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 |
|
A1 F1 I1 R1
|
690 |
31.8 |
1836723 |
97.1% |
1783458 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,486,041 |
T→C |
intergenic (‑90/‑177) |
pepA ← / → lptF |
aminopeptidase A/I/lipopolysaccharide transport system protein LptF |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,486,041 | 0 | T | C | 100.0%
| 77.2
/ NA
| 23 | intergenic (‑90/‑177) | pepA/lptF | aminopeptidase A/I/lipopolysaccharide transport system protein LptF |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (10/13); total (10/13) |
GAATCTTAAAGACAACGGCGGTGGCTACAGATAGAATTGCAAGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTTCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACAAAATCTGAGAGGTGAATCCGTTGAGTATAAT > NC_000913/4485965‑4486115
|
gAATCTTAAAGACAACGGCGGTGGCTACAGATAGAATTGCAAGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTCCgtg > 1:858770/1‑81 (MQ=255)
aTCTTAAAGACAACGGCGGTGGCTACAGATAGAATTGCAAGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTCCGTGtt < 2:858735/81‑1 (MQ=255)
aaGACAACGGCGGTGGCTACAGATAGAATTGCAAGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCtt < 2:858736/81‑1 (MQ=255)
cAACGGCGGTGGCTACAGATAGAATTGCAAGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACg < 2:858737/81‑1 (MQ=255)
aCGGCGGTGGCTACAGATAGAATTGCAAGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGt > 2:858771/1‑80 (MQ=255)
gATAGAATTGCAAGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCa < 2:858738/81‑1 (MQ=255)
aTAGAATTGCAAGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCAc > 1:858776/1‑81 (MQ=255)
tAGAATTGCAAGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACg < 1:858740/81‑1 (MQ=255)
aGAATTGCAAGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGt > 1:858774/1‑81 (MQ=255)
gAATTGCAAGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTc < 2:858740/81‑1 (MQ=255)
aaGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACaa < 1:858743/81‑1 (MQ=255)
aaGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACaa < 2:858741/81‑1 (MQ=255)
cTTTCGTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACAAAAt < 2:858743/81‑1 (MQ=255)
tCGTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACAAAATCt > 1:858792/1‑80 (MQ=255)
gTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACAAAATCt > 1:858780/1‑78 (MQ=255)
gTAACTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACAAAATCTgag < 2:858744/81‑1 (MQ=255)
aaCTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACAAAATCTGagag > 2:858781/1‑81 (MQ=255)
cTCATGTCCGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACAAAATCTGAGAGGt > 2:858772/1‑81 (MQ=255)
cGCTGTTGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACAAAATCTGAGAGGTGAATCCGt < 1:858746/81‑1 (MQ=255)
ttGCGATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACAAAATCTGAGAGGTGAATCCGTTGAGt < 1:858747/81‑1 (MQ=255)
gATGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACAAAATCTGAGAGGTGAATCCGTTGAGTATaa < 2:858747/81‑1 (MQ=255)
aTGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACAAAATCTGAGAGGTGAATCCGTTGAGTATAAt > 1:858779/1‑81 (MQ=255)
tGACTCCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACAAAATCTGAGAGGTGAATCCGTTGAGTATAAt > 1:858784/1‑80 (MQ=255)
|
GAATCTTAAAGACAACGGCGGTGGCTACAGATAGAATTGCAAGCTTTCGTAACTCATGTCCGCTGTTGCGATGACTTCGTGTTAATCTTAACGTTATTACGGCATTGGCACGTCAGAACAAAATCTGAGAGGTGAATCCGTTGAGTATAAT > NC_000913/4485965‑4486115
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
