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 |
|
A4 F1 I2 R1
|
67 |
32.5 |
1435938 |
95.9% |
1377064 |
112.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,073,151 |
T→C |
L538P (CTG→CCG) |
flu → |
CP4‑44 prophage, antigen 43 (Ag43) phase‑variable biofilm formation autotransporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,073,151 | 0 | T | C | 100.0%
| 89.3
/ NA
| 25 | L538P (CTG→CCG) | flu | CP4‑44 prophage, antigen 43 (Ag43) phase‑variable biofilm formation autotransporter |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (13/12); total (13/12) |
GGCACACTCACTGTCAGCAACACCACACTCACCCAGAAAGCCGTCAACCTGAATGAAGGCACGCTGACGCTGAACGACAGTACCGTCACCACGGATGTCATTGCTCAGCGCGGTACAGCCCTGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCACGGTGCAGTCGGTGGTGGATGACCTCAGCCATGCCGGA > NC_000913/2073030‑2073284
|
ggCACACTCACTGTCAGCAACACCACACTCACCCAGAAAGGCGTCAACCTGAATGAAGGCACGCTGACGCTGAACGACAGTACCGTCACCACGGATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGgcagca < 2:450544/139‑1 (MQ=255)
ggCACACTCACTGTCAGCAACACCACACTCACCCAGAAAGCCGTCAACCTGAATGAAGGCACGCTGACGCTGAACGACAGTACCGTCACCACGGATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGgcagca < 1:286310/139‑1 (MQ=255)
gttaGCAACACCACACTCACCCAGAAAGCCGTCAACCTGAATGAAGGCACGCTGACGCTGAACGACAGTACCGTCACCACGGATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACg < 2:94103/136‑1 (MQ=255)
tCAGCAACACCACACTCACCCAGAAAGCCGTCAACCTGAATGAAGGCACGCTGACGCTGAACGACAGTACCGTCACCACGGATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACgg < 2:184051/139‑1 (MQ=255)
cAACACCACACTCACCCAGAAAGCCGTCAACCTGGATGAAGGCACGCTGCCGCTGAACGACCGTACCGTCACCACGGATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGcc > 2:462705/1‑139 (MQ=255)
aGGCACGCTGACGCTGAACGACAGTACCGTCACCACGGATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCAcc < 2:603945/139‑1 (MQ=255)
gctgacgctgaACGACAGTACCGTCACCACGGATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACg < 1:389545/106‑1 (MQ=255)
gctgacgctgaACGACAGTACCGTCACCACGGATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACg > 2:389545/1‑106 (MQ=255)
gctgacgctgaACGACAGTACCGTCACCACGGATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAat < 1:687522/139‑1 (MQ=255)
aGTACCGTCACCTCGGATGTCATTGCCCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCa > 2:171610/1‑139 (MQ=255)
ccGTCACCACGGATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCa < 2:324675/135‑1 (MQ=255)
ccGTCACCACGGATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCa > 1:324675/1‑135 (MQ=255)
accacGGATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCACGGTGCAGt > 2:625857/1‑139 (MQ=255)
ccacGGATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCACGGTGCAGTc > 1:362118/1‑139 (MQ=255)
ggATGTCATTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCACGGTGCAGTCggtg > 1:93307/1‑139 (MQ=255)
aTTGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCACGGTGCAGTCGGTGGTGGATg > 2:401761/1‑139 (MQ=255)
tGCTCAGCGCGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCACGGTGCAGTCGGTGGTGGATGAc > 1:589655/1‑139 (MQ=255)
gcgcGGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCACGGTGCAGTCGGTGGTGGATGACCTCAGc > 2:708377/1‑139 (MQ=255)
cgcgGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCAtt < 2:44617/51‑1 (MQ=255)
cgcgGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCAtt > 1:44617/1‑51 (MQ=255)
cgcgGTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCACGGTGCAGTCGGTGGTGGATGACCTCAGcc > 2:181152/1‑139 (MQ=255)
ggTACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCACGGTGCAGTCGGTGGTGGATGACCTCAGCCATg < 2:589655/139‑1 (MQ=255)
tACAGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCACGGTGCAGTCGGTGGTGGATGACCTCAGCCATGcc > 2:335746/1‑139 (MQ=255)
aGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCACGGTGCAGTCGGTGGTGGATGACCTCAGCCATGCCGGa < 2:362118/139‑1 (MQ=255)
aGCCCCGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCACGGTGCAGTCGGTGGTGGATGACCTCAGCCATGCCGGa < 1:335746/139‑1 (MQ=255)
|
GGCACACTCACTGTCAGCAACACCACACTCACCCAGAAAGCCGTCAACCTGAATGAAGGCACGCTGACGCTGAACGACAGTACCGTCACCACGGATGTCATTGCTCAGCGCGGTACAGCCCTGAAGCTGACCGGCAGCACTGTGCTGAACGGTGCCATTGACCCCACGAATGTCACTCTCGCCTCCGGTGCCACCTGGAATATCCCCGATAACGCCACGGTGCAGTCGGTGGTGGATGACCTCAGCCATGCCGGA > NC_000913/2073030‑2073284
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
