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 F1 I2 R1
|
730 |
35.1 |
2107516 |
91.4% |
1926269 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,028,232 |
C→A |
A371D (GCT→GAT) |
ghxQ → |
guanine/hypoxanthine transporter GhxQ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,028,232 | 0 | C | A | 96.9%
| 110.9
/ ‑7.2
| 32 | A371D (GCT→GAT) | ghxQ | guanine/hypoxanthine transporter GhxQ |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base A (21/10); minor base T (0/1); total (21/11) |
| Fisher's exact test for biased strand distribution p-value = 3.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTGGGGGCGTTATTCCTGTTAATTCTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGCTCTGATGTACGTAGGTTTGCTGATGTTAAGTAACGTCTCGAAGCTGGATTTCAATGATTTTATTGACGCTATGGC > NC_000913/3028156‑3028307
|
gTGGGGGCGTTATTCCTGTTAATTCTGTTTATATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGatct < 2:553773/80‑1 (MQ=255)
gTTATTCCTGTTAATTCTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACg > 2:553828/1‑80 (MQ=255)
gTTATTCCTGTTAATTCTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACg > 1:553811/1‑80 (MQ=255)
gTTATTCCTGTTAATTCTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGt < 1:553774/81‑1 (MQ=255)
aTTCCTGTTAATTCTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAgg > 2:553807/1‑81 (MQ=255)
aTTCCTGTTAATTCTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAg < 1:553775/80‑1 (MQ=255)
ccTGTTAATTCTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGttt > 2:553814/1‑81 (MQ=255)
ttAATTCTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGTTCTGATGTACGTAGGTTTGCt < 1:553776/80‑1 (MQ=255)
aaTTCTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGac > 2:553821/1‑80 (MQ=255)
aaTTCTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGac > 1:553829/1‑80 (MQ=255)
aTTCTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGacg > 1:553831/1‑79 (MQ=255)
ttCTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGt > 1:553815/1‑81 (MQ=255)
cTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGtt > 2:553817/1‑80 (MQ=255)
tttttATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAg > 1:553809/1‑80 (MQ=255)
ttATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAAc > 2:553827/1‑81 (MQ=255)
cGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGa < 1:553777/81‑1 (MQ=255)
cTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAg < 2:553778/81‑1 (MQ=255)
gTCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCt > 2:553842/1‑81 (MQ=255)
tCATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTg < 2:553779/81‑1 (MQ=255)
cATTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTg > 2:553818/1‑80 (MQ=255)
aTTTTTGATCCCTGGTTACGCCACTGCACCCGATCTGACGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTGGa > 2:553816/1‑81 (MQ=255)
tttttGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTGGAt > 2:553830/1‑81 (MQ=255)
ttGATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTGGAttt > 1:553820/1‑80 (MQ=255)
gATCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTGGATTTCaa > 2:553804/1‑81 (MQ=255)
aTCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTGGATTTCAAt > 2:553843/1‑81 (MQ=255)
aTCCCTGGTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTGGATTTCAAt > 1:553835/1‑81 (MQ=255)
ggTTACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTGGATTTCAATGAttt > 1:553839/1‑80 (MQ=255)
ttACGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTGGATTTCAATGATTTTAt < 1:553780/81‑1 (MQ=255)
aCGCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTGGATTTCAATGATTTTAtt < 1:553781/80‑1 (MQ=255)
gCCACTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTGGATTTCAATGATTTTATTGAc < 2:553782/81‑1 (MQ=255)
aCTGCACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTGGATTTCAATGATTTTATTGACGCt < 1:553783/81‑1 (MQ=255)
cACCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTGGATTTCAATGATTTTATTGACGCTAtg < 2:553784/80‑1 (MQ=255)
aCCCGATCTGATGTACGTAGGTTTGCTGACGTTAAGTAACGTCTCGAAGCTGGATTTCAATGATTTTATTGACGCTAtggc > 1:553826/1‑81 (MQ=255)
|
GTGGGGGCGTTATTCCTGTTAATTCTGTTTTTATCACCGCTGTCATTTTTGATCCCTGGTTACGCCACTGCACCCGCTCTGATGTACGTAGGTTTGCTGATGTTAAGTAACGTCTCGAAGCTGGATTTCAATGATTTTATTGACGCTATGGC > NC_000913/3028156‑3028307
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
