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 |
|
A8 F1 I1 R1
|
771 |
44.8 |
2153074 |
94.1% |
2026042 |
109.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,920,205 |
(T)7→8 |
intergenic (+62/‑18) |
yebT → / → rsmF |
MCE domain protein/16S rRNA m(5)C1407 methyltransferase, SAM‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,920,198 | 1 | . | T | 96.3%
| 81.6
/ ‑3.9
| 27 | intergenic (+55/‑25) | yebT/rsmF | MCE domain protein/16S rRNA m(5)C1407 methyltransferase, SAM‑dependent |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base T (15/11); total (15/12) |
| Fisher's exact test for biased strand distribution p-value = 4.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCCAGGAAGGCAAACACTTCCTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑G‑TTTTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACGCTCTCATTTGATGATTTTCTTGCCGCCTGTCAGCGCC > NC_000913/1920064‑1920328
|
cccAGGAAGGCAAACACTTCCTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑G‑tttt > 1:491109/1‑139 (MQ=255)
ggAAGGCAAACACTTCCTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑G‑tttttttt < 1:32356/139‑2 (MQ=255)
aaGGCAAACACTTCCTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑G‑ttttttttgc < 2:491109/139‑4 (MQ=255)
aaGGCAAACACTTCCTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑G‑ttttttttgc < 1:401188/139‑4 (MQ=255)
ccTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGc > 1:810370/1‑139 (MQ=255)
tGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTg < 1:902184/139‑1 (MQ=255)
aGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGcc < 1:577348/139‑1 (MQ=255)
tGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGcc > 1:594987/1‑102 (MQ=255)
tGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGcc < 2:594987/102‑1 (MQ=255)
tGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGCCCAacac < 1:257999/108‑1 (MQ=255)
tGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGCCCAacac > 2:257999/1‑108 (MQ=255)
aatGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCg < 2:668174/139‑1 (MQ=255)
gCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATg > 1:605758/1‑139 (MQ=255)
gCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑G‑ttttttttgcca < 1:414477/66‑6 (MQ=255)
gCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑G‑ttttttttgcca > 2:414477/1‑61 (MQ=255)
gCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑G‑ttttttttgc > 2:979748/1‑61 (MQ=255)
gCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑G‑ttttttttgc < 1:979748/64‑4 (MQ=255)
aCTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCtt > 2:209655/1‑139 (MQ=255)
cTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAg < 1:673782/62‑1 (MQ=255)
cTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAg > 2:673782/1‑62 (MQ=255)
tCCGGCGTGCCTGCGGCGGGGCGTTTATGCTAAACTGCGGGCCTGG‑TTTTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACg < 2:271536/139‑1 (MQ=255)
cGGCGTGCCTGCGCGGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAg > 1:652067/1‑56 (MQ=255)
cGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAg < 2:652067/56‑1 (MQ=255)
cGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCg < 2:1039413/69‑1 (MQ=255)
cGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCg > 1:1039413/1‑69 (MQ=255)
tGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAg > 2:63503/1‑51 (MQ=255)
tGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAg < 1:63503/51‑1 (MQ=255)
tGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACa < 2:983942/58‑1 (MQ=255)
tGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACa > 1:983942/1‑58 (MQ=255)
ccTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTTTGACCCAAATCCGCGAAGCGATGCCTTCGACGCCCCCAttt > 1:271536/1‑139 (MQ=255)
ccGGAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACGCTCTCATTTgatgat > 1:992644/1‑139 (MQ=255)
gAGCGTTTATGCTAAACTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACGCTCTCATTTGATGAtttt > 1:227958/1‑139 (MQ=255)
aaaCTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACGCTCTCATTTGATGATTTTCTTGCCGCCTGTc > 2:332363/1‑139 (MQ=255)
cTGCGCGCCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACGCTCTCATTTGATGATTTTCTTGCCGCCTGTCAgc < 1:209655/139‑1 (MQ=255)
cgcgcCT‑GTTTTTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACGCTCTCATTTGATGATTTTCTTGCCGCCTGTCAGCGcc > 1:157834/1‑139 (MQ=255)
|
CCCAGGAAGGCAAACACTTCCTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCT‑G‑TTTTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACGCTCTCATTTGATGATTTTCTTGCCGCCTGTCAGCGCC > NC_000913/1920064‑1920328
|
| 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
