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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,196,732 |
C→A |
32.4% |
G236G (GGC→GGA) |
degQ → |
serine endoprotease, periplasmic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,196,732 | 0 | C | A | 32.4%
| 88.0
/ 46.4
| 74 | G236G (GGC→GGA) | degQ | serine endoprotease, periplasmic |
| Reads supporting (aligned to +/- strand): ref base C (29/21); new base A (13/11); total (42/32) |
| Fisher's exact test for biased strand distribution p-value = 8.05e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.96e-01 |
CACTATTAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGCGCGAACACTGG > minE/2196674‑2196787
|
cACTATTAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGc > 1:2567509/1‑68 (MQ=255)
ttAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCggg > 1:2386400/1‑69 (MQ=255)
ttAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCggg > 1:250226/1‑69 (MQ=255)
ttAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCggg > 1:781797/1‑69 (MQ=255)
ttAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCggg > 1:548455/1‑69 (MQ=255)
ttAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCggg > 1:2064589/1‑69 (MQ=255)
ttAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCggg > 1:2821365/1‑69 (MQ=255)
ttAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCggg > 1:3202322/1‑69 (MQ=255)
ttAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCggg > 1:2022614/1‑69 (MQ=255)
ttAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCggg > 1:2873612/1‑69 (MQ=255)
ttAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCggg > 1:1620094/1‑69 (MQ=255)
ttAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCggg > 1:3091647/1‑69 (MQ=255)
ttAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCggg > 1:1711737/1‑69 (MQ=255)
ttAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCggg > 1:1744775/1‑69 (MQ=255)
ccTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGggattgg > 1:2288996/1‑69 (MQ=255)
tAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGggattggatt > 1:2908533/1‑69 (MQ=255)
tAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGggattggat > 1:1371695/1‑68 (MQ=255)
tAACGGTGAGTTAATTGGCAGCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGggattggatt > 1:3052392/1‑69 (MQ=255)
cGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGAttt < 1:501677/67‑1 (MQ=255)
ggTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGAttt < 1:1353307/66‑1 (MQ=255)
ggTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGcc < 1:3128764/69‑1 (MQ=255)
ggTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGcc < 1:1395610/69‑1 (MQ=255)
ggTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGcc < 1:1358447/69‑1 (MQ=255)
ggTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGcc < 1:1236261/69‑1 (MQ=255)
ggTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGcc < 1:2353887/69‑1 (MQ=255)
ggTGAGTTAATTGGCATCAACACTGCAATCCTTGAGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGcc < 1:238179/69‑1 (MQ=255)
gAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATc < 1:857958/69‑1 (MQ=255)
gAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATc < 1:2582798/69‑1 (MQ=255)
gAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCGGGATTGGATTTGCCAtt < 1:2233128/69‑2 (MQ=255)
gAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCGGGATTGGATTTGCCAtt < 1:2173058/69‑2 (MQ=255)
gAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCGGGATTGGATTTGCCAtt < 1:1863498/69‑2 (MQ=255)
gAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCGGGATTGGATTTGCCAtt < 1:2448924/69‑2 (MQ=255)
gAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCGGGATTGGATTTGCCAtt < 1:2561375/69‑2 (MQ=255)
gAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCGGGATTGGATTTGCCAtt < 1:1361101/69‑2 (MQ=255)
gAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCGGGATTGGATTTGCCAtt < 1:332380/69‑2 (MQ=255)
gAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCGGGATTGGATTTGCCAtt < 1:2921845/69‑2 (MQ=255)
gAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCGGGATTGGATTTGCCAtt < 1:2791998/69‑2 (MQ=255)
gAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCGGGATTGGATTTGCCAtt < 1:202096/69‑2 (MQ=255)
gAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGAGGCGGTAGCGTCGGGATTGGATTTGCCAtt < 1:3297913/69‑2 (MQ=255)
tGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTaa < 1:3195417/69‑1 (MQ=255)
tGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTaa < 1:653968/69‑1 (MQ=255)
tGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTaa < 1:2588073/69‑1 (MQ=255)
tGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTaa < 1:203164/69‑1 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGc > 1:1711120/1‑50 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGc > 1:289846/1‑50 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGc > 1:2770656/1‑50 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGc > 1:802172/1‑50 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGc > 1:80237/1‑50 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATg > 1:3416800/1‑66 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATg > 1:3186949/1‑66 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgc > 1:2207167/1‑68 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgc > 1:2955960/1‑68 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgc > 1:1259986/1‑68 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgc > 1:3359550/1‑68 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgc > 1:2140669/1‑68 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgc > 1:376986/1‑68 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgc > 1:384932/1‑68 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgc > 1:459812/1‑68 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgc > 1:921555/1‑68 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgc > 1:1329867/1‑68 (MQ=255)
cTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGCGCGaa < 1:1094063/69‑1 (MQ=255)
aTCCTTTCGCCTGGCGGCGGGAGCGTCGGGATTGGAttt < 1:2152894/39‑1 (MQ=255)
cTTGCGCCTGGCGGCGTGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGcgcg < 1:180876/59‑1 (MQ=255)
cTTGCGCCTGGCGGCGGGCGCGTCGGGATTGGAttt > 1:234864/1‑36 (MQ=255)
cTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTg > 1:2430140/1‑37 (MQ=255)
cTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGcgcg < 1:744283/59‑1 (MQ=255)
cTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGcgcg < 1:3296262/59‑1 (MQ=255)
cTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGcgcg < 1:818483/59‑1 (MQ=255)
cTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGcgcg < 1:854298/59‑1 (MQ=255)
cTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGCGCGGACACTgg > 1:3120671/1‑67 (MQ=255)
cTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGCGCGAACACTgg > 1:9778/1‑67 (MQ=255)
cTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGCGCGAACACTgg > 1:1282674/1‑67 (MQ=255)
cTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGCGCGAACACTgg > 1:1347769/1‑67 (MQ=255)
cTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGCGCGAACACTgg > 1:1870436/1‑67 (MQ=255)
|
CACTATTAAACCTTAACGGTGAGTTAATTGGCATCAACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGCGCGAACACTGG > minE/2196674‑2196787
|
| 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
