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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
349,960 |
C→T |
62.5% |
P155L (CCC→CTC) |
hyi → |
hydroxypyruvate isomerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 349,960 | 0 | C | T | 62.5%
| 54.0
/ 69.1
| 72 | P155L (CCC→CTC) | hyi | hydroxypyruvate isomerase |
| Reads supporting (aligned to +/- strand): ref base C (12/15); new base T (17/28); total (29/43) |
| Fisher's exact test for biased strand distribution p-value = 6.25e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGCTGATGAAAGAAGATATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAG > minE/349891‑350024
|
tGCTGATGAAAGAAGATATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATcc < 1:3084683/70‑1 (MQ=255)
gatgaAAGAAGATATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCg > 1:2128141/1‑71 (MQ=255)
atgaAAGAAGATATTTTATTACTGATTGAACCTATTAACCATTTTGAAATTCCTGGTTTCCATCCCACCgg < 1:4434988/71‑1 (MQ=255)
gaagaTATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCg > 1:5323918/1‑71 (MQ=255)
aagaTATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCgg < 1:4510585/71‑1 (MQ=255)
aagaTATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCgg < 1:1837973/71‑1 (MQ=255)
agaTATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGc < 1:410145/71‑1 (MQ=255)
agaTATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGc < 1:2776779/71‑1 (MQ=255)
gaTATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCg > 1:4462012/1‑68 (MQ=255)
gaTATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCg > 1:4171305/1‑68 (MQ=255)
gaTATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCg > 1:5428596/1‑68 (MQ=255)
gaTATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCa < 1:3250166/71‑1 (MQ=255)
ttattaCTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCt > 1:2108580/1‑71 (MQ=255)
ttattaCTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCAc > 1:4541229/1‑53 (MQ=255)
ttattaCTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCAc > 1:3797272/1‑53 (MQ=255)
ttattaCTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCAc > 1:106318/1‑53 (MQ=255)
ttattaCTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCAc > 1:647987/1‑53 (MQ=255)
ttattaCTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCAc > 1:1276846/1‑53 (MQ=255)
ttattaCTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGgcgc < 1:2635219/70‑1 (MQ=255)
tattaCTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCt < 1:3965963/70‑1 (MQ=255)
ttaCTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGa < 1:153782/70‑1 (MQ=255)
ttGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCgg < 1:238731/53‑1 (MQ=255)
gAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAattgattg < 1:5645733/70‑1 (MQ=255)
gAACCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAattgattg < 1:1561460/70‑1 (MQ=255)
aaCCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATtgattgat < 1:1674394/71‑1 (MQ=255)
aCCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGa < 1:2145037/43‑1 (MQ=255)
aCCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGa < 1:3210566/43‑1 (MQ=255)
aCCTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATtgatg < 1:1315247/71‑1 (MQ=255)
cTATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGaaa < 1:3873809/59‑1 (MQ=255)
tATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAat < 1:2055325/59‑1 (MQ=255)
tATTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAat < 1:4433608/59‑1 (MQ=255)
aTTAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATgt > 1:1356333/1‑71 (MQ=255)
ttAACCATTTTGATATTCCTGGTTTCCATCTCACCgg < 1:5573606/37‑1 (MQ=255)
ttAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCgg < 1:444620/44‑1 (MQ=255)
ttAACCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATgtt > 1:3187932/1‑71 (MQ=255)
aaCCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGc < 1:424486/43‑1 (MQ=255)
aaCCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGc < 1:1291537/43‑1 (MQ=255)
aaCCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGc < 1:1310847/43‑1 (MQ=255)
aaCCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCa > 1:4979480/1‑44 (MQ=255)
aaCCATTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATtgatga > 1:356831/1‑65 (MQ=255)
ccATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATtgatg < 1:2255553/62‑1 (MQ=255)
cATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCt < 1:2655740/47‑1 (MQ=255)
aTTTTGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGaaa > 1:2365573/1‑50 (MQ=255)
ttttGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGgcg > 1:1461813/1‑43 (MQ=255)
ttttGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGa < 1:4691159/47‑1 (MQ=255)
ttttGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGa < 1:417159/47‑1 (MQ=255)
ttttGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATtgattgat < 1:1070845/58‑1 (MQ=255)
ttttGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATgttggt < 1:5512542/67‑1 (MQ=255)
ttttGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATtgatga < 1:3733347/60‑1 (MQ=255)
tttGATATTCCTGGTTTCCATCTCACCGGAACTCGGCa < 1:819388/38‑1 (MQ=255)
tttGATATTCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTtgctg > 1:2654870/1‑71 (MQ=255)
tttGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAat > 1:1777536/1‑49 (MQ=255)
gATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGatgttggtt < 1:1022585/61‑4 (MQ=255)
gATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATAGatgttggtt < 1:4770937/61‑4 (MQ=255)
atatTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAAt < 1:5195275/71‑1 (MQ=255)
atatTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAAt < 1:97888/71‑1 (MQ=255)
atatTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAAt < 1:4522861/71‑1 (MQ=255)
tatTCCTGGTTTCCATCTCACCGGAACTCGGCAGgcgc > 1:3183470/1‑38 (MQ=255)
tatTCCTGGTTTCCATCTCACCGGAACTCGGCAGgcgc > 1:1125974/1‑38 (MQ=255)
ttCCTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAattg < 1:1283683/44‑1 (MQ=255)
ccTGGTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGa < 1:2398437/70‑1 (MQ=255)
ccTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATtgattgat > 1:2635514/1‑48 (MQ=255)
ccTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATtgattgat > 1:1827473/1‑48 (MQ=255)
ccTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGa < 1:3029184/70‑1 (MQ=255)
ggTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGaaaa > 1:2277117/1‑70 (MQ=255)
ggTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAAt > 1:500080/1‑71 (MQ=255)
gTTTCCATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAAt < 1:5138495/70‑1 (MQ=255)
tCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCa < 1:2532224/70‑1 (MQ=255)
ccATCTCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAg > 1:1544460/1‑70 (MQ=255)
ccATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATgttg > 1:4887503/1‑47 (MQ=255)
ccATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATgttg > 1:772974/1‑47 (MQ=255)
aTCCCACCGGAACTCGGCAGGCGCTGAAATtgattgat < 1:5487573/38‑1 (MQ=255)
tCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATgt > 1:1965698/1‑42 (MQ=255)
ccACCGGAACTCGGCAGGCGCTGAAATTGATtgatg > 1:5064456/1‑36 (MQ=255)
ccACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGaa < 1:2259166/58‑1 (MQ=255)
|
TGCTGATGAAAGAAGATATTTTATTACTGATTGAACCTATTAACCATTTTGATATTCCTGGTTTCCATCCCACCGGAACTCGGCAGGCGCTGAAATTGATTGATGATGTTGGTTGCTGCAATTTGAAAATTCAG > minE/349891‑350024
|
| 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
