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 I207 R1
|
218 |
45.0 |
2482936 |
97.1% |
2410930 |
86.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,220,044 |
A→G |
S236P (TCG→CCG) |
yohF ← |
SDR family oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,220,044 | 0 | A | G | 100.0%
| 122.6
/ NA
| 36 | S236P (TCG→CCG) | yohF | SDR family oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (21/15); total (21/15) |
AATGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGACTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAG > NZ_CP009273/2219961‑2220129
|
aaTGAAATGTCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGccc < 1:1034390/90‑1 (MQ=255)
aaTGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGccc < 2:984033/90‑1 (MQ=255)
aaTGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGccc < 2:275641/90‑1 (MQ=255)
aTGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCg > 2:417290/1‑90 (MQ=255)
tGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCgg < 1:306765/90‑1 (MQ=255)
gAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCggt < 1:109261/90‑1 (MQ=255)
tatCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGgtggtg > 1:1160980/1‑90 (MQ=255)
tatCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGgtggtg < 2:827677/90‑1 (MQ=255)
cTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTcc > 1:1032700/1‑90 (MQ=255)
cTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACa > 1:505147/1‑90 (MQ=255)
gggTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGccc > 2:98869/1‑56 (MQ=255)
gggTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGccc < 1:98869/56‑1 (MQ=255)
tGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGgtggtg > 1:1134210/1‑59 (MQ=255)
tGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGgtggtg < 2:1134210/59‑1 (MQ=255)
gAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCgg < 1:1159472/53‑1 (MQ=255)
gAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCgg < 1:168465/53‑1 (MQ=255)
gAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCgg > 2:168465/1‑53 (MQ=255)
gAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCgg > 2:1159472/1‑53 (MQ=255)
gAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCAcaccac > 1:401892/1‑90 (MQ=255)
gAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCAcaccac > 2:688759/1‑90 (MQ=255)
gAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCAcaccac > 2:600304/1‑90 (MQ=255)
gAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCAcaccac > 2:592091/1‑90 (MQ=255)
gAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCAcaccac > 2:1086816/1‑90 (MQ=255)
gAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCAcaccac > 1:219679/1‑90 (MQ=255)
gtgGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGc > 2:1058640/1‑90 (MQ=255)
aTTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGc < 2:1090032/90‑1 (MQ=255)
ttCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCa > 2:237691/1‑90 (MQ=255)
ttCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCa < 2:416194/90‑1 (MQ=255)
tCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCaa < 1:198917/90‑1 (MQ=255)
aaaGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGt < 2:828622/90‑1 (MQ=255)
gccATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGcc > 1:717564/1‑90 (MQ=255)
gccATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGcc > 1:168091/1‑90 (MQ=255)
gccATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGcc > 1:340451/1‑90 (MQ=255)
ccATCCACTATCGACGGCTGCCCGGGGGGGTAATTTGCGGCCTCCGAACAAAGCCACACCACCAAGCTGGCAATCGCATGCGTTGCGCCa > 1:36684/1‑90 (MQ=255)
cAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCaa < 2:717564/90‑1 (MQ=255)
aaCGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAg > 2:313872/1‑90 (MQ=255)
|
AATGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGACTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAG > NZ_CP009273/2219961‑2220129
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 33 ≤ 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
GACCAAAATATTACCCAATGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGACTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAGGGAATCG > NZ_CP009273/2219945‑2220136
|
GACCAAAATATTACCCAATGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGG > SRR3722089.905793/1‑100 (MQ=60)
GACCAAAATATTACCCAATGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGG > SRR3722089.358802/1‑100 (MQ=60)
ACCAAAATATTACCCAATGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGC < SRR3722089.92329/100‑1 (MQ=60)
ACCAAAATATTACCCAATGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGC < SRR3722089.686712/100‑1 (MQ=60)
ACCAAAATATTACCCAATGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGC < SRR3722089.467170/100‑1 (MQ=60)
agatggtcgtcggcagcgtcagatgtgtataagagacagGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGG < SRR3722089.1032626/61‑1 (MQ=60)
TACCCAATGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGG < SRR3722089.727437/100‑1 (MQ=60)
CCCAATGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTG > SRR3722089.1178638/1‑100 (MQ=60)
gcgtcagatgtgtataagagacagGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAA < SRR3722089.100103/76‑1 (MQ=60)
AATGAAATGTCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAA < SRR3722089.1049849/100‑1 (MQ=60)
gcagcgtcagatgtgtataagagacagATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATT < SRR3722089.170573/73‑1 (MQ=60)
gcagcgtcagatgggtataagagatagATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATT < SRR3722089.1177112/73‑1 (MQ=60)
TGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATT < SRR3722089.310658/100‑1 (MQ=60)
GAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTT < SRR3722089.110604/100‑1 (MQ=60)
ACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCC > SRR3722089.1048127/1‑100 (MQ=60)
CCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACA > SRR3722089.511100/1‑100 (MQ=60)
GATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCtgtctcttatacacatctga > SRR3722089.1151463/1‑80 (MQ=60)
ATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCAC > SRR3722089.222465/1‑100 (MQ=60)
ATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCAC > SRR3722089.406775/1‑100 (MQ=60)
TCGCCAACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGT < SRR3722089.201428/100‑1 (MQ=60)
ACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCC > SRR3722089.344692/1‑100 (MQ=60)
ACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCC > SRR3722089.726895/1‑100 (MQ=60)
ACATAAAGCCGCCATCCACTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCC > SRR3722089.170187/1‑100 (MQ=60)
CATAAAGCCGCCATCCACTATCGACGGCTGCCCGGGGGGGTAATTTGCGGCCTCCGAACAAAGCCACACCACCAAGCTGGCAATCGCATGCGTTGCGCCA > SRR3722089.37140/1‑100 (MQ=60)
gacagATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAGGG < SRR3722089.537120/95‑1 (MQ=60)
CTATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCctgtctcttatacacatctgacgctgccgacgaccatctt > SRR3722089.646243/1‑60 (MQ=60)
ATCAACGGCTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAGGGAATCG > SRR3722089.1125006/1‑100 (MQ=60)
|
GACCAAAATATTACCCAATGAAATATCCACGCACCTCACTGCGCTATTCTGGGTTGAACTGTGGATTCGCCAACATAAAGCCGCCATCCACTATCAACGACTGCCCGGTGGTGTAATTTGCGCCCTCCGAACAAAGCCACACCACCAGGCTGGCAATCTCATGCGTTGCGCCAAAACGCCGCAAGGGAATCG > NZ_CP009273/2219945‑2220136
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
