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 |
|
A4 F3 I0 R1
|
18 |
59.7 |
2976598 |
98.0% |
2917066 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,359,867 |
G→A |
46.1% |
noncoding (1228/2905 nt) |
rrlA ← |
23S ribosomal RNA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,359,867 | 0 | G | A | 46.1%
| 52.6
/ 109.3
| 78 | noncoding (1228/2905 nt) | rrlA | 23S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base G (24/18); new base A (18/18); total (42/36) |
| Fisher's exact test for biased strand distribution p-value = 6.49e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01 |
GCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCG > minE/2359818‑2359934
|
gCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAg > 1:2877986/1‑71 (MQ=34)
gCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAg > 1:2068957/1‑71 (MQ=34)
gCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAg < 1:139878/71‑1 (MQ=34)
tttATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAgg > 1:306494/1‑70 (MQ=255)
tATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt > 1:757652/1‑70 (MQ=35)
aTCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt < 1:2392173/69‑1 (MQ=255)
tCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTa < 1:2522956/70‑1 (MQ=35)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACa < 1:2011619/70‑1 (MQ=35)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:1446342/71‑1 (MQ=34)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAg < 1:244078/71‑1 (MQ=34)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACa < 1:1234611/70‑1 (MQ=255)
gTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg < 1:2578033/71‑1 (MQ=255)
ttACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAg > 1:1860133/1‑70 (MQ=255)
ttACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGa < 1:1320649/71‑1 (MQ=255)
tACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTa > 1:1908192/1‑66 (MQ=255)
tACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTa > 1:1770748/1‑66 (MQ=255)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa < 1:1645731/70‑1 (MQ=35)
aCTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa > 1:1304051/1‑70 (MQ=255)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTca > 1:927730/1‑53 (MQ=31)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTTACAGTACACCTTCACAGGCTTACAGAACGc < 1:309652/69‑1 (MQ=11)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAg > 1:1086804/1‑56 (MQ=11)
aTGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCt > 1:1642377/1‑59 (MQ=11)
aTGTCAGCATTCCCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTc > 1:305887/1‑71 (MQ=11)
tGTCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTcc > 1:2438209/1‑71 (MQ=255)
tCAGCATTCGCACTTCTGATACCTCCAGCATGCGTCACAGCACACCTTCACAGGCTTACAGa < 1:2934585/62‑1 (MQ=25)
tCAGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTcccc < 1:1281251/71‑1 (MQ=255)
cAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa > 1:1102336/1‑62 (MQ=35)
cAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTcccc > 1:720535/1‑70 (MQ=35)
aGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCt < 1:1667240/70‑1 (MQ=255)
aGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCt < 1:2878774/70‑1 (MQ=255)
aGCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCt < 1:1380882/70‑1 (MQ=255)
gCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAc < 1:2199996/71‑1 (MQ=255)
gCATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAc > 1:1961986/1‑71 (MQ=255)
cATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTcaca > 1:586703/1‑48 (MQ=38)
cATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTAc > 1:2725492/1‑55 (MQ=35)
cATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAcc > 1:211403/1‑71 (MQ=34)
cATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTca > 1:497636/1‑46 (MQ=11)
cATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAcc > 1:308094/1‑71 (MQ=255)
cATTCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTAcc > 1:2931378/1‑71 (MQ=255)
aTTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAccc < 1:1653236/71‑1 (MQ=34)
ttCGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAg < 1:1139034/47‑1 (MQ=11)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTa < 1:1548328/50‑1 (MQ=38)
cGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCcaa > 1:724396/1‑70 (MQ=35)
cGCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTa > 1:528784/1‑50 (MQ=11)
gCACTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCtt < 1:1225384/48‑1 (MQ=11)
aCTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTa < 1:1162471/47‑1 (MQ=38)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa < 1:33267/51‑1 (MQ=11)
cTTCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacg > 1:1881897/1‑70 (MQ=255)
ttCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGaa < 1:1713944/50‑1 (MQ=38)
ttCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca > 1:1526864/1‑70 (MQ=37)
ttCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAacaaca > 1:1903302/1‑70 (MQ=37)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACa < 1:426962/47‑1 (MQ=11)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTc < 1:1432454/55‑1 (MQ=11)
ttCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTc < 1:108771/55‑1 (MQ=11)
tCTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacgc > 1:1826267/1‑68 (MQ=11)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca > 1:799297/1‑70 (MQ=40)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca > 1:920005/1‑70 (MQ=40)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca > 1:1374879/1‑70 (MQ=40)
cTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAAcaca > 1:2169013/1‑70 (MQ=40)
cTGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACGCTCCCCTACCCaacaacgc < 1:826395/69‑3 (MQ=11)
tGATACCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGAACg < 1:1927841/49‑1 (MQ=11)
gATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCt < 1:2790287/39‑1 (MQ=40)
gATACCTCCAGCATGCCTCACAGCAAACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAg > 1:313576/1‑71 (MQ=255)
aTACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACAt < 1:2048371/68‑1 (MQ=40)
aTACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACAt < 1:2045103/68‑1 (MQ=40)
aTACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgt < 1:1723937/71‑1 (MQ=255)
aTACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgt < 1:398862/71‑1 (MQ=255)
aTACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgt < 1:1844809/71‑1 (MQ=255)
aTACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgt > 1:1085545/1‑71 (MQ=255)
aCCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAgtgt > 1:1194434/1‑71 (MQ=255)
aCCTCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa > 1:630096/1‑43 (MQ=14)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGc > 1:163174/1‑71 (MQ=255)
tCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGc > 1:1619741/1‑71 (MQ=255)
tCCAGCATACCTCACAGTACACCTTCACAGGCTTACAGaa > 1:2862434/1‑40 (MQ=14)
aGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTAccc > 1:835440/1‑50 (MQ=38)
aGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGc < 1:2711943/71‑1 (MQ=255)
cATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCg > 1:411978/1‑71 (MQ=255)
cATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCg > 1:1735442/1‑71 (MQ=255)
|
GCTTTATCGTTACTTATGTCAGCATTCGCACTTCTGATACCTCCAGCATGCCTCACAGCACACCTTCACAGGCTTACAGAACGCTCCCCTACCCAACAACACATAGTGTCGCTGCCG > minE/2359818‑2359934
|
| 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
