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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,987,171 |
G→A |
38.9% |
G12G (GGC→GGT) |
araG ← |
fused L‑arabinose transporter subunits and ATP‑binding components of ABC superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,987,171 | 0 | G | A | 38.9%
| 42.0
/ 58.0
| 54 | G12G (GGC→GGT) | araG | fused L‑arabinose transporter subunits and ATP‑binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base G (22/11); new base A (7/14); total (29/25) |
| Fisher's exact test for biased strand distribution p-value = 2.52e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.30e-01 |
AACCTGACCGGCATAGCAGTCAAAACTAATATCCGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCACTGGTCGTTCACAC > W3110S.gb/1987102‑1987237
|
aaCCTGACCGGCATAGCAGTCAAAACTAATATCCGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATGc > 1:5045028/1‑71 (MQ=255)
aaCCTGACCGGCATAGCAGTCAAAACTAATATCCGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATGc < 1:5057999/71‑1 (MQ=255)
ggCATAGCAGTCAAAACTAATATCCGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATACCGCGAAATg < 1:3104073/71‑1 (MQ=255)
gCATAGCAGTCAAAACTAATATCCGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATGCCGCGAAAt > 1:1876065/1‑69 (MQ=255)
gTCAAAACTAATATCCGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATACCGCGAAATGAGAGATACg < 1:4185835/71‑1 (MQ=255)
tCAAAACTAATATCCGTCAGCGCCTTAACGCCGGTAAACGTTTTACCGATGCCGCGAAATGAGAGATa < 1:4389947/68‑1 (MQ=255)
tCAAAACTAATATCCGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATGCCGCGaa < 1:4189541/58‑1 (MQ=255)
aaaaCTAATATCCGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATACCGCGAAATGAGAGATACgg > 1:3840712/1‑69 (MQ=255)
atatCCGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATACCGCGAAATGAGAGATACGGGGTAGACTg < 1:4165907/71‑1 (MQ=255)
atCCGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATACCGCGAAATGAGAGATACGGGGTAGACTGtt > 1:2124216/1‑71 (MQ=255)
cGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATGCCGCGAAATgaga > 1:3333434/1‑50 (MQ=255)
cGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTg > 1:1975091/1‑69 (MQ=255)
cGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCa > 1:1764931/1‑71 (MQ=255)
cGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCa > 1:3136645/1‑71 (MQ=255)
gTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATACCGCGAAATGAGAGATACGGGGTAGACTGTTGCAt < 1:1676583/71‑1 (MQ=255)
gTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATACCGCGAAATGAGAGATACGGGGTAGACTGTTGCAt < 1:3770383/71‑1 (MQ=255)
gTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATACCGCGAAATGAGAGATACGGGGTAGACTGTTGCAt < 1:1462949/71‑1 (MQ=255)
tCAGCGCCTTAACGCCGGGAAACGTTTTACCGATGCCGCGAAATgagaga < 1:1359202/50‑1 (MQ=255)
tCAGCGCCTTAACGCCGGGAAACGTTTTACCGATACCGCGAAAt < 1:1182185/44‑1 (MQ=255)
cAGCGCCTTAACGCCGGGAAACGTTTTACCGATGCCGCGAAATgagaga < 1:522683/49‑1 (MQ=255)
cAGCGCCTTAACGCCGGGAAACGTTTTACCGATACCGCGAAAt < 1:1924112/43‑1 (MQ=255)
aGCGCCTTAACGCCGGGAAACGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAAc > 1:1889302/1‑71 (MQ=255)
aGCGCCTTAACGCCGGGAAACGTTTTACCGATGCCGAGAAATGAGAGATACGGGGTAGACTGTTGCATAAc > 1:4722623/1‑71 (MQ=255)
aGCGCCTTAACGCCGGGAAACGTTTTACCGATACCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAAc < 1:2621097/71‑1 (MQ=255)
cTTAACGCCGGGAAACGTTTTACCGATACCGCGAAATGAGAGATACGGGGTAGa > 1:4682559/1‑54 (MQ=255)
cTTAACGCCGGGAAACGTTTTACCGATACCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGtctc > 1:66097/1‑71 (MQ=255)
ttAACGCCGGGAAACGTTTTACCGATGCCGCGAAATgaga > 1:1227761/1‑40 (MQ=255)
ttAACGCCGGGAAACGTTTTACCGATACCGCGAAATgagaga < 1:4989634/42‑1 (MQ=255)
tAACGCCGGGAAACGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGtt < 1:4105335/57‑1 (MQ=255)
tAACGCCGGGAAACGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCAt > 1:2533345/1‑61 (MQ=255)
tAACGCCGGGAAACGTTTTACCGATACCGCGAAATgagaga < 1:70651/41‑1 (MQ=255)
tAACGCCGGGAAACGTTTTACCGATACCGCGAAATgagaga < 1:1247949/41‑1 (MQ=255)
aaCGCCGGGAAACGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGa > 1:982767/1‑51 (MQ=255)
aaCGCCGGGAAACGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGt > 1:3592022/1‑71 (MQ=255)
aaCGCCGGGAAACGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGt > 1:3150035/1‑71 (MQ=255)
aaCGCCGGGAAACGTTTTACCGATACCGCGAAATGAGAGATa > 1:806751/1‑42 (MQ=255)
aCGCCGGGAAACGTTTTACCGATACCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGt < 1:691716/70‑1 (MQ=255)
aCGCCGGGAAACGTTTTACCGATACCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTg < 1:2316720/71‑1 (MQ=255)
ccGGGAAACGTTTTACCGATGCCGCGAAATgagaga > 1:4626659/1‑36 (MQ=255)
ccGGGAAACGTTTTACCGATGCCGCGAAATgagaga > 1:3133045/1‑36 (MQ=255)
aaaCGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCACTg < 1:4620676/71‑1 (MQ=255)
aaaCGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTACGTGaa > 1:2889192/1‑65 (MQ=255)
cGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCAc > 1:4007380/1‑66 (MQ=255)
cGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCAc > 1:163495/1‑66 (MQ=255)
cGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCAc > 1:183344/1‑66 (MQ=255)
cGTTTTACCGATACCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCACTGGTc > 1:1618657/1‑71 (MQ=255)
tttACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCACTGGTCGtt > 1:5043832/1‑71 (MQ=255)
tttACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCACTGGTCGtt > 1:4323567/1‑71 (MQ=255)
ttACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCACTGGTCg < 1:466228/68‑1 (MQ=255)
ttACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCACTGGTCg < 1:353706/68‑1 (MQ=255)
ttACCGATGCCGAGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCACTGGTCGtt < 1:4070558/70‑1 (MQ=255)
ttACCGATACCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCACTGGTCGtt > 1:4310897/1‑70 (MQ=255)
cGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCACTGGTCGTTCacac > 1:2033262/1‑71 (MQ=255)
gATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCACTGGTCGtt < 1:4537507/65‑1 (MQ=255)
gCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTg < 1:2821195/48‑1 (MQ=255)
|
AACCTGACCGGCATAGCAGTCAAAACTAATATCCGTCAGCGCCTTAACGCCGGGAAACGTTTTACCGATGCCGCGAAATGAGAGATACGGGGTAGACTGTTGCATAACGTCTCCGTGAATCACTGGTCGTTCACAC > W3110S.gb/1987102‑1987237
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
