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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,237,778 |
C→T |
86.7% |
R347R (CGG→CGA) |
ycgB ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,237,778 | 0 | C | T | 86.7%
| 109.1
/ 9.6
| 45 | R347R (CGG→CGA) | ycgB | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (3/3); new base T (20/19); total (23/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGCCAGTCGGAACCGGCGATATCCGGGAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATCCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGTTGATGCCGCTGTACCACGGGCTGT > W3110S.gb/1237713‑1237845
|
agccagTCGGAACCGGCGATATCCGGGAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGttt < 1:729183/71‑1 (MQ=255)
agccagTCGGAACCGGCGATATCCGGGAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGttt < 1:2743248/71‑1 (MQ=255)
gccagTCGGAACCGGCGATATCCGGGAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATCCGTTTa < 1:1297359/71‑1 (MQ=255)
cagTCGGAACCGGCGATATCCGGGAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATCCGTTTAat < 1:259842/71‑1 (MQ=255)
agTCGGAACCGGCGATATCCGGGAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAata > 1:132984/1‑71 (MQ=255)
ccGGCGATATCCGGGAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGaa < 1:361967/71‑1 (MQ=255)
ggCGATATCCGGGAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACa > 1:496460/1‑71 (MQ=255)
ggCGATATCCGGGAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACa > 1:2778196/1‑71 (MQ=255)
atatCCGGGAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACa > 1:1650937/1‑67 (MQ=255)
tCCGGGAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGa < 1:2500638/70‑1 (MQ=255)
gggAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAAccc < 1:1598446/71‑1 (MQ=255)
gAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATTCg < 1:41066/42‑1 (MQ=255)
aGTATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGaa < 1:2338575/52‑1 (MQ=255)
tATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGttt < 1:2463432/38‑1 (MQ=255)
tATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAAccc < 1:2266428/62‑1 (MQ=255)
tATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCa < 1:76166/69‑1 (MQ=255)
tATTTGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCa < 1:1237410/69‑1 (MQ=255)
tATTTGTCTTCTTCCGTTGGCGACTGACAAATCCGTTTAATATCCTGGaa < 1:960926/50‑1 (MQ=255)
aTTTGTCTTCTTCCGTTGGCGACTGACAAATCCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATAc > 1:760523/1‑71 (MQ=255)
tttGTCTTCTTCCGTTGGCGACTGACAAATTCGtt < 1:2716881/35‑1 (MQ=255)
tttGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACg > 1:1952668/1‑71 (MQ=255)
tttGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAAAATGGCGAACCCGAGGGCATACg > 1:2039081/1‑71 (MQ=255)
tttGTCTTCTTCCGTTGGCGACTGACAAATCCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACg > 1:1464/1‑71 (MQ=255)
tGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAat > 1:2138587/1‑37 (MQ=255)
tGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAat > 1:2135281/1‑37 (MQ=255)
tGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAat > 1:2797078/1‑37 (MQ=255)
tGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATc > 1:1697999/1‑40 (MQ=255)
tGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACggg > 1:1593695/1‑71 (MQ=255)
tGTCTTCTTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACgg < 1:802403/70‑1 (MQ=255)
tGTCTTCTTCCGTTGGCGACTGACAAATCCGTTTAata > 1:19901/1‑38 (MQ=255)
tcttctTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGtt < 1:2455141/71‑1 (MQ=255)
tcttctTCCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGtt < 1:605227/71‑1 (MQ=255)
ttcttcCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGaa > 1:442485/1‑51 (MQ=255)
ttcttcCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGTTGa > 1:1043325/1‑71 (MQ=255)
ttcttcCGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGTTGa > 1:2523129/1‑71 (MQ=255)
ttcttcAGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGTTGa > 1:1877121/1‑71 (MQ=255)
ccGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGTTGATGCCg > 1:581492/1‑71 (MQ=255)
ccGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGTTGATGCCg > 1:2075576/1‑71 (MQ=255)
ccGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGTTGATGCCg > 1:2124461/1‑71 (MQ=255)
ccGTTGGCGACTGACAAATTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGTTGATGCCg > 1:2265979/1‑71 (MQ=255)
ttGGCGACTGACAAATTCGTTTAATATCCTGGAACATGTCGa < 1:1986909/42‑1 (MQ=38)
aaTTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGtt < 1:2662847/48‑1 (MQ=255)
aaTTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGTTGATGCCGCTGTACGACGGGCTGt > 1:331051/1‑71 (MQ=255)
aaTTCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGTTGATGCCGCTGTACCACGGGCTGt < 1:1415949/71‑1 (MQ=255)
aaTTCGTTTAATATCATGGAACATGGCGAACCCGAGGGCATACGGGTTGATGCCGCTGTACCACGGGCTGt < 1:2641641/71‑1 (MQ=255)
|
AGCCAGTCGGAACCGGCGATATCCGGGAACCAGTATTTGTCTTCTTCCGTTGGCGACTGACAAATCCGTTTAATATCCTGGAACATGGCGAACCCGAGGGCATACGGGTTGATGCCGCTGTACCACGGGCTGT > W3110S.gb/1237713‑1237845
|
| 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
