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 |
|
A1 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,701,562:1 |
+C |
14.7% |
coding (494/1593 nt) |
malX → |
fused maltose and glucose‑specific PTS enzyme IIBC components |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,701,562 | 1 | . | C | 14.7%
| 83.5
/ 20.5
| 34 | coding (494/1593 nt) | malX | fused maltose and glucose‑specific PTS enzyme IIBC components |
| Reads supporting (aligned to +/- strand): ref base . (13/16); new base C (3/2); total (16/18) |
| Fisher's exact test for biased strand distribution p-value = 6.48e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.13e-01 |
GTCGATCGATACCGGGATCCTCGGTGCGGTGATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTACGCGCTTCGTACCAATTATCTCCTCG > W3110S.gb/1701494‑1701632
|
gTCGATCGATACCGGGATCCTCGGTGCGGTGATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑c > 1:887825/1‑70 (MQ=255)
gTCGATCGATACCGGGATCCTCGGTGCGGTGATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑c > 1:3471972/1‑70 (MQ=255)
gatcgatACCGGGATCCTCGGTGCGGTGATCGCCGATATTATCGTCTGGATGCTGCATGAGCGTTT‑CCat < 1:3918500/70‑1 (MQ=255)
tcgatACCGGGATCCTCGGTGCGGTGATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑CCataa > 1:873615/1‑70 (MQ=255)
tcgatACCGGGATCCTCGGTGCGGTGATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑CCataa < 1:2041805/70‑1 (MQ=255)
cgatACCGGGATCCTCGGTGCGGTGATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑CCataata > 1:3699572/1‑71 (MQ=255)
atACCGGGATCCTCGGTGCGGTGATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑cccat < 1:3840628/66‑4 (MQ=255)
atACCGGGATCCTCGGTGCGGTGATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATc < 1:2744340/71‑1 (MQ=255)
tCCTCGGTGCGGTGATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCg < 1:93499/71‑1 (MQ=255)
gtgcggtgATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑CCataata < 1:1673920/54‑1 (MQ=255)
tgcggtgATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGATgcgc < 1:3999145/71‑1 (MQ=255)
cggtgATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑cc < 1:3034601/45‑1 (MQ=255)
tgATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCa < 1:2051229/71‑1 (MQ=255)
gTATTATCGTCTGGATGCTGCATGAGCGTTT‑CCat < 1:3633409/35‑1 (MQ=255)
ttatCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCt < 1:1264323/43‑1 (MQ=255)
ttatCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGAt < 1:4168363/50‑1 (MQ=255)
ttatCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTcggcgg < 1:868483/70‑1 (MQ=255)
tatCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTa > 1:3445955/1‑71 (MQ=255)
atCGTCTGGATGCTGCATGAGCGTTTCCCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTa > 1:2513303/1‑71 (MQ=255)
atCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGcc > 1:4572064/1‑44 (MQ=255)
atCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTAc > 1:92558/1‑71 (MQ=255)
tCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCt > 1:4286490/1‑52 (MQ=255)
tCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCAtt > 1:2815459/1‑58 (MQ=255)
tCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCAtt > 1:3681376/1‑58 (MQ=255)
tCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTcggcgg < 1:3315212/67‑1 (MQ=255)
cGTCTGGATGCTGCATGAGCGTTTCCCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTAcg > 1:4086160/1‑71 (MQ=255)
cGTCTGGATGCTGCATGAGCGTTTCCCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTAc > 1:3380691/1‑70 (MQ=255)
cGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGc > 1:3819086/1‑37 (MQ=255)
cGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGc > 1:3594162/1‑37 (MQ=255)
tCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTACgcgc < 1:2847681/71‑1 (MQ=255)
cTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTACgcgc < 1:1741423/70‑1 (MQ=255)
gATGCTGCATGAGCGTTTCCCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTACGCGCtt < 1:3960725/70‑1 (MQ=255)
ctgcATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTACGCGCTTc > 1:2631702/1‑66 (MQ=255)
cATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTACGCGCTTCGTACCAAt < 1:3683737/71‑1 (MQ=255)
cATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTACGCGCTTCGTACCAAt > 1:3161650/1‑71 (MQ=255)
tGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTACGCGCTTCGTACCAAtt < 1:2875303/70‑1 (MQ=255)
aGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTa > 1:3236981/1‑51 (MQ=255)
gCGTTTCCCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCTGTACGCGCTTCGTACCAATTAtc < 1:1112401/71‑1 (MQ=255)
t‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTACGCGCTTCGTACCAATTATCTCCTCg > 1:2100430/1‑71 (MQ=255)
|
GTCGATCGATACCGGGATCCTCGGTGCGGTGATCGCCGGTATTATCGTCTGGATGCTGCATGAGCGTTT‑CCATAATATCCGCCTGCCGGATGCGCTGGCATTCTTCGGCGGTACGCGCTTCGTACCAATTATCTCCTCG > W3110S.gb/1701494‑1701632
|
| 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
