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 |
|
A22 F1 I1 R1
|
17 |
44.7 |
2806446 |
96.5% |
2708220 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,156,704 |
Δ1 bp |
coding (1255/3093 nt) |
ebgA → |
cryptic beta‑D‑galactosidase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,156,704 | 0 | C | . | 96.3%
| 118.1
/ ‑1.0
| 27 | coding (1255/3093 nt) | ebgA | cryptic beta‑D‑galactosidase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base . (13/13); minor base T (0/1); total (13/14) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
CGGAAACCGACGTCGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCGCAGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCATATCCACGCGCAGAAAAACCATCCGTCGAT > REL606/3156636‑3156771
|
cGGAAACCGACGTCGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGaa < 2:485781/76‑1 (MQ=255)
ggAAACCGACGTCGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGaaa > 1:221376/1‑76 (MQ=255)
aaaCCGACGTCGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGaaaaa < 2:686281/76‑1 (MQ=255)
aaaCCGACGTCGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGaaaaa < 2:1246688/76‑1 (MQ=255)
ccGACGTCGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTc < 2:574959/76‑1 (MQ=255)
gACGTCGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCGC‑GTGGGAAAAAGTCTa > 2:807744/1‑76 (MQ=255)
gACGTCGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGGAAAAGTCTa > 2:807727/1‑76 (MQ=255)
aCGTCGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTAc < 2:1060870/76‑1 (MQ=255)
gTCGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTACGt > 1:965057/1‑76 (MQ=255)
cGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCg < 2:453234/76‑1 (MQ=255)
cGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCg > 1:575409/1‑76 (MQ=255)
cGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCg < 2:1022966/76‑1 (MQ=255)
aaTCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCGAg > 2:1356049/1‑76 (MQ=255)
cTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCGAGCGCATTGTTc > 2:1249102/1‑76 (MQ=255)
tttGCTAATTTCGGCGATATTAGCCGTATTACCGACGATCC‑TAGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCg < 1:1105300/76‑1 (MQ=255)
gCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCa < 2:80910/76‑1 (MQ=255)
aaTGTCGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCatat > 2:320550/1‑76 (MQ=255)
cGGCGATATTAGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCATATCCAcg > 2:829522/1‑76 (MQ=255)
gATATTAGGCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCATATCCACGCGCa > 1:54253/1‑76 (MQ=255)
atatTAGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCATATCCACGCGCAg < 1:377083/76‑1 (MQ=255)
ttAGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCATATCCACGCGCAGaaa > 2:292097/1‑76 (MQ=255)
aGCCGTATTACCGACGATCCG‑AGTGGGACAAAGTCTACGTCGAGCGCATTGTTCGCCATATCCACGCGCAGaaaac > 1:142555/1‑75 (MQ=255)
aGCCGTATTACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCATATCCACGCGCAGaaaaa < 1:804615/76‑1 (MQ=255)
aTTACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCATATCCACGCGCAGAAAAACCATcc > 2:1135436/1‑76 (MQ=255)
tACCGACGATCCG‑AGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCATATCCACGCGCAGAAAAACCATCCGt < 1:978573/76‑1 (MQ=255)
cgacgaTCCG‑AGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCATATCCACGCGCAGAAAAACCATCCGTCGa > 2:226701/1‑76 (MQ=255)
gacgaTCCG‑AGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCATATCCACGCGCAGAAAAACCATCCGTCGat < 1:987924/76‑1 (MQ=255)
gacgaTCCG‑AGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCATATCCACGCGCAGAAAAACCATCCGTCGat < 2:636334/76‑1 (MQ=255)
|
CGGAAACCGACGTCGAATCGCACGGCTTTGCTAATGTCGGCGATATTAGCCGTATTACCGACGATCCGCAGTGGGAAAAAGTCTACGTCGAGCGCATTGTTCGCCATATCCACGCGCAGAAAAACCATCCGTCGAT > REL606/3156636‑3156771
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
