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 |
2,430,365 |
T→C |
74.6% |
I111M (ATA→ATG) |
rfe ← |
UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,430,365 | 0 | T | C | 74.6%
| 89.7
/ 29.5
| 55 | I111M (ATA→ATG) | rfe | UDP‑GlcNAc:undecaprenylphosphate GlcNAc‑1‑phosphate transferase |
| Reads supporting (aligned to +/- strand): ref base T (9/5); new base C (24/17); total (33/22) |
| Fisher's exact test for biased strand distribution p-value = 7.62e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.48e-01 |
GAGCACCATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCATCCAG > minE/2430299‑2430433
|
gAGCACCATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACcatcat < 1:4688081/69‑1 (MQ=255)
tctcCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGcg > 1:1591545/1‑69 (MQ=255)
tcCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCaa > 1:3953817/1‑70 (MQ=255)
ggAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGACAACAGCgg > 1:1876026/1‑71 (MQ=255)
gAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGc < 1:3143576/71‑1 (MQ=255)
aGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGcc < 1:4639075/71‑1 (MQ=255)
aGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGcc < 1:3735624/71‑1 (MQ=255)
aaaGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTa > 1:3041887/1‑71 (MQ=255)
aaaGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTa < 1:996059/71‑1 (MQ=255)
aaGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTAt < 1:1363460/71‑1 (MQ=255)
aGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACa > 1:1682930/1‑59 (MQ=255)
aGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACa > 1:3401074/1‑59 (MQ=255)
aGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACa > 1:2955528/1‑59 (MQ=255)
aGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAg > 1:2353773/1‑60 (MQ=255)
aGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAg > 1:2851912/1‑60 (MQ=255)
aGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCg < 1:950974/62‑1 (MQ=255)
aGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGc > 1:3629612/1‑64 (MQ=255)
aGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTAtg < 1:3881189/71‑1 (MQ=255)
aGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTAtg > 1:3320812/1‑71 (MQ=255)
aGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTAt > 1:3636176/1‑70 (MQ=255)
ataACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACa < 1:2839133/46‑1 (MQ=255)
cccAGGCTACTGAGATAAAGCTTGCCTAACACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCAc > 1:4647286/1‑70 (MQ=255)
cccAGGCTACTGAGAAAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACg > 1:3595707/1‑71 (MQ=255)
ccAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGc > 1:1234656/1‑52 (MQ=255)
aGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAt > 1:3704513/1‑71 (MQ=255)
aGGCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAt > 1:3746406/1‑71 (MQ=255)
gCTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAtt < 1:5627160/70‑1 (MQ=255)
cTACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAtttt < 1:11425/71‑1 (MQ=255)
tACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTa > 1:3052358/1‑54 (MQ=255)
tACTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAtttt > 1:3017120/1‑70 (MQ=255)
cTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTAc < 1:2165112/71‑1 (MQ=255)
cTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTg < 1:2518382/50‑1 (MQ=255)
cTGAGATAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTg < 1:1269056/50‑1 (MQ=255)
tGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACg > 1:4908/1‑71 (MQ=255)
gagaTAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTAtg > 1:726098/1‑52 (MQ=255)
agaTAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGc > 1:152776/1‑44 (MQ=255)
gaTAAAGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTg < 1:1980333/46‑1 (MQ=255)
aaaGCTTGCCGAACACCATCATAACAATGCCAACAGCgg > 1:190055/1‑39 (MQ=255)
aaaGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACg > 1:377346/1‑55 (MQ=255)
aaaGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGata > 1:5697217/1‑71 (MQ=255)
aaaGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGata > 1:4343376/1‑71 (MQ=255)
aaGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGAtttt < 1:44716/60‑1 (MQ=255)
aaGCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGata < 1:5457600/70‑1 (MQ=255)
gCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTAt < 1:5621114/43‑1 (MQ=255)
gCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTAt < 1:1645848/43‑1 (MQ=255)
gCTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTAt < 1:267178/43‑1 (MQ=255)
cTTGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCaa < 1:129569/71‑1 (MQ=255)
tGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTa > 1:1524836/1‑39 (MQ=255)
tGCCGAACACCATCATAACAATGCCAACAGCGGCCTGTa > 1:3865971/1‑39 (MQ=255)
gCCGAACACCATTATAACACTGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCaaaa < 1:5215364/70‑1 (MQ=255)
gCCGAACACCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCaaa < 1:5081049/69‑1 (MQ=255)
acacCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCaa > 1:2856093/1‑63 (MQ=255)
acacCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCaa > 1:3799802/1‑63 (MQ=255)
acacCATCATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCaa > 1:1183979/1‑63 (MQ=255)
catcatAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCATcc > 1:243200/1‑70 (MQ=255)
cATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCATc > 1:1072832/1‑69 (MQ=255)
aTTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCATCCAg > 1:5588071/1‑71 (MQ=255)
|
GAGCACCATCTCCCAGGAGCCAAAGATATAACCCAGGCTACTGAGATAAAGCTTGCCGAACACCATTATAACAATGCCAACAGCGGCCTGTATGGTGGCACGGATTTTTACGCTGATATCAAAACGGTCATCCAG > minE/2430299‑2430433
|
| 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
