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 F28 I2 R1
|
330 |
0.0 |
2544031 |
91.9% |
2337964 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,764,766 |
Δ1 bp |
coding (193/1074 nt) |
yfjN → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,764,763 | 0 | G | . | 77.3%
| 40.5
/ 18.6
| 22 | coding (190/1074 nt) | yfjN | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (5/0); new base . (0/17); total (5/17) |
| Fisher's exact test for biased strand distribution p-value = 3.80e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCAGACCAGGGGTTAACTTGGCAACTGTGGACATTTTTTATAACGGGGACGGTTCGACTACAATTCAATATCTCACTGGAGCCAATCGTTCTCTGGG > W3110S.gb/2764718‑2764815
|
accagaccagGGGTTAACTTGGCAACTGTGGACATTTTTTATAACGGGGACGGTTCGACTACaa > 1:1168828/1‑64 (MQ=255)
accagaccagGGGTTAACTTGGCAACTGTGGACATTTTTTATAACGGGGACGGTTCGACTACaa > 1:1049742/1‑64 (MQ=255)
accagaccagGGGTTAACTTGGCAACTGTGGACATTTTTTATAACGGGGACGGTTCGACTACaa > 1:13174/1‑64 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:688328/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:508610/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:418905/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:416023/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:399786/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:331152/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:2514763/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:248666/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:244031/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:1891501/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:1484190/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:1478983/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:1398902/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:1391937/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:1368157/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTCGACTACAATTCAata < 1:1265507/65‑1 (MQ=255)
accagGGGTTAACTTGGCAACTGTGGACATTTTTTATAAC‑GGGACGGTTAGACTACAATTCAata < 1:270633/65‑1 (MQ=255)
ttttttATAACGGGGACGGTTCGACTACAATTCAATATCTCACTGGAGCCAATCGTTCTCTggg > 1:1507481/1‑64 (MQ=255)
ttttttATAACGGGGACGGTTCGACTACAATTCAATATCTCACTGGAGCCAATCGTTCTCTggg > 1:1442604/1‑64 (MQ=255)
|
ACCAGACCAGGGGTTAACTTGGCAACTGTGGACATTTTTTATAACGGGGACGGTTCGACTACAATTCAATATCTCACTGGAGCCAATCGTTCTCTGGG > W3110S.gb/2764718‑2764815
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
