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 |
|
A76 F1 I1 R1
|
13 |
52.2 |
3332858 |
96.5% |
3216207 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,489,365 |
Δ1 bp |
coding (689/831 nt) |
glpG ← |
predicted intramembrane serine protease |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,489,364 | 0 | A | . | 96.9%
| 146.7
/ ‑1.1
| 32 | coding (690/831 nt) | glpG | predicted intramembrane serine protease |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base . (21/10); total (22/10) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.97e-01 |
ATGTGTGCTCCGTTCGCCATCGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGATAATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCAGACGTAGCCCATCA > REL606/3489290‑3489434
|
aTGTGTGCTCCGTTCGCCATCGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGATat < 1:1471347/76‑2 (MQ=255)
gtgtgCTCCGTTCGCCATCGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGATatta < 2:1644004/76‑4 (MQ=255)
gtgtgCTCCGTTCGCCATCGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGATatta < 1:1453540/76‑4 (MQ=255)
cTCCGTTCGCCATCGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCa > 2:739813/1‑76 (MQ=255)
cTCCGTTCGCCATCGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCa < 2:274623/76‑1 (MQ=255)
tCCGTTCGCCATCGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCAc > 1:373500/1‑76 (MQ=255)
gTTCGCCATCGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGtt > 2:1417735/1‑76 (MQ=255)
tCGCCATCGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGc < 1:1067327/76‑1 (MQ=255)
ccATCGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAgg < 1:508127/76‑1 (MQ=255)
cATCGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGt > 2:779583/1‑76 (MQ=255)
tCGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTaa > 1:1303523/1‑76 (MQ=255)
cGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTaaa > 2:1026013/1‑76 (MQ=255)
gACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAAt < 1:1125554/76‑1 (MQ=255)
aTCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAATGcc > 1:666837/1‑76 (MQ=255)
aTCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAATGcc > 1:77047/1‑76 (MQ=255)
ccAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACt > 1:1271642/1‑76 (MQ=255)
aaacaaaTCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACttt < 2:1367418/76‑1 (MQ=255)
cATCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTc > 1:1435149/1‑76 (MQ=255)
aTCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCg > 2:1210834/1‑76 (MQ=255)
tCCGGCGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGc < 1:194319/76‑1 (MQ=255)
ccGGCGACAATCCAGATCAGCGCAAAGATAATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGc > 1:1140220/1‑76 (MQ=255)
cGACAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGt < 2:332877/76‑1 (MQ=255)
aCAATCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAg < 1:1043665/76‑1 (MQ=255)
aTCCAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCa > 2:796936/1‑76 (MQ=255)
cAGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCAGAc > 1:1048305/1‑76 (MQ=255)
aGATCAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCAGACg > 1:815173/1‑76 (MQ=255)
cAGCGCAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCAGACGTAGc > 1:1089649/1‑76 (MQ=255)
gcgcAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCAGACGTAGccc < 1:1140167/76‑1 (MQ=255)
gcgcAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCAGACGTAGccc > 1:1028550/1‑76 (MQ=255)
gcAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCAGACGTCGCCCac > 2:71634/1‑75 (MQ=255)
gcAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCAGACGTAGCCCAt > 2:116515/1‑76 (MQ=255)
gcAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCAGACGTAGCCCAt > 2:134500/1‑76 (MQ=255)
cAAAGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCAGACGTAGCCCATc < 1:296749/76‑1 (MQ=255)
aaaGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCAGACGTAGCCCATCa > 1:1656595/1‑76 (MQ=255)
aaaGAT‑ATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCAGACGTAGCCCATCa > 2:781445/1‑76 (MQ=255)
|
ATGTGTGCTCCGTTCGCCATCGACATCCCAAACAAATCAAACCATCCGGCGACAATCCAGATCAGCGCAAAGATAATTAACCCACGTTGCAGGTAAATGCCACTTTGCGGATCGCGTTCGCCACGTAGCCAGACGTAGCCCATCA > REL606/3489290‑3489434
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
