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 |
2,801,633 |
C→T |
43.4% |
intergenic (+53/‑81) |
yjbN → / → yjbO |
tRNA‑dihydrouridine synthase A/phage shock protein G |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,801,633 | 0 | C | T | 43.4%
| 19.2
/ 50.9
| 69 | intergenic (+53/‑81) | yjbN/yjbO | tRNA‑dihydrouridine synthase A/phage shock protein G |
| Reads supporting (aligned to +/- strand): ref base C (13/26); new base T (13/17); total (26/43) |
| Fisher's exact test for biased strand distribution p-value = 4.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TAAGCGTTAACTTTTCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGTAATGCCAGCAAGAGATTTCA > minE/2801571‑2801697
|
tAAGCGTTAACTTTTCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTg > 1:3356151/1‑69 (MQ=255)
tAAGCGTTAACTTTTCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTg > 1:3071926/1‑69 (MQ=255)
tAAGCGTTAACTTTTCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTg > 1:2153423/1‑69 (MQ=255)
tAAGCGTTAACTTTTCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTg > 1:2149573/1‑69 (MQ=255)
ttCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGtttt > 1:1965645/1‑55 (MQ=255)
ttCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTg > 1:2279331/1‑56 (MQ=255)
ttCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAAt > 1:2449176/1‑65 (MQ=255)
ttCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATc > 1:2405131/1‑66 (MQ=255)
ttCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATc > 1:813851/1‑66 (MQ=255)
ttCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATc > 1:652812/1‑66 (MQ=255)
ttCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATc > 1:544533/1‑66 (MQ=255)
ttCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATc > 1:522700/1‑66 (MQ=255)
ttCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATc > 1:40684/1‑66 (MQ=255)
ttCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATc > 1:2832610/1‑66 (MQ=255)
ttCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATc > 1:1894052/1‑66 (MQ=255)
ttCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATc > 1:1051420/1‑66 (MQ=255)
ttCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATc > 1:1089970/1‑66 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:1792299/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:516220/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:1249532/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:3142905/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:3130979/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:1333230/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:302260/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:298721/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:2491660/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:1417274/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:2315945/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:2200932/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:2013072/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:2072277/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:1568680/68‑3 (MQ=255)
cACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:1959456/68‑3 (MQ=255)
ccAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGTGTTTTGCTGTTAAATCaaca < 1:355088/66‑3 (MQ=255)
cAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGatt > 1:199435/1‑69 (MQ=255)
cAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGatt > 1:3313363/1‑69 (MQ=255)
cAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGat < 1:1723260/68‑1 (MQ=255)
cAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGat < 1:3217003/68‑1 (MQ=255)
cAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGat > 1:1712508/1‑68 (MQ=255)
cAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGat < 1:708604/68‑1 (MQ=255)
tagtCAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTAttttt > 1:1228282/1‑68 (MQ=255)
cAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCAt < 1:2681680/69‑1 (MQ=255)
cAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCAt < 1:278396/69‑1 (MQ=255)
aaaTTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATg < 1:702311/69‑1 (MQ=255)
ttCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGAtt < 1:2115251/69‑1 (MQ=255)
ttCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGAtt < 1:132026/69‑1 (MQ=255)
ttCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGAtt < 1:2103581/69‑1 (MQ=255)
cacGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGt < 1:3180549/69‑1 (MQ=255)
cacGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGt < 1:706699/69‑1 (MQ=255)
cacGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGt < 1:2208800/69‑1 (MQ=255)
cacGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGt < 1:140368/69‑1 (MQ=255)
cacGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGt < 1:2828380/69‑1 (MQ=255)
cacGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGt < 1:2692440/69‑1 (MQ=255)
cacGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGt < 1:2568924/69‑1 (MQ=255)
cacGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGt < 1:2489062/69‑1 (MQ=255)
acGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGa > 1:3250039/1‑46 (MQ=255)
acGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGTa > 1:1004713/1‑69 (MQ=255)
acGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGTa > 1:2298423/1‑69 (MQ=255)
acGCCCGGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGTa > 1:4235/1‑69 (MQ=255)
acGCCCGGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGTa > 1:434867/1‑69 (MQ=255)
gCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTTTAAt < 1:2244046/69‑1 (MQ=255)
gCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGTAAt < 1:1828967/69‑1 (MQ=255)
gCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGTAAt < 1:3035290/69‑1 (MQ=255)
gCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGTAAt < 1:1553482/69‑1 (MQ=255)
gCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGTAAt < 1:1063069/69‑1 (MQ=255)
ccGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGTAATGCCAGCAaga < 1:647706/69‑1 (MQ=255)
gggCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATg < 1:1906376/40‑1 (MQ=255)
gggCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGTAATGCCAGCAAGAGATTTCa < 1:546634/68‑1 (MQ=255)
ggCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGt < 1:1955883/47‑1 (MQ=255)
|
TAAGCGTTAACTTTTCACCAAAAAGTAGTCAAATTCACCACGCCCTGCGCACCGTCGCGGGGCGTTTTGCTGTTAAATCAATAGATTATTTTTGGCATGATTCTTGTAATGCCAGCAAGAGATTTCA > minE/2801571‑2801697
|
| 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
