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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,919,493 |
T→A |
22.0% |
Y68F (TAT→TTT) |
argI ← |
ornithine carbamoyltransferase 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,919,493 | 0 | T | A | 22.0%
| 187.8
/ 51.1
| 91 | Y68F (TAT→TTT) | argI | ornithine carbamoyltransferase 1 |
| Reads supporting (aligned to +/- strand): ref base T (26/45); new base A (11/9); total (37/54) |
| Fisher's exact test for biased strand distribution p-value = 1.97e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.76e-01 |
TAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTAC > minE/2919425‑2919562
|
tAATTGACTCTTTATGCCCAATCTGGCTGCCGCTCGGCCCTAAATAGGTAACGCGCGCGCCCTGGTCaaat > 1:3334071/1‑71 (MQ=255)
tAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCatat > 1:1032572/1‑71 (MQ=255)
tAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAAAGCGAGCACCCTGGTCatat > 1:3624586/1‑71 (MQ=255)
aCTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCa < 1:1679702/71‑1 (MQ=255)
ctctTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCaa > 1:3308221/1‑71 (MQ=255)
tctTTATGCCCAATCTGGCTGCCGCTCGGCCCTAAATAGGTAACGCGCGCGCCCTGGTCAAATGCGGc > 1:1662501/1‑68 (MQ=255)
tctTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCaa > 1:2704415/1‑70 (MQ=255)
tctTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAAc > 1:788008/1‑71 (MQ=255)
tttATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAAc < 1:962910/69‑1 (MQ=255)
tttATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCATGGTCATATGCGGCAAc < 1:1954740/69‑1 (MQ=255)
ttATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGc < 1:2668362/65‑1 (MQ=255)
tATGCCCAATCTGGCTGCCGCTCGGCCCTAAATAGGTAACGCGCGCGCCCTGGTCAAATGCGGCAACTTc < 1:339524/70‑1 (MQ=255)
tATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTc > 1:575732/1‑70 (MQ=255)
aTGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCg < 1:417330/70‑1 (MQ=255)
aTGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCg > 1:3808433/1‑70 (MQ=255)
tGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGaa < 1:1746299/71‑1 (MQ=255)
tGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGa < 1:3506041/70‑1 (MQ=255)
tGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGa < 1:773765/70‑1 (MQ=255)
gACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGc < 1:503415/58‑1 (MQ=255)
gACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGAACCCTTGACATATGc < 1:1341441/58‑1 (MQ=255)
cccAATCTGGCTGCCGCTCGGCCCTAAATAGGTAACGCGCGCGCCCTGGTCAAATGCGGCAACTTCGaaa < 1:3064838/69‑1 (MQ=255)
cccAATCTGGCTGCCGCTCGGCCCTAAATAGGTAACGCGCGCGCCCTGGTCAAATGCGGCAACTTCGAAag < 1:3312819/70‑1 (MQ=255)
aCCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGaaa < 1:244577/70‑1 (MQ=255)
aCCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAag < 1:1603931/71‑1 (MQ=255)
aCCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAag < 1:2414506/71‑1 (MQ=255)
ccAATCTGGCTGCCGCTCGGCCCTAAATAGGTAACGCGCGCGCCCTGGTCAAATGCGGCAACTTCGaaa > 1:1550738/1‑69 (MQ=255)
ccAATCTGGCTGCCGCTCGGCCCTAAATAGGTAACGCGCGCGCCCTGGTCAAATGCGGCAACTTCGaaa > 1:3400372/1‑69 (MQ=255)
cAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCCCCCTGGTCATATGCGGCAACTTCGAAagag > 1:2090553/1‑71 (MQ=255)
cAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAagag > 1:2074159/1‑71 (MQ=255)
aTCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCa < 1:3100397/71‑1 (MQ=255)
tCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCAt > 1:1266996/1‑71 (MQ=255)
tGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGc > 1:2709100/1‑50 (MQ=255)
tGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCg > 1:1136939/1‑71 (MQ=255)
gCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATc < 1:988330/68‑1 (MQ=255)
cTGCCGCTCGGCCCTAAATAGGTAACGCGCGCGCCCTGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGt < 1:1150435/71‑1 (MQ=255)
ccGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAc > 1:1021955/1‑70 (MQ=255)
ccGCTCGGCCCTAAATAGGTAACGCGCGCGCCCTGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGTAc > 1:1352634/1‑70 (MQ=255)
cGCTTGGGCCGAGATAAGTAACGCGAGCACGCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAc < 1:1755589/69‑1 (MQ=255)
cGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcga < 1:47219/71‑1 (MQ=255)
cGCTCGGCCCTAAATAGGTAACGCGCGCGCCCTGGTCAAATGCGGCAACTTCGAAaga > 1:1256399/1‑58 (MQ=255)
gCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcgag < 1:3292804/71‑1 (MQ=255)
cTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATg < 1:2390389/40‑1 (MQ=255)
cTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATc < 1:3930069/61‑1 (MQ=255)
cTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcgagt > 1:175560/1‑71 (MQ=255)
tGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcgagtc > 1:764412/1‑70 (MQ=255)
gggCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcgagtcg < 1:2916072/70‑1 (MQ=255)
gggCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcgagtc < 1:733628/69‑1 (MQ=255)
gggCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcgagtc < 1:3227791/69‑1 (MQ=255)
ggCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcgagtcgag < 1:509753/71‑1 (MQ=255)
ccGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACtt > 1:3289058/1‑43 (MQ=255)
cGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGaa < 1:2694615/46‑1 (MQ=255)
cGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGaa < 1:519303/46‑1 (MQ=255)
cGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCt > 1:676457/1‑71 (MQ=255)
gagaTAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGt > 1:3365593/1‑57 (MQ=255)
gaTAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCtttt > 1:2066507/1‑71 (MQ=255)
aTAAGTAACGCGAGCACCCTGGTCATATGCGGCAACt < 1:1050373/37‑1 (MQ=255)
aTAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCttttt < 1:1716666/71‑1 (MQ=255)
aaGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCa < 1:2993297/46‑1 (MQ=255)
gTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGaa < 1:2915227/71‑1 (MQ=255)
tAACGCGAGCACCCTGGTCATATGCGGCAACTTCGaa < 1:2984119/37‑1 (MQ=255)
aaCGCGCGCGCCCTGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGTAcgagtcg < 1:1874776/56‑1 (MQ=255)
aCGCGCGCGCCCTGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGTACGAGTCGAGTCTTTTTCGAAGAt < 1:3790563/71‑1 (MQ=255)
aCGCGAGCACCCTGGTCATATGCGGCAACTTCGaa < 1:3311641/35‑1 (MQ=255)
aCGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTc < 1:635119/65‑1 (MQ=255)
aCGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGAt < 1:902519/71‑1 (MQ=255)
aCGCGAGCACCCTGGACATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGAt < 1:3738397/71‑1 (MQ=255)
cgcgcgcgCCCTGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGTACGAGTCGAGTCGTTTTCGAAGAt > 1:1109394/1‑70 (MQ=255)
cgcgAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGt < 1:278775/46‑1 (MQ=255)
gcgcgcgcCCTGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGTACGAGTCGAGTCTTTTTCGAAGAt < 1:590861/69‑1 (MQ=255)
gcgAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGAt > 1:1052411/1‑69 (MQ=255)
gcgAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGa < 1:360040/71‑1 (MQ=255)
cgAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAg < 1:2008898/71‑1 (MQ=255)
gAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAg > 1:1141367/1‑65 (MQ=255)
gcgcccTGGTCAAATGCGGGAACTTCGAAAGAGCAACGGGTACGAGTCGAGTCTTTTTCGAAGATGAgcgc > 1:45921/4‑71 (MQ=255)
gcgcccTGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGTACGAGTCGAGTCTTTTTCGAAGATGAgcgc > 1:3311355/4‑71 (MQ=255)
cACCCTGGTCATATGCTGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGcgcg < 1:2405417/71‑1 (MQ=255)
cACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAc < 1:764474/42‑1 (MQ=255)
cACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAgc < 1:2483171/68‑1 (MQ=255)
gcccTGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGa < 1:2332387/70‑1 (MQ=255)
gcccTGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGa < 1:3713242/70‑1 (MQ=255)
cccTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGTGTCGAGTCTTTTTCGAAGATGAGCGCGAt > 1:3537270/1‑71 (MQ=255)
cccTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGcgcg > 1:3466483/1‑69 (MQ=255)
cccTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGAt > 1:499683/1‑71 (MQ=255)
ccTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcga > 1:616707/1‑41 (MQ=255)
ccTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCttt < 1:274598/52‑1 (MQ=255)
tGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcg < 1:2148317/38‑1 (MQ=255)
tGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGTa > 1:1809294/1‑36 (MQ=38)
tGGTCAAATGCGGCAACTTCGAAAGAGCAACGGGTACGAGTCGAGTCTTTTTCGaa > 1:3894423/1‑56 (MQ=255)
gTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcgag > 1:91274/1‑38 (MQ=255)
gTCATATGCGGCAACTTCGAAAGAGCATCGGGTAcga > 1:874462/1‑37 (MQ=255)
gTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGttt < 1:3354898/70‑1 (MQ=255)
gTCAAATGCGGCAACTTCGAAAGAGCAACGGGTAcgagtcgagt > 1:2425440/1‑44 (MQ=255)
tCATATGCGGCAACTTCGAAAGAGCATCGGGTAcgagtc < 1:1912777/39‑1 (MQ=255)
tCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGAt > 1:2341495/1‑65 (MQ=255)
atatGCGGCAACTTCGAAAGAGCATCGGGTAcgagtcga > 1:3707273/1‑39 (MQ=255)
atatGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGt < 1:2381121/65‑1 (MQ=255)
atatGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTAc > 1:1518154/1‑71 (MQ=255)
atatGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTAc > 1:2691091/1‑71 (MQ=255)
tatGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGa < 1:2539659/55‑1 (MQ=255)
|
TAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATATGCGGCAACTTCGAAAGAGCATCGGGTACGAGTCGAGTCTTTTTCGAAGATGAGCGCGATGTTTTTAC > minE/2919425‑2919562
|
| 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
