 0 | C | T | 48.0%
| 3.8
/ 66.2
| 77 | E661E (GAG→GAA) | katG | catalase/hydroperoxidase HPI(I) |
| Reads supporting (aligned to +/- strand): ref base C (16/24); new base T (19/18); total (35/42) |
| Fisher's exact test for biased strand distribution p-value = 3.65e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.95e-02 |
GGCTGGCCGTAAATTTCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGT > minE/2296036‑2296149
|
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:243021/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:2844590/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:185885/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:347096/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:1758063/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:2357155/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:1669907/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:3366343/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:2403989/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:1394125/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:748161/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:748327/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:2491526/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:25868/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:2682495/69‑1 (MQ=255)
ggctggctGTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTCCGATTCgtcgg < 1:1453774/69‑1 (MQ=255)
agctggctgTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:1851481/68‑1 (MQ=255)
gctggctgTGTATTTCACTTCGCCAGTTTCGCGGTCACGGCCTTCGAACAGTTCTTTCGATTCgtcgg < 1:500323/68‑1 (MQ=255)
gTAAATTTCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTc < 1:2455323/69‑1 (MQ=255)
gTAAATTTCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTc < 1:841872/69‑1 (MQ=255)
aaaTTTCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCa < 1:3193976/69‑1 (MQ=255)
aaTTTCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCAc > 1:2905066/1‑69 (MQ=255)
aaTTTCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCAc > 1:2685723/1‑69 (MQ=255)
aaTTTCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCAc > 1:2882285/1‑69 (MQ=255)
aaTTTCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCAc > 1:1703803/1‑69 (MQ=255)
aaTTTCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCAc > 1:1577549/1‑69 (MQ=255)
aaTTTCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCAc > 1:649113/1‑69 (MQ=255)
aaTTTCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCAc > 1:699056/1‑69 (MQ=255)
aaTTTCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCAc > 1:1343683/1‑69 (MQ=255)
aaTATCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTc > 1:2836257/1‑66 (MQ=255)
ttCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACg < 1:1145158/69‑1 (MQ=255)
ttCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACg < 1:3034661/69‑1 (MQ=255)
ttCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACg < 1:903574/69‑1 (MQ=255)
ccGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCa < 1:501727/67‑1 (MQ=255)
ccGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCa < 1:280381/67‑1 (MQ=255)
ccGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCa < 1:2979934/67‑1 (MQ=255)
ttCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCa > 1:2683138/1‑68 (MQ=255)
ttCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCa > 1:2686994/1‑68 (MQ=255)
tcgcggtcacggCCTTCGACCAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTATCTCATATCCa > 1:1313494/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACTCATATGCa > 1:447977/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACTCATATCCa > 1:2163641/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACTCATATCCa > 1:3180481/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACTCATATCCa > 1:2528658/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACTCATATCCa > 1:3368796/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACTCATATCCa > 1:2080417/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACTCATATCCa > 1:471745/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACTCATATCCa > 1:1205162/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACTCATATCCa > 1:1001910/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCa > 1:3189737/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCa > 1:1024511/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCa > 1:288540/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCa > 1:132886/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCa > 1:2670251/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCa > 1:2577386/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCa > 1:2401837/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCa > 1:2229925/4‑67 (MQ=255)
tcgcggtcacggCCTTCGAACAGTTCTTTCGATTCGTCGGACGCTTTCCACTCGTAACGCATATCCa > 1:298009/4‑67 (MQ=255)
aaCAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:989272/67‑1 (MQ=255)
aaCAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:963460/67‑1 (MQ=255)
aaCAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:1274872/67‑1 (MQ=255)
aaCAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:1451223/67‑1 (MQ=255)
aaCAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:1838977/67‑1 (MQ=255)
aaCAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:1947280/67‑1 (MQ=255)
aaCAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:2033042/67‑1 (MQ=255)
aaCAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:2120422/67‑1 (MQ=255)
aaCAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:2306004/67‑1 (MQ=255)
aaCAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:2639859/67‑1 (MQ=255)
aaCAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:3163485/67‑1 (MQ=255)
aaCAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:3078595/67‑1 (MQ=255)
aaCAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:2982339/67‑1 (MQ=255)
aaCAGCTCTTTCGATTCGTCGATCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGt < 1:2761512/67‑1 (MQ=255)
aCAGCTCTTTCGATTCGGCGGTCGCTTTCCACTCGTAACGCa < 1:3278593/42‑1 (MQ=255)
gCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCa > 1:416745/1‑48 (MQ=255)
gCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCa > 1:576221/1‑48 (MQ=255)
gCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCa > 1:1532995/1‑48 (MQ=255)
gCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCa > 1:1344696/1‑48 (MQ=255)
gCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCa > 1:119679/1‑48 (MQ=255)
|
GGCTGGCCGTAAATTTCACTTCGCCGGTTTCACGGTCACGGCCTTCGAACAGCTCTTTCGATTCGTCGGTCGCTTTCCACTCGTAACGCATATCCAGCAAGTTCACGAAGAAGT > minE/2296036‑2296149
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
