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 |
|
A2 F999 I1 R1
|
226 |
132.7 |
9745491 |
85.7% |
8351885 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,510,121 |
+G |
intergenic (‑358/+151) |
yhfZ ← / ← trpS |
hypothetical protein/tryptophan tRNA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,510,120 | 1 | . | G | 97.9%
| 120.4
/ ‑3.2
| 48 | intergenic (‑357/+152) | yhfZ/trpS | hypothetical protein/tryptophan tRNA synthetase |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base G (30/17); total (31/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
CGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCC‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAAT > NC_000913/3510045‑3510190
|
cGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGCTTcccc > 1:2172209/1‑76 (MQ=255)
gaTGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCC‑ggt > 2:1268740/1‑74 (MQ=255)
gtgGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCC‑Ggtttc > 2:4540380/1‑74 (MQ=255)
gAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCACATGAGGCTACAAAAACCGGGTTTCCCCGGTTTCaga > 1:1067084/1‑76 (MQ=255)
gAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCaga > 1:1029524/1‑76 (MQ=255)
aaaCGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCagag < 1:1879432/76‑1 (MQ=255)
aCGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGCTTCCCCGGGTTCAGAGtg > 2:546900/1‑76 (MQ=255)
cGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGtga > 2:1048062/1‑76 (MQ=255)
ggCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGtgat > 2:766509/1‑76 (MQ=255)
gCGGGGCGCTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGtgatg < 2:583485/76‑1 (MQ=255)
gCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGtgatg > 2:4093752/1‑76 (MQ=255)
gAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTgatgat > 2:4640633/1‑76 (MQ=255)
gAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTgatgat > 2:4068618/1‑76 (MQ=255)
aGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATa > 2:3732385/1‑76 (MQ=255)
ggCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATaa > 1:4434097/1‑76 (MQ=255)
cACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATaaaa < 1:4652511/76‑1 (MQ=255)
cTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGc > 1:1351460/1‑76 (MQ=255)
cTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGc > 1:4613175/1‑76 (MQ=255)
caTTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAAt < 1:701873/76‑1 (MQ=255)
aTTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAAtt > 2:333318/1‑76 (MQ=255)
ttttCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGcc < 1:4683714/76‑1 (MQ=255)
tCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGa < 1:657590/76‑1 (MQ=255)
cGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGAt > 1:580697/1‑76 (MQ=255)
attattGCAAATGAGGATGAAAAAACCGGGTTGCCCCGGTTGCAGAGTGATGATAAAAGCAAAATTGCCTGATgcg < 2:3802728/76‑1 (MQ=37)
attattGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATgcg > 2:2054224/1‑76 (MQ=255)
ttattGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATgcgc > 1:4118409/1‑76 (MQ=255)
tattGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCt > 1:4265171/1‑76 (MQ=255)
tGCAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACg > 1:2837180/1‑76 (MQ=255)
tcAAATGAGGATAAAACAGCCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGc < 2:3630702/75‑1 (MQ=37)
cAAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCt > 2:919152/1‑76 (MQ=255)
aaaTGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCtt > 2:2577049/1‑76 (MQ=255)
aaaTGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCtt > 1:4738690/1‑76 (MQ=255)
aaTGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTa > 1:3313981/1‑76 (MQ=255)
aTGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTAt < 1:983510/76‑1 (MQ=255)
gAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCa < 1:4357753/76‑1 (MQ=255)
aGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAg < 1:39656/76‑1 (MQ=255)
tgATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAgg > 2:3103627/2‑76 (MQ=255)
ggATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAgg > 1:1747757/1‑76 (MQ=255)
aTAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGcc > 1:4000050/1‑76 (MQ=255)
tAAAAAAACAGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCGTATCAGGCCt > 2:3040015/1‑76 (MQ=25)
aaaaaaCCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTAc < 1:4487176/76‑1 (MQ=255)
aaaCCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACAtt < 2:3572964/76‑1 (MQ=255)
aaaCCCGGTTTCCCCGGGTTCAGGGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACAtt < 2:314274/76‑1 (MQ=18)
aaCCGTGTTTCCCCGGTTTCAGAGTGATTATAAAAGCACCATTGCCTGATGCGCTACTCTTCTCAGGCCTACAttt < 1:546900/76‑1 (MQ=18)
aCCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTc > 2:1137967/1‑76 (MQ=255)
aCCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTc < 1:4338653/76‑1 (MQ=255)
ccGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTcc > 1:1109351/1‑76 (MQ=255)
ggTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTg > 2:2400616/1‑76 (MQ=255)
tCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAat < 2:513309/76‑1 (MQ=255)
tCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAat > 1:1135835/1‑76 (MQ=255)
|
CGAGATGTGGAAACGGCGAGGCACTTCACATTTTTTCGGATTATTGCAAATGAGGATAAAAAAACCGGGTTTCCCC‑GTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAAT > NC_000913/3510045‑3510190
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
