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
|
524 |
31.4 |
1748232 |
97.8% |
1709770 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,142,743 |
G→A |
P69L (CCC→CTC) |
udk ← |
uridine/cytidine kinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,142,743 | 0 | G | A | 97.6%
| 137.8
/ NA
| 41 | P69L (CCC→CTC) | udk | uridine/cytidine kinase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (23/17); minor base T (1/0); total (24/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCGGCAGGTCAATTGCCGAGCCGCGTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGGGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGATGGCTTTGATCTTTGTAATAGCAGTCTTCGGGAAT > NC_000913/2142668‑2142819
|
aCCGGCAGGTCAATTGCCGAGCCGCGTTTCAACGTTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATgg > 2:363929/1‑81 (MQ=255)
cGGCAGGTCAATTGCCGAGCCGCGTTTCAACGTTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTc < 2:363892/81‑1 (MQ=255)
cGGCAGGTCAATTGCCGAGCCGCGTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATTCATCGCGCTGAGATGGTc < 2:363894/81‑1 (MQ=255)
cGGCAGGTCAATTGCCGAGCCGCGTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTc > 2:363928/1‑81 (MQ=255)
cGGCAGGTCAATTGCCGAGCCGCGTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTc < 1:363893/81‑1 (MQ=255)
ggCAGGTCAATTGCCGAGCCGCGTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCg < 2:363895/81‑1 (MQ=255)
cAGGTCAATTGCCGAGCCGCGTTTCAACGTTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCg > 1:363930/1‑79 (MQ=255)
cAGGTCAATTGCCGAGCCGCGTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCg > 2:363943/1‑79 (MQ=255)
cAGGTCAATTGCCGAGCCGCGTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCg > 1:363950/1‑79 (MQ=255)
aGGTCAATTGCCGAGCCGCGTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAg > 1:363939/1‑81 (MQ=255)
aaTTGCCGAGCCGCGTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGt < 1:363896/81‑1 (MQ=255)
aTTGCCGAGCCGCGTTTCAACGTTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTc < 1:363897/81‑1 (MQ=255)
tGCCGAGCCGCGTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCt > 1:363937/1‑80 (MQ=255)
gCCGAGCCGCGTTTCAACGTTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCtt < 1:363898/80‑1 (MQ=255)
gAGCCGCGTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAAcg > 2:363934/1‑81 (MQ=255)
ccGCGTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGt > 1:363952/1‑81 (MQ=255)
gcgTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGttc > 2:363941/1‑81 (MQ=255)
gcgTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGttc > 1:363942/1‑81 (MQ=255)
gcgTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGttc < 2:363899/81‑1 (MQ=255)
cgTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGttct > 1:363932/1‑81 (MQ=255)
gTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGttctt > 1:363983/1‑81 (MQ=255)
tttCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCTCTGTGATGGTCGTAGTTGGTCTTAACGCGttcttc > 1:363931/1‑81 (MQ=255)
tCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTcc < 1:363900/80‑1 (MQ=255)
cAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCa < 2:363901/80‑1 (MQ=255)
cAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCAt > 2:363933/1‑81 (MQ=255)
aaCGTTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATc > 2:363936/1‑81 (MQ=255)
aCGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCg < 2:363902/81‑1 (MQ=255)
gCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGAc < 1:363903/81‑1 (MQ=255)
gTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAg < 2:363904/79‑1 (MQ=255)
tAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGAt < 1:363905/80‑1 (MQ=255)
aaTGCTCAAGCAGCAGACTGTGAACCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGATgg < 1:363906/80‑1 (MQ=255)
cTCAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGATGGCttt > 1:363951/1‑80 (MQ=255)
cAAGCAGCAGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGATGGCTTTGAt > 2:363956/1‑81 (MQ=255)
gcagcaGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGGTGGCTTTGATCtt < 1:363907/81‑1 (MQ=255)
gcagcaGACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGATGGCTTTGATCtt > 2:363935/1‑81 (MQ=255)
cagACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGATGGCTTTGATCTTTGt > 2:363947/1‑80 (MQ=255)
gACTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGATGGCTTTGATCTTTGTaa > 1:363960/1‑80 (MQ=255)
aCTGTGATCCATCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGATGGCTTTGATCTTTGTaa > 2:363958/1‑79 (MQ=255)
aTCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGATGGCTTTGATCTTTGTAATAGCAGTCTTCg > 1:363945/1‑81 (MQ=255)
tCGCGCTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGATGGCTTTGATCTTTGTAATAGCAGTCTTCgg < 1:363908/81‑1 (MQ=255)
gcTGAGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGATGGCTTTGATCTTTGTAATAGCAGTCTTCGGGAAt > 2:363969/1‑81 (MQ=255)
|
ACCGGCAGGTCAATTGCCGAGCCGCGTTTCAACGCTTGTAAATGCTCAAGCAGCAGACTGTGATCCATCGCGCTGGGATGGTCGTAGTTGGTCTTAACGCGTTCTTCCATCGACAGATGGCTTTGATCTTTGTAATAGCAGTCTTCGGGAAT > NC_000913/2142668‑2142819
|
| 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
