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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,837,474 |
G→C |
36.7% |
I315M (ATC→ATG) |
nlpD ← |
predicted outer membrane lipoprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,837,474 | 0 | G | C | 36.7%
| 66.1
/ 75.2
| 79 | I315M (ATC→ATG) | nlpD | predicted outer membrane lipoprotein |
| Reads supporting (aligned to +/- strand): ref base G (28/22); new base C (17/12); total (45/34) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.89e-01 |
TGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAAACAACGCGGCCATCTGCGGTCGCGATAA > minE/1837406‑1837544
|
tgttgtTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTtgatga > 1:3877715/1‑70 (MQ=255)
gttgttCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTtgatga < 1:5424680/69‑1 (MQ=255)
gttgttCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTtgatga < 1:4754187/69‑1 (MQ=255)
gttgttCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTgatgat < 1:4205122/70‑1 (MQ=255)
ttgttCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATa < 1:343340/70‑1 (MQ=255)
ttCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATc < 1:1129091/70‑1 (MQ=255)
ttCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATc < 1:470958/70‑1 (MQ=255)
ttCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCa < 1:4905618/71‑1 (MQ=255)
tttaCCAGCATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGAt < 1:940574/67‑1 (MQ=255)
tttaCCAGCATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGAt < 1:216349/67‑1 (MQ=255)
cGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGAtt < 1:2104168/71‑1 (MQ=255)
cAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGt < 1:210467/71‑1 (MQ=255)
aGCATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGt < 1:2273518/70‑1 (MQ=255)
gCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTgatgat < 1:3767932/55‑1 (MQ=255)
gCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTgatgat < 1:5178212/55‑1 (MQ=255)
gCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTgatgat < 1:760127/55‑1 (MQ=255)
gCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAg < 1:4288213/71‑1 (MQ=255)
gCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAg < 1:969777/71‑1 (MQ=255)
gCATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAg > 1:4278880/1‑71 (MQ=255)
cATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGc < 1:169398/71‑1 (MQ=255)
cATCGTGTCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGc > 1:5110646/1‑71 (MQ=255)
atcgtgtCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGc > 1:2584178/4‑70 (MQ=255)
ttGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCg > 1:2007803/1‑65 (MQ=255)
ttGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAg > 1:1663468/1‑68 (MQ=255)
tgtgTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCcgc > 1:4724543/1‑71 (MQ=255)
tgtgTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCcg > 1:4044360/1‑70 (MQ=255)
tgtgTCGTTATGGGAGTAGGCACTCATGTAATCATCATTATGTTTGATGATAATCATATTAACg > 1:5221032/1‑64 (MQ=255)
gtgtCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCcgcg > 1:3937281/1‑71 (MQ=255)
gtgtCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCcgcg > 1:1290134/1‑71 (MQ=255)
gtgtCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGccac < 1:3115612/70‑3 (MQ=255)
gtgtCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCcacg > 1:2447017/1‑71 (MQ=255)
gtgtCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCcacg > 1:865233/1‑71 (MQ=255)
gtgtCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCcacg > 1:3550347/1‑71 (MQ=255)
gtgtCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACAGTAGCcacg > 1:5366931/1‑71 (MQ=255)
tgtCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATgaga > 1:744114/1‑56 (MQ=255)
tgtCATTATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATgaga > 1:3683978/1‑56 (MQ=255)
tcattATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAg > 1:832223/4‑63 (MQ=255)
tcattATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCa < 1:4151842/67‑1 (MQ=255)
tcattATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCa < 1:147037/67‑1 (MQ=255)
tcattATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAg > 1:4608661/4‑71 (MQ=255)
tcattATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAg > 1:4552884/4‑71 (MQ=255)
tcattATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAg > 1:435145/4‑71 (MQ=255)
tCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAg < 1:5070809/53‑1 (MQ=255)
cattATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTAcc > 1:1162839/3‑58 (MQ=255)
cattATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAg > 1:5488917/3‑70 (MQ=255)
gTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAgcg > 1:279509/1‑71 (MQ=255)
gTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAgcg > 1:171463/1‑71 (MQ=255)
gTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAga > 1:2485721/1‑69 (MQ=255)
attATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGAt > 1:2727593/2‑53 (MQ=255)
attATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTAcc > 1:3314409/2‑57 (MQ=255)
attATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGccac < 1:2958374/64‑3 (MQ=255)
attATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAgct < 1:4579251/70‑2 (MQ=255)
ttATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAgctg < 1:2302439/71‑3 (MQ=255)
ttATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAgctg < 1:4749363/71‑3 (MQ=255)
ttATGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCAgctg < 1:5610259/71‑3 (MQ=255)
taaTGGGCGTAAGCCGTAATGTAATCTTCACTGTGTTTAATCATGATGAGATTACCGTAGCCACGCa < 1:1184967/65‑1 (MQ=255)
tATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAgcgc > 1:4100491/1‑70 (MQ=255)
tGGGCGTAGGCACTCAGGTAATCATCATTTTGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGt > 1:1414191/1‑70 (MQ=255)
tGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGtt < 1:2870711/71‑1 (MQ=255)
gggCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATaa > 1:3229625/1‑42 (MQ=255)
gggCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAAt > 1:4294273/1‑43 (MQ=255)
gggCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAAt > 1:4626672/1‑43 (MQ=255)
gCGTAGGCACTCAGGTAATCATCATTATGTTTgatgat < 1:1852372/38‑1 (MQ=255)
tAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCa < 1:1068833/40‑1 (MQ=255)
ggCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCa > 1:2287529/1‑70 (MQ=255)
gCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATa < 1:1831448/71‑1 (MQ=255)
cTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTAcc < 1:4423282/62‑1 (MQ=255)
cTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAaac < 1:2100593/71‑1 (MQ=255)
cAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAaacaa > 1:4076349/1‑71 (MQ=255)
ggTAATCATCATTATGTTTGATGATAATCAGATTACCGTAg < 1:1838597/41‑1 (MQ=255)
ggTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAAACAAcg > 1:1033989/1‑71 (MQ=255)
gTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATa < 1:893411/63‑1 (MQ=255)
aaTCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAaac > 1:775615/1‑64 (MQ=255)
aaTCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAaac > 1:5385861/1‑64 (MQ=255)
aaTCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAaac > 1:2230364/1‑64 (MQ=255)
catcatTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAg > 1:3969487/1‑43 (MQ=255)
catcatTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAg > 1:3919408/1‑43 (MQ=255)
catcatTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAg > 1:2394416/1‑43 (MQ=255)
catcatTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAaac < 1:1029486/61‑1 (MQ=255)
atcatTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAaacaa > 1:2835029/1‑62 (MQ=255)
atcatTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAAACAACGCGGCCAt < 1:43273/71‑1 (MQ=255)
atTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAAACAACGCGGCCATCt < 1:5115252/70‑1 (MQ=255)
atTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAAACAACGCGGCCATCt < 1:5096701/70‑1 (MQ=255)
ttATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATaaa > 1:4966377/1‑55 (MQ=255)
tGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAaacaa > 1:4051478/1‑55 (MQ=255)
gTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAAACAACGCGGCCATCTGCGGTc > 1:2657380/1‑71 (MQ=255)
tttGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTa < 1:4623498/40‑1 (MQ=255)
tgatgaTAATCAGATTACCGTAGCCGCGCAGCGCGTTAcc > 1:2486644/1‑40 (MQ=255)
tgatgaTAATCAGATTACCGTAGCCGCGCAGCGCGTTAcc > 1:3657265/1‑40 (MQ=255)
tgatgaTAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAg > 1:1107523/1‑42 (MQ=255)
tgatgaTAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAAACAACGCGGCCATCTGCGGTcgc < 1:4085857/70‑1 (MQ=255)
atgatAATCAGATTACCGTAGCCGCGCAGCGCGTTAc > 1:2184482/1‑37 (MQ=255)
atgatAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAAACAACGCGGCCATCTGCg < 1:5142663/63‑1 (MQ=255)
atgatAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAAACAACGCGGCCATCTGCGGTCGCGAt < 1:4127558/71‑1 (MQ=255)
atgatAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAAACAACGCGGCCATCTGCGGTCGCGAt < 1:1269571/71‑1 (MQ=255)
tgatAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAAACAACGCGGCCATCTGCGGTCGCGAt < 1:2406421/70‑1 (MQ=255)
gatAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAAACAACGCGGCCATCTGCGGTCGCGATaa > 1:2650116/1‑71 (MQ=255)
|
TGTTGTTCCCGGACCAGCATTGTGTCGTTATGGGCGTAGGCACTCAGGTAATCATCATTATGTTTGATGATAATCAGATTACCGTAGCCGCGCAGCGCGTTACCAGCATAAACAACGCGGCCATCTGCGGTCGCGATAA > minE/1837406‑1837544
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
