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 |
|
A9 F1 I1 R1
|
759 |
71.0 |
3673240 |
91.5% |
3361014 |
104.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,744,740 |
C→T |
G428G (GGC→GGT) |
mdtK → |
multidrug efflux system transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,744,740 | 0 | C | T | 100.0%
| 91.6
/ NA
| 30 | G428G (GGC→GGT) | mdtK | multidrug efflux system transporter |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (16/14); total (16/14) |
CCATTTTCTATATTACCTTTACGGCTTACTGGGTGCTGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGCCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCATCCCGCTAATAAAGACAAGGCGCAACCTTCACGGGTTGCGCCTG > NC_000913/1744613‑1744865
|
ccATTTTCTATATTACCTTTACGGCTTACTGGGTGCTGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGc < 2:91883/139‑1 (MQ=255)
ccTTTACGGCTTACTGGGTGCTGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTatgatgat < 1:1438403/139‑1 (MQ=255)
ttACGGCTTACTGGGTGCTGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGc > 2:335959/1‑121 (MQ=255)
ttACGGCTTACTGGGTGCTGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGc < 1:335959/121‑1 (MQ=255)
ttACGGCTTACTGGGTGCTGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGTAGCCATTatg < 1:636377/131‑1 (MQ=255)
ttACGGCTTACTGGGTGCTGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGTAGCCATTatg > 2:636377/1‑131 (MQ=255)
tACTGGGTGCTGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGc < 1:634980/139‑1 (MQ=255)
ggCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAAc > 2:1482633/1‑139 (MQ=255)
cTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAAc > 2:1068363/1‑139 (MQ=255)
aCCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCgg < 1:382391/70‑1 (MQ=255)
aCCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCgg > 2:382391/1‑70 (MQ=255)
gTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCAt < 1:1126831/133‑1 (MQ=255)
atCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTCATTATTGGTCTGACGTCGGCAGCCATTATGAGGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCAt > 2:1126831/2‑133 (MQ=255)
tGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATAATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCCTGTCTCtaatac < 1:1068363/139‑2 (MQ=255)
gAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGc > 2:1423589/1‑56 (MQ=255)
gAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGc < 1:1423589/56‑1 (MQ=255)
cTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAg > 2:1544985/1‑54 (MQ=255)
cTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAg < 1:1544985/54‑1 (MQ=255)
tGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCAtt > 1:1653795/1‑107 (MQ=255)
tGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCAtt < 2:1653795/107‑1 (MQ=255)
cagcagGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCATCCCGCTAATAAAGACAAGGCGCAAc > 2:1434309/1‑139 (MQ=255)
agcagGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGc < 1:615782/45‑1 (MQ=255)
agcagGCTTCTGGATAGGCTTTATTATTGGTCTGACGTCGGCAGc > 2:615782/1‑45 (MQ=255)
ggATAGGCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCATCCCGCTAATAAAGACAAGGCGCAACCATCACGGGTTg > 1:561020/1‑139 (MQ=255)
gCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCATCCCGCTAATAAAGACAAGGCGCAACCTTCACGGGTTGCGCCTg > 1:492452/1‑139 (MQ=255)
gCTTTATTATTGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCATCCCGCTAATAAAGACAAGGCGCAACCTTCACGGGTTGCGCCTg > 1:476342/1‑139 (MQ=255)
attattGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCAt < 2:1542813/91‑1 (MQ=255)
attattGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCAt > 1:1542813/1‑91 (MQ=255)
tGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCATCCCGCTAATAAAGAc > 2:179283/1‑101 (MQ=255)
tGGTCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCATCCCGCTAATAAAGAc < 1:179283/101‑1 (MQ=255)
|
CCATTTTCTATATTACCTTTACGGCTTACTGGGTGCTGGGCTTGCCAAGCGGCTATATTCTGGCACTGACCGATCTGGTCGTTGAACCTATGGGGCCAGCAGGCTTCTGGATAGGCTTTATTATTGGCCTGACGTCGGCAGCCATTATGATGATGTTGCGTATGCGGTTCCTGCAACGTCTGCCGTCAGCCATCATTCTGCAACGAGCATCCCGCTAATAAAGACAAGGCGCAACCTTCACGGGTTGCGCCTG > NC_000913/1744613‑1744865
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
