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 |
|
A10 F1 I2 R1
|
757 |
38.1 |
1607544 |
96.5% |
1551279 |
117.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,609,336 |
(C)7→8 |
intergenic (+13/‑78) |
yjjG → / → prfC |
dUMP phosphatase/peptide chain release factor RF‑3 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,609,329 | 1 | . | C | 95.2%
| 67.2
/ ‑2.9
| 21 | intergenic (+6/‑85) | yjjG/prfC | dUMP phosphatase/peptide chain release factor RF‑3 |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base C (11/9); total (12/9) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.62e-01 |
GGTGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCT‑‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACTT > NC_000913/4609195‑4609459
|
ggTGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCT‑‑cccc < 1:768781/139‑1 (MQ=255)
gTGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCT‑‑ccccc > 1:287730/1‑139 (MQ=255)
cAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCT‑‑ccccccccgttg < 1:394941/139‑6 (MQ=255)
aaCGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGa < 2:142625/139‑1 (MQ=255)
cGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATg < 2:131220/139‑1 (MQ=255)
gCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCCCCTGTGTAAACACTGATTG‑CCTCCCCCCCCCGTTGATGGGTAAAATa > 2:127999/1‑139 (MQ=255)
aTGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGttt > 2:90275/1‑139 (MQ=255)
aTGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGttt > 2:466186/1‑139 (MQ=255)
cATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAg < 1:90275/139‑1 (MQ=255)
ccAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATg > 2:385744/1‑139 (MQ=255)
aGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGTGCGATGCctct < 1:466186/139‑1 (MQ=255)
aGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCt < 1:345827/139‑1 (MQ=255)
tCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTc > 1:624949/1‑139 (MQ=255)
cGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTa > 2:552781/1‑120 (MQ=255)
cGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTa < 1:552781/120‑1 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCCATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGa > 1:295507/1‑139 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCT‑‑ccccccccgttg < 1:25640/62‑6 (MQ=255)
tttCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCT‑‑ccccccccgttg > 2:25640/1‑57 (MQ=255)
tcttcGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAgcgcggcg > 1:68419/1‑104 (MQ=255)
tcttcGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAgcgcggcg < 2:68419/104‑1 (MQ=255)
tcttcGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACg < 2:287730/139‑1 (MQ=255)
aCTGGAGCAGCTCCTGTGTAAACACTGATTGCCCC‑‑CCCCCCCCTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTTAACAAACCCGGCGCGATGCCGCTTCCTAAAGAAAAAAGAATTATGACGTTGGCTCCTTAttt > 2:594417/1‑139 (MQ=255)
cTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAgaagaa < 1:707653/103‑1 (MQ=255)
cTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAgaagaa > 2:707653/1‑103 (MQ=255)
cTCCTGTGTAAACACTGATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTg > 1:66872/1‑139 (MQ=255)
gATTG‑CCTC‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACtt > 2:413006/1‑139 (MQ=255)
|
GGTGGCATCAACGCCGGGCTTGCGACCTGCTGGCTGAATGCACACCATCGCGAGCAACCAGAAGGCATCGCGCCCACCTGGACCGTTTCTTCGTTGCACGAACTGGAGCAGCTCCTGTGTAAACACTGATTG‑CCT‑‑CCCCCCCGTTGATGGGTAAAATAGCCGCAATTTTTCGTTTTCAACAAGCGCGGCGCGATGCCGCTTACTCAAGAAGAAAGAATTATGACGTTGTCTCCTTATTTGCAAGAGGTGGCGAAGCGCCGCACTT > NC_000913/4609195‑4609459
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
