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 |
3,083,832 |
(A)7→8 |
intergenic (‑35/+103) |
speB ← / ← speA |
agmatinase/arginine decarboxylase, biosynthetic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,083,825 | 1 | . | A | 93.8%
| 107.1
/ 0.4
| 32 | intergenic (‑28/+110) | speB/speA | agmatinase/arginine decarboxylase, biosynthetic |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base A (19/11); total (20/12) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
CCAAAGGCATTGGAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATAT‑AAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCA > NC_000913/3083745‑3083900
|
ccgaaGGCATTGGAAACCAGTAAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGatat < 1:567141/78‑1 (MQ=255)
ccAAAGGCATTGGAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGatat < 1:567140/81‑1 (MQ=255)
aaGGCATTGGAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATAT‑aaa < 2:567143/81‑1 (MQ=255)
aaGGCATTGGAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATAT‑aaa < 2:567142/81‑1 (MQ=255)
cATTGGAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATAT‑aaaaaa > 1:567201/1‑80 (MQ=255)
aTTGGAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATAT‑aaaaaaaa > 1:567178/1‑80 (MQ=255)
ggAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATAT‑AAAAAAAaccc > 2:567180/1‑80 (MQ=255)
gAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATAT‑AAAAAAAaccct < 1:567144/81‑3 (MQ=255)
aaaCCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCtt > 2:567179/1‑81 (MQ=255)
aaCCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTc < 1:567145/81‑1 (MQ=255)
aaCCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTc > 2:567198/1‑81 (MQ=255)
aaCCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTc > 2:567191/1‑81 (MQ=255)
aaCCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTc > 2:567181/1‑81 (MQ=255)
ccAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCcg > 1:567205/1‑81 (MQ=255)
cAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCcgc > 2:567147/1‑81 (MQ=255)
cAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCcgc < 1:567146/81‑1 (MQ=255)
aGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCcgcg > 2:567184/1‑81 (MQ=255)
aGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCCGcgtcgt < 2:567148/81‑1 (MQ=255)
gTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGtt < 1:567149/81‑1 (MQ=255)
aTCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAgg > 2:567195/1‑81 (MQ=255)
aTCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAgg > 2:567182/1‑81 (MQ=255)
ttGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCcgac < 2:567150/81‑1 (MQ=255)
ttGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCcga < 2:567151/80‑1 (MQ=255)
aCCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAgg > 1:567185/1‑79 (MQ=255)
aaGGTGCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGt > 2:567199/1‑81 (MQ=255)
aGGTGCTCATGGATGGGCTCCTATTAAAAAGTCGATGTAAAAAAAACCCTTCCGCGTCGTTAGGACCGACGAGGAAGGGt < 2:567152/80‑1 (MQ=255)
gCTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGAt > 2:567197/1‑81 (MQ=255)
cTCATGGATGGACTCCTATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGAtt > 1:567210/1‑81 (MQ=255)
atggaCTCCTATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTcaca < 2:567153/81‑1 (MQ=255)
atggaCTCCTATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTcac > 2:567173/1‑80 (MQ=255)
cTATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAAt < 2:567154/79‑1 (MQ=255)
cTATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATtg > 1:567207/1‑81 (MQ=255)
tATTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATtgt > 1:567189/1‑81 (MQ=255)
aTTACAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATtgtg > 1:567202/1‑81 (MQ=255)
aCAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCg > 2:567196/1‑81 (MQ=255)
cAAAGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCg > 1:567193/1‑80 (MQ=255)
aGTCGATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGAtt < 1:567155/81‑1 (MQ=255)
gATATAAAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCa < 1:567156/81‑1 (MQ=255)
|
CCAAAGGCATTGGAAACCAGTGAGTTATCGTATTGATGACCTAAGGTGCTCATGGATGGACTCCTATTACAAAGTCGATAT‑AAAAAAACCCTTCCGCGTCGTTAGGCCCGACGAGGAAGGGTTGGATTTGTCACAATAAATTGTGGCGGATTATCA > NC_000913/3083745‑3083900
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
