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 |
|
A18 F36 I0 R1
|
2686 |
148.3 |
4982338 |
97.1% |
4837850 |
149.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
4,606,239 |
A→G |
35.9% |
noncoding (48/87 nt) |
leuP ← |
tRNA‑Leu |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,606,239 | 0 | A | G | 35.9%
| 7.0
/ 5.1
| 14 | noncoding (48/87 nt) | leuP | tRNA‑Leu |
| Reads supporting (aligned to +/- strand): ref base A (4/4); new base G (2/2); total (6/8) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.20e-01 |
ACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAAT > NC_000913/4606095‑4606387
|
aCTTGAACCGCCACGTCCTTAAGTACACTAACACCTGAAGCTACCTCTTATACCAATTCCGCCACCTTCTAACATTCATCTTACTTTTTTTGATCTCGCCTCCTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACt < 2:1920677/150‑1 (MQ=25)
tGAACCCCCACGTGCGTAATGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCCCTCAGTCATCAAACATTTTTTGAATTCGCCTCCTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAac < 1:953006/150‑1 (MQ=21)
cTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGaa > 1:1853159/1‑133 (MQ=255)
cTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGaa < 2:1853159/133‑1 (MQ=255)
catcaaaCTTTTATTGATTTACCCTTTTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGTACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGc < 2:313644/144‑1 (MQ=18)
cTTTTTTTGATATCGCCTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAg > 1:1262359/1‑78 (MQ=255)
cTTTTTTTGATATCGCCTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAg < 2:1262359/78‑1 (MQ=255)
tGATATCGCCTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAGGGGGGGGACtt < 1:1962596/150‑1 (MQ=255)
tatCGCCTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCAACAGACAAGAATATCAACGTGTTGTTACGTCCGAGGGGGGGGAATTgcc > 2:1447589/1‑148 (MQ=17)
cTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGTACACTAACACCTGAAGCTAGCGCGTCTACCAATTcc < 2:2015379/82‑1 (MQ=25)
cTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTcc > 1:2015379/1‑82 (MQ=39)
tAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTg < 1:377912/58‑1 (MQ=9)
tAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTg > 2:377912/1‑58 (MQ=9)
gAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCACAGCCAGCAATATCAACGTGGTTTTTGGTCCGAGGCGGGGGACTTGAGGCCCCACCTACTAAAGGACACTAACACATGAAGCTAGCGCGTCTACCAAt > 1:12743/1‑150 (MQ=25)
|
ACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCACAGTCATCTTACTTTTTTTGATATCGCCTCGTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGAACACTAACACCTGAAGCTAGCGCGTCTACCAATTCCGCCACCTTCGCCCAGTGCGAGCAATATCAACGTGGTTTTTGGTGCGAGGGGGGGGACTTGAACCCCCACGTCCGTAAGGACACTAACACCTGAAGCTAGCGCGTCTACCAAT > NC_000913/4606095‑4606387
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
