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 F50 I1 R1
|
170 |
39.5 |
1266514 |
99.2% |
1256381 |
150.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
598,492 |
A→G |
E338E (GAA→GAG) |
cusB → |
copper/silver efflux system, membrane fusion protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 598,492 | 0 | A | G | 95.7%
| 69.3
/ ‑3.2
| 23 | E338E (GAA→GAG) | cusB | copper/silver efflux system, membrane fusion protein |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base G (15/7); total (16/7) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.06e-01 |
CAGCTGCGTCTGGAAGTCGACAACGCCGACGAGGCGCTAAAACCGGGCATGAACGCCTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAACAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAGGCGTCACCGCATTACGCTCTGGTCTGGCGGAAGGTGAAAAGGTGGTTTCCAGCGGCCTGTTCCTG > NC_000913/598361‑598630
|
cAGCTGCGTCTGGAAGTCGACAACGCCGACGAGGCGCTAAAACCGGGCATGAACGCCTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTg > 2:338887/1‑151 (MQ=255)
cAGCTGCGTCTGGAAGTCGACAACGCCGACGAGGCGCTAAAACCGGGCATGAACGCCTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTg > 2:255906/1‑151 (MQ=255)
gCGTCTGGAAGTCGACAACGCCGACGAGGCGCTAAAACCGGGCATGAACGCCTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGcc > 1:217258/1‑151 (MQ=255)
gAAGTCGACAACGCCGACGAGGCGCTAAAACCGGGCATGAACGCCTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGgc > 1:471447/1‑151 (MQ=255)
gACAACGCCGACGAGGCGCTAAAACCGGGCATGAACGCCTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCtt < 2:94624/149‑1 (MQ=255)
gacgaGGCGCTAAAACCGGGCATGAACGCCTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAAc > 1:432718/1‑151 (MQ=255)
acgaGGCGCTAAAACCGGGCATGAACGCCTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAACAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAAcg > 1:359004/1‑151 (MQ=255)
cgaGGCGCTAAAACCGGGCATGACCGCCTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGaaa < 1:217471/148‑1 (MQ=255)
cgaGGCGCTAAAACCGGGCATGAACGCCTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAAcg < 2:90008/150‑1 (MQ=255)
cTAAAACCGGGCATGAACGCCTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTg > 2:77791/1‑151 (MQ=255)
aaaaCCGGGCATGAACGCCTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGtt > 1:371052/1‑151 (MQ=255)
ccTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAgg > 2:139290/1‑151 (MQ=255)
cTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAGGc > 2:159005/1‑151 (MQ=255)
gTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAGGCGTc > 2:485627/1‑151 (MQ=255)
ttGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAGGCGTc > 2:362091/1‑150 (MQ=255)
aaCTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAGGCGTCACCGc < 1:67323/151‑1 (MQ=255)
aCTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAGGCGTCACCGCa < 1:221607/151‑1 (MQ=255)
aaCCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAGGCGTCACCGCATTACGCTCTGGTCTGGc < 2:141293/151‑1 (MQ=255)
ctCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAGGCGTCACCGCATTACGCTCTGGTCTGGCGGAAGGTGaa > 2:404163/1‑150 (MQ=255)
tCACAAGCGCTGATTGATACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAGGCGTCACCGCATTACGCTCTGGTCTGGCGGAAGGTGAAAAGGTGGttt > 2:71160/1‑151 (MQ=255)
gattgatACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAGGCGTCACCGCATTACGCTCTGGTCTGGCGGAAGGTGAAAAGGTGGTTTCCAGCGGCCt < 1:530499/150‑1 (MQ=255)
tgatACCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAGGCGTCACCGCATTACGCTCTGGTCTGGCGGAAGGTGAAAAGGTGGTTTCCAGCGGCCTGTTc > 1:297022/1‑151 (MQ=255)
aCCGGCAGCGAGCAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAGGCGTCACCGCATTACGCTCTGGTCTGGCGGAAGGTGAAAAGGTGGTTTCCAGCGGCCTGTTCCtg > 1:441056/1‑150 (MQ=255)
|
CAGCTGCGTCTGGAAGTCGACAACGCCGACGAGGCGCTAAAACCGGGCATGAACGCCTGGTTGCAACTCAACACCGCCAGCGAACCGATGCTGCTCATTCCGTCACAAGCGCTGATTGATACCGGCAGCGAACAGCGGGTGATTACCGTTGATGCCGACGGGCGCTTTGTACCGAAACGCGTTGCTGTTTTCCAGGCATCGCAAGGCGTCACCGCATTACGCTCTGGTCTGGCGGAAGGTGAAAAGGTGGTTTCCAGCGGCCTGTTCCTG > NC_000913/598361‑598630
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
