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 |
|
A15 F177 I0 R1
|
43 |
13.3 |
277528 |
99.0% |
274752 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
CP000730 |
2,018,727:1 |
+A |
100% |
coding (192/810 nt) |
mgt ← |
transglycosylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP000730 | 2,018,727 | 1 | . | A | 100.0%
| 25.0
/ NA
| 8 | L64F (TTA→TTT) | mgt | transglycosylase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base A (4/4); total (4/4) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
| Rejected as polymorphism: Polymorphic base substitution creates a homopolymer stretch. |
ATCCATGATGATTGTAGAATCGTTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGAT‑AAAAAATACATGATACCAATAAACAATGCGATAATGATTAGAATGGTTAATAATATTTTTAATAGTATTCGTTTACTTTTTTTCTTTTTCGGCGGTTTGCCAACTGGTTGATAATACGTATTATAGTGAGGT > CP000730/2018591‑2018859
|
aTCCATGATGATTGTAGAATCGTTCATCTTCCATTGAAATAAAGGCACCTTTACCATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGAT‑aaaa > 2:24970/1‑141 (MQ=255)
aTCGTTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGATAAAAAAATACATGATACCAATa < 1:121889/141‑1 (MQ=255)
tCGTTCATCTTCCATTGAAATAAAGGCACTTTTATCATTCTCTGGCGTTTTTGTATCTGGCACAAAATGACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGATAAAAAAAGACATGATACCAATaa < 1:55425/141‑1 (MQ=255)
cGTTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTTTTTTTTCTTCCACATTATCGCGTGTAGATAAAAAAATACATGATACCAATaaa > 2:56159/1‑141 (MQ=255)
cGTTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGATAAAAAAATACATGATACCAATaaa > 2:117664/1‑141 (MQ=255)
gTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGATAAAAAAATACATGATACCAATAAACAATGCGATAATGATTAGAATGGTTAATAAGATTTTTAATAGTATTc > 1:74158/1‑141 (MQ=255)
aTCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGATAAAAAAATACATGATACCAATAAACAATGCGATAATGATTAGAATGGTTAATAATATTTTTAATAGTATTCGtt > 2:73547/1‑141 (MQ=255)
cTTAGTTCATCCACATTATCGCGTGTAGATAAAAAAATACATGATACCAATAAACAATGCGATAATGATTAGAATGGTTAATAATATTTTTAATAGTATTCGTTTACTTTTTTTCTTTTTCGGCGGTTTGCCAACTGGTTg < 1:24970/141‑1 (MQ=255)
gtgtAGATAAAAAAATACATGATACCAATAAACAATGCGATAATGATTAGAATGGTTAATAATATTTTTAATAGTATTCGTTTACTTTTTTTCTTTTTCGGCGGTTTGCCAACTGGTTGATAATACGTATTATAGTGAGGt < 1:102199/141‑1 (MQ=255)
|
ATCCATGATGATTGTAGAATCGTTCATCTTCCATTGAAATAAAGGCACCTTTAACATACTCTGGCATGTTATCAGCTGACACAAAACTACTTTTATTTTCAATTTTTCTTAGTTCATCCACATTATCGCGTGTAGAT‑AAAAAATACATGATACCAATAAACAATGCGATAATGATTAGAATGGTTAATAATATTTTTAATAGTATTCGTTTACTTTTTTTCTTTTTCGGCGGTTTGCCAACTGGTTGATAATACGTATTATAGTGAGGT > CP000730/2018591‑2018859
|
| 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
