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 |
|
A13 F121 I0 R1
|
43 |
32.8 |
695000 |
96.9% |
673455 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
1,744,454 |
C→T |
100% |
G73D (GGC→GAC) |
apt ← |
adenine phosphoribosyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 1,744,454 | 0 | C | T | 98.4%
| 44.1
/ ‑6.6
| 16 | G73D (GGC→GAC) | apt | adenine phosphoribosyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (7/8); minor base G (0/1); total (7/9) |
| 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 |
| 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. |
CATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCAT > CP000730/1744317‑1744574
|
catcTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACGGGTGCAAAGTCaa < 2:284232/141‑1 (MQ=255)
tAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCa < 1:134712/141‑1 (MQ=255)
cacacGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCTAAGTCATTCCCCATTGAATa > 1:89553/1‑141 (MQ=255)
cacGTTGCACTTGTAGAATTGCATCTTTGTGCATTGTTAAAACATTTATACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCATTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAg > 2:335828/1‑141 (MQ=255)
cggtGATCTGGTTTAAGTGCATCTTTGTGCATTTTTAAAACATTTGTACCATATTCCAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCt < 2:190446/138‑1 (MQ=255)
cGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCt < 2:258181/141‑1 (MQ=255)
gACCTCGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATGACGAATGACTTCACGAGGTACTTTCCTGTCTTTGCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAg < 1:66551/141‑1 (MQ=255)
cTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGAc > 1:182702/1‑141 (MQ=255)
cTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTGTCTCACAGGTGCAAAGTCAATCCCCAGTGGATATGCTACAGGAc > 1:34575/1‑141 (MQ=255)
tGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACa < 1:228805/141‑1 (MQ=255)
ttGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGGTAAAGCCa > 1:263096/1‑141 (MQ=255)
cATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCAagcat > 2:256634/1‑139 (MQ=255)
ttGTACCATATTCTAGGTCATACTCATAACGAGTGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACaa < 1:197461/141‑1 (MQ=255)
aCTTCACGAGTGAATTTCCCTTCTCTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCATCATCTCTGTCTTTTGCGTATTCTACa < 2:206930/141‑1 (MQ=255)
ttCCCTTCTTTTCTAACAGGTGCAAAGGCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCa < 1:3945/141‑1 (MQ=255)
cttTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCat > 1:17803/1‑141 (MQ=255)
|
CATCTGTAATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCAT > CP000730/1744317‑1744574
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
