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 |
|
A31 F1 I1 R1
|
21 |
37.9 |
2424921 |
96.5% |
2340048 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,194,694 |
Δ1 bp |
intergenic (+40/‑229) |
metA → / → aceB |
homoserine O‑succinyltransferase/malate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,194,694 | 0 | A | . | 96.5%
| 131.9
/ ‑4.0
| 29 | intergenic (+40/‑229) | metA/aceB | homoserine O‑succinyltransferase/malate synthase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base . (5/23); minor base G (0/1); total (5/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCTACGGCACATGAATCCAACGCTGGATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTTACCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTATTTCCGAAACGTACCTCAGCAGGTGAATAAATTTTATTCAT > REL606/4194624‑4194763
|
tCTACGGCACATGAATCCAACGCTGGATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAg < 2:1120034/76‑1 (MQ=255)
cGGCACATGAATCCAACGCTGGATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑c < 2:836940/76‑1 (MQ=255)
cacaTGAATCCAACGCTGGATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCtt < 2:596012/76‑1 (MQ=255)
caTGAATCCAACGCTGGATTAATCTTCTGTGTTAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCg < 2:598788/76‑1 (MQ=255)
tGAATCCAACGCTGGATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCggg < 1:988062/76‑1 (MQ=255)
atgCTGGATTAAGCTGTTGTGGTAGGCGATCGTTAAGCCATTCAGCCCCTT‑CCTCAGGCA‑CCTTCGGGTGC‑Ctttt < 2:943792/74‑1 (MQ=255)
aCGCTGGATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑Ctttt < 2:943824/76‑1 (MQ=255)
gCTGGATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑Ctttttt < 1:1050306/76‑1 (MQ=255)
gCTGGATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑Ctttttt < 2:87364/76‑1 (MQ=255)
gCTGGATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑Ctttttt < 1:1050291/76‑1 (MQ=255)
tGGATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTAt < 2:660577/76‑1 (MQ=255)
gATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTAttt < 2:88445/76‑1 (MQ=255)
gATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTAttt < 2:31826/76‑1 (MQ=255)
gATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTAttt < 2:568054/76‑1 (MQ=255)
aTTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTATTTc < 1:981241/76‑1 (MQ=255)
aaTCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCCCGCACCCTCCGGGGGCGCtttttttttttt > 1:243474/1‑74 (MQ=255)
aTCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTATTTCCGaa < 2:382222/76‑1 (MQ=255)
ctGTGATAGTCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTATTTCCGAAACGTa < 2:666499/76‑1 (MQ=255)
tCGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTATTTCCGAAACGTACCTcagcag < 2:70044/76‑1 (MQ=255)
ggATCGTTAGGCGATTCAGCGCCTT‑CCTCAGGCA‑ACTTCGGGTGC‑CTTTTTTATTTCCGAAACGTACCTCAGCAgg < 1:341654/75‑1 (MQ=255)
cGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTATTTCCGAAACGTACCTCAGCAgg < 1:341638/76‑1 (MQ=255)
cGATCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGGGC‑CTTATTTTTTTTCGAAACGTACCTCAGCAgg > 1:49510/1‑76 (MQ=255)
aTCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTATTTCCGAAACGTACCTCAGCAGGTg < 2:296436/76‑1 (MQ=255)
aTCGTTAAGCGATTCAGCACC‑TGTCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTATTTCCGAAACGTACCTCAGCAGGTg < 2:274041/76‑1 (MQ=255)
tCGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTATTTCCGAAACGTACCTCAGCAGGTGa < 1:916181/76‑1 (MQ=255)
cGTTAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTNCGGGGGC‑CTTTTTTATTTTCGANACGTTCCTGCNCAGGTGaa > 2:1015324/1‑76 (MQ=255)
tAAGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTATTTCCGAAACGTACCTCAGCAGGTGAATaa < 1:184034/76‑1 (MQ=255)
aGCGATTCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTTTTTTCCAAAACTACCCCAGCAGGGGAATAAAt > 2:825467/1‑76 (MQ=255)
ttCAGCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTATTTCCGAAACGTACCTCAGCAGGTGAATAAATTTTAt < 2:606265/76‑1 (MQ=255)
gCACCTT‑CCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTATTTCCGAAACGTACCTCAGCAGGTGAATAAATTTTATTCat > 1:207509/1‑76 (MQ=255)
|
TCTACGGCACATGAATCCAACGCTGGATTAATCTTCTGTGATAGTCGATCGTTAAGCGATTCAGCACCTTACCTCAGGCA‑CCTTCGGGTGC‑CTTTTTTATTTCCGAAACGTACCTCAGCAGGTGAATAAATTTTATTCAT > REL606/4194624‑4194763
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
