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 |
|
A5 F1 I1 R1
|
770 |
51.4 |
2439994 |
93.8% |
2288714 |
110.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,672,863 |
A→G |
L96P (CTG→CCG) |
mdtI ← |
multidrug efflux system transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,672,863 | 0 | A | G | 100.0%
| 114.2
/ NA
| 32 | L96P (CTG→CCG) | mdtI | multidrug efflux system transporter |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (17/15); total (17/15) |
TTTCTGTTACCGGTTTTCGCGACAAGCTGGATCAACTGTCGCAAAAATAATGTTCAAACGCTGCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCAGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTGGCGGCAATACCAAACCCGCCCCACAATGCATAAGCGACAGACAAGTCGATCCCTTTAACGGCTTGAGAA > NC_000913/1672732‑1672994
|
tttCTGTTACCTGTTTTCGCGACAAGCTGGATCAACTGTCGCAAAAAAAACGTTCAAACGCTGCCCAACAGCGCGGGCCGCGTCTTCATCAGGCAAGTTTCCCCATGATCATTCCAGCCAACAGCAAGACCGGGCCAAt < 1:952022/139‑1 (MQ=255)
aCTGTCGCAAAAATAATGTTCAAACGCTGCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAAc < 2:239850/136‑1 (MQ=255)
aCTGTCGCAAAAATAATGTTCAAACGCTGCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAAc > 1:239850/1‑136 (MQ=255)
cTGTCGCAAAAATAATGTTCAAACGCTGCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGc > 1:949117/1‑100 (MQ=255)
cTGTCGCAAAAATAATGTTCAAACGCTGCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGc < 2:949117/100‑1 (MQ=255)
gCAAAAATAATGTTCAAACGCTGCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCaa > 1:110268/1‑139 (MQ=255)
ttCAAACGCTGCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCtt > 1:412651/1‑95 (MQ=255)
ttCAAACGCTGCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCtt < 2:412651/95‑1 (MQ=255)
cAAACGCTGCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGt > 2:918494/1‑139 (MQ=255)
aaaCGCTGCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTg < 2:110268/139‑1 (MQ=255)
cTGCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTggcggc < 1:918494/139‑1 (MQ=255)
gCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCtt < 2:1174137/85‑1 (MQ=255)
gCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCtt > 1:1174137/1‑85 (MQ=255)
gCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTGGCGGCaa > 1:1059677/1‑139 (MQ=255)
cccGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTggcggc > 2:477545/1‑136 (MQ=255)
cccGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTggcggc < 1:477545/136‑1 (MQ=255)
cgcgGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTGGCGGCAATACCAAAcc > 2:60040/1‑139 (MQ=255)
tttCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAAcc > 1:19270/1‑84 (MQ=255)
tttCACCATGATCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAAcc < 2:19270/84‑1 (MQ=255)
aTCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGAc > 2:516511/1‑58 (MQ=255)
aTCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGAc < 1:516511/58‑1 (MQ=255)
aTCATTCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTGGCGGCAATACCAAACCCGCCCCACAATGCATAAGCGACAGACAAGTCGATcc > 1:617682/1‑139 (MQ=255)
ttCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAAc > 2:1047734/1‑69 (MQ=255)
ttCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAAc < 1:1047734/69‑1 (MQ=255)
ttCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTGGCGGCAATACCaa > 1:911832/1‑96 (MQ=255)
ttCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTGGCGGCAATACCaa < 2:911832/96‑1 (MQ=255)
ttCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTGGCGGCAATACCAAACCCGCCCCACAATGCATAAGCgacaga > 2:255829/1‑124 (MQ=255)
ttCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTGGCGGCAATACCAAACCCGCCCCACAATGCATAAGCgacaga < 1:255829/124‑1 (MQ=255)
ttCCAGCCAACAGCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTGGCGGCAATACCAAACCCGCCCCACAATGCATAAGCGACAGACAAGTCGATCCCttt < 1:60040/139‑1 (MQ=255)
gCCAACAGCAAGACCGGGCAAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCAGCTAACGTGGCGGCAATACCAAACCCGCCCCACAATGCATAAGCGACAGACAAGTCGATCCCTTTAACgg > 1:915591/1‑139 (MQ=255)
gCAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTGGCGGCAATACCAAACCCGCCCCACAATGCATAAGCGACAGACAAGTCGATCCCTTTAACGGCTTgaga < 2:1059677/139‑1 (MQ=255)
cAAGACCGGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTGGCGGCAATACCAAACCCGCCCCACAATGCATAAGCGACAGACAAGTCGATCCCTTTAACGGCTTGAGaa > 1:470111/1‑139 (MQ=255)
|
TTTCTGTTACCGGTTTTCGCGACAAGCTGGATCAACTGTCGCAAAAATAATGTTCAAACGCTGCCCGACAGCGCGGGCAGCGTCTTCATCAGGCAAGTTTCACCATGATCATTCCAGCCAACAGCAAGACCAGGCCAATCCAGCCTTTACGATTTAACCGTTGACCAAACAAGATCCAACCTGCGGCTAACGTGGCGGCAATACCAAACCCGCCCCACAATGCATAAGCGACAGACAAGTCGATCCCTTTAACGGCTTGAGAA > NC_000913/1672732‑1672994
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
