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 F61 I1 R1
|
22 |
65.1 |
2541758 |
91.4% |
2323166 |
141.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,168,475 |
2 bp→TG |
intergenic (+28/‑165) |
gltT → / → rrlB |
tRNA‑Glu/23S ribosomal RNA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,168,475 | 0 | G | T | 92.3%
| 17.3
/ NA
| 13 | intergenic (+28/‑166) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base G (1/0); new base T (3/9); total (4/9) |
| Fisher's exact test for biased strand distribution p-value = 3.08e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| * | NC_000913 | 4,168,476 | 0 | A | G | 100.0%
| 18.8
/ NA
| 13 | intergenic (+29/‑165) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (4/9); total (4/9) |
TATCACGCAACGCGTGATAAGCAATTTTCGTGTCCCCTTCGTCTAGAGGCCCAGGACACCGCCCTTTCACGGCGGTAACAGGGGTTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGTGAGTGAAAGTCGCCGACCTTAATATCTCAAAACTCATCTTCG > NC_000913/4168341‑4168502
||
tatCGCGCAACGCGTGATAAGCAATGTTCGTGGCCCCTTCGTCTAGAGGCCCAGGACACCGCCCTTTCACGGCGGTAACAGGGGTTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGGGAGTGAAAGTCACCTGCCTTAat < 2:237275/143‑1 (MQ=11)
gatCACGCAACGCGTGATAAGCAATTTTCGTGTCCCATTCGTGTAGAGGCCCAGGACACCGCCCTTTCACGGCGGTAACAGGGGTTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGTGAGTGAAAGTCACCTGCCTTAat < 1:405097/142‑1 (MQ=11)
tcgcggaaCGCGGGACAAGCAATTTTCGTGGCCCCTTCGTCTAGAGGCCCAGGACACCGCCCTTTCACGGCGGGAACAGGGGTTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGTGAGTGAAAGTCACCTGCCTTAatat < 2:792366/137‑1 (MQ=11)
tcccGCAACGCGTGATAAGCAATTCTCGTGTCCCCTTCGTCTAGAGGCCCAGGACACCGCCCTTTCACGGCGGTAACAGGGGGTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGTGAGTGAAAGTCACCTGCCTTAatat < 2:633804/140‑1 (MQ=11)
aCGCAACGCGTGATAAGCAATTTTCGTGTCCCCTTCGTCTAGAGGCCCAGGACACCGCCCTTTCACGGCGGTAACAGGGGGTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGTGAGTGAAAGTCACCTGCCTTAATAtct < 1:626845/143‑1 (MQ=255)
aCGCAACGCGTGATAAGCAATTTTCGTGCCCCCTGCGTCTAGAGGCCCAGGACACCGCCCTTTCCCGGCGGTAACAGGGGTTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGTGAGTGAAAGTCACCTGCCTTAATAtct < 2:589415/143‑1 (MQ=11)
cGCAACGCGTGATAAGCAATTGTCGTGTCCCCTTCGTCTAGCGGACCAGGACACCGCCCTTTCACGGCGGTAACAGGGGTTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGTGAGTGAAAGTCACCTGCCTTAATAtctc < 1:347342/143‑1 (MQ=11)
gCAACGCGTGATAAGCAATTTTCGTGTCCCCTTCGTCTAGAGGCCCAGGCCACCGCCCTTTCACGGCGGTACCAGGGTTTCGAATCCCCTAGGGGACGCAAATTGCTGATTAGTGAGTGAAAGTAAACTGCCTTAATATCTCa > 1:185252/1‑143 (MQ=11)
gCAACGCGTGATAAGCAATTTTCGTGTCCCCTTCGTCTAGAGGCCCAGGACACCGCCCTTTCACGGCGGTAACAGGGGTTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGTGAGTGAAAGTCACCTGCCTTAATATCTCa < 1:944846/143‑1 (MQ=255)
aaCGCGTGATAAGCAATTTTCGTGTCCCCTTCGTCTAGAGGCCCAGGACACCGCCCTTTCACGGCGGTAACAGGGGTTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGTGAGTGAAAGTCACCTGCCTTAATATCTCaaa > 1:763574/1‑143 (MQ=12)
tAAGCAATTTTCGTGTCCCCTTCGTCTAGAGGCCCAGGACAAAGCATTATCTCGGCGGTAACAGGGGTTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGTGAGTGAAAGTCACCTGCCTTAATATCTCAAAACTCATCtt < 1:1200831/143‑1 (MQ=11)
aGCAATTTTCGTGTCCCCTTCGTCTAGAGGCCCAGGACACCGCCCTTTCACGGCGGTAACAGGGGTTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGTGAGTGAAAGTCACCTGCCTTAATATCTCAAAACTCAGCTTCg > 1:673035/1‑143 (MQ=255)
aGCAATTTTCGTGTCCCCTTCGTCTAGAGGCCCAGGACACCGCCCTTTCACGGCGGTAACAGGGGTTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGTGAGTGAAAGTCACCGGCCTTAATATCTCAAAACTCATCTTCg > 2:58842/1‑143 (MQ=255)
||
TATCACGCAACGCGTGATAAGCAATTTTCGTGTCCCCTTCGTCTAGAGGCCCAGGACACCGCCCTTTCACGGCGGTAACAGGGGTTCGAATCCCCTAGGGGACGCCACTTGCTGGTTTGTGAGTGAAAGTCGCCGACCTTAATATCTCAAAACTCATCTTCG > NC_000913/4168341‑4168502
|
| 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
