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 |
|
A5 F1 I2 R1
|
77 |
34.8 |
1608548 |
95.0% |
1528120 |
114.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
593,467 |
T→G |
D435A (GAC→GCC) |
cusS ← |
copper‑sensing histidine kinase in two‑component regulatory system with CusR |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 593,467 | 0 | T | G | 100.0%
| 99.6
/ NA
| 27 | D435A (GAC→GCC) | cusS | copper‑sensing histidine kinase in two‑component regulatory system with CusR |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (10/17); total (10/17) |
GCGGGTAATGTGATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGTCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACTACAATTGTCTCTCCGG > NC_000913/593332‑593593
|
gCGGGTAATGTGATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCaa < 1:342426/139‑1 (MQ=255)
gTAATGTGATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAAcgcg > 1:55105/1‑139 (MQ=255)
gATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGaaa < 1:464463/139‑1 (MQ=255)
aaCAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACgg > 2:234689/1‑139 (MQ=255)
tCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATcg < 2:182651/139‑1 (MQ=255)
tCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCt < 2:55105/139‑1 (MQ=255)
aCGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCggg < 1:243373/139‑1 (MQ=255)
cAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATggg < 1:748620/139‑1 (MQ=255)
caaTCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCgggg < 1:551644/125‑1 (MQ=255)
caaTCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCgggg > 2:551644/1‑125 (MQ=255)
caaTCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAAc < 1:419995/139‑1 (MQ=255)
aaTCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACt < 2:698391/139‑1 (MQ=255)
aaTCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACt < 2:567811/139‑1 (MQ=255)
tCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATgg > 1:472040/1‑111 (MQ=255)
tCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATgg < 2:472040/111‑1 (MQ=255)
tCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATc < 1:234689/139‑1 (MQ=255)
tACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACa < 1:753724/139‑1 (MQ=255)
cTACCTTCACCTTTTCGCTGGGGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCTGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACa < 1:568472/134‑1 (MQ=255)
cTACCTTCACCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACa > 2:568472/1‑134 (MQ=255)
aCCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAAc > 1:622040/1‑99 (MQ=255)
aCCTTTTCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAAc < 2:622040/99‑1 (MQ=255)
ttCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCt < 1:644342/57‑1 (MQ=255)
ttCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCt > 2:644342/1‑57 (MQ=255)
ttCGCTGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACTACAATTGtctc > 2:219235/1‑139 (MQ=255)
tGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGt < 1:591345/45‑1 (MQ=255)
tGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGt > 2:591345/1‑45 (MQ=255)
tGGCGGGAGGGGGCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCAATACAATTGTATCTCCgg > 1:400091/1‑139 (MQ=255)
|
GCGGGTAATGTGATAACAAACCTTGTCCCCCGCGCATCCGACGTTACCGCAACCGTGCCTTTATGCGCGACAACAATCGATTTCACTATCGCCAGGCCAATACCGCTACCTTCACCTTTTCGCTGGCGGGAGGGGTCAACGCGATAGAAACGGTCAAACAATCGCGGTAAGTGCTCGGGCGCAATGGGCGTACCGGGGTTTTCGACGATAACTTGCACCAGGTGATCGACCGTCTGACAGCGCACTACAATTGTCTCTCCGG > NC_000913/593332‑593593
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
