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 |
1,327,112 |
C→T |
40.6% |
intergenic (‑102/+174) |
wcaK ← / ← wzxC |
predicted pyruvyl transferase/colanic acid exporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,327,112 | 0 | C | T | 40.6%
| 4.0
/ 18.9
| 32 | intergenic (‑102/+174) | wcaK/wzxC | predicted pyruvyl transferase/colanic acid exporter |
| Reads supporting (aligned to +/- strand): ref base C (13/6); new base T (5/8); total (18/14) |
| Fisher's exact test for biased strand distribution p-value = 1.49e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGTTTTGTTCGTTGCCGCTTTTTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCGGCATTCAGTGCCTGA > minE/1327049‑1327173
|
tgttttgttCGTTGCCGCTTTTTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAAGACCCGAg > 1:2646659/1‑69 (MQ=255)
tgttttgttCGTTGCCGCTTTTTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAAGACCCGAg > 1:2461383/1‑69 (MQ=255)
tgttttgttCGTTGCCGCTTTTTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAAGACCCGAg > 1:1884126/1‑69 (MQ=255)
tGACGCGTCTTATCAGGCCTACAAGATCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCa > 1:3024215/1‑69 (MQ=255)
tGACGCGTCTTATCAGGCCTACAAGATCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCa > 1:3194158/1‑69 (MQ=255)
tGACGCGTCTTATCAGGCCTACAAGATCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCa > 1:3320817/1‑69 (MQ=255)
tGACGCGTCTTATCAGGCCTACAAGATCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCa > 1:1701513/1‑69 (MQ=255)
tGACGCGTCTTATCAGGCCTACAAGATCCGAGCACAGAACCGTAGGACGCATAAGGCG‑TTCACGCCGCa > 1:732058/1‑69 (MQ=17)
tCTTATCAGGCCTACAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCGGCa < 1:1396881/69‑1 (MQ=255)
cAGGCCTACAAGACCCGAGCACAGAACCGTAGTACGGATAAGGCG‑TTCACGCCGCATCCgg < 1:3380825/61‑1 (MQ=255)
cAGGCCTACAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCgg < 1:1986961/61‑1 (MQ=255)
cAGGCCTACAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCgg < 1:2043437/61‑1 (MQ=255)
cAGGCCTACAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCGGCATTc < 1:739906/66‑1 (MQ=255)
aGGCCTACAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCgg < 1:2483893/60‑1 (MQ=255)
cTACAAGACCCGAGCACAGAGCCGTAGGACGGATAAGGCGTTTTACGCCGCATCCGGCATTCAGTGCCt > 1:646099/1‑69 (MQ=14)
cTACAAGACCCGAGCACAGAGCCGTAGGACGGATAAGGCGTTTTACGCCGCATCCGGCATTCAGTGCCt > 1:62155/1‑69 (MQ=14)
cTACAAGACCCGAGCACAGAGCCGTAGGACGGATAAGGCGTTTTACGCCGCATCCGGCATTCAGTGCCt > 1:87635/1‑69 (MQ=14)
cTACAAGACCCGAGCACAGAGCCGTAGGACGGATAAGGCGTTTTACGCCGCATCCGGCATTCAGTGCCt > 1:920557/1‑69 (MQ=14)
cTACAAGACCCGAGCACAGAGCCGTAGGACGGATAAGGCGTTTTACGCCGCATCCGGCATTCAGTGCCt > 1:2562143/1‑69 (MQ=14)
cTACAAGACCCGAGCACAGAGCCGTAGGACGGATAAGGCGTTTTACGCCGCATCCGGCATTCAGTGCCt > 1:2889840/1‑69 (MQ=14)
cTACAAGACCCGAGCACAGAGCCGTAGGACGGATAAGGCGTTTTACGCCGCATCCGGCATTCAGTGCCt > 1:2768978/1‑69 (MQ=14)
cTACAAGACCCGAGCACAGAGCCGTAGGACGGATAAGGCGTTTTACGCCGCATCCGGCATTCAGTGCCt > 1:1074142/1‑69 (MQ=14)
cTACAAGACCCGAGCACAGAGCCGTAGGACGGATAAGGCGTTTTACGCCGCATCCGGCATTCAGTGCCt > 1:2527897/1‑69 (MQ=14)
cTACAAGACCCGAGCACAGAGCCGTAGGACGGATAAGGCGTTTTACGCCGCATCCGGCATTCAGTGCCt > 1:149458/1‑69 (MQ=14)
tACAAGATCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCGGCATTCAGTGCCTGa < 1:3135804/69‑1 (MQ=255)
tACAAGATCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCGGCATTCAGTGCCTGa < 1:2561272/69‑1 (MQ=255)
tACAAGATCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCGGCATTCAGTGCCTGa < 1:60414/69‑1 (MQ=255)
tACAAGATCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCGGCATTCAGTGCCTGa < 1:1877043/69‑1 (MQ=255)
tACAAGATCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCGGCATTCAGTGCCTGa < 1:1821625/69‑1 (MQ=255)
tACAAGATCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCGGCATTCAGTGCCTGa < 1:1767146/69‑1 (MQ=255)
tACAAGATCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCGGCATTCAGTGCCTGa < 1:164430/69‑1 (MQ=255)
tACAAGATCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCGGCATTCAGTGCCTGa < 1:1151189/69‑1 (MQ=255)
|
TGTTTTGTTCGTTGCCGCTTTTTGCCTGATGCGACGCTGACGCGTCTTATCAGGCCTACAAGACCCGAGCACAGAACCGTAGGACGGATAAGGCG‑TTCACGCCGCATCCGGCATTCAGTGCCTGA > minE/1327049‑1327173
|
| 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
