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 |
|
A16 F20 I40 R1
|
12 |
45.4 |
1473824 |
96.3% |
1419292 |
148.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP009273 |
2,861,917 |
G→A |
Q66* (CAG→TAG) |
nlpD ← |
activator of AmiC murein hydrolase activity, lipoprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP009273 | 2,861,917 | 0 | G | A | 98.0%
| 158.4
/ NA
| 51 | Q66* (CAG→TAG) | nlpD | activator of AmiC murein hydrolase activity, lipoprotein |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (26/23); total (26/25) |
| Fisher's exact test for biased strand distribution p-value = 4.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAATGTTCCCATACTGACGGTTATAGACGATGCGTCCGTTTTCCATCTGTACCGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTGCGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTTGAAGTGTCAGAACAGCCTGCCAGCCATAGCGAAACCA > CP009273/2861773‑2862060
|
gAATGTTCCCATACTGACGGTTATAGACGATGCGTCCGTTTTCCATCTGTACCGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCt < 1:581061/149‑1 (MQ=255)
aaTGTTCCCAAACTGACAGTTATAGACGATGCGTCCGTTTTCCATCTGTACCGGCTGCTCAGCTACTGGCTGCACTGGCTGGATTTGCGGGTGTTCAGTAGCCTGAATTTGTGGCTGCTGCACCGGCGGAATTTGCGGTTGCTACGCTg > 2:544689/1‑149 (MQ=255)
aTGTTCCCATACTGACGGTTATAGACGATGCGTCCGTTTTCCATCTGTACCGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGt < 1:690328/149‑1 (MQ=255)
aCTGACGGTTATAGACGATGCGTCCGTTTTCCATCTGTACCGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGGCgtcgtc > 1:646380/1‑149 (MQ=255)
gTTATAGACGATGCGTCCGTTTTCCATCTGTACCGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTCGCCACGCGGTGTTCGTCGTCCCCAttt > 1:198900/1‑149 (MQ=255)
tatcGACGATGCGTCGGTGTTCCATCTGTCCCGGCTGCTGCGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGACTTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTc < 2:482804/149‑1 (MQ=255)
tataGACGATGCGTCCGTTTTCCATCTGTACCGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTc > 1:40733/1‑149 (MQ=255)
ataGACGATGCGTCCGTTTTCCATCTGTACCGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTcg < 1:563541/149‑1 (MQ=255)
aCGATGCGTCCGTTTTCCATCTGTACCGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTcggcgg < 2:430453/149‑1 (MQ=255)
ccGTTTTCCATCTGTACCGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAAt < 1:489885/149‑1 (MQ=255)
cGTTTTCCTGCGGTTCCGGCTGCTGAGCGACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATc < 2:381957/149‑1 (MQ=255)
cGTTTCCCATCTGTTCCGGCTGCTGAGCTACTGGCCGCACTGGCTGGATTGGCGGTGGGTGAGTCGCCTGAATTTGTGGCTGCTGCACCGGCTGACGTTTCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATc < 2:313159/149‑1 (MQ=255)
aTCTGTACCGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATccc > 2:541224/1‑149 (MQ=255)
tCTGTACCGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTCCGCTGCAGACGTCGTCCCCCTTTTCGGCGGCGGCGTAATCAACATACCa < 2:616797/149‑1 (MQ=255)
tGTACCGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGa > 2:418832/1‑149 (MQ=255)
ccGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGACGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTa < 2:437249/149‑1 (MQ=255)
cGGCTGCTGGGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCGGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTATGCTGTAGACGTCGTCACCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAg < 2:156967/149‑1 (MQ=255)
ggCTGCTGAGCTACGGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGt < 1:287732/149‑1 (MQ=255)
ctgctgAGCTACTGGCGGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGCATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTAt < 1:581955/149‑1 (MQ=255)
gctgAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTAttt > 2:183752/1‑149 (MQ=255)
gctgAGCTACTGGCTGCACTGGCTGGATTTGCGGTCGGGGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTAttt > 2:159329/1‑149 (MQ=255)
tgAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGc > 1:696071/1‑149 (MQ=255)
gAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCa < 1:603644/149‑1 (MQ=255)
aGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAg > 1:219622/1‑149 (MQ=255)
cTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTTCACGGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGgc > 1:144143/1‑149 (MQ=255)
cTACTGGCTGCACTGGCTGGATTTGCGGTAGTTGAGTTGCCTGAATTTGTGGCTGCTGCACCGACTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGgc > 1:478035/1‑149 (MQ=255)
tACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGgcg > 1:697242/1‑149 (MQ=255)
tGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGCATTAGTATTTGCAGGCGCAt > 1:496258/1‑149 (MQ=255)
cTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGc > 1:357828/1‑149 (MQ=255)
tGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGAc > 1:488132/1‑149 (MQ=255)
ggTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGAccgg < 1:736053/149‑1 (MQ=255)
gttgttGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCGGAccggg > 1:103851/1‑148 (MQ=255)
gAGTTGCCTGAATTTGTGGCTGCTGCACCGGGTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCCAGAACATCTCCATTAACGGAGCTGAccggtgccggt < 1:177435/149‑1 (MQ=255)
ccTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTGACGGAGCTGACCGGTGCCGGTGGAttt > 1:513899/1‑149 (MQ=255)
cTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTTg > 1:487186/1‑149 (MQ=255)
tGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTTGa > 1:558693/1‑149 (MQ=255)
gAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTTGaa < 1:39363/149‑1 (MQ=255)
tttGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTTGAAgtg < 1:183752/149‑1 (MQ=255)
gctgctGCACCGGCTGAATTTGCGGTTGCCACGATGCAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTAGTGGCAGGTGCATTGCCATTAACTGAGCTGACCGGTGCCGGTGGATTTGAAGTGTCAGaa < 2:356786/149‑1 (MQ=255)
ctgctgCCCCGGCTGCAGTTGCGGTTGCGACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGTCGTAATCAACAGACCAGAATTAGTATCTGCAGGCGCAGTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTTGAAGTGTCAGAAc < 2:240463/149‑1 (MQ=255)
tgctgcACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTTGAAGGGTCAGAACa > 1:62461/1‑149 (MQ=255)
tgctgcACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTGGAAGTGTCAGAACa > 1:62542/1‑149 (MQ=255)
tgcACCGGCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCCTTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGACGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTCGAAGTGTCCGAACAGcc > 2:329365/1‑149 (MQ=255)
gCTGAATTTGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGCGCTGCCCGTTTCTTGTGGATTTGAAGTATCAGAACAGCCTgccagc < 1:541827/149‑1 (MQ=255)
gCTGAATTGGCGGTTGCTGCGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCCGACCGGTGCCGGTGGATTTGAAGTGCCACAAccagaggcggtg < 2:7766/149‑12 (MQ=255)
tttGCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTTGAAGTGTCAGAACAGCCTGCCAGCCATAGc > 1:579006/1‑149 (MQ=255)
gCGGTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCTGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTTGAAGTGTCAGAACAGCCTGCCAGCCATAGCGaa < 1:17696/149‑1 (MQ=255)
ggTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTTGAAGTGTCAGAACAGCCt < 2:511762/132‑1 (MQ=255)
ggTTGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTTGAAGTGTCAGAACAGCCt > 1:511762/1‑132 (MQ=255)
ttGCTACGCTGTAGCCGTCGTCCCCATTTGCGGGGGCGGCGTACTCAACATACCAGAATTAGTCTTTGCAGGGTCATTGCCATTTGCGGAGCCGACCGGTGCCGGTGGATTTGAAGTGTCAGAACAGCCTGCCAGCCATAGCGAAACCa < 2:73465/149‑1 (MQ=255)
ttGCTACGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCCGGCGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTTGAAGTGTCAGCACAGCCTGCCAGCCATAGCGAAACCa > 1:46761/1‑149 (MQ=255)
|
GAATGTTCCCATACTGACGGTTATAGACGATGCGTCCGTTTTCCATCTGTACCGGCTGCTGAGCTACTGGCTGCACTGGCTGGATTTGCGGTTGTTGAGTAGCCTGAATTTGTGGCTGCTGCACCGGCTGAATTTGCGGTTGCTGCGCTGTAGACGTCGTCCCCATTTTCGGCGGCGGCGTAATCAACATACCAGAATTAGTATTTGCAGGCGCATTGCCATTAACGGAGCTGACCGGTGCCGGTGGATTTGAAGTGTCAGAACAGCCTGCCAGCCATAGCGAAACCA > CP009273/2861773‑2862060
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
