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 |
|
A1 F1 I1 R1
|
773 |
79.9 |
4112934 |
92.2% |
3792125 |
104.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,231,237 |
A→G |
intergenic (+11/+122) |
rluF → / ← yjbD |
23S rRNA pseudouridine(2604) synthase/DUF3811 family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,231,237 | 0 | A | G | 94.9%
| 122.8
/ ‑2.3
| 39 | intergenic (+11/+122) | rluF/yjbD | 23S rRNA pseudouridine(2604) synthase/DUF3811 family protein |
| Reads supporting (aligned to +/- strand): ref base A (1/1); new base G (16/21); total (17/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.30e-01 |
ACAGCGGGCATCAAACGTCCAGTCGTTAAGATGGAAAAAACGGCGGAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCAGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGTGAGGGGAAAATTGTGTTCACACTGACGAGTGAAAATCTCAGGCGTTGATTGTGGAT > NC_000913/4231110‑4231359
|
aCAGCGGGCATCAAACGTCCAGTCGTTAAGATGG‑AAAAACGGCGGAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGaaaa < 1:525603/139‑1 (MQ=255)
aGTCGTTAAGATGGAAAAAACGGCGGAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGa < 2:33436/139‑1 (MQ=255)
gTCGTTAAGATGGAAAAAACGGCGGAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGAc > 1:1487017/1‑139 (MQ=255)
tCGTTAAGATGGAAAAAACGGCGGAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACa > 2:1239083/1‑139 (MQ=255)
ggAAAAAACGGCGGAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGc > 1:1418197/1‑139 (MQ=255)
ggAAAAAACGGCGGAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGc > 2:523709/1‑139 (MQ=255)
ggAAAAAACGGCGGAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGc < 2:1119782/139‑1 (MQ=255)
cggAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa < 1:1128778/139‑1 (MQ=255)
cggAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa < 1:1239083/139‑1 (MQ=255)
cggAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa < 2:1418197/139‑1 (MQ=255)
cggAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa < 1:417623/139‑1 (MQ=255)
cggAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa < 1:523709/139‑1 (MQ=255)
cGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAgg > 2:749212/1‑139 (MQ=255)
gTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGt < 1:749212/139‑1 (MQ=255)
gTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa < 2:990532/109‑1 (MQ=255)
gTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa > 1:990532/1‑109 (MQ=255)
tAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGTGAGGGGAAAATTGTGTTca > 1:72809/1‑139 (MQ=255)
cTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGTGAGGGGAAAATTGTGTTc < 2:1866900/126‑1 (MQ=255)
cTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGTGAGGGGAAAATTGTGTTc > 1:1866900/1‑126 (MQ=255)
cTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGTGAGGGGAAAATTGTGTTCACACTGACGAGTg < 2:1487017/139‑1 (MQ=255)
cGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaaaa > 1:1721782/1‑96 (MQ=255)
cGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaaaa < 2:1721782/96‑1 (MQ=255)
gCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACa < 1:1024733/72‑1 (MQ=255)
gCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACa > 2:1024733/1‑72 (MQ=255)
gggCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGTGAGGGGAAAATTGTGTTCACACTGACGAGTGAAAAtct < 2:1764144/139‑1 (MQ=255)
gggCGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGTGAGGGGAAAATTGTGTTCACACTGACGAGTGAAAAtct < 2:72809/139‑1 (MQ=255)
cGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa > 2:429625/1‑86 (MQ=255)
cGTAAAAAGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa < 1:429625/86‑1 (MQ=255)
aaaaaGAAGGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGTGAGGGGAAAATTGTGTTCACACTGACGAGTGAAAATCTCAGGCg < 2:7044/139‑1 (MQ=255)
aagGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa > 1:404653/1‑77 (MQ=255)
aagGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa < 2:404653/77‑1 (MQ=255)
agGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa > 2:429470/1‑76 (MQ=255)
agGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa < 1:429470/76‑1 (MQ=255)
agGGGCGCTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGTGAGGGGAAAATTGTGTTCACACTGACGAGTGAAAATCTCAGGCGTTGATtg > 2:1586255/1‑139 (MQ=255)
cgcTGATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGTGAGGGGAAAATTGTGTTCACACTGACGAGTGAAAATCTCAGGCGTTGATTGTGGAt > 1:1391389/1‑139 (MQ=255)
cgcTGATTAACGCCTCAGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGTGAGGGGAAAATTGTGTTCACACTGACGAGTGAAAAtct < 2:1725196/121‑1 (MQ=255)
cgcTGATTAACGCCTCAGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGTGAGGGGAAAATTGTGTTCACACTGACGAGTGAAAAtct > 1:1725196/1‑121 (MQ=255)
gATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa < 2:930467/67‑1 (MQ=255)
gATTAACGCCTCGGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGaa > 1:930467/1‑67 (MQ=255)
|
ACAGCGGGCATCAAACGTCCAGTCGTTAAGATGGAAAAAACGGCGGAAAAAGGCGGTCGCCCGGCGTCCAACGGTAAGCGTTTTACCTCGCCGGGGCGTAAAAAGAAGGGGCGCTGATTAACGCCTCAGACTGATGAAAACGGCCCAAAAGTGCCCGGACAGTCCCCTCGCCCCTTCGGGAAAAGGGTTAGGGTGAGGGGAAAATTGTGTTCACACTGACGAGTGAAAATCTCAGGCGTTGATTGTGGAT > NC_000913/4231110‑4231359
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
