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 |
1,489,179 |
T→C |
21.8% |
F77F (TTT→TTC) |
ydcF → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,489,179 | 0 | T | C | 21.8%
| 141.4
/ 37.3
| 72 | F77F (TTT→TTC) | ydcF | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (24/32); new base C (8/7); total (33/39) |
| Fisher's exact test for biased strand distribution p-value = 5.64e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.28e-01 |
CATGTAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGGCAGAGCAGAAGCGAC > W3110S.gb/1489109‑1489247
|
cATGTAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACtttt < 1:3192212/71‑1 (MQ=255)
aTGTAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACttttt > 1:4158188/1‑71 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg < 1:3403892/70‑1 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg < 1:3538726/70‑1 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg > 1:1815633/1‑70 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg > 1:1732174/1‑70 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg > 1:2957406/1‑70 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg > 1:3325749/1‑70 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg < 1:1112960/70‑1 (MQ=255)
tAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTAGACAACTTTCTTg > 1:3421982/1‑70 (MQ=255)
aGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGtat < 1:3261484/71‑1 (MQ=255)
aGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGtat < 1:286262/71‑1 (MQ=255)
aGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGtat < 1:4338747/71‑1 (MQ=255)
aGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGta < 1:2485692/70‑1 (MQ=255)
cccGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAgcgc < 1:2539955/70‑1 (MQ=255)
cgATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACttttt > 1:2725896/1‑56 (MQ=255)
gATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGTATAGCGGCATCGc < 1:807075/71‑1 (MQ=255)
cAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGTATAGCGCCATCGca > 1:3089327/1‑69 (MQ=255)
aaGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGtat > 1:4296812/2‑57 (MQ=255)
gCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg < 1:3342240/52‑1 (MQ=255)
cAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGTATAGCGCCATCGCACAg < 1:924054/69‑1 (MQ=255)
aaaTTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCAt > 1:3184283/1‑71 (MQ=255)
aaTTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATc < 1:197511/71‑1 (MQ=255)
aTTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACtttt < 1:2229858/45‑1 (MQ=255)
ttCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCg < 1:624192/71‑1 (MQ=255)
ttCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGTATAGCGCCATCGCACAGCATCCg > 1:261250/1‑71 (MQ=255)
tCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGta > 1:3275483/1‑48 (MQ=255)
tCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGta > 1:292639/1‑48 (MQ=255)
cTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCAc < 1:3957958/71‑1 (MQ=255)
cTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCAc < 1:2868064/71‑1 (MQ=255)
tttACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTg < 1:2857017/43‑1 (MQ=255)
aCTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTac < 1:105746/70‑1 (MQ=255)
aCTGATTAGTGGTGGTATAGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTac > 1:3592176/1‑70 (MQ=255)
cTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTac < 1:4270661/69‑1 (MQ=255)
aTTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAacac < 1:1702818/71‑1 (MQ=255)
aTTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAacac < 1:1349508/71‑1 (MQ=255)
aTTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGtata > 1:1150502/1‑40 (MQ=255)
aTTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTacaaca < 1:4452820/70‑1 (MQ=255)
aTTAGTGGTGGTATCGGTCACTCGACAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTACAacac > 1:4113082/1‑71 (MQ=255)
aGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTa < 1:2488775/70‑1 (MQ=255)
aGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTa < 1:788635/70‑1 (MQ=255)
gtggtgGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCAt > 1:1610947/1‑43 (MQ=255)
tggtggTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAg < 1:4136814/49‑1 (MQ=255)
gtggtATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCg > 1:1201926/1‑70 (MQ=255)
gtggtATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGc < 1:137547/71‑1 (MQ=255)
gtggtATCGGTCACTCGACAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCg < 1:3328088/70‑1 (MQ=255)
gtggtATCGGTCACTCGACAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCg < 1:3327998/70‑1 (MQ=255)
gtATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCAt < 1:3270567/47‑1 (MQ=255)
gtATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGcacc < 1:542408/71‑1 (MQ=255)
gtATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGcac < 1:946873/70‑1 (MQ=255)
aTCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCAt > 1:778857/1‑45 (MQ=255)
aTCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGcaccac > 1:1017508/1‑71 (MQ=255)
tCGGTCACTCGACAACTTTTTTGTATAGCGCCATCg < 1:1847980/36‑1 (MQ=255)
tCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAg < 1:2452753/41‑1 (MQ=255)
tCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACt < 1:3618263/51‑1 (MQ=255)
tCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACt < 1:1261838/71‑1 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGGACAGCAt > 1:3181162/1‑42 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATc > 1:2753080/1‑43 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCAc > 1:1032952/1‑48 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTac < 1:1833164/51‑1 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATc > 1:2107266/1‑60 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTgg > 1:2911474/1‑71 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTgg > 1:4024399/1‑71 (MQ=255)
ggTCACTCGACAACTTTTTTGTATAGCGCCAACGCACAGCATCCGCACTACAACACTATc > 1:1558871/1‑60 (MQ=255)
gTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCa > 1:1336547/1‑40 (MQ=255)
cACTCGACAACTTTTTTGTATAGCGCCATCGCACAg < 1:586868/36‑1 (MQ=255)
cACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTgg > 1:3214061/1‑68 (MQ=255)
cACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTgg > 1:551018/1‑68 (MQ=255)
aCTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTgg < 1:510116/67‑1 (MQ=255)
aCTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGgca > 1:3408586/1‑69 (MQ=255)
aCTCGACAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGgcag < 1:1635102/70‑1 (MQ=255)
cGACAACTTTCTTGTATAGCGCCATCGCACAGCATCCGCa > 1:2690239/1‑40 (MQ=255)
gACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTacaaca > 1:3846094/1‑47 (MQ=255)
gACAACTTTATTGTATAGCGCCATCGCAAAGCATCCGCACTACAACACTATCCGCACCACTGgcagag > 1:1988552/1‑68 (MQ=255)
aCAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGgcagagcaga < 1:1833837/71‑1 (MQ=255)
cTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGGCAGAGCAGAAGc > 1:2312659/1‑70 (MQ=255)
tttcttGTATAGCGCCATCGCACAGCATCCGCACTac < 1:37842/37‑1 (MQ=255)
tttttGTATAGCGCCATCGCACAGCATCCGCACTacaac > 1:214557/1‑39 (MQ=255)
tttttGTATAGCGCCATCGCACAGCATCCGCACTacaac > 1:2972638/1‑39 (MQ=255)
ttttGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGGCAGAGCAGAAGCGAc > 1:183364/1‑70 (MQ=255)
ttttGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGGCAGAGCAGAAGCGAc > 1:1224645/1‑70 (MQ=255)
|
CATGTAAGATTGCCCGCGATCAGCAAATTCCTTTACTGATTAGTGGTGGTATCGGTCACTCGACAACTTTTTTGTATAGCGCCATCGCACAGCATCCGCACTACAACACTATCCGCACCACTGGCAGAGCAGAAGCGAC > W3110S.gb/1489109‑1489247
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
