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 |
2,225,948 |
G→C |
69.2% |
V129V (GTG→GTC) |
dusB → |
tRNA‑dihydrouridine synthase B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,225,948 | 0 | G | C | 69.2%
| 99.7
/ 61.3
| 78 | V129V (GTG→GTC) | dusB | tRNA‑dihydrouridine synthase B |
| Reads supporting (aligned to +/- strand): ref base G (8/16); new base C (25/29); total (33/45) |
| Fisher's exact test for biased strand distribution p-value = 3.29e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01 |
TCGCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGTAAC > minE/2225887‑2226011
|
tCGCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATg > 1:1665820/1‑66 (MQ=255)
tCGCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATg > 1:221103/1‑66 (MQ=255)
ttCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTc < 1:1925402/71‑1 (MQ=255)
aGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCt < 1:2927601/70‑1 (MQ=255)
ctctTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTAc > 1:4624023/1‑71 (MQ=255)
ctctTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTAc > 1:1336361/1‑71 (MQ=255)
ctctTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTAc > 1:5237067/1‑71 (MQ=255)
ctctTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTAc > 1:3468253/1‑71 (MQ=255)
ctTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTAccc > 1:1295283/1‑71 (MQ=255)
ttGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGt > 1:1795504/1‑65 (MQ=255)
gCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATg > 1:40647/1‑47 (MQ=255)
gCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATg > 1:5041518/1‑47 (MQ=255)
gCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAg > 1:5185048/1‑50 (MQ=255)
gCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAg > 1:629643/1‑50 (MQ=255)
gCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAg > 1:5028377/1‑50 (MQ=255)
cAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGt > 1:3917017/1‑62 (MQ=255)
cAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTg < 1:2424299/69‑1 (MQ=255)
cAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTg > 1:5204703/1‑69 (MQ=255)
aGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAg < 1:2090741/71‑1 (MQ=255)
gTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGaa < 1:5109469/69‑1 (MQ=255)
tACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGAt < 1:3056273/71‑1 (MQ=255)
tACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGAt < 1:1958653/71‑1 (MQ=255)
tACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGAt < 1:124103/71‑1 (MQ=255)
tACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGAt < 1:5350044/71‑1 (MQ=255)
tACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGAt < 1:4896597/71‑1 (MQ=255)
tACACGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGAt < 1:2655143/71‑1 (MQ=255)
cccGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGaa > 1:4654059/1‑39 (MQ=255)
cccGGATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTc > 1:2845667/1‑71 (MQ=255)
cGGATGTCGTTAAATCGATCGTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGc < 1:2644833/71‑1 (MQ=255)
cGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGc < 1:4919816/71‑1 (MQ=255)
ggATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCa > 1:3008416/1‑71 (MQ=255)
gATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGc < 1:2326509/38‑1 (MQ=255)
gATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGc < 1:4220195/38‑1 (MQ=255)
gATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGc < 1:4403067/38‑1 (MQ=255)
gATGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGc < 1:230534/38‑1 (MQ=255)
tGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAg > 1:3374263/1‑38 (MQ=255)
tGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGaa < 1:858369/60‑1 (MQ=255)
tGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGaa < 1:2089286/60‑1 (MQ=255)
tGTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCg < 1:3186101/71‑1 (MQ=255)
gTCGTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCt < 1:3392760/56‑1 (MQ=255)
gTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTg > 1:3284821/1‑71 (MQ=255)
gTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTg > 1:3046298/1‑71 (MQ=255)
gTTAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTg > 1:3761167/1‑71 (MQ=255)
ttAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCAcc < 1:2714541/65‑1 (MQ=255)
ttAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCAcc < 1:2482250/65‑1 (MQ=255)
ttAAATCGATCCTTACCGAGGTCGTCAATGCAGTg < 1:4924703/35‑1 (MQ=255)
ttAAATCGATCCTTACCGAGGTCGTCAATGCAGTg < 1:3240402/35‑1 (MQ=255)
ttAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGaa < 1:2021558/55‑1 (MQ=255)
ttAAATCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTgg < 1:4939939/71‑1 (MQ=255)
aTCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGTCAc > 1:3956597/1‑71 (MQ=255)
aTCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTgg < 1:5102724/67‑1 (MQ=255)
aTCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTgg < 1:1868592/67‑1 (MQ=255)
tCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTg < 1:3455423/48‑1 (MQ=255)
tCGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTg < 1:2284747/48‑1 (MQ=255)
cGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGaa > 1:243965/1‑49 (MQ=255)
cGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGaa > 1:3241311/1‑49 (MQ=255)
cGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGaa > 1:431998/1‑49 (MQ=255)
cGATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGaa < 1:3178624/49‑1 (MQ=255)
gATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCg < 1:3120779/70‑1 (MQ=255)
gATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCg < 1:1077812/70‑1 (MQ=255)
gATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTa > 1:131723/1‑41 (MQ=255)
gATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCgg < 1:2928151/71‑1 (MQ=255)
gATCCTTACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCgg < 1:680092/71‑1 (MQ=255)
cTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTg < 1:4969543/59‑1 (MQ=255)
cTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTg < 1:3456884/59‑1 (MQ=255)
cTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTg < 1:5139341/59‑1 (MQ=255)
tACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTggg > 1:275314/1‑59 (MQ=255)
tACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTa > 1:3221800/1‑35 (MQ=255)
tACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACAcc > 1:5344348/1‑71 (MQ=255)
tACCGAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACAcc > 1:5681696/1‑71 (MQ=255)
aCCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAaca < 1:3341946/68‑1 (MQ=255)
aCCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAaca < 1:5170299/68‑1 (MQ=255)
cGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGTa < 1:5143346/71‑1 (MQ=255)
gAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTggg < 1:3464707/55‑1 (MQ=255)
gAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTggg < 1:1480544/55‑1 (MQ=255)
gAGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGTa < 1:750231/70‑1 (MQ=255)
aGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGTAAc > 1:41939/1‑71 (MQ=255)
aGGTCGTCAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGTAAc > 1:2499402/1‑71 (MQ=255)
gAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGaa > 1:3704718/1‑55 (MQ=255)
gAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGaa > 1:1101639/1‑55 (MQ=255)
|
TCGCAGGTTCAGCCCTCTTGCAGTACCCGGATGTCGTTAAATCGATCCTTACCGAGGTCGTGAATGCAGTGGACGTTCCTGTTACCCTGAAGATTCGCACCGGCTGGGCACCGGAACACCGTAAC > minE/2225887‑2226011
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
