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 |
|
A3 F76 I0 R1
|
30 |
23.0 |
980404 |
89.1% |
873539 |
142.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,196,220 |
C→T |
100% |
H366H (CAC→CAT) |
icd → |
isocitrate dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,196,220 | 0 | C | T | 100.0%
| 27.7
/ NA
| 13 | H366H (CAC→CAT) | icd | isocitrate dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (6/7); total (6/7) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CCTGGTGCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCCACCCACG‑GTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGA > NC_000913/1196092‑1196297
|
ccTGGTGCAAACATCGGTGAAGAATGCGCCCAGTTTGCA‑CCAGACGGGTTTACTGCGCCGAAATATGTCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGa < 1:352905/143‑1 (MQ=255)
cTGGTGCAAACATCGGTGACGAATGCGCCCTGTTTGCAGCCACCCACG‑GTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGaa > 2:131518/1‑143 (MQ=255)
aCATCGGTGACGGATGCGCCCTGTTTGACGCCACCCACG‑GTACTGCGCCGACATATGCCGGCCAGGACAGAGTAAATCCTAGCTCTATTATTCTCTCCGCTGAGATGATGCTGCTCCTTATGGTTTGGACTGAAGCGGCTGAc < 2:46180/143‑1 (MQ=255)
gTGACGAATGCGCCCTGTTTGCAGCCACCCACG‑GTACTGCGCCGAAGTATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCGCCGCTGAGATGATGCTGCGCCATACGGGTTGGACTGAATCGGCTGAcctgata > 2:39692/1‑137 (MQ=255)
gTGACGAATGCGCCCTGTTTGAAGCCACCCACG‑GTACTGCGCCGAAATATGCCGGTCAGTACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGAtt > 1:216269/1‑143 (MQ=38)
aaTGCGCCCTGTTTTAAGCTACCTACG‑GTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTaaa < 1:148524/143‑1 (MQ=37)
aaTGCGCCCTGTTTGAAGCCACCCACG‑GTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGACGCGGCTGACCTGATTGTTacc < 1:308162/143‑3 (MQ=38)
gcgttGTTTGAAGGCACCCACG‑GTACTGCGCCGAAATATGCCGGTCAGGACAAATTAAATCCTGGCTCTAGTATTCTCTCTGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTAt < 2:382417/139‑1 (MQ=25)
gcCCTGTTTGAAGCGTCGAAAG‑GTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCGGGCTCTATTATTCTCTCCGGTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTAt < 2:403849/143‑1 (MQ=25)
tGAAGCCACCCACG‑GTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGATCTATTATTCTCTCCGCTCAGATGATGCTGAGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGgcg > 2:262703/1‑143 (MQ=25)
tGAAGCCACCCACG‑GTACTGCACCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGCCCTGATTGTTAAAGGTATGGAAGgcg > 1:78291/1‑143 (MQ=37)
aaTATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTAt < 2:351444/143‑1 (MQ=17)
tatGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGa > 1:138063/1‑143 (MQ=17)
|
CCTGGTGCAAACATCGGTGACGAATGCGCCCTGTTTGAAGCCACCCACG‑GTACTGCGCCGAAATATGCCGGTCAGGACAAAGTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGA > NC_000913/1196092‑1196297
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
