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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,702,790 |
C→T |
69.4% |
intergenic (‑71/+201) |
rnc ← / ← lepB |
RNase III/leader peptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,702,790 | 0 | C | T | 69.4%
| 62.2
/ 40.8
| 49 | intergenic (‑71/+201) | rnc/lepB | RNase III/leader peptidase |
| Reads supporting (aligned to +/- strand): ref base C (11/4); new base T (18/16); total (29/20) |
| Fisher's exact test for biased strand distribution p-value = 2.21e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.50e-01 |
AATAAATGCGTCAACAATTCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCG > W3110S.gb/2702732‑2702848
|
aataaatGCGTCAACAATTCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGc > 1:1585635/1‑67 (MQ=255)
aataaatGCGTCAACAATTCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGc > 1:1201839/1‑67 (MQ=255)
taaatGCGTCAACAATTCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGca < 1:3468625/69‑1 (MQ=255)
taaatGCGTCAACAATTCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGca < 1:2486544/69‑1 (MQ=255)
taaatGCGTCAACAATTCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGca < 1:1629711/69‑1 (MQ=255)
taaatGCGTCAACAATTCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGc < 1:2608985/68‑1 (MQ=255)
tCAACAATTCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGcagtttcag > 1:780446/1‑68 (MQ=255)
tCAACAATTCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGcagtttcag > 1:1352516/1‑68 (MQ=255)
caacaaTTCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGc < 1:1897398/56‑1 (MQ=255)
caaTTCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAAc > 1:3546874/1‑45 (MQ=255)
caaTTCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGcagtttcagtt > 1:433356/1‑66 (MQ=255)
tCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGc > 1:930674/1‑52 (MQ=255)
tCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCgt > 1:139341/1‑67 (MQ=255)
tCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCgg > 1:1488123/1‑68 (MQ=255)
tCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCgg > 1:652898/1‑68 (MQ=255)
tCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCgg > 1:1786766/1‑68 (MQ=255)
cAGCACACGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGta < 1:2660670/69‑1 (MQ=255)
cAGCACACGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGta < 1:242368/69‑1 (MQ=255)
cAGCACACGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGta < 1:2469854/69‑1 (MQ=255)
cacaCGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTatat < 1:2982984/69‑1 (MQ=255)
cacaCGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTatat < 1:826168/69‑1 (MQ=255)
acacGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGca < 1:1358125/48‑1 (MQ=255)
acacGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGTATATg < 1:3618897/69‑1 (MQ=255)
cGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGtata < 1:3661046/64‑1 (MQ=255)
cGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGtata > 1:510939/1‑64 (MQ=255)
cGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGTATATgggg > 1:417149/1‑69 (MQ=255)
cGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGTATATgggg > 1:536074/1‑69 (MQ=255)
cGAAACAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGTATATgggg > 1:870830/1‑69 (MQ=255)
aaaCAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGtat > 1:2272218/1‑61 (MQ=255)
aaaCAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGtat > 1:1268253/1‑61 (MQ=255)
aaaCAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGtat > 1:754321/1‑61 (MQ=255)
aaaCAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGtat > 1:2118265/1‑61 (MQ=255)
aaaCAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGtat > 1:265899/1‑61 (MQ=255)
aaaCAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGtat > 1:2648249/1‑61 (MQ=255)
aaCAGACCTGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGAcc < 1:3522772/69‑1 (MQ=255)
tGATATACATGTTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGt < 1:1971497/69‑1 (MQ=255)
tGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGt < 1:2849099/69‑1 (MQ=255)
tGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGt < 1:1628565/69‑1 (MQ=255)
tGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGt < 1:2172924/69‑1 (MQ=255)
tGATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGt < 1:2376004/69‑1 (MQ=255)
gATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGta > 1:2950467/1‑50 (MQ=255)
gATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGta > 1:2702071/1‑50 (MQ=255)
gATATACATGGTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGta > 1:2544267/1‑50 (MQ=255)
ataCATGGTTCTGCTAATTGCTTCGCTGcagtttcagttt > 1:556739/1‑40 (MQ=255)
ataCATGGTTCTGCTAATTGCTTCGCTGcagtttcagttt > 1:1843150/1‑40 (MQ=255)
ataCATGGTTCTGCTAATTGCTTCGCTGcagtttcagttt > 1:1942816/1‑40 (MQ=255)
cATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCgtgt > 1:1057757/1‑69 (MQ=255)
gTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGta > 1:3209444/1‑40 (MQ=255)
gTTCTGCTAATTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCg < 1:2046332/69‑1 (MQ=255)
tCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGta > 1:1655876/1‑38 (MQ=255)
|
AATAAATGCGTCAACAATTCAGCACACGAAACAGACCTGATATACATGGTTCTGCTAACTGCTTCGCTGCAGTTTCAGTTTACCGGTATATGGGGACCAACGCTGTTTCGTGTGCCG > W3110S.gb/2702732‑2702848
|
| 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
