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 |
2,702,821 |
A→G |
29.8% |
intergenic (‑102/+170) |
rnc ← / ← lepB |
RNase III/leader peptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,702,821 | 0 | A | G | 29.8%
| 62.5
/ 35.5
| 47 | intergenic (‑102/+170) | rnc/lepB | RNase III/leader peptidase |
| Reads supporting (aligned to +/- strand): ref base A (17/16); new base G (8/6); total (25/22) |
| Fisher's exact test for biased strand distribution p-value = 7.60e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGCACACGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGAGGTGCCAACCTTAAACTTCGGGGGAAT > W3110S.gb/2702751‑2702887
|
cAGCACACGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGtata > 1:2652385/1‑71 (MQ=255)
acacGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATggg < 1:3210263/71‑1 (MQ=255)
cacGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATggg > 1:3826318/1‑70 (MQ=255)
acGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGa > 1:19888/1‑71 (MQ=255)
cGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATGTGGGGAc > 1:120067/1‑71 (MQ=255)
cTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATGTggg < 1:1234197/58‑1 (MQ=255)
gATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATGTGGGGa > 1:1126656/1‑58 (MQ=255)
taCATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCgtgt > 1:2684904/1‑71 (MQ=255)
taCATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCgtgt > 1:401977/1‑71 (MQ=255)
tGGTTCTGCTAACTGCTTCGCTACAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCg < 1:3007267/71‑1 (MQ=255)
ggTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATGTGGGGACCAACGCTGTTTCGTGTGCCGt > 1:1431326/1‑71 (MQ=255)
gTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATGTGGGGa > 1:4087169/1‑48 (MQ=255)
ttCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCgtgt < 1:674453/64‑1 (MQ=255)
ttCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTgg > 1:3412103/1‑71 (MQ=255)
ttCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTg > 1:3410470/1‑70 (MQ=255)
cTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGtata > 1:3870222/1‑39 (MQ=255)
cTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGtata > 1:3864909/1‑39 (MQ=255)
gCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGa > 1:659473/1‑43 (MQ=255)
cTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATGTGGGGACCAACGCTGTTTCGTGTGCCGTGGCa < 1:2180566/68‑1 (MQ=255)
cTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATGTGGGGACCAACGCTGTTTCGTGTGCCGTGGCa < 1:4631246/68‑1 (MQ=255)
cTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAAc < 1:3263725/70‑1 (MQ=255)
tAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGAc > 1:2130889/1‑42 (MQ=255)
aaCTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGc > 1:4234329/1‑47 (MQ=255)
aaCTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGc > 1:3669142/1‑47 (MQ=255)
aCTGCTTCGCTGCAGTTTCAGTTTACCGGTATGTGGGGACCAACGCTg > 1:3743457/1‑48 (MQ=255)
aCTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCa < 1:3344772/65‑1 (MQ=255)
aCTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTgg < 1:19579/71‑1 (MQ=255)
gCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCaa > 1:2122629/1‑40 (MQ=255)
cTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGAGGt < 1:3154774/71‑1 (MQ=255)
ttCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCa < 1:2462217/60‑1 (MQ=255)
ttCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGAGGTg > 1:1938250/1‑71 (MQ=255)
cGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACg > 1:1593209/1‑38 (MQ=255)
gCTGCAGTTTCAGTTTACCGGTATGTGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGAGGTGcc < 1:1928866/70‑1 (MQ=255)
gCTGCAGTTTCAGTTTACCGGTATGTGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGAGGTGcc < 1:4283138/70‑1 (MQ=255)
cTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGAGGTGCCaa < 1:1200201/71‑1 (MQ=255)
cagtttcagtttACCGGTATGTGGGGACCACCGCTg < 1:4191401/36‑1 (MQ=37)
gtttcagtttACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGAGGTGCCAACCTTa < 1:3874543/71‑1 (MQ=255)
gtttcagtttACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGAGGTGCCAACCTTa < 1:1668151/71‑1 (MQ=255)
tttcagtttACCGGTATGTGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGAGGTGCCAACCTTa > 1:1226574/1‑70 (MQ=255)
tttcagtttACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAAc > 1:3770044/1‑52 (MQ=255)
tcagtttACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGAGGTGCCAACCTTAAAc > 1:459094/1‑71 (MQ=255)
agtttACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCa < 1:3892941/46‑1 (MQ=255)
tttACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGt < 1:3760177/40‑1 (MQ=255)
tttACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGt < 1:418210/40‑1 (MQ=255)
tttACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTgg < 1:4628024/50‑1 (MQ=255)
ttACCGGTATGTGGGGACCAACGCTGTTTCGTGTGCCGTGGCAAc > 1:3324606/1‑45 (MQ=255)
ttACCGGTATGTGGGGACCAACGCTGTTTCGTGTGCCGTGGCAAc > 1:1991735/1‑45 (MQ=255)
tACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAAc > 1:1775020/1‑44 (MQ=255)
tACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGa > 1:90305/1‑49 (MQ=255)
gTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGAGGTGCCAACCTTAAACTTCGGGGGAat < 1:2623887/71‑1 (MQ=255)
tatgTGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGAGGTGCCAACCTTAAACTTCGGGGGAat > 1:4618800/1‑70 (MQ=255)
|
CAGCACACGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCGTGGCAACCTGGAGGTGCCAACCTTAAACTTCGGGGGAAT > W3110S.gb/2702751‑2702887
|
| 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
