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 I195 R1
|
222 |
27.1 |
1551108 |
96.0% |
1489063 |
86.0 |
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%
| 85.5
/ NA
| 23 | D287N (GAC→AAC) | bamC | outer membrane protein assembly factor BamC |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (15/8); total (15/8) |
GCTGCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTCGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTT > NZ_CP009273/2591283‑2591432
|
gctgctGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCACGCCTGGGTCGCCCGCGCCCAGGTCCTGCCAGTTGCTGTc > 1:371348/1‑90 (MQ=255)
gcGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGa > 1:77691/1‑90 (MQ=255)
ttATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGc < 2:221617/90‑1 (MQ=255)
ttATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGc < 1:632954/90‑1 (MQ=255)
tATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCg < 1:706261/90‑1 (MQ=255)
aaTCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTtat < 1:457304/90‑1 (MQ=255)
tCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATaa > 1:98093/1‑90 (MQ=255)
gCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGt > 1:503692/1‑90 (MQ=255)
ccAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGtt > 1:603631/1‑90 (MQ=255)
gCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCa > 1:416549/1‑90 (MQ=255)
tCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGccc < 2:350776/87‑1 (MQ=255)
tCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGccc > 1:350776/1‑87 (MQ=255)
aCCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGc > 2:539172/1‑58 (MQ=255)
aCCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGc < 1:539172/58‑1 (MQ=255)
aCCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGa > 1:593114/1‑90 (MQ=255)
aCCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGa > 2:262004/1‑90 (MQ=255)
gATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACgg > 1:294704/1‑90 (MQ=255)
ggCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGt < 2:294704/90‑1 (MQ=255)
ggATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTc < 2:528534/90‑1 (MQ=255)
gctcgcGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACttt > 1:81062/1‑90 (MQ=255)
gctcgcGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACttt > 2:176654/1‑90 (MQ=255)
gctcgcGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACttt > 1:296567/1‑90 (MQ=255)
gctcgcGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACttt > 2:433723/1‑90 (MQ=255)
|
GCTGCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTCGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTT > NZ_CP009273/2591283‑2591432
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ 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
GAACTGTAGGCTGCTGCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTCGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTTTTTCCAGCGCCGCTGG > NZ_CP009273/2591271‑2591459
|
GAACTGTAGGCTGCTGCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTG < SRR3722073.349696/100‑1 (MQ=60)
ACTGTAGGCTGCTGCTGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCACGCCTGGGTCGCCCGCGCCCAGGTCCTGCCAGTTGCTGTC > SRR3722073.379212/1‑100 (MQ=60)
GTAGGCTGCTGCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGA > SRR3722073.79472/1‑100 (MQ=60)
GTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAA > SRR3722073.100242/1‑100 (MQ=60)
gtcagatgtgtataagagacagGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAG < SRR3722073.550442/78‑1 (MQ=60)
TTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAG < SRR3722073.646043/100‑1 (MQ=60)
TATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGT < SRR3722073.720547/100‑1 (MQ=60)
TATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGT > SRR3722073.514328/1‑100 (MQ=60)
ATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTT > SRR3722073.616203/1‑100 (MQ=60)
AATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGC < SRR3722073.467065/100‑1 (MQ=60)
TCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCA > SRR3722073.425454/1‑100 (MQ=60)
CAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGC > SRR3722073.358203/1‑100 (MQ=60)
GTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGA > SRR3722073.605500/1‑100 (MQ=60)
ATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGG > SRR3722073.300955/1‑100 (MQ=60)
GGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTT > SRR3722073.302842/1‑100 (MQ=60)
GGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTT > SRR3722073.82901/1‑100 (MQ=60)
AGTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTTTTTCCAGCG > SRR3722073.34153/1‑100 (MQ=60)
GTTCCTGCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTTTTTCCAGCGC > SRR3722073.681085/1‑100 (MQ=60)
GCCAGTTGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTTTTTCCAGCGCCGCTGG > SRR3722073.570644/1‑100 (MQ=60)
|
GAACTGTAGGCTGCTGCGGTTATCTAAATCGCCAACCTGCAGTTTATAGTCACCGGATGCCAGGCCTGGATCGCTCGCGCCCAGTTCCTGCCAGTCGCTGTCAGACAGCGGCTTATAAGTTACGGCCATGTTGCCCTGCGAACGGGTGCTGTCGGTCACTTTCATGCCCACTTTTTCCAGCGCCGCTGG > NZ_CP009273/2591271‑2591459
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
