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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,294,050 |
A→C |
26.0% |
intergenic (+77/‑198) |
gldA → / → yijF |
glycerol dehydrogenase, NAD/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,294,050 | 0 | A | C | 26.0%
| 103.4
/ 53.2
| 73 | intergenic (+77/‑198) | gldA/yijF | glycerol dehydrogenase, NAD/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (30/24); new base C (14/5); total (44/29) |
| Fisher's exact test for biased strand distribution p-value = 1.86e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGG > minE/2293983‑2294115
|
aaCTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAAtc > 1:995316/1‑71 (MQ=255)
aaCTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAAtc > 1:3502041/1‑71 (MQ=255)
aCTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAAtct < 1:3113736/71‑1 (MQ=255)
cGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCa < 1:379824/71‑1 (MQ=255)
ggCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCaa > 1:3294144/1‑71 (MQ=255)
gCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCaa > 1:1973101/1‑70 (MQ=255)
gTCCAGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAatata > 1:1330705/1‑70 (MQ=255)
ccGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATAtt > 1:3253906/1‑70 (MQ=255)
ggAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAAt > 1:1401993/1‑71 (MQ=255)
ggAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAAt > 1:2611737/1‑71 (MQ=255)
ggAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAAt > 1:2128710/1‑71 (MQ=255)
aGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAAttt < 1:3367968/71‑1 (MQ=255)
gTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTg < 1:1289934/71‑1 (MQ=255)
tttGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAAttt < 1:1598888/69‑1 (MQ=255)
ttGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGc < 1:1254907/70‑1 (MQ=255)
ttGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCg > 1:3073908/1‑71 (MQ=255)
tGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAAtctc < 1:2943384/50‑1 (MQ=255)
tGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGc > 1:47669/1‑69 (MQ=255)
accGCAAAAATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGaa > 1:1897338/3‑62 (MQ=14)
accGCAAAAATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGc < 1:3647828/69‑1 (MQ=14)
aaCGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGc > 1:657255/1‑71 (MQ=255)
ccGCAAAAATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCt > 1:1373522/2‑71 (MQ=255)
aCGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGc > 1:3782285/1‑66 (MQ=255)
aCGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCt < 1:352729/71‑1 (MQ=255)
aCGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCt < 1:2571491/71‑1 (MQ=255)
cGCAAAAATGCCTGATGCGCTACGCTTATCAGGCGTACGCCATCTCTGCAATATATTGAAtt > 1:1733740/1‑62 (MQ=14)
gCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATAtt < 1:2066470/56‑1 (MQ=255)
aaaaATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTg > 1:62027/1‑71 (MQ=255)
aaaaATGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTg > 1:3496625/1‑71 (MQ=255)
aaaaTGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGt < 1:799777/71‑1 (MQ=255)
aaaTTGCCTTATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTg > 1:2628688/1‑70 (MQ=255)
aaaTTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTg > 1:3815840/1‑70 (MQ=255)
aaatGCCTGATGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTg > 1:960635/4‑69 (MQ=255)
aaTTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCttt > 1:1960770/1‑67 (MQ=255)
aaTTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTg > 1:311150/1‑69 (MQ=255)
aaTTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTg > 1:3048736/1‑69 (MQ=255)
gCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTa > 1:2573273/1‑67 (MQ=255)
gCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTa > 1:3302748/1‑67 (MQ=255)
ccTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCtt < 1:2686658/61‑1 (MQ=255)
ccTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGt < 1:465331/65‑1 (MQ=255)
aTGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAAt < 1:1818995/47‑1 (MQ=255)
aTGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGAt > 1:1089080/1‑70 (MQ=255)
aTGCGCTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGAt > 1:2431973/1‑70 (MQ=255)
gcTACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTg < 1:1548148/56‑1 (MQ=255)
tACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAg > 1:1461516/1‑67 (MQ=255)
tACGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGATTTTGTAGGCAGGATAAg > 1:2979552/1‑67 (MQ=14)
cGCTTATCAGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTc < 1:1533679/71‑1 (MQ=255)
cGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGtt > 1:1554278/1‑70 (MQ=255)
cGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGtt > 1:293116/1‑70 (MQ=255)
cGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGt < 1:3173641/69‑1 (MQ=255)
ttATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCg < 1:321679/65‑1 (MQ=255)
ttATCAGGCCTAAGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACt > 1:2043816/1‑71 (MQ=255)
aTCAGGCCTACGCAATCTCTGCAATATATTGAAtt < 1:1490344/35‑1 (MQ=255)
aTCAGGCCTACGCAATCTCTGCAATATATTGAAtt < 1:2318912/35‑1 (MQ=255)
aTCAGGCCTACGCAATCTCTGCAATATATTGAATTTg < 1:1669030/37‑1 (MQ=255)
aTCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGc > 1:529753/1‑42 (MQ=255)
tCAGGCCTACGCAATCTCTGCAATATATTGAATTTGc > 1:3107459/1‑37 (MQ=255)
tCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTcc < 1:1103155/70‑1 (MQ=255)
tCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCg < 1:1062469/71‑1 (MQ=255)
aGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGc > 1:414829/1‑59 (MQ=17)
aGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTCACGCCGCa > 1:2111750/1‑71 (MQ=14)
aGGCCTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTCACGCCGCa > 1:2116405/1‑71 (MQ=14)
aGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCAc > 1:1103871/1‑65 (MQ=255)
aGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCa > 1:972255/1‑71 (MQ=255)
ggCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCAt < 1:3878604/71‑1 (MQ=255)
gCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATc < 1:2697775/71‑1 (MQ=255)
ccTACGCCATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCAGGATAAGGCGTTCACGCCGCATcc > 1:560551/1‑71 (MQ=11)
tACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTCGTa < 1:960924/41‑1 (MQ=255)
aCGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCgg > 1:3306699/1‑70 (MQ=255)
cGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGt > 1:3496042/1‑38 (MQ=255)
cGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCgg < 1:3844082/69‑1 (MQ=255)
cAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATa < 1:3845639/46‑1 (MQ=255)
cAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATcc > 1:2099575/1‑65 (MQ=255)
aaTCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATa < 1:769919/45‑1 (MQ=255)
aaTCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATa < 1:1773593/45‑1 (MQ=255)
|
AACTCCCGGCTTGTCCGGGAGTTTGAACGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACGCAATCTCTGCAATATATTGAATTTGCGTGCTTTTGTAGGCCGGATAAGGCGTTCACTCCGCATCCGG > minE/2293983‑2294115
|
| 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
