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 |
|
A26 F1 I1 R1
|
14 |
45.0 |
2861610 |
96.8% |
2770038 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
2,165,181 |
C→A |
G221C (GGC→TGC) |
yehU ← |
predicted sensory kinase in two‑component system with YehT |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 2,165,181 | 0 | C | A | 97.4%
| 127.7
/ NA
| 38 | G221C (GGC→TGC) | yehU | predicted sensory kinase in two‑component system with YehT |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base A (21/16); total (21/17) |
| Fisher's exact test for biased strand distribution p-value = 4.47e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TATCCAGCTCCTGATACAGCACCTGAGCCACTTTCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCCTTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTATTTTTCAAACATCGCGCGTTT > REL606/2165109‑2165253
|
tatCCAGCTCCTGATACAGCACCTGAGCCACTTTCAGGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTc < 1:368837/76‑1 (MQ=255)
atCCAGCTCCTGATACAGCACCTGAGCCACTTTCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTcc < 1:209454/76‑1 (MQ=255)
tCCTGATACAGCACCTGAGCCACTTTCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAgg > 2:958688/1‑76 (MQ=255)
tGATACAGCACCTGAGCCACTTTCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTg > 2:7363/1‑76 (MQ=255)
aTACAGCACCTGAGCCACCTTCATGCTGTTCACTTCGTTAAACCCCTGTGGCAAAATGCCTTCCGTCGAGGCTGcc < 1:1347540/76‑1 (MQ=255)
tACAGCACCTGAGCCACTTTCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGccc > 2:16323/1‑75 (MQ=255)
cTGAGCCACTTTCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAgc > 1:985303/1‑76 (MQ=255)
tGAGCCACTTTCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAgcg > 2:276342/1‑76 (MQ=255)
tGAGCCACTTTCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAgcg > 1:553652/1‑76 (MQ=255)
cACTTTCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTg < 2:514532/76‑1 (MQ=255)
cACTTTCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTg < 1:650234/76‑1 (MQ=255)
ttCATGCTGTTCACTTCGTTAGCCCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAg < 1:754705/76‑1 (MQ=255)
ttCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAGATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAg < 1:1081659/76‑1 (MQ=255)
ttCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAg < 2:230916/76‑1 (MQ=255)
ttCATGCTGTTCACNTCGTTAACCCCCTCTCGCANAATGCGTTNCGTCGAGGCTGCCACTTTCCGCGCAGTGGCAg < 2:1172749/76‑1 (MQ=255)
tCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGa > 1:964224/1‑76 (MQ=255)
cATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGaa < 2:1419451/76‑1 (MQ=255)
tGCTATTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGaaaa > 2:1404685/1‑76 (MQ=255)
gCTGTTCACTTCGTTAACCCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGaaaaa < 1:591222/76‑1 (MQ=255)
gCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGaaaaa < 1:636598/76‑1 (MQ=255)
tGTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGACNCTNCCACTTTCAGCGCANTGGCAGAAAAAGc > 2:1286259/1‑76 (MQ=255)
gTTCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGcc < 2:427765/76‑1 (MQ=255)
ttCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCg < 1:1213454/76‑1 (MQ=255)
tCACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGa > 2:56995/1‑76 (MQ=255)
cACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGaa > 1:1088323/1‑76 (MQ=255)
cACTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGaa < 1:1212354/76‑1 (MQ=255)
cTTCGTTAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAgg > 1:362143/1‑75 (MQ=255)
ttAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTAtt > 1:879622/1‑76 (MQ=255)
tAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTAttt > 2:1092374/1‑76 (MQ=255)
tAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTAttt > 2:483746/1‑76 (MQ=255)
tAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTAttt > 2:703791/1‑76 (MQ=255)
tAAACCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTAttt > 2:967361/1‑76 (MQ=255)
aacccccTGTCGCAAAATGCATCCGGCCGGGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTAtttt < 1:1139203/73‑1 (MQ=255)
aaCCCCTGTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTAttttt > 1:143920/1‑76 (MQ=255)
gTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTATTTTTCAAACAt < 1:148902/76‑1 (MQ=255)
gTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTATTTTTCAAACAt < 1:1145545/76‑1 (MQ=255)
gTCGCAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCAGAAGTGTATTTTTCAAACAt > 2:101699/1‑76 (MQ=255)
cAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTATTTTTCAAACATcgcg < 1:784385/76‑1 (MQ=255)
cAAAATGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTATTTTTCAAACATcgcg > 2:274145/1‑76 (MQ=255)
aaTGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTATTTTTCAAACATCGCGCGt > 2:880274/1‑76 (MQ=255)
tGCATTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGAATTTTTCAAACATCGCGCGttt < 1:7363/76‑1 (MQ=255)
|
TATCCAGCTCCTGATACAGCACCTGAGCCACTTTCATGCTGTTCACTTCGTTAAACCCCTGTCGCAAAATGCCTTCCGTCGAGGCTGCCACTTTCAGCGCAGTGGCAGAAAAAGCCGAAGTGTATTTTTCAAACATCGCGCGTTT > REL606/2165109‑2165253
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ 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
