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 |
|
A13 F1 I2 R1
|
762 |
35.5 |
1545288 |
95.5% |
1475750 |
117.0 |
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 | 95.5%
| 64.0
/ ‑3.1
| 22 | 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 (10/11); total (10/12) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.33e-01 |
GGAAGGCAAACACTTCCTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTG‑TT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACGCTCTCATTTGATGATTTTCTTGCCGCCTGTCAGCGCCCG > NC_000913/1920068‑1920330
|
ggAAGGCAAACACTTCCTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAGTGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTG‑tt‑tttttt > 1:464235/1‑138 (MQ=255)
ggAAGGCAAACACTTCCTGTTGCAGGAAAGTGAACCGAAAGAGAGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTG‑tt‑tttttt < 2:93525/139‑2 (MQ=255)
gCAAACACTTCCTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAg < 1:269490/139‑1 (MQ=255)
cTTCCTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACa < 2:582087/139‑1 (MQ=255)
ccTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACATGc > 1:638669/1‑139 (MQ=255)
cTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCCTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTG‑TTATTTTTGCCAGTGGTACATGCt < 2:464235/139‑1 (MQ=255)
gAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCa > 1:392745/1‑139 (MQ=255)
gTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAacac < 1:67272/139‑1 (MQ=255)
gAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAacacac < 2:674709/139‑1 (MQ=255)
aCCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCg < 2:566300/139‑1 (MQ=255)
aaCTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGa < 2:392745/139‑1 (MQ=255)
gcgcTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGAcaca > 1:284419/1‑139 (MQ=255)
cgcTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTG‑tt‑ttttttgcca < 1:65718/81‑6 (MQ=255)
cgcTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTG‑tt‑ttttttgcca > 2:65718/1‑76 (MQ=255)
gCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAg > 1:216018/1‑67 (MQ=255)
gCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAg < 2:216018/67‑1 (MQ=255)
tGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGGGCGCCTGTTT‑TTTTTGCCAGTGGTACATGCTCg > 1:469964/1‑74 (MQ=255)
tGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACATGCTCg < 2:469964/74‑1 (MQ=255)
cGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACGct > 2:179998/1‑139 (MQ=255)
gCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTG‑tt‑ttttttgcc > 2:19325/1‑48 (MQ=255)
gCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTG‑tt‑ttttttgcc < 1:19325/52‑5 (MQ=255)
cgcCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAac > 2:194134/1‑67 (MQ=255)
cgcCGGAGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAac < 1:194134/67‑1 (MQ=255)
aGCGTTTATGCTAAACTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACGCTCTCATTTGATGATTTTc > 2:724028/1‑139 (MQ=255)
aaCTGCGCGCCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACGCTCTCATTTGATGATTTTCTTGCCGCCTGTCa < 1:179998/139‑1 (MQ=255)
cgcgcCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAaca > 1:703024/1‑44 (MQ=255)
cgcgcCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAaca < 2:703024/44‑1 (MQ=255)
cgcCTGTTT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACGCTCTCATTTGATGATTTTCTTGCCGCCTGTCAGCGCCCg > 1:328756/1‑139 (MQ=255)
|
GGAAGGCAAACACTTCCTGTTGCAGGAAAGTGAACCGAAAGAGTGGCGTGAATGGGGAACTGCGCTTCCCAAATAATGCCCACTGCTCCGGCGTGCCTGCGCCGGAGCGTTTATGCTAAACTGCGCGCCTG‑TT‑TTTTTGCCAGTGGTACATGCTCGTGGCCCAACACACCGTTTATTTCCCGGACGCCTTTCTGACACAAATGCGCGAAGCGATGCCTTCGACGCTCTCATTTGATGATTTTCTTGCCGCCTGTCAGCGCCCG > NC_000913/1920068‑1920330
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
