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 |
834,677 |
G→C |
17.1% |
L1045L (CTG→CTC) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 834,677 | 0 | G | C | 17.1%
| 174.0
/ 26.5
| 76 | L1045L (CTG→CTC) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base G (32/31); new base C (4/9); total (36/40) |
| Fisher's exact test for biased strand distribution p-value = 2.32e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
ACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCC > minE/834610‑834747
|
aCAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTa < 1:2709250/70‑1 (MQ=255)
taaCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTa < 1:3553339/68‑1 (MQ=255)
aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTAt > 1:2042326/1‑69 (MQ=255)
aCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCa < 1:965805/70‑1 (MQ=255)
aCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAg > 1:807224/1‑71 (MQ=255)
cGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAgg < 1:2041313/71‑1 (MQ=255)
cGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt > 1:1650743/1‑70 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTAt < 1:3104310/63‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTAt < 1:2732990/63‑1 (MQ=255)
ttACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAc > 1:1316801/1‑70 (MQ=255)
tACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCatcc < 1:3462352/71‑4 (MQ=255)
acacCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCa < 1:3838051/70‑1 (MQ=255)
acCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAcc < 1:7733/67‑1 (MQ=255)
acCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTg < 1:3906863/71‑1 (MQ=255)
cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGa > 1:107192/1‑71 (MQ=255)
cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGa > 1:1683362/1‑71 (MQ=255)
gTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGc > 1:2720589/1‑70 (MQ=255)
gTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCg > 1:3904524/1‑71 (MQ=255)
tCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGt > 1:2369895/1‑70 (MQ=255)
tCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGt > 1:1241453/1‑70 (MQ=255)
cACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAg > 1:2554934/1‑60 (MQ=255)
cGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAtt < 1:202207/71‑1 (MQ=255)
cGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAtt < 1:269066/71‑1 (MQ=255)
cGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAtt < 1:2117088/71‑1 (MQ=255)
gAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAttt < 1:205397/71‑1 (MQ=255)
cTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAttt < 1:906536/68‑1 (MQ=255)
gATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCg < 1:519447/68‑1 (MQ=255)
aTCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTg < 1:2906606/53‑1 (MQ=255)
aTCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt < 1:1306503/69‑1 (MQ=255)
aTCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGa < 1:3213661/71‑1 (MQ=255)
tCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGa > 1:1478975/1‑54 (MQ=255)
tCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGa > 1:1831850/1‑54 (MQ=255)
tCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGa > 1:3933976/1‑70 (MQ=255)
ccATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAg > 1:3103255/1‑71 (MQ=255)
cATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGc > 1:3604711/1‑71 (MQ=255)
aTGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGcc > 1:1294340/1‑71 (MQ=255)
tGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAcc < 1:631000/43‑1 (MQ=255)
tGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAcc < 1:3759842/43‑1 (MQ=255)
tGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCct > 1:649083/1‑71 (MQ=255)
tGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCct < 1:3139982/71‑1 (MQ=255)
gcgcACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGa < 1:598416/63‑1 (MQ=255)
gcgcACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGa < 1:3624194/63‑1 (MQ=255)
gCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCctgc < 1:1219791/71‑1 (MQ=255)
cGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCctg < 1:2218364/69‑1 (MQ=255)
gTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCctgctg < 1:2237273/71‑1 (MQ=255)
aCGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCtggtggc > 1:2513776/1‑70 (MQ=255)
cGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGt > 1:1391373/1‑56 (MQ=255)
cGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGtt < 1:1766230/71‑1 (MQ=255)
cGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGt < 1:1069052/70‑1 (MQ=255)
gCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCtggtggct > 1:921693/1‑68 (MQ=255)
gCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCtggtggct > 1:1339550/1‑68 (MQ=255)
gCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCCTGGTGGctt < 1:1594662/71‑1 (MQ=255)
gCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGtt > 1:3119623/1‑70 (MQ=255)
ctctctGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAttt > 1:1865375/1‑50 (MQ=255)
ctctctGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAttt > 1:1459784/1‑50 (MQ=255)
ctctctGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAttt > 1:602307/1‑50 (MQ=255)
ctctctGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTa < 1:211357/71‑1 (MQ=255)
ctGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGaaa > 1:2364691/1‑54 (MQ=255)
ctGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGt > 1:372095/1‑71 (MQ=255)
tGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTc > 1:1663510/1‑71 (MQ=255)
tcgtcAGCAACTGTATCAGGATCACCAGTGGATGc < 1:2082184/35‑1 (MQ=255)
gtcAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTccgccg < 1:3034171/71‑1 (MQ=255)
gtcAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTccgccg < 1:432688/71‑1 (MQ=255)
agcagcTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCct < 1:463309/49‑1 (MQ=255)
aGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTccgcc > 1:1179273/1‑67 (MQ=255)
aGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTccgcc > 1:3103029/1‑67 (MQ=255)
gCAGCTCTATCAGGATCATCCGTGGATGCGTGCTTTTGGTGAAAGCct < 1:2479820/48‑1 (MQ=255)
gCAACTGTATCAGGATCACCAGTGGATTCGTGATTTCGGTGAAAGCCTGCTGGTTTATCg < 1:2242873/60‑1 (MQ=255)
gCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAg > 1:3530863/1‑45 (MQ=255)
gCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCg < 1:1606177/71‑1 (MQ=255)
cAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCGTGCTGGTTTa > 1:3890062/1‑56 (MQ=255)
aCTGTATCAGGATCACCAGTGGATGGGTGATTTCGGTGAAAGc > 1:2328104/1‑43 (MQ=255)
aCTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGaca > 1:817567/1‑71 (MQ=255)
aCTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGa < 1:3585401/69‑1 (MQ=255)
cTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGacac > 1:838356/1‑71 (MQ=255)
tGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATc < 1:3039403/65‑1 (MQ=255)
gTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACAccc > 1:719501/1‑71 (MQ=255)
|
ACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGGTGAAAGCCTGCTGGTTTATCGTCCGCCGATCGACACCC > minE/834610‑834747
|
| 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
