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 |
|
A70 F1 I1 R1
|
18 |
48.6 |
3152226 |
95.8% |
3019832 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
2,478,071 |
C→T |
M173I (ATG→ATA) |
yfeY ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 2,478,071 | 0 | C | T | 93.0%
| 137.4
/ 3.4
| 43 | M173I (ATG→ATA) | yfeY | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (0/3); new base T (23/17); total (23/20) |
| Fisher's exact test for biased strand distribution p-value = 9.24e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.32e-02 |
TGTTCAGACGCAAATTAACGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGCATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTGACTGCCTTCGGCTTTAC > REL606/2478000‑2478141
|
ttttCAGACGCAAATTAACGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTa > 2:197952/3‑76 (MQ=255)
tGTTCAGACGCAAATTAACGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTa > 1:406579/1‑76 (MQ=255)
gCAAATTAACGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAg < 2:1332510/76‑1 (MQ=255)
cAAATTAACGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAgg < 1:726496/76‑1 (MQ=255)
cAAATTAACGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAgg < 1:1522083/76‑1 (MQ=255)
cAAATTAACGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAgg < 2:820642/76‑1 (MQ=255)
aaaTTAACGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGa > 1:963433/1‑76 (MQ=255)
aaaTTAACGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGa > 1:292221/1‑76 (MQ=255)
aaaTTAACGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGCATTAACCCTTCAGGa < 2:929026/76‑1 (MQ=255)
tAACGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCAc < 1:1437239/76‑1 (MQ=255)
tAACGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCAc > 1:666589/1‑76 (MQ=255)
aaCGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACg > 2:1349256/1‑76 (MQ=255)
aaCGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACg > 2:845344/1‑76 (MQ=255)
aGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTcccc > 1:481662/1‑76 (MQ=255)
aGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGCATTAACCCTTCAGGACCACGCCATTcccc < 2:1399823/76‑1 (MQ=255)
gATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCg < 2:777718/76‑1 (MQ=255)
tAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCt < 2:1142958/76‑1 (MQ=255)
aaTTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTg > 2:764102/1‑76 (MQ=255)
aaTTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTg < 2:1286626/76‑1 (MQ=255)
ttttACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGCATTAACCCTTCAGGACCACGCCATTCCCCGCTGaa < 1:456682/76‑1 (MQ=255)
ttACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACt < 2:1190782/76‑1 (MQ=255)
tACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTg > 1:1217983/1‑76 (MQ=255)
tGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTa > 2:1183300/1‑76 (MQ=255)
tGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTa > 2:927848/1‑76 (MQ=255)
tGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTa < 2:821679/76‑1 (MQ=255)
tGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTa < 2:821675/76‑1 (MQ=255)
ntCCAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTaa > 1:1129378/2‑76 (MQ=255)
cAGTTTTTCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAatat < 1:605781/76‑1 (MQ=255)
ttttCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGACCTGGAAGCTAATATGTTg > 1:661405/1‑76 (MQ=255)
ttttCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTg > 1:661408/1‑76 (MQ=255)
ttttCAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTg < 2:13503/76‑1 (MQ=255)
tttCGGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTGa > 1:844743/1‑76 (MQ=255)
cAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTGACTg > 1:976466/1‑76 (MQ=255)
cAGGGTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTGACTg < 1:1427018/76‑1 (MQ=255)
gTATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTGACTGCCtt < 2:406579/76‑1 (MQ=255)
tATCGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTGACTGCCTTc > 1:940688/1‑76 (MQ=255)
cGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGGTGAACTGGTAGCTAATATGTTGACTGCCTTCGGc > 1:182770/1‑76 (MQ=255)
cGTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTGACTGCCTTCGGc > 1:176892/1‑76 (MQ=255)
gTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGCACTGGTAGCTAATATGTTGACTGCCTTCGGCt > 2:97015/1‑76 (MQ=255)
gTCCGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTGACTGCCTTCGGCt > 1:500268/1‑76 (MQ=255)
ccGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTGACTGCCTTCGGCttt < 2:658817/76‑1 (MQ=255)
cGAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTGACTGCCTTCGGCTTTa > 1:169262/1‑76 (MQ=255)
gAAGGTATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTGACTGCCTTCGGCTTTAc < 1:502163/76‑1 (MQ=255)
|
TGTTCAGACGCAAATTAACGCCGCCAGATAATTTTACTGACTTTCCAGTTTTTCAGGGTATCGTCCGAAGGCATTAACCCTTCAGGACCACGCCATTCCCCGCTGAACTGGTAGCTAATATGTTGACTGCCTTCGGCTTTAC > REL606/2478000‑2478141
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
