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 |
|
A11 F28 I1 R1
|
134 |
60.5 |
2175152 |
94.0% |
2044642 |
138.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,714,326 |
(T)9→8 |
intergenic (+55/‑51) |
dtpA → / → gstA |
dipeptide/tripeptide:H(+) symporter DtpA/glutathione S‑transferase GstA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,714,318 | 0 | T | . | 95.7%
| 84.5
/ ‑1.2
| 23 | intergenic (+47/‑59) | dtpA/gstA | dipeptide/tripeptide:H(+) symporter DtpA/glutathione S‑transferase GstA |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base . (7/15); total (7/16) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.13e-01 |
TGATGCTGCTGACCGCGCCGAAACTGCACCGCATGACGCAGGATGACGCTGCAGACAAAGCGGCGAAAGCAGCCGTAGCGTAAAATTCAGGGAAACTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGCTTTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACAAAAGGAGTTACCGATGAAATTGTTCTACAAACCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTA > NC_000913/1714189‑1714452
|
tGATGCTGCTGACCGCGCCGAAACTGCACCGCATGACGCAGGATGACGCTGCAGACAAAGCGGCGAAAGCAGCCGTAGCGTAAAATTCAGGGAAACTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGCttttttttgtt < 1:331036/140‑4 (MQ=255)
tgctgcTGACCGCGCCGAAACTGCACCGCATGACGCAGGATGACGCTGCAGACAAAGCGGCGAAAGCAGCCGTAGCGTAAAATTCAGGGAAACTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAg < 1:1063093/140‑1 (MQ=255)
tgctgcTGACCGCGCCGAAACTGCACCGCATGACGCAGGATGACGCTGCAGACAAAGCGGCGAAAGCAGCCGTAGCGTAAAATTCAGGAAACCTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAg < 2:511827/140‑1 (MQ=255)
tgctgACCGCGCCGAAACTGCCCCGCATGACGCAGGATGACGCTGCAGACAAAGGGGCGAAAGCAGCCGTAGCGTAAAATTCAGGGAAACTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCaa < 1:336485/140‑1 (MQ=255)
gctgACCGCGCCGAAACTGCACCGCATGACGCAGGATGACGCTGCAGACAAAGCGGCGAAAGCAGCCGTAGCGTAAAATTCAGGGAAACTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAAc > 1:571671/1‑140 (MQ=255)
ctgACCGCGCCGAAACTGCACCGCATGACGCAGGATGACGCTGCAGACAAAGCGGCGAAAGCAGCCGTAGCGTAAAATTCAGGGAAACTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACg < 1:696257/140‑1 (MQ=255)
tgACCGCGCCGAAACTGCACCGCATGACGCAGGATGACGCTGCAGACAAAGCGGCGAAAGCAGCCGTAGCGTAAAATTCAGGGAAACTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGc > 2:744869/1‑140 (MQ=255)
cgacGAAACTGACCCGCATGCCGCAGGATGACCCGGAAGACAAAGCGGCGAACGCCGCCGTAGGGTAAAATTCAGGGAAACTTTTTTCCAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTAcc < 2:346233/137‑1 (MQ=255)
gcCGAAACTGCACCGCATGACGCAGGATGACGCTGCAGACAAAGCGGCGAAAGCAGCCGTAGCGTAAAATTCAGGGAAACTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGCTTTTTTTTTGTTCAGCAACGCACTAcc < 1:1000789/140‑1 (MQ=255)
ccGCATGACGCAGGATGACGCTGCAGACAAAGCGGCGAAAGCAGCCGTAGCGTAAAATTCAGGGAAACTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACca < 2:28018/140‑1 (MQ=255)
gCATGACGCAGGATGACGCTGCAGACAAAGCGGCGAAAGCAGCCGTAGCGTAAAATTCAGGAAAACTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACcaca < 2:784148/140‑1 (MQ=255)
gACGCAGGATGACGCTGCAGACAAAGCGGCGAAAGCAGCCGTAGCGTAAAATTCAGGGAAACTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACa > 2:157046/1‑140 (MQ=255)
aCGCAGGATGACGCTGCAGAAAAAGCGGCGAAAGCAGCCGTAGCGTAAAATTCAGGGAACCTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACaa < 2:718957/140‑1 (MQ=255)
cGTAAAATTCAGGGAAACTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACAAAAGGAGTTACCGATGAAATTGTTCTACAAACCGGGTGCCTGct > 1:976374/1‑140 (MQ=255)
aTTCAGGGAACCTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACAAAAGGAGTTACCGATGAAATTGTTCTACAAACCGGGTGCCTGCTCTCTCg < 1:744869/140‑1 (MQ=255)
aCTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACAAAAGGAGTTACCGATGAAATTGTTCTACAAACCGGGTGCCTGCTCTCTCGCTTCCCatat < 2:976374/140‑1 (MQ=255)
tctTTTACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACAAAAGGAGTTACCGATGAAATTGTTCTACAAACCGGGTGCCTGCTCTCTCGCTTCCCATATCa < 1:833336/140‑1 (MQ=255)
ttttACAAGCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACAAAAGGAGTTACCGATGAAATTGTTCTACAAACCGGGTGCCTGCTCTCTCGCTTCCCATATCAcc < 1:705876/140‑1 (MQ=255)
gCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACAAAAGGAGTTACCGATGAAATTGTTCTACAAACCGGGTGCCTGCTCTCTCGCTTc > 2:628921/1‑122 (MQ=255)
gCCGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACAAAAGGAGTTACCGATGAAATTGTTCTACAAACCGGGTGCCTGCTCTCTCGCTTc < 1:628921/122‑1 (MQ=255)
cGCTAACTTTTCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACAAAAGGAGTTACCGATGAAATTGTTCTACAAACCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTgaga > 1:928633/1‑140 (MQ=255)
ttttCGTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACAAAAGGAGTTACCGATGAAATTGTTCTACAAACCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGaaa < 1:157046/140‑1 (MQ=255)
gTTAGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACAAAAGGAGTTACCGATGAAATTGTTCTACAAACCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTAAGAGCGGAAAGGAtt < 1:712842/140‑1 (MQ=255)
aGCGGC‑TTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACAAAAGGAGTTACCGATGAAATTGTTCTACAAACCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTa > 1:354857/1‑140 (MQ=255)
|
TGATGCTGCTGACCGCGCCGAAACTGCACCGCATGACGCAGGATGACGCTGCAGACAAAGCGGCGAAAGCAGCCGTAGCGTAAAATTCAGGGAAACTCTTTTACAAGCCGCTAACTTTTCGTTAGCGGCTTTTTTTTTGTTCAGCAACGCACTACCATACTTTAAACCACAGACAAAAGGAGTTACCGATGAAATTGTTCTACAAACCGGGTGCCTGCTCTCTCGCTTCCCATATCACCCTGCGTGAGAGCGGAAAGGATTTTA > NC_000913/1714189‑1714452
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
