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 |
|
A4 F195 I0 R2
|
483 |
52.1 |
1908604 |
98.1% |
1872340 |
138.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
940,751 |
T→C |
20.8% |
intergenic (+31/‑208) |
serS → / → dmsA |
seryl‑tRNA synthetase/dimethyl sulfoxide reductase, anaerobic, subunit A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 940,751 | 0 | T | C | 20.8%
| 48.8
/ 8.7
| 24 | intergenic (+31/‑208) | serS/dmsA | seryl‑tRNA synthetase/dimethyl sulfoxide reductase, anaerobic, subunit A |
| Reads supporting (aligned to +/- strand): ref base T (10/9); new base C (2/3); total (12/12) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.78e-01 |
ACGCTGGTTGCAGTAATGGAAAACTATCAGCAGGCTGATGGTCGTATTGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTACCTATCTCTTTGAT > NC_000913/940619‑940849
|
aCGCTGGTTGCAGTAATGGAAAACTATCAGCAGGCTGATGGTCGTATTGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCCGCAGGCGCtttttaga < 3:458559/149‑4 (MQ=255)
aTGGAAAACTATCAGCAGGCTGATGGTCGTATTGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATAcc > 3:73669/1‑149 (MQ=255)
ggAAAACTATCAGCAGGCTGATGGTCGTATTGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGa > 1:48487/1‑149 (MQ=255)
gAAAACTATCAGCAGGCTGATGGTCGTATTGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCCGCAGGCGCttt > 4:432901/1‑126 (MQ=255)
gAAAACTATCAGCAGGCTGATGGTCGTATTGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCCGCAGGCGCttt < 3:432901/126‑1 (MQ=255)
tATCAGCAGGCTGATGGTCGTATTGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACaataa < 4:73669/149‑1 (MQ=255)
gcagGCTGATGGTCGTATTGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTAct > 3:462926/1‑149 (MQ=255)
gCTGATGGTCGTATTGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTActcctc > 3:213523/1‑149 (MQ=255)
tGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAAta < 4:462926/149‑1 (MQ=255)
tGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAAta < 4:213523/149‑1 (MQ=255)
aGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGt < 2:48487/149‑1 (MQ=255)
tCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTa > 2:382618/1‑149 (MQ=255)
tGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGaa < 2:84235/82‑1 (MQ=255)
tGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGaa > 1:84235/1‑82 (MQ=255)
gAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTc > 2:175916/1‑117 (MQ=255)
gAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTc < 1:175916/117‑1 (MQ=255)
atatatTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAAtacta < 2:318507/110‑1 (MQ=255)
atatatTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAAtacta > 1:318507/1‑110 (MQ=255)
ccAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACg < 2:136988/86‑1 (MQ=255)
ccAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACg > 1:136988/1‑86 (MQ=255)
tCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTACCTATCTCTTTGAt < 2:263955/112‑1 (MQ=255)
tCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTACCTATCTCTTTGAt > 1:263955/1‑112 (MQ=255)
aaaaaGCGCCCGCAGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTAc < 1:131421/96‑1 (MQ=255)
aaaaaGCGCCCGCAGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTAc > 2:131421/1‑96 (MQ=255)
|
ACGCTGGTTGCAGTAATGGAAAACTATCAGCAGGCTGATGGTCGTATTGAAGTACCAGAAGTTCTGCGTCCGTATATGAACGGACTGGAATATATTGGCTAATACCCAATTTTTCTGAATCTAAAAAGCGCCTGCGGGCGCTTTTTTTGTCTCCCTTTGATACCGAACAATAATTACTCCTCACTTACACGTAATACTACTTTCGAGTGAAAATCTACCTATCTCTTTGAT > NC_000913/940619‑940849
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
