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 |
|
A94 F1 I1 R1
|
15 |
48.6 |
3202402 |
95.4% |
3055091 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,497,251 |
G→A |
S262F (TCC→TTC) |
glgP ← |
glycogen phosphorylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,497,251 | 0 | G | A | 93.3%
| 145.8
/ 3.1
| 45 | S262F (TCC→TTC) | glgP | glycogen phosphorylase |
| Reads supporting (aligned to +/- strand): ref base G (0/3); new base A (18/24); total (18/27) |
| Fisher's exact test for biased strand distribution p-value = 2.64e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.47e-01 |
TTCCTGACGCAGGCGCAGCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGGAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAATTTACCGAGGTTAATTTCGCTA > REL606/3497178‑3497319
|
ttCCTGACGCAGGCGCAGCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAg < 2:260190/76‑1 (MQ=255)
tCCTGACGCAGGCGCAGCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGt > 1:959162/1‑76 (MQ=255)
cTGACGCAGGCGCAGCTCACGCCCGGAGTAGGTGGAGGCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTgg > 2:230303/1‑76 (MQ=255)
tGACGCAGGCGCAGCTCCCGCCCGGAGTAGGTGGAGTCATCCGAATACAGTACGCGAGATACGTTCTCGAAGTGGt < 2:1386619/76‑1 (MQ=255)
tGACGCAGGCGCAGCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGt < 1:1176037/76‑1 (MQ=255)
aCGCAGGCGCAGCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGttt < 1:1318870/76‑1 (MQ=255)
gcgcAGCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCt < 1:894914/76‑1 (MQ=255)
cgcAGCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCtt < 2:1544190/76‑1 (MQ=255)
cAGCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGGAGTGGTTTTTATCTTcc < 2:169838/76‑1 (MQ=255)
cAGCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTcc < 2:292576/76‑1 (MQ=255)
cAGCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTcc > 1:915362/1‑76 (MQ=255)
aGCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGGAGTGGTTTTTATCTTCCa < 2:1395088/76‑1 (MQ=255)
gCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCAc > 1:1028589/1‑76 (MQ=255)
gCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCAc > 1:823309/1‑76 (MQ=255)
cGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCcg < 1:71552/76‑1 (MQ=255)
cGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCcg > 2:337845/1‑76 (MQ=255)
gAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAagt < 1:1414574/76‑1 (MQ=255)
aGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGGAGTGGTTTTTATCTTCCACTGCCGCGAagta < 1:1261968/76‑1 (MQ=255)
aGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAagta > 1:1065595/1‑76 (MQ=255)
aGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCATCCACTGCCGCGAagta > 1:692037/1‑76 (MQ=255)
ggTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCa < 1:215582/76‑1 (MQ=255)
tGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCAcc > 1:668229/1‑76 (MQ=255)
ggAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGCAGTAGTCAccc > 1:358624/1‑76 (MQ=255)
ggAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCAccc > 2:483221/1‑76 (MQ=255)
ggAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCAccc < 2:1243687/76‑1 (MQ=255)
gAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCt < 1:966217/76‑1 (MQ=255)
gAGTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCt < 1:612777/76‑1 (MQ=255)
gTCATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTgg > 2:792652/1‑76 (MQ=255)
tCATCCGGATACAGTACGCTAGATACGTTCTCGAATTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGt > 1:633369/1‑76 (MQ=255)
cATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGtt < 2:1110972/76‑1 (MQ=255)
cATCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGtt < 1:667850/76‑1 (MQ=255)
aTCCGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTg < 2:1198533/76‑1 (MQ=255)
ccGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGaa > 1:422470/1‑76 (MQ=255)
cGGATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAAt > 2:919317/1‑76 (MQ=255)
gATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAAttt < 1:932982/76‑1 (MQ=255)
gATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAAttt < 2:1310774/76‑1 (MQ=255)
gATACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAAttt < 1:898367/76‑1 (MQ=255)
aTACAGTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAATTTa < 2:1471457/76‑1 (MQ=255)
gTACGCGAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAATTTACCGAg > 2:1085119/1‑76 (MQ=255)
cgcgAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAATTTACCGAGGtt < 2:1407195/76‑1 (MQ=255)
cgcgAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAATTTACCGAGGtt > 2:403461/1‑76 (MQ=255)
gcgAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAATTTACCGAGGTTa < 1:585321/76‑1 (MQ=255)
gcgAGATACGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAATTTACCGAGGTTa < 1:32145/76‑1 (MQ=255)
cGTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAATTTACCGAGGTTAATTTCGCt < 2:987560/76‑1 (MQ=255)
gTTCTCGAAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAATTTACCGAGGTTAATTTCGCTa > 1:270398/1‑76 (MQ=255)
|
TTCCTGACGCAGGCGCAGCTCACGCCCGGAGTAGGTGGAGTCATCCGGATACAGTACGCGAGATACGTTCTCGGAGTGGTTTTTATCTTCCACTGCCGCGAAGTAGTCACCCTGGTTGAATTTACCGAGGTTAATTTCGCTA > REL606/3497178‑3497319
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
