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 |
|
A18 F1 I1 R1
|
18 |
50.6 |
3235256 |
96.4% |
3118786 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,498,010 |
G→A |
S9L (TCG→TTG) |
glgP ← |
glycogen phosphorylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,498,010 | 0 | G | A | 98.3%
| 218.6
/ ‑4.0
| 58 | S9L (TCG→TTG) | glgP | glycogen phosphorylase |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (26/31); total (26/32) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.73e-01 |
GGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCACGG > REL606/3497938‑3498081
|
gggTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATg > 1:238886/1‑76 (MQ=255)
gTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGaa < 1:600182/76‑1 (MQ=255)
tCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAat < 1:852477/76‑1 (MQ=255)
tCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATACAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAat > 2:804349/1‑76 (MQ=255)
tCCTTTACAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTATGGGCTTCTACGCTAAGCGTGGGCAATGAat < 1:1484106/76‑1 (MQ=255)
ccTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAata < 1:812776/76‑1 (MQ=255)
cTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAatat < 1:117601/76‑1 (MQ=255)
ccAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaa < 1:369497/76‑1 (MQ=255)
ccAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaa < 2:1575131/76‑1 (MQ=255)
ccAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaa > 1:767494/1‑76 (MQ=255)
ccAAGCCTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaa > 1:86539/1‑76 (MQ=255)
cAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTaaa < 2:1219233/76‑1 (MQ=255)
aaTCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAAc < 1:242394/76‑1 (MQ=255)
tCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACgg < 2:1165541/76‑1 (MQ=255)
cGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGa < 2:1415762/76‑1 (MQ=255)
cGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGa < 1:649322/76‑1 (MQ=255)
gTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAg > 1:319520/1‑76 (MQ=255)
tAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGc > 2:1036983/1‑76 (MQ=255)
aaaCATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCa > 2:795242/1‑76 (MQ=255)
aaaCATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCa < 1:388865/76‑1 (MQ=255)
aCATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCAtt < 2:482665/76‑1 (MQ=255)
aCATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCAtt < 2:800192/76‑1 (MQ=255)
tCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATAGGTAAACGGAGCATTCat > 1:172305/1‑76 (MQ=255)
cAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCata > 2:550397/1‑76 (MQ=255)
gCTTGTAAGCGATATAGTGCTTAAAGGCGTCNACGCTAAGAGTGGGNAATGANTATGTAAACGGAGCATTCAtata < 2:214166/76‑1 (MQ=255)
cTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTGATATAg < 2:436417/76‑1 (MQ=255)
gTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCg > 2:255217/1‑76 (MQ=255)
gTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCg < 1:1284912/76‑1 (MQ=255)
gTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCg > 2:126902/1‑76 (MQ=255)
tAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGTAATGAATATGTAAACGGAGCATTCATATAGGCGt < 2:447291/76‑1 (MQ=255)
tAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGt > 2:714884/1‑76 (MQ=255)
aaGCGATAGGGTGCTTAAGGGCTNCTACGNTAAGCTTGGGCAATNAACATGAAAACGGAGCATTCATATAGGCGtt > 2:210138/1‑76 (MQ=255)
aaGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGtt > 1:1047883/1‑76 (MQ=255)
aGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGttt < 1:295795/76‑1 (MQ=255)
gATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCt > 1:555366/1‑76 (MQ=255)
gATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCt > 1:1227184/1‑76 (MQ=255)
gATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCt < 2:1294108/76‑1 (MQ=255)
aTAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTg < 2:1430959/76‑1 (MQ=255)
tAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGa > 2:1133945/1‑76 (MQ=255)
agagTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGaa > 2:685550/1‑76 (MQ=255)
gagTGCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGaaa < 1:587461/76‑1 (MQ=255)
gCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTa > 2:1266928/1‑76 (MQ=255)
gCTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTa > 1:916748/1‑76 (MQ=255)
cTTAAGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTAt > 1:1335636/1‑76 (MQ=255)
aaGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTc < 2:1306596/76‑1 (MQ=255)
aaGGGCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTc > 2:1023150/1‑76 (MQ=255)
gCTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGc > 2:443882/1‑76 (MQ=255)
cTTCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCg < 1:966557/76‑1 (MQ=255)
ttCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGa > 2:1164297/1‑76 (MQ=255)
tcgaCGCTAAGCGNGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGAt < 1:210138/73‑1 (MQ=255)
tCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGAt < 2:1415400/76‑1 (MQ=255)
tCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGAt < 2:1194177/76‑1 (MQ=255)
tCTACGCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGAt < 1:1430904/76‑1 (MQ=255)
gCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTaa < 2:933984/76‑1 (MQ=255)
gCTAAGCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTaa > 2:96450/1‑76 (MQ=255)
gCGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTc < 1:1329848/76‑1 (MQ=255)
cGTGGGCAATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCa < 2:852867/76‑1 (MQ=255)
gggCAATGAATATGTAAACGGAGCATTCATATANGCGTTTCCTGAAAACTATTTCANGCGATAGTCANGCTCACgg > 2:1362738/1‑76 (MQ=255)
|
GGGTCCTTTCCAATCGTAAACATCAGCTTGTAAGCGATAGAGTGCTTAAGGGCTTCTACGCTAAGCGTGGGCGATGAATATGTAAACGGAGCATTCATATAGGCGTTTCCTGAAAACTATTTCAAGCGATAGTAAAGCTCACGG > REL606/3497938‑3498081
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
