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 |
|
A65 F1 I1 R1
|
19 |
67.5 |
4307580 |
97.2% |
4186967 |
74.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,202,526 |
T→G |
K12Q (AAA→CAA) |
iclR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,202,526 | 0 | T | G | 98.3%
| 235.6
/ ‑3.3
| 60 | K12Q (AAA→CAA) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base G (15/44); total (16/44) |
| Fisher's exact test for biased strand distribution p-value = 2.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.15e-01 |
ACTCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTC > REL606/4202454‑4202596
|
aCTCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTc < 2:226913/75‑1 (MQ=255)
aCTCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTc < 2:1862802/75‑1 (MQ=255)
aCTCCAGTAATTTCAGGCCACGCGTCAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTc < 1:735487/75‑1 (MQ=255)
aCTCCAGTAATGTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTc < 1:945288/75‑1 (MQ=255)
cTCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCt < 1:731357/75‑1 (MQ=255)
tAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCcgcg < 2:1474913/75‑1 (MQ=255)
tAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTGGCTGCcgcg > 1:529970/1‑75 (MQ=255)
atgtCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTACGGTGGCCCCGGCGGGTTGTCTGCCGCGtt < 2:649406/72‑1 (MQ=255)
tttCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGGTGGCTGCCGCGgtt > 1:1035166/1‑75 (MQ=255)
cAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTcgc < 1:2145260/75‑1 (MQ=255)
ccAGGCTTTAAAGACTAAACATGATCAGTCGCTGGTGCGGTGGCAAATATGGGTTGTCTGCCGCTTTACGCGGGa < 2:2138943/75‑1 (MQ=255)
aCGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAAt < 1:1297986/75‑1 (MQ=255)
cgcgTTAAAGCCGGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTCCCGCGTTTCGCGGGAATg < 1:774405/75‑1 (MQ=255)
cgTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATggg < 2:1662140/75‑1 (MQ=255)
cgTTAAAGACGGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATggg < 1:1031784/75‑1 (MQ=255)
gTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTTGCGGGGATgggg > 1:99636/1‑74 (MQ=255)
ttAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGGATggggg > 2:1644232/1‑73 (MQ=255)
aaGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGa < 1:1202841/75‑1 (MQ=255)
aGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGAc < 1:208904/75‑1 (MQ=255)
aGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGAc < 1:1502095/75‑1 (MQ=255)
gACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGAcc < 2:637725/75‑1 (MQ=255)
gACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGAcc < 2:1309317/75‑1 (MQ=255)
cTGGACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCAt < 2:1555440/75‑1 (MQ=255)
cTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCAt < 2:1490854/75‑1 (MQ=255)
cTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCAt < 2:1213646/75‑1 (MQ=255)
cTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCAt < 1:1903690/75‑1 (MQ=255)
tGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATg < 1:2071883/75‑1 (MQ=255)
gAACCAGTCCAGTCGCGGGTGGGGGTGCGCGGGCGGGTTGTCTGCCCCGTTTGGCGGGAATGGGTGCCGCCATGa < 2:261140/75‑1 (MQ=255)
aaCCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGAc < 2:1612665/75‑1 (MQ=255)
aaCCGGTCCAGTCGGTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGAc < 2:1579960/75‑1 (MQ=255)
aCCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACa < 1:1616835/75‑1 (MQ=255)
aCCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACa < 2:1501610/75‑1 (MQ=255)
gTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGtct > 2:1980191/1‑75 (MQ=255)
ccAGTCGCTGGTGCGGTGGCAACGGCGGGGTGTCTGCCGCGTTTCGCGGGGATGGGGGGGGCCATGACAGTCTcc > 1:1704930/1‑75 (MQ=255)
gTCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCttt < 2:558281/75‑1 (MQ=255)
gTCGCTGGTGCGGTGGCAACGGCGGGTCGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCttt < 1:1549398/75‑1 (MQ=255)
gTCGCTGGTGCGGTGGCAACGGCGGGGTGTCTGCCGCGTTTCGCGGGAATGGGTGGGACCCTGACAGTCTCCttt > 2:1796774/1‑75 (MQ=255)
tCGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCtttt < 2:1953500/75‑1 (MQ=255)
cGCTGGTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCttttt < 2:1723296/75‑1 (MQ=255)
gCTGGTGCGGTGGCAACGGCGGGGTGTCTGCCGCGGTTCGCGGGAAAGGGTGCGGCCATGACAGTCTCCtttttt > 2:1263037/1‑74 (MQ=255)
ggTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGt < 1:307599/75‑1 (MQ=255)
ggTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGt < 1:562253/75‑1 (MQ=255)
ggTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGt < 1:1294539/75‑1 (MQ=255)
ggTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGt < 2:674665/75‑1 (MQ=255)
gTGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTa < 1:56917/75‑1 (MQ=255)
tGCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGGATGGGGGCGACCATGACAGTCTCCTTTTTCTGTAt > 2:974185/1‑75 (MQ=255)
gCGGTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATc < 1:535120/75‑1 (MQ=255)
ggTTGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGAGCGACCATGACAGTCTCCTTTTTCTGTATCGt < 2:1334883/75‑1 (MQ=255)
ggTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGt < 1:1400049/75‑1 (MQ=255)
ggTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGt < 1:644672/75‑1 (MQ=255)
ggTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGGGCGACCATGACAGGCTCCTTTTTTTGTTTCGt > 1:1227462/1‑75 (MQ=255)
gTGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCggg > 2:532670/1‑73 (MQ=255)
tGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGGGCGGCCATGACAGTCTCCTTTTTCTTTTTCGTgg > 1:155310/1‑75 (MQ=255)
tGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGGGCGACCATGACAGTCTCCTTTTTCTGTATCGTgg > 1:290287/1‑75 (MQ=255)
tGGCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGGGCGACCATGACAGGTTCCTTTTTTTGTATCGTgg > 2:383913/1‑75 (MQ=255)
ggCAGCGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGa < 1:1246241/75‑1 (MQ=255)
ggCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGa < 1:1891833/75‑1 (MQ=255)
gCAACGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGaa < 2:74389/75‑1 (MQ=255)
aaCGGCGGGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAAt < 2:1414447/75‑1 (MQ=255)
gttgcggGTTTTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAAtc > 2:2052158/4‑75 (MQ=255)
cggcggGTTGTCTGCCGCGTTTCGCGGGGATGGGTGCGGCCCTGACAGTCTCCTTTTTCTGTATTGTGGAAAttc > 2:1987191/1‑73 (MQ=255)
ggcggGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAAtcat > 2:1091577/1‑75 (MQ=255)
ggcggGTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAAtcat < 1:708824/75‑1 (MQ=255)
gggTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTTTCGTGGAAAtcatttt > 1:329702/1‑75 (MQ=255)
gggTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAAtcatttt < 1:676302/75‑1 (MQ=255)
ggTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAAtcattttc > 1:1996765/1‑75 (MQ=255)
ggTTGTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAAtcattttc > 2:1986376/1‑75 (MQ=255)
|
ACTCCAGTAATTTCAGGCCACGCGTTAAAGACTGAACCTGTCCAGTCGCTGGTGCGGTGGCAACGGCGGGTTTTCTGCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTC > REL606/4202454‑4202596
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
