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 F2 I205 R1
|
220 |
17.5 |
961422 |
97.1% |
933540 |
86.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,591,366 |
C→T |
D287N (GAC→AAC) |
bamC ← |
outer membrane protein assembly factor BamC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,591,366 | 0 | C | T | 100.0%
| 67.3
/ NA
| 18 | D287N (GAC→AAC) | bamC | outer membrane protein assembly factor BamC |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (11/7); total (11/7) |
GGCTGCTGCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTCGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTT > NZ_CP009273/2591279‑2591443
|
ggCTGCTGCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGGTGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGc > 2:118021/1‑90 (MQ=255)
ctgctgCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTg > 2:33843/1‑90 (MQ=255)
gctgcGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTc > 2:435458/1‑90 (MQ=255)
gcGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGa > 1:364243/1‑90 (MQ=255)
ttATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGc < 1:131754/90‑1 (MQ=255)
ttATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGc < 1:462823/90‑1 (MQ=255)
ttATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGc < 1:33843/90‑1 (MQ=255)
tATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCg > 1:270851/1‑90 (MQ=255)
ccAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGtt < 2:105718/90‑1 (MQ=255)
ccAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGtt > 2:386324/1‑90 (MQ=255)
gTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGt < 2:364243/90‑1 (MQ=255)
cACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCg > 1:121851/1‑90 (MQ=255)
gctcgcGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACttt > 2:124282/1‑90 (MQ=255)
gctcgcGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACttt > 2:298818/1‑90 (MQ=255)
gctcgcGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACttt > 1:164552/1‑90 (MQ=255)
gctcgcGCCCAGTTCCTGCCAATTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACttt > 2:267311/1‑90 (MQ=255)
gcCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGcc < 1:60428/90‑1 (MQ=255)
gTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACtt < 1:386324/90‑1 (MQ=255)
|
GGCTGCTGCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTCGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTT > NZ_CP009273/2591279‑2591443
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTAGGCTGCTGCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTCGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTTTTTCCAGCGC > NZ_CP009273/2591276‑2591453
|
GTAGGCTGCTGCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGA > SRR3722087.368372/1‑100 (MQ=60)
CTGCTGCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCG > SRR3722087.273516/1‑100 (MQ=60)
TTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAG < SRR3722087.132987/100‑1 (MQ=60)
TTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAG < SRR3722087.34116/100‑1 (MQ=60)
TTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAG < SRR3722087.468207/100‑1 (MQ=60)
AGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCG > SRR3722087.123009/1‑100 (MQ=60)
GGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTT > SRR3722087.166053/1‑100 (MQ=60)
GCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTTTTTCC < SRR3722087.60949/100‑1 (MQ=60)
GTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTTTTTCCAGCGC > SRR3722087.229134/1‑100 (MQ=60)
GTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTTTTTCCAGCGC < SRR3722087.390776/100‑1 (MQ=60)
GTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTTTTTCCAGCGC > SRR3722087.69686/1‑100 (MQ=60)
GTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTCTTTCCAGCGC > SRR3722087.244766/1‑100 (MQ=60)
|
GTAGGCTGCTGCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTCGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTTTTTCCAGCGC > NZ_CP009273/2591276‑2591453
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
