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 |
2,061,342 |
T→A |
intergenic (‑576/‑774) |
BW25113_RS10415 ← / → BW25113_RS24005 |
IS5‑like element IS5 family transposase/TonB‑dependent receptor plug domain‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,061,342 | 0 | T | A | 100.0%
| 197.8
/ NA
| 51 | intergenic (‑576/‑774) | BW25113_RS10415/BW25113_RS24005 | IS5‑like element IS5 family transposase/TonB‑dependent receptor plug domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base A (21/30); total (21/30) |
AAAGCGAATTCTTTTCTCAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGATCATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTGTTGTGTTT > NZ_CP009273/2061257‑2061428
|
aaaGCGAATTCTTTTCTCAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACAtt > 2:727840/1‑90 (MQ=255)
aaGCGAATTCTTTTCTCAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTa > 2:76346/1‑90 (MQ=255)
gCGAATTCTTTTCTCAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAgt > 1:102139/1‑90 (MQ=255)
tctcAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGaa < 2:785772/90‑1 (MQ=255)
ttCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAAt < 1:749557/90‑1 (MQ=255)
cATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCa < 2:84037/90‑1 (MQ=255)
cATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCa < 2:1041538/90‑1 (MQ=255)
tctcAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGc < 2:47808/90‑1 (MQ=255)
tctcAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGc < 1:361626/90‑1 (MQ=255)
tctcAGACACAGCCTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGc < 1:1173220/90‑1 (MQ=255)
ctcAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCg > 2:1186674/1‑90 (MQ=255)
tcAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCgg < 1:110070/90‑1 (MQ=255)
tcAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCgg < 2:1232523/90‑1 (MQ=255)
aGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAg > 2:570756/1‑90 (MQ=255)
cacaGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTAc < 2:1227915/90‑1 (MQ=255)
caGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCa > 2:422324/1‑90 (MQ=255)
gCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACt > 2:900779/1‑90 (MQ=255)
ttCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGt > 2:842063/1‑90 (MQ=255)
aCTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGtcatc < 2:683346/90‑1 (MQ=255)
aCTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGtcatc < 1:384660/90‑1 (MQ=255)
tCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTTGTCATCAc < 1:591429/90‑1 (MQ=255)
tCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCAc < 2:233100/90‑1 (MQ=255)
ccATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACg < 2:1075700/90‑1 (MQ=255)
ccATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACg > 2:22405/1‑90 (MQ=255)
cATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGt < 1:727840/90‑1 (MQ=255)
cATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGt < 1:116420/90‑1 (MQ=255)
cATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGt < 2:333422/90‑1 (MQ=255)
aTGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGt > 2:486656/1‑89 (MQ=255)
aTGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGt < 1:486656/89‑1 (MQ=255)
aTGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTa > 2:1220440/1‑90 (MQ=255)
gTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGGGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTAttt > 1:910111/1‑90 (MQ=255)
tAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTta < 2:1148187/90‑1 (MQ=255)
aaTGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTtat > 2:1209224/1‑90 (MQ=255)
aTGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCa < 2:1143940/58‑1 (MQ=255)
aTGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCa > 1:1143940/1‑58 (MQ=255)
aTGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTtata > 1:1149655/1‑90 (MQ=255)
ggCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTtatata > 1:7720/1‑90 (MQ=255)
cAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCAt < 1:1183990/90‑1 (MQ=255)
aaaTACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATg > 2:855/1‑90 (MQ=255)
aaaTACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATg > 2:80488/1‑90 (MQ=255)
aaaTACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATg > 2:99337/1‑90 (MQ=255)
aaaTACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATg > 2:521976/1‑90 (MQ=255)
aTACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGaa < 2:147242/90‑1 (MQ=255)
aTACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGaa < 1:941279/90‑1 (MQ=255)
aTACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGaa < 1:714038/90‑1 (MQ=255)
aaGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTAt < 2:150526/90‑1 (MQ=255)
aaGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTAt < 1:326645/90‑1 (MQ=255)
gCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTAttgttg > 2:24272/1‑90 (MQ=255)
cAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTGTTgtgt < 1:451089/90‑1 (MQ=255)
cAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTGTTgtgt < 1:76346/90‑1 (MQ=255)
ggAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTGTTGTGttt < 1:22405/90‑1 (MQ=255)
|
AAAGCGAATTCTTTTCTCAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGATCATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTGTTGTGTTT > NZ_CP009273/2061257‑2061428
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GAAGCTCTCCAAGAAAGCGAATTCTTTTCTCAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGATCATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTGTTGTGTTTTGTACATCAG > NZ_CP009273/2061244‑2061438
|
GAAGCTCTCCAAGAAAGCGAATTCTTTTCTCAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAAC < SRR3722089.818272/100‑1 (MQ=60)
TCTCCAAGAAAGCGAATTCTTTTCTCAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAG < SRR3722089.104207/100‑1 (MQ=60)
CTCCAAGAAAGCGAATTCTTTTCTCAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGT > SRR3722089.103410/1‑100 (MQ=60)
TTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGG < SRR3722089.759477/100‑1 (MQ=60)
TCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCAC < SRR3722089.366084/100‑1 (MQ=60)
TCTCAGACACAGCCTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCAC < SRR3722089.1191083/100‑1 (MQ=60)
TCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTC < SRR3722089.111417/100‑1 (MQ=60)
CTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGGGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTT > SRR3722089.923347/1‑100 (MQ=60)
ACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTAT < SRR3722089.389352/100‑1 (MQ=60)
CTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCtgtctcttatacacatctgac > SRR3722089.1161350/1‑79 (MQ=60)
CTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATA > SRR3722089.1167157/1‑100 (MQ=60)
TCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTTGTCATCACGTATTTATAT < SRR3722089.598603/100‑1 (MQ=60)
CCATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATA > SRR3722089.7806/1‑100 (MQ=60)
CATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATAT < SRR3722089.492432/100‑1 (MQ=60)
CATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATAT < SRR3722089.737303/100‑1 (MQ=60)
CATGGTAATGGCCCAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATAT < SRR3722089.117840/100‑1 (MQ=60)
CAAATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTG < SRR3722089.1202016/100‑1 (MQ=60)
ATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTGTTG < SRR3722089.723326/100‑1 (MQ=60)
ATACGAAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTGTTG < SRR3722089.955067/100‑1 (MQ=60)
AAGTTGCTCAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTGTTGTGTTT < SRR3722089.330748/100‑1 (MQ=60)
CAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTGTTGTGTTTTGTACATC < SRR3722089.456501/100‑1 (MQ=60)
CAGGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTGTTGTGTTTTGTACATC < SRR3722089.77275/100‑1 (MQ=60)
GGAACATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTGTTGTGTTTTGTACATCAG < SRR3722089.22672/100‑1 (MQ=60)
|
GAAGCTCTCCAAGAAAGCGAATTCTTTTCTCAAATTCTGCATTCTCAGACACAGCTTTCTACTCCATGGTAATGGCCCAAATACGAAGTTGCTCAGGATCATTAGTGGTGCTGAGAAGTTAAATAACCATGCGGAGTACCACTCGTCATCACGTATTTATATATCATGAAGCTATTGTTGTGTTTTGTACATCAG > NZ_CP009273/2061244‑2061438
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
