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 |
|
A21 F5 I0 R1
|
24 |
41.2 |
1474486 |
89.7% |
1322613 |
148.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913_3_pae_tpiA |
1,544,022 |
C→A |
100% |
L13F (TTG→TTT) |
narU ← |
nitrate/nitrite transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913_3_pae_tpiA | 1,544,022 | 0 | C | A | 100.0%
| 94.7
/ NA
| 32 | L13F (TTG→TTT) | narU | nitrate/nitrite transporter |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (16/16); total (16/16) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TTGAGATTAACGGTAACTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCG‑C‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGGTGAAG > NC_000913_3_pae_tpiA/1543879‑1544158
|
ttGAGATTAACGGTAACTGCGCTAAATAGCATCCAGACACAGAAAGCAAGAAGGAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATTTTTTCCTTTATTTTCCCACAAGGCCGGATTTTCTGGTTTCCAGTC‑CCG‑A‑aaa‑aa > 2:557105/1‑148 (MQ=255)
tGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTtc > 1:506092/1‑149 (MQ=255)
gcTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCG‑A‑AAACAGATAACGACTATTTTTCTCa > 1:666407/1‑149 (MQ=255)
tAGCATCAAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGCTGACTTCGAGCAAGAAGTTTTCCTTTATTTTCCCATAAGGCCGGATTTTCTGGTTTCCATTG‑GCGTA‑AAA‑AGATAACGACTATTTTTCTCATCTTGc > 2:708838/1‑149 (MQ=255)
gtgtCCAGACGCAGATGTCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTACTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAg < 2:281470/146‑1 (MQ=255)
tCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGc > 2:603081/1‑149 (MQ=255)
cAGACACAGAGGGGAAGAAGGAGACAACGGACGGATCTCCAGAGATTTCAGCGAGCAATATGTTTTCCTTTATTTTACCAGAAGGCCGGATTTTCTGGATTCCAATC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCa < 2:282663/149‑1 (MQ=255)
aGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCATTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTACAGTC‑GCGAA‑AAA‑AGATAACCACTATTCTTCTATTTTTGCAGTGCCat > 2:426551/1‑149 (MQ=255)
caGAAGGCAAGAAGGAGACAACTGACGGATAACCAGAGATTTCTTCGAGCAATATGTTTGCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGt < 1:113996/149‑1 (MQ=255)
aagaagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTcaca < 1:133968/149‑1 (MQ=255)
tgaTATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGCTTTTCTGGTTTCCAGTC‑TCG‑AAAAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGACATATTGTTCCTCACATGCACACTATGGTAATGa > 2:162538/1‑149 (MQ=255)
cAGAGATTTCTTCGAGCAATATGTTTTCCTTTCTTTTCCCGGAAGGCAGGATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGTATATTTTTCTCATTTTGCAGTGCACTATTGTTACTCTCATGCACACATATGTGATAaaaataat > 2:551858/1‑148 (MQ=255)
aagagATTTCTCCAAGCAACATGCCTTCCCTTCTTTACCCAGAAGACCCCATTATCTAGTTACCACAC‑AAGAA‑AAA‑AGAGAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACCTGCACACATTGGTAATGAAAAAAAg < 2:528636/148‑1 (MQ=255)
agagCTTTCCTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCATATGCACACATTGGTAATGAAAAAAAGa < 1:87248/149‑1 (MQ=255)
gagaTTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGAc > 1:135646/1‑149 (MQ=255)
tcGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGa < 1:494769/149‑1 (MQ=255)
gAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAgg > 1:129884/1‑149 (MQ=255)
gAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAgg > 1:130389/1‑149 (MQ=255)
cAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTaa > 2:662880/1‑149 (MQ=255)
tatGTTTGCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCG‑AAAAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGgc < 1:169927/149‑1 (MQ=255)
tttCCTTTATTTTCTCGGAGGGCCGGATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTGCCTCACATGCACACAGTGGTAATGAAAAAAAGACAAAACACGGGGTAAGGCGCAAt < 2:512371/149‑1 (MQ=255)
tttATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCG‑AAAAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGccg > 1:55246/1‑148 (MQ=255)
aTTGTCCGAGAAGGACGGTTTTTCTGGTTTCGAGTC‑GGGAA‑AAA‑AGATAACGACGATTGTTCTGATTTTGCAGTGCCATATGGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGtt < 2:116081/149‑1 (MQ=255)
gCCGGGTTTTCTGGTTTCCAGTCGGTA‑A‑AAA‑AGATAACGACTATTTTTCTCATTTTGTAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAgg < 2:61135/149‑1 (MQ=255)
taggttttcCTGTTTTCCAGTCTACA‑A‑AAA‑AGACAACGACTATGTTTCGAAATTTGCAGTGCCATTTTGTTCCTCACATGCACACATTGGTAAGGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGa < 2:291915/144‑1 (MQ=255)
ggATTTTCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTaaaaaag > 1:145301/1‑144 (MQ=255)
ggATTTTCCGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTCGAATTAAGGagg > 1:91114/1‑147 (MQ=255)
ttCTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTg < 1:588047/149‑1 (MQ=255)
cTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTggg < 1:475788/149‑1 (MQ=255)
cTGGTTTCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGAAGAATTggg > 2:293888/1‑149 (MQ=255)
cTGGTTTCCAGTA‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTggg < 2:135646/149‑1 (MQ=255)
ttCCAGTC‑GCGAA‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGATATTAGAATTAAGGATGAATTGGGTGAAg < 1:603081/149‑1 (MQ=255)
|
TTGAGATTAACGGTAACTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTC‑GCG‑C‑AAA‑AGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGGTGAAG > NC_000913_3_pae_tpiA/1543879‑1544158
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
