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 |
|
A84 F1 I1 R1
|
17 |
47.9 |
3074446 |
96.0% |
2951468 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,252,009 |
C→A |
C251F (TGC→TTC) |
nusA ← |
transcription elongation factor NusA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,252,009 | 0 | C | A | 96.7%
| 107.3
/ ‑2.5
| 30 | C251F (TGC→TTC) | nusA | transcription elongation factor NusA |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base A (16/13); total (17/13) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.30e-01 |
AGGACGATATCGATACGCTCGCCACCCAGTTCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGCAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACGAGAACCCGGATCGCGA > REL606/3251937‑3252080
|
aGGACGATATCGATACGCTCGCCACCCAGTTCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGCAAg > 2:575920/1‑76 (MQ=255)
aCGATATCGATACGCTCGCCACCCAGTTCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGAAAGCAc > 1:299675/1‑76 (MQ=255)
ctatCGATACGCTCGCCACCCAGTTCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGAAAGCACCTa < 1:788032/75‑1 (MQ=255)
atatCGATACGCTCGCCACCCAGTTCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGAAAGCACCTa > 1:1157530/1‑76 (MQ=255)
atatCGATACGCTCGCCACCCAGTTCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGAAAGCACCTa < 1:631957/76‑1 (MQ=255)
tatCGATACGCTCGCCACCCAGTTCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGAAAGCACCTAc < 1:559755/76‑1 (MQ=255)
atCGATACGCTCGCCACCCAGTTCAGTAGACACCGCCTGAACACGCGCGGCACGCATACCGACGAAAGCACCTAcc > 2:957712/1‑76 (MQ=255)
atCGATACGCTCGCCACCCAGTTCAGTAGACACCGCCTGAACACGCGCGCCCCGCATACCTACGAAAGCACCTAcc > 2:572362/1‑76 (MQ=255)
cGATACGCTCGCCACCCAGTTCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGAAAGCACCTACCgg > 1:534052/1‑76 (MQ=255)
cGCTCGCCACCCAGTTCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGAAAGCACCTACCGGATCGa < 2:1389347/76‑1 (MQ=255)
ccACCCAGTTCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGAAAGCACCTACCGGATCGATACGtt < 1:47374/76‑1 (MQ=255)
cACCCAGTTCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGCAAGCACCTAACGGATCGAAACGttt > 2:13697/1‑76 (MQ=255)
cAGTTCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCg < 2:1188200/76‑1 (MQ=255)
ttCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTg < 1:28015/76‑1 (MQ=255)
cAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGt > 2:162469/1‑76 (MQ=255)
tAGACACCGCCTGAACACGCGCGCCACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGtttt < 1:898654/76‑1 (MQ=255)
gCCTGAACACGCGCGCCACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACcgcgc > 1:831689/1‑75 (MQ=255)
tGAACACGCGCGCCACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGCttt > 2:1148346/1‑76 (MQ=255)
tGAACACGCGCGCCACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGAttt > 1:827870/1‑76 (MQ=255)
gAACACGCGCGCCACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGAtttt < 1:633121/76‑1 (MQ=255)
gcgcCACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACgag < 2:324032/76‑1 (MQ=255)
cgcCACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACgaga < 2:1225599/76‑1 (MQ=255)
ccACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACGAGAAc > 2:784260/1‑76 (MQ=255)
ccACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACGAGAAc < 1:1046073/76‑1 (MQ=255)
caggCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACGAGAAcc > 1:784577/4‑76 (MQ=255)
cACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACGAGAAcc > 1:59867/1‑76 (MQ=255)
cACGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGCTGGTTTTCACCGCGATTTTCGCACGCGAAcc > 2:369094/1‑76 (MQ=255)
cGCATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACGAGAACCCg > 2:404834/1‑76 (MQ=255)
cATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACGAGAACCCGGa > 1:895917/1‑76 (MQ=255)
cATACCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACGAGAACCCGGa > 1:484302/1‑76 (MQ=255)
aCCTACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACGAGAACCCGGATcg < 2:300657/76‑1 (MQ=255)
aCCTACGAAAGCACCTACCGGATAGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACGAGAACCCGGATcg > 2:603914/1‑76 (MQ=255)
tACGAAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACGAGAACCCGGATCGCGa > 2:475811/1‑76 (MQ=255)
|
AGGACGATATCGATACGCTCGCCACCCAGTTCAGTAGACACCGCCTGAACACGCGCGCCACGCATACCTACGCAAGCACCTACCGGATCGATACGTTTATCGTTGGTTTTCACCGCGATTTTCGCACGAGAACCCGGATCGCGA > REL606/3251937‑3252080
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ 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
