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 F3 I95 R1
|
196 |
14.2 |
808436 |
96.0% |
776098 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,500,063 |
T→G |
intergenic (+113/+444) |
BW25113_RS25830 → / ← fecE |
hypothetical protein/Fe(3+) dicitrate ABC transporter ATP‑binding protein FecE |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,500,063 | 0 | T | G | 100.0%
| 50.0
/ NA
| 16 | intergenic (+113/+444) | BW25113_RS25830/fecE | hypothetical protein/Fe(3+) dicitrate ABC transporter ATP‑binding protein FecE |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (8/8); total (8/8) |
AAGTAGTAGCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGAATGTCC > NZ_CP009273/4499987‑4500144
|
aaGTAGTAGCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTg > 1:110698/1‑90 (MQ=255)
aaGTAGTAGCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTg > 2:290583/1‑90 (MQ=255)
agtagCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTg < 1:164003/86‑1 (MQ=255)
agtagCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTg > 2:164003/1‑86 (MQ=255)
gtagCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTGGCGTc > 2:290769/1‑90 (MQ=255)
cacaCTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGa > 2:299007/1‑90 (MQ=255)
cacTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGAtt < 1:372342/90‑1 (MQ=255)
aaaTCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAg > 1:371027/1‑90 (MQ=255)
aaaTCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAg > 2:262338/1‑90 (MQ=255)
tAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAAcc < 1:42303/90‑1 (MQ=255)
tAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAAcc < 2:99501/90‑1 (MQ=255)
gTTCCATGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGa > 1:346945/1‑90 (MQ=255)
tGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGAATGTcc < 1:113506/90‑1 (MQ=255)
tGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGAATGTcc < 1:257046/90‑1 (MQ=255)
tGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGAATGTcc < 2:14262/90‑1 (MQ=255)
tGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGAATGTcc < 2:76448/90‑1 (MQ=255)
|
AAGTAGTAGCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGAATGTCC > NZ_CP009273/4499987‑4500144
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCACCTACCTAAGTAGTAGCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGAATGTCCGCTCTGGCACAG > NZ_CP009273/4499977‑4500156
|
GCACCTACCTAAGTAGTAGCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTG > SRR3722235.111987/1‑100 (MQ=60)
AAGTAGTAGCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTGGCGTCTGATC < SRR3722235.165894/100‑1 (MQ=60)
CACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAA < SRR3722235.377717/100‑1 (MQ=60)
CTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAG > SRR3722235.376371/1‑100 (MQ=60)
TAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGA > SRR3722235.351940/1‑100 (MQ=60)
TAGCAATTCCGTTCCATGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGA < SRR3722235.42767/100‑1 (MQ=60)
TGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGAATGTCCGCTCTGGCAC < SRR3722235.260417/100‑1 (MQ=60)
TGGTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGAATGTCCGCTCCGGCAC < SRR3722235.114825/100‑1 (MQ=60)
GTTGCTGTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGAATGTCCGCTCTGGCACAG > SRR3722235.320302/1‑100 (MQ=60)
|
GCACCTACCTAAGTAGTAGCAAACGCACACTTTTTAGAAAAATCGATGGTCAGAAACTGGATTAGCAATTCCGTTCCATGGTTGCTTTTGATTTACGTTGGCGTCTGATCATTGATTTATCCTCAAAAGCCCAACCTCATTGGTAATGAACCAGCTCCGTGAATGTCCGCTCTGGCACAG > NZ_CP009273/4499977‑4500156
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
