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 |
|
A2 F17 I0 R1
|
71 |
95.7 |
2922988 |
91.7% |
2680379 |
65.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,912,429 |
C→T |
100% |
A135T (GCG→ACG) |
pyrI ← |
aspartate carbamoyltransferase, regulatory subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,912,429 | 0 | C | T | 98.7%
| 154.3
/ ‑6.0
| 47 | A135T (GCG→ACG) | pyrI | aspartate carbamoyltransferase, regulatory subunit |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (33/13); minor base G (0/1); total (33/14) |
| Fisher's exact test for biased strand distribution p-value = 2.98e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CATTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGCGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGA > minE/2912387‑2912488
|
caTTTTGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:1596319/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:2838236/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:2335365/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:2362400/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:2449811/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:2494403/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:2496950/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:2569435/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:2681947/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:2824336/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:1061604/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:344503/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:636842/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:65063/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:67782/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:746798/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:972563/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:986842/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:1652029/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:1029059/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:1087109/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:1156472/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:1271533/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:1502255/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:1645408/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:1741755/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:1830666/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:1859065/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:2087890/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:2058615/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:2043265/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGTGata > 1:1982076/1‑47 (MQ=255)
caTTATGGGAAAACTCTTTTTCACAGTATTTACATTTGAGCGTGata > 1:771014/1‑47 (MQ=255)
cttttGAGCGGGATATCATTGGCGCGTTTTCGCACGGCTAAGCTGGATGAAACCGGTTCGGCATGTCTGa < 1:866371/68‑1 (MQ=255)
cATTTGAGCGTGATATCATTGGCTCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGa < 1:2889921/70‑1 (MQ=255)
cATTTGAGCGTGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGa < 1:2189836/70‑1 (MQ=255)
cATTTGAGCGTGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGa < 1:2770380/70‑1 (MQ=255)
cATTTGAGCGTGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGa < 1:2464814/70‑1 (MQ=255)
cATTTGAGCGTGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGa < 1:130678/70‑1 (MQ=255)
cATTTGAGCGTGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGa < 1:2495495/70‑1 (MQ=255)
cATTTGAGCGTGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGa < 1:793639/70‑1 (MQ=255)
cATTTGAGCGTGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGa < 1:883231/70‑1 (MQ=255)
cATTTGAGCGTGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGa < 1:957030/70‑1 (MQ=255)
cATTTGAGCGTGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGa < 1:2358580/70‑1 (MQ=255)
cATTTGAGCGTGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGa < 1:2556934/70‑1 (MQ=255)
cATCTGAGCGTGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGa < 1:1534761/70‑1 (MQ=255)
aTTTGAGCGTGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGa < 1:2704729/69‑1 (MQ=255)
|
CATTATGGGAAAACTCTTTTTCACAGTATTTGCATTTGAGCGCGATATCATTGGCGCGTTTTCGCACGGCAAAGCTGGATGAAACCGGTTCGGCATGGCTGA > minE/2912387‑2912488
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
