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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
837,075 |
C→T |
20.7% |
D86D (GAC→GAT) |
narJ → |
molybdenum‑cofactor‑assembly chaperone subunit (delta subunit) of nitrate reductase 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 837,075 | 0 | C | T | 20.7%
| 106.8
/ 22.8
| 53 | D86D (GAC→GAT) | narJ | molybdenum‑cofactor‑assembly chaperone subunit (delta subunit) of nitrate reductase 1 |
| Reads supporting (aligned to +/- strand): ref base C (15/27); new base T (5/6); total (20/33) |
| Fisher's exact test for biased strand distribution p-value = 7.28e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.90e-01 |
CGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCAGTTAAACAGCCGCGA > minE/837006‑837143
|
agAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGAcc > 1:3444475/2‑71 (MQ=255)
gAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGAcc > 1:1583246/1‑70 (MQ=255)
gAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACcg > 1:2089670/1‑71 (MQ=255)
gAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACcg < 1:1256061/71‑1 (MQ=255)
gAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACcg < 1:2717555/71‑1 (MQ=255)
ttCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGcc < 1:1099489/70‑1 (MQ=255)
ttCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGc > 1:1050852/1‑69 (MQ=255)
ttCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCa < 1:1531943/71‑1 (MQ=255)
aCCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGc > 1:2398564/1‑70 (MQ=255)
gTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGAtg < 1:2108400/71‑1 (MQ=255)
gggcgcaCCACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAAtggt < 1:874864/68‑1 (MQ=255)
cgcaCCACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAATGGTGGa < 1:2391791/71‑1 (MQ=255)
accACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAATGGTGGACct > 1:3603164/2‑71 (MQ=255)
accACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAATGGTGGACct > 1:1722484/2‑71 (MQ=255)
ccACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGc < 1:3107988/58‑1 (MQ=255)
cACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAATGGTGGACctgc > 1:1785592/1‑71 (MQ=255)
cACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACctgc > 1:2225904/1‑71 (MQ=255)
cACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACctgc > 1:2221230/1‑71 (MQ=255)
cACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACctgc < 1:1465211/71‑1 (MQ=255)
cGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGAtggtg < 1:1637635/62‑1 (MQ=255)
gctgctgctgTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAAtggt > 1:1731759/2‑57 (MQ=255)
aCTGTTGCTGTTTGAACATGTGCACGGCTAATCCCGCGACCGCGGCCAGGCGATGGTGGACctgctg < 1:2037465/67‑1 (MQ=255)
tGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGAtggt < 1:2800032/55‑1 (MQ=255)
tGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGAcc > 1:1267926/1‑60 (MQ=255)
ctGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAATGGTGGACCTGCTGGCGGAGTa < 1:29106/70‑1 (MQ=255)
cTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGAtg > 1:1634932/1‑48 (MQ=255)
cTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGAtg > 1:1804337/1‑48 (MQ=255)
cTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGa < 1:3321884/71‑1 (MQ=255)
cTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAAtggtgg < 1:537710/52‑1 (MQ=255)
gTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGag > 1:3108591/1‑70 (MQ=255)
tttGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGag < 1:3216655/69‑1 (MQ=255)
ttcgAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAATGGTGGACCTGCTGGCGGAGTATGa > 1:3425150/4‑68 (MQ=255)
ttGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGag < 1:2047565/68‑1 (MQ=255)
tGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGagcag > 1:2668388/1‑70 (MQ=255)
tGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGAGCAGTACAagcag > 1:326620/1‑70 (MQ=255)
gAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGagcagc < 1:2181591/70‑1 (MQ=255)
cATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACgg < 1:930769/71‑1 (MQ=255)
tgtgCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCt > 1:1476639/1‑71 (MQ=255)
tgtgCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCt < 1:2562968/71‑1 (MQ=255)
aCGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGa < 1:1546293/37‑1 (MQ=255)
aCGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGa < 1:277858/37‑1 (MQ=255)
aCGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCa < 1:2165574/70‑1 (MQ=255)
ccGAGTCCCGCGATCGCGGCCAGGCAATGGTGGACCTGCTGGCGGAGTATGAAAAGGTCGGCCTGCAgct < 1:1233270/69‑3 (MQ=255)
cGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCAGTTaa < 1:2922964/71‑1 (MQ=255)
gAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCAg < 1:145029/66‑1 (MQ=255)
gAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCAGTTaaa < 1:3263003/71‑1 (MQ=255)
aaTCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCAGTTaaa < 1:1018712/70‑1 (MQ=255)
aTCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGagc > 1:2055620/1‑50 (MQ=255)
aTCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCAGTTAAACa < 1:406679/71‑1 (MQ=255)
aTCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCAGTTAAACa < 1:2831789/71‑1 (MQ=255)
tCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCAGTTaaa > 1:2930074/1‑68 (MQ=255)
ccGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCAGTTAAACAg < 1:3461646/69‑1 (MQ=255)
cgACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCAGTTAAACAGc > 1:1244298/1‑67 (MQ=255)
cgACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCAGTTAAACAGCcgcg < 1:581286/71‑1 (MQ=255)
aCCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCATTTAAACAGCCGCGa < 1:2929158/70‑1 (MQ=255)
|
CGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCGCAGTACGAGCAGCACGGCTTGCAGTTAAACAGCCGCGA > minE/837006‑837143
|
| 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
