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 I1 R1
|
17 |
37.0 |
2377229 |
96.2% |
2286894 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,954,706 |
T→G |
K107T (AAA→ACA) |
motB ← |
flagellar motor protein MotB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,954,706 | 0 | T | G | 97.1%
| 136.1
/ ‑3.7
| 35 | K107T (AAA→ACA) | motB | flagellar motor protein MotB |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base G (19/15); total (19/16) |
| Fisher's exact test for biased strand distribution p-value = 4.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.45e-01 |
TTTCGGATCGGACTCTATCAACTGGTCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTTTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCTGGCTTTGGGTGTAATCATCACCACCGCCGG > REL606/1954633‑1954775
|
tttCGGATCGGTCTCTATCAACTGGTCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTc < 2:394978/76‑1 (MQ=255)
tttCGGATCGGACTCTATCAACTGGTCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTc > 2:69267/1‑76 (MQ=255)
tttCGGATCGGACTCTATCAACTGGTCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTc > 2:622981/1‑76 (MQ=255)
tctcggatcggaCTCTATAAACTGGTTGACCTCACCCCACTATTNCCGCAATCGANTTTGCTCCATGCGTTTTGTc < 1:122035/74‑1 (MQ=255)
ttCGGATCGGACTCTATCAACTGGTCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCa < 2:514742/76‑1 (MQ=255)
cggatcggaCTCTATCAACTGGTCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAga > 2:122035/1‑75 (MQ=255)
atcggaCTCTATCAACTGGTCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCNGctct > 2:963683/1‑76 (MQ=255)
tcggaCTCTATCAACTGGTCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCtt > 2:621691/1‑76 (MQ=255)
aCTCTATCAACTGGTCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGAt < 2:830379/76‑1 (MQ=255)
tCAACTGGTCGAGATCACCCCGCANTTTCCGAAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCgg > 2:199539/1‑76 (MQ=255)
tCAACTGGTCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCgg > 1:1154321/1‑76 (MQ=255)
cTGGTCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCGgctgc > 2:882880/1‑76 (MQ=255)
tGGTCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCGgctgct > 2:273719/1‑76 (MQ=255)
tCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTAt > 1:437185/1‑76 (MQ=255)
cGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTAtt > 1:69297/1‑76 (MQ=255)
cGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTAtt > 2:279211/1‑76 (MQ=255)
gagaTCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTATTc < 2:569146/76‑1 (MQ=255)
tCACCCAGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTTTTCACtt > 2:823445/1‑76 (MQ=255)
cACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTATTTACTTc > 2:409762/1‑76 (MQ=255)
cGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCt < 1:788551/76‑1 (MQ=255)
cGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCt < 1:530577/76‑1 (MQ=255)
ncAAGTTCCGCAATCGACTTTNCTCCATNCGTTTGGTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCTg < 1:1004467/75‑1 (MQ=255)
ttCCGCAATCNACTCTGCTCCATGCGTTTTGTCNGCTCTTCGNTGTTCGGCTGNTTATTCACTTCCCCCAGGCtgt > 2:1041355/1‑74 (MQ=255)
tCCGCAATCGACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCTGGCTTTg < 2:101915/76‑1 (MQ=255)
cAATCGACTTTGATCCATGCGTTTTGTCAGCTCTTCGATGTTCGACTGCTTATTCACTTCCCCCTGGCCTTGGgtg > 2:180434/1‑76 (MQ=255)
gACTTTGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCTGGCTTTGGGTGTAatc < 1:511503/76‑1 (MQ=255)
ttGCTCCATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCTGGCTTTGGGTGTAAtcatca < 1:23160/76‑1 (MQ=255)
cTCCATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCTGGCTTTGGGTGTAATTATcacca < 1:320408/76‑1 (MQ=255)
tCCATGCGTTTTTTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCTGGCTTTGGGTGTAATCATcaccac < 1:814527/76‑1 (MQ=255)
ccATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCTGGCTTTGGGTGTAATCATCaccacc > 1:819868/1‑76 (MQ=255)
cATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCTGGCTTTGGGTGTAATCATCACCAccg < 2:501431/76‑1 (MQ=255)
cATGCGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCTGGCTTTGGGTGTAATCATCACCAccg < 1:199539/76‑1 (MQ=255)
cGTTTTGTCAGCTCTTCGATGTTCTGCTGCTTATTCACTTCCCCCTGGCTTTGGGTGTAATCATAACCACCGCCgg > 2:831076/1‑76 (MQ=255)
cGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCTGGCTTTGGGTGTAATCATCACCACCGCCgg < 2:438576/76‑1 (MQ=255)
cGTTTTGTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCTGGCTTTGGGTGTAATCATCACCACCGCCgg > 2:152979/1‑76 (MQ=255)
|
TTTCGGATCGGACTCTATCAACTGGTCGAGATCACCCCGCAATTTCCGCAATCGACTTTGCTCCATGCGTTTTTTCAGCTCTTCGATGTTCGGCTGCTTATTCACTTCCCCCTGGCTTTGGGTGTAATCATCACCACCGCCGG > REL606/1954633‑1954775
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
