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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
974,990 |
A→T |
70.7% |
intergenic (+742/+250) |
lsrB → / ← ydeH |
AI2 transporter/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 974,990 | 0 | A | T | 70.7%
| 111.1
/ 59.7
| 75 | intergenic (+742/+250) | lsrB/ydeH | AI2 transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (10/12); new base T (24/29); total (34/41) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.28e-01 |
ACTGGCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTGCCA > minE/974922‑975053
|
aCTGGCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCt > 1:454050/1‑71 (MQ=255)
aCTGGCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCt > 1:3118925/1‑71 (MQ=255)
aCTGGCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCt > 1:1597239/1‑71 (MQ=255)
aCTGGCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCt < 1:3168915/71‑1 (MQ=255)
aCTGGCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATAc < 1:151066/70‑1 (MQ=255)
ggCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCg > 1:568763/1‑71 (MQ=255)
gCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAAttcttc < 1:5250062/69‑1 (MQ=255)
gCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGc > 1:3808385/1‑71 (MQ=255)
cAAATTCTGACACCTGCACGACATGCTTCTTCATCTTTAGCCGCTTTGACAATAATGATAAATACt < 1:2651586/66‑1 (MQ=255)
cAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACt < 1:4625247/66‑1 (MQ=255)
aaaTTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGccc > 1:1569809/1‑71 (MQ=255)
aaaTTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGccc > 1:1222844/1‑71 (MQ=255)
aaaTTCTGACACCTGCACGACATGCTTCTTCATAATTAGCCGCTTTGACAATAATGATAAATACTTCGccc > 1:720883/1‑71 (MQ=255)
aaTTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGcccc < 1:4624775/71‑1 (MQ=255)
aTTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGccccc > 1:5488270/1‑71 (MQ=255)
cTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCg > 1:3686445/1‑69 (MQ=255)
cTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGt < 1:3146865/70‑1 (MQ=255)
acacCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGc < 1:318360/70‑1 (MQ=255)
gCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATaaa > 1:3162256/1‑70 (MQ=255)
gCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATa > 1:1129987/1‑68 (MQ=255)
gCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAAc > 1:5487342/1‑71 (MQ=255)
cGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGt < 1:4149173/71‑1 (MQ=255)
tGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGc < 1:2858456/56‑1 (MQ=255)
tGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGt < 1:3887291/71‑1 (MQ=255)
tGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGt < 1:5277042/71‑1 (MQ=255)
tGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGt < 1:2073717/71‑1 (MQ=255)
gCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGt > 1:4779493/1‑70 (MQ=255)
gCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGt > 1:4605926/1‑70 (MQ=255)
cttcttCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGc > 1:4189037/1‑45 (MQ=255)
cttcttCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAAc > 1:5428693/1‑61 (MQ=255)
cttcttCATCATTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTAGTaa > 1:3637422/1‑71 (MQ=255)
tcatcaTTAGCCGCTTTGACAATAATGATAAATTCTTCg > 1:2670062/1‑39 (MQ=255)
catcatTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCAc < 1:3052720/69‑1 (MQ=255)
catcatTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCAc < 1:3758576/69‑1 (MQ=255)
atcatTAGCCGCTTTGACAATAATGATAAAttcttc > 1:1277513/1‑36 (MQ=255)
tcatTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATa < 1:1442424/50‑1 (MQ=255)
tcatTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAAt < 1:2058439/64‑1 (MQ=255)
catTAGCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTc > 1:485284/1‑71 (MQ=255)
catTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTc > 1:5678461/1‑71 (MQ=255)
catTAGCAGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTc > 1:4622707/1‑71 (MQ=255)
atTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTc > 1:1568312/1‑70 (MQ=255)
gCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAAt > 1:2234746/1‑58 (MQ=255)
gCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAAc < 1:4493710/70‑1 (MQ=255)
gCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACt > 1:5143582/1‑71 (MQ=255)
gCCGCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACt < 1:5494066/71‑1 (MQ=255)
gCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAAc > 1:936965/1‑44 (MQ=255)
gCTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAAt < 1:1672963/55‑1 (MQ=255)
cTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATATACCGtt < 1:5868/47‑1 (MQ=25)
cTTTGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGtt < 1:1411235/47‑1 (MQ=255)
ttGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCa > 1:1482512/1‑54 (MQ=255)
ttGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCa < 1:673418/62‑1 (MQ=255)
ttGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCa < 1:59323/62‑1 (MQ=255)
ttGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCt > 1:2465626/1‑69 (MQ=255)
tGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaag > 1:2195049/1‑71 (MQ=255)
tGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaa < 1:2199451/70‑1 (MQ=255)
tGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaa < 1:1701111/70‑1 (MQ=255)
tGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaa < 1:3104732/70‑1 (MQ=255)
tGACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCta < 1:1848892/69‑1 (MQ=255)
gACAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTc > 1:5165567/1‑45 (MQ=255)
aCAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaagt < 1:2545339/70‑1 (MQ=255)
aCAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaagt < 1:4878970/70‑1 (MQ=255)
cAATAATGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaagta < 1:2822703/70‑1 (MQ=255)
cAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACt < 1:2154759/61‑1 (MQ=255)
cAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACt < 1:4045593/61‑1 (MQ=255)
cAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACt < 1:3427124/61‑1 (MQ=255)
aataatGATAAATTCTTCGCCCCCGTAGCGATAAACCg > 1:3568427/1‑38 (MQ=255)
ataatGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGt < 1:3645971/43‑1 (MQ=255)
ataatGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTaa < 1:5562736/45‑1 (MQ=255)
ataatGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCTTCCAACTGGCtaagtaag < 1:1123286/70‑1 (MQ=255)
atGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTGc < 1:2569442/71‑1 (MQ=255)
tGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGt < 1:3190935/39‑1 (MQ=255)
tGATAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAAt < 1:2826843/42‑1 (MQ=255)
tGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTGcc < 1:2755606/71‑1 (MQ=255)
aTAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTGCCa < 1:1998514/70‑1 (MQ=255)
tAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaag > 1:5060459/1‑59 (MQ=255)
tAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaag > 1:4617259/1‑59 (MQ=255)
tAAATTCTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCtaag > 1:3051362/1‑59 (MQ=255)
|
ACTGGCAAATTCTGACACCTGCACGACATGCTTCTTCATCATTAGCCGCTTTGACAATAATGATAAATACTTCGCCCCCGTAGCGATAAACCGTTTCGTAATCACGCGTCCAACTGGCTAAGTAAGTTGCCA > minE/974922‑975053
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
