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 |
|
A17 F109 I0 R1
|
32 |
27.2 |
584098 |
96.5% |
563654 |
139.9 |
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 | 99.3%
| 58.8
/ ‑6.8
| 24 | G73D (GGC→GAC) | apt | adenine phosphoribosyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (9/14); minor base G (1/0); total (10/14) |
| Fisher's exact test for biased strand distribution p-value = 4.17e-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. |
AATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCTTCACCATT > CP000730/1744324‑1744587
|
aaTTAACACACGTTAACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTGCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCa > 1:161285/1‑140 (MQ=255)
cacacGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAAt < 2:65426/140‑1 (MQ=255)
acGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACAATTGTACCATACTCTAGGTCATACTCATAACGAATGACTTCACGCGGTAATTTCCCTTCTTTTCTAAGAGGCACAAAGTCAATCCCCATTGAATaaa > 2:93440/1‑139 (MQ=255)
gTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAg < 2:215197/140‑1 (MQ=255)
gtgCTTTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCAc < 2:211178/140‑1 (MQ=255)
tgCATTGTTAAAACATTTGTACCATAATCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCAcg > 2:174334/1‑140 (MQ=255)
aaaaCATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAgg < 1:279062/140‑1 (MQ=255)
aaaaCATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAgg < 2:193806/140‑1 (MQ=255)
tatTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATc < 1:66374/140‑1 (MQ=255)
tCTAGGTCATTCTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAAc < 1:263628/140‑1 (MQ=255)
aGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGCCAGCCAATGATAAAGCCACGCGCGTCAGGTCCTACAACGCTCTCAACAtc > 2:261149/1‑140 (MQ=255)
gTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACAtctc < 1:139249/140‑1 (MQ=255)
gTCATACTCATAACGAATGACTTCACGAGGTAATTTACCTTCTTTTCTACCAGGTGCAAAGTCAATCTCCATTGAATAAGCTACAGGACAGCAAATAATAAAGCAACGCGATTCAGGGCTTATAACGATATCAACAtttt > 2:131293/1‑137 (MQ=255)
tCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATctct < 1:83809/140‑1 (MQ=255)
aCTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCt < 1:174334/140‑1 (MQ=255)
cATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACAtct < 1:250856/131‑1 (MQ=255)
cATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACAtct > 2:250856/1‑131 (MQ=255)
tAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTCCAACGATATCAACATCTCTGTCTTTTGc > 2:289733/1‑140 (MQ=255)
gAATGACGTCACTAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTAt < 2:201087/140‑1 (MQ=255)
tGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCt > 1:257050/1‑140 (MQ=255)
ttaaCGAGGTAATTTCTCTACTTTTCTAAAAGGTGCAAAGGCAATGCCCATTGAATAAGCTACAGGACAGCCAATGGTAAAGCCACGCGCTTCAAAACATAAAACAATATCAACATCTATGTCTTTTTCGTATTATACaa > 2:166923/4‑140 (MQ=255)
ttCTAACAGGTGCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCatat < 2:161978/140‑1 (MQ=255)
tGCAAAGTCAATCCCCATGGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCTTCACCAt < 2:96084/140‑1 (MQ=255)
gCAAAGTCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTTTCTCTTGCATAGCCATATgagcacctctt > 2:173724/1‑130 (MQ=255)
|
AATTAACACACGTTGACCTGGTTTAATTGCATCTTTGTGCATTGTTAAAACATTTGTACCATATTCTAGGTCATACTCATAACGAATGACTTCACGAGGTAATTTCCCTTCTTTTCTAACAGGTGCAAAGCCAATCCCCATTGAATAAGCTACAGGACAGCCAATGATAAAGCCACGCGCTTCAGGTCCTACAACGATATCAACATCTCTGTCTTTTGCGTATTCTACAATTTTATCTGTTGCATAGCCATATGCTTCACCATT > CP000730/1744324‑1744587
|
| 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
