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
|
17 |
37.0 |
2377229 |
96.2% |
2286894 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,490,530 |
(T)6→7 |
intergenic (‑106/‑84) |
glpE ← / → glpD |
thiosulfate sulfurtransferase/sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,490,524 | 1 | . | T | 85.7%
| 108.1
/ 13.2
| 35 | intergenic (‑100/‑90) | glpE/glpD | thiosulfate sulfurtransferase/sn‑glycerol‑3‑phosphate dehydrogenase, aerobic, FAD/NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base . (3/2); new base T (15/15); total (18/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.63e-01 |
GGGCAAATTTACCGCACAGTTTACGTCGAAGCGGCAGATAAACGCCATAATGTTATACATATCACTCTAAAATG‑T‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGAACATTTATGAGCTTTAA > REL606/3490451‑3490593
|
gggCAAATTTACCGCACAGTTTACGTCGAAGCGGCAGATAAACGCCATAATGTTATACATATCACTCTAAAATG‑t‑t > 2:494392/1‑76 (MQ=255)
tttACCGCACAGTTTACGTCGAAGCGGCAGATAAACGCCATAATGTTATACATATCACTCTAAAATG‑t‑t‑tttttca > 2:865897/1‑73 (MQ=255)
gCACAGTTTACGTCGAAGCGGCAGATAAACGCCATAATGTTATACATATCACTCTAAAATGTT‑T‑TTTTCAATGTTa < 2:867067/76‑1 (MQ=255)
acaGTTTACGTCGAAGCGGCAGATAAACGCCATAATGTTATACATATCACTCTAAAATG‑T‑T‑TTTTCAATGTTACCt > 1:808146/1‑76 (MQ=255)
gTTTACGTCGAAGCGGCAGATAAACGCCATAATGTTATACATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTaa > 1:57915/1‑76 (MQ=255)
gTTTACGTCGAAGCGGCAGATAAACGCCATAATGTTATACATATCACTCTAAAATGTT‑T‑TTTTCAATGCTACCTaa < 1:791280/76‑1 (MQ=255)
gTCGAAGCGGCAGATAAACGCCATAATGTTATACATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGcgcg > 1:440532/1‑76 (MQ=255)
aaGCGGCAGATAAACGCCATAATGTTATACATATCACTCTCAAATGTT‑T‑TTTTGAATGTTACCTAAAGCGCGATTc > 1:864141/1‑76 (MQ=255)
cGGCAGATAAACGCCATAATGTTATACATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCttt > 2:946613/1‑76 (MQ=255)
cGGCAGATAAACGCCATAATGTTATACATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCttt < 1:647011/76‑1 (MQ=255)
cAGATAAACGCCATAATGTTATACATATCACTCTAAAATG‑TCT‑TTTTNAATGTTNCCTAAAGCGCGATTCTCTGcn > 1:998708/1‑75 (MQ=255)
aTAAACGCCATAATGTTATACATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAat > 2:895531/1‑76 (MQ=255)
tAAACGCCATAATGTTATACATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAata < 2:666372/76‑1 (MQ=255)
actccATAATGTTATACATATCACTCTTAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGt < 1:557256/73‑1 (MQ=255)
ccATAATGTTATACATATCACGCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCg < 2:1005969/76‑1 (MQ=255)
aTAATGTTATACATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGAt < 1:214661/76‑1 (MQ=255)
aTAATGTTATACATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGAt > 2:1016246/1‑76 (MQ=255)
tAATGTTATACATATCACTCTAAAATG‑T‑T‑TTTTCAATGTTACCGNAAGGGCGATTCTTTGCTAATATGTTCGATaa < 1:93720/76‑1 (MQ=255)
aTGTTATACATATCACTCTAAAATGTT‑T‑TTTTCGATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAAc < 1:776102/76‑1 (MQ=255)
aTGTTATACATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAAc < 2:817520/76‑1 (MQ=255)
aTGTTATACATATCACTCTAAAATG‑T‑TCTTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAAc < 1:494392/76‑1 (MQ=255)
gTTATACATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGa > 2:571762/1‑76 (MQ=255)
ttATACATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGaa > 1:878639/1‑76 (MQ=255)
ataCATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATCACGAACa > 2:766560/1‑76 (MQ=255)
taCATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGAACAt > 1:316704/1‑76 (MQ=255)
aCATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGAACAtt < 2:72392/76‑1 (MQ=255)
cATATCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGAACAttt > 2:9032/1‑76 (MQ=255)
atatCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGAACATTTa > 1:891421/1‑76 (MQ=255)
tatCACTCTAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGAACATTTAt > 1:790328/1‑76 (MQ=255)
atCACTCTAAAATGTT‑T‑TTTTCAATGCTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGAACATTTATg < 1:569685/76‑1 (MQ=255)
tctAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAGTATGTTCGATAACGAACATTTATGAGCtt < 1:1166825/76‑1 (MQ=255)
ctAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGAACATTTATGAGCttt < 2:360688/76‑1 (MQ=255)
ctAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGAACATTTATGAGCttt > 2:329197/1‑76 (MQ=255)
ctAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGAACATTTATGAGCttt > 1:898504/1‑76 (MQ=255)
tAAAATGTT‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGAACATTTATGAGCTTTa < 1:1119040/76‑1 (MQ=255)
tAAAATG‑T‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGAACATTTATGAGCTTTaa > 2:500515/1‑76 (MQ=255)
aaaaTGTT‑T‑TTTTCAATGTTACCTAAAGAGCGATTCTTTGCTAATATGTTCGATAACTAACATTTATGAGCTTTaa < 2:1081511/76‑1 (MQ=255)
|
GGGCAAATTTACCGCACAGTTTACGTCGAAGCGGCAGATAAACGCCATAATGTTATACATATCACTCTAAAATG‑T‑T‑TTTTCAATGTTACCTAAAGCGCGATTCTTTGCTAATATGTTCGATAACGAACATTTATGAGCTTTAA > REL606/3490451‑3490593
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
