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 |
|
A2 F5 I179 R1
|
182 |
40.3 |
1547118 |
96.8% |
1497610 |
120.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
478,146 |
A→C |
F572V (TTT→GTT) |
acrB ← |
efflux RND transporter permease AcrB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 478,146 | 0 | A | C | 100.0%
| 116.4
/ NA
| 32 | F572V (TTT→GTT) | acrB | efflux RND transporter permease AcrB |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (15/17); total (15/17) |
CCGTTAACGGCGAACACCGACTCAACGTTGTTCTTTTCTTTGGTCAGATAGTAATGCGTTACCTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAAACACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACTGCGCAGAATACCGCCTACGCTGTCG > NZ_CP009273/478019‑478276
|
ccgTTAACGGCGAACACCGACTCAACGTTGTTCTTTTCTTTGGTCAGATAGTAATGCGTTACCTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGt < 2:747653/139‑1 (MQ=255)
aCGGCGAACACCGACTCAACGTTGTTCTTTTCTTTGGTCAGATAGTAATGCGTTACCTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCAt < 2:451942/139‑1 (MQ=255)
cGTTGTTCTTTTCTTTGGTCAGATAGTAATGCGTTACCTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTgg > 2:542957/1‑139 (MQ=255)
ttcttttcttTGGTCAGATAGTAATGCGTTACCTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGAc > 2:352487/1‑139 (MQ=255)
ctttGGTCAGATAGTAATGCGTTACCTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGa < 1:542957/138‑1 (MQ=255)
aCCTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACg < 1:352487/138‑1 (MQ=255)
ccTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACga < 2:119565/138‑1 (MQ=255)
aTTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATc < 1:436306/139‑1 (MQ=255)
aGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGa > 2:619840/1‑138 (MQ=255)
tttCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAg > 1:494924/1‑138 (MQ=255)
gtgtACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAg > 1:232741/1‑139 (MQ=255)
cGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTa < 2:194900/137‑1 (MQ=255)
cGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTa > 1:194900/1‑137 (MQ=255)
tCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGcc < 2:620526/104‑1 (MQ=255)
tCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGcc > 1:620526/1‑104 (MQ=255)
tCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGcc > 1:179320/1‑139 (MQ=255)
ccTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTa < 2:486957/133‑1 (MQ=255)
ccTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTa > 1:486957/1‑133 (MQ=255)
ccTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCAGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGccc > 1:74935/1‑139 (MQ=255)
gctgGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTa < 2:104098/119‑1 (MQ=255)
gctgGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTa > 1:104098/1‑119 (MQ=255)
aCCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCGGTACTGCGCAGAATACCGCCTACGc < 1:701749/139‑1 (MQ=255)
aTGGTCATAACCACGCCCTGGTCCTCAGCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACTGCGCAGAATACCGCCTACGCTgg < 2:247965/139‑2 (MQ=255)
tGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCa < 2:347281/48‑1 (MQ=255)
tGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCa > 1:347281/1‑48 (MQ=255)
tGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATc > 1:77131/1‑86 (MQ=255)
tGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATc < 2:77131/86‑1 (MQ=255)
tGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACTgcgc > 2:567056/1‑119 (MQ=255)
tGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACTgcgc < 1:567056/119‑1 (MQ=255)
gTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACTGCGCAGAATACCGCCTACGCTGTCg < 2:179320/138‑1 (MQ=255)
tAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATc > 1:756855/1‑80 (MQ=255)
tAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATc < 2:756855/80‑1 (MQ=255)
|
CCGTTAACGGCGAACACCGACTCAACGTTGTTCTTTTCTTTGGTCAGATAGTAATGCGTTACCTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAAACACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACTGCGCAGAATACCGCCTACGCTGTCG > NZ_CP009273/478019‑478276
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CGTCCCGCAAAGCCGAAGCCGTTAACGGCGAACACCGACTCAACGTTGTTCTTTTCTTTGGTCAGATAGTAATGCGTTACCTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAAACACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACTGCGCAGAATACCGCCTACGCTGTCGGTGTAGTGGTGCGTGCTCT > NZ_CP009273/478001‑478295
|
ttttttttttttcaagcagaagacggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacagACCTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCA < SRR3722133.753494/70‑1 (MQ=60)
ttttttttttttttttttcaagcagaagacggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacagGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGC < SRR3722133.579397/66‑1 (MQ=60)
TCTTTGGTCAGATAGTAATGCGTTACCTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCC < SRR3722133.550189/150‑1 (MQ=60)
cagaagacggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacaGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATA < SRR3722133.8477/90‑1 (MQ=60)
TACCTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATA < SRR3722133.357407/150‑1 (MQ=60)
TCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGC > SRR3722133.501598/1‑150 (MQ=60)
CATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCAC < SRR3722133.442263/151‑1 (MQ=60)
GAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGG > SRR3722133.235908/1‑151 (MQ=60)
CTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACG > SRR3722133.197492/1‑151 (MQ=60)
TCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGActgtctcttatacacatctccgagc > SRR3722133.628676/1‑126 (MQ=60)
TCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCC > SRR3722133.181666/1‑151 (MQ=60)
CTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCC > SRR3722133.493525/1‑151 (MQ=60)
CTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCAGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCC > SRR3722133.75886/1‑151 (MQ=60)
GCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACctgtctctt > SRR3722133.105456/1‑141 (MQ=60)
aagagacaGCAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACTGCGCAGAATACCGCC < SRR3722133.574583/142‑1 (MQ=60)
CAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACctgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccgtcttctgcttgaaaaaaaaaaaccg > SRR3722133.352155/1‑70 (MQ=60)
CAGCTGAACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCtgtctcttatacacatctccgagcccacgagaccgtact > SRR3722133.78106/1‑109 (MQ=60)
AACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCtgtctcttatacacatctccgagcccacgagaccgtactagatctcgt > SRR3722133.766655/1‑103 (MQ=60)
AACCATGGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCGGTACTGCGCAGAATACCGCCTACGCTGTCGGTGTAG < SRR3722133.710827/151‑1 (MQ=60)
GGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACTGCGCAGAATACCGCCTACGCctgtctcttatacacat > SRR3722133.673357/1‑134 (MQ=60)
GGTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACTGCGCAGAATACCGCCTACGCTGTCGGTGTAGTGGctg > SRR3722133.587153/1‑148 (MQ=60)
GTCATAACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACTGCGCAGAATACCGCCTACGCTGTCGGTGTAGTGGTGCG > SRR3722133.229000/1‑151 (MQ=60)
ACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACctgtctcttatacacatctccgagcccacgagaccgtact > SRR3722133.465353/1‑106 (MQ=60)
ACCACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACTGCGCAGAATACCGCCTACGCTGTCGGTGTAGTGGTGCtgtctct > SRR3722133.15296/1‑144 (MQ=60)
|
CGTCCCGCAAAGCCGAAGCCGTTAACGGCGAACACCGACTCAACGTTGTTCTTTTCTTTGGTCAGATAGTAATGCGTTACCTCATTGAGCACTTTCTGTGTACGTTCCTGCGTTGCACCTGCTGGCAGCTGAACCATGGTCATAAACACGCCCTGGTCCTCATCTGGCAAGAAGGAGCTTGGCAGACGCACGAACAGATAGGCCATGCCGACCACGATGATCAGATACAGCACCAGGTAACGCCCCGTACTGCGCAGAATACCGCCTACGCTGTCGGTGTAGTGGTGCGTGCTCT > NZ_CP009273/478001‑478295
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
