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 |
|
A2 F13 I0 R1
|
203 |
85.6 |
3649704 |
98.8% |
3605907 |
146.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
1,932,638:1 |
+C |
100% |
intergenic (‑105/+45) |
rluA ← / ← minE |
bifunctional tRNA pseudouridine(32) synthase TrmQ/ribosomal large subunit pseudouridine synthase RluA/cell division topological specificity factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 1,932,638 | 1 | . | C | 86.7%
| 42.6
/ 1.1
| 15 | intergenic (‑105/+45) | rluA/minE | bifunctional tRNA pseudouridine(32) synthase TrmQ/ribosomal large subunit pseudouridine synthase RluA/cell division topological specificity factor |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base C (12/1); total (13/2) |
| Fisher's exact test for biased strand distribution p-value = 2.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.21e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCT‑TG‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATATTT > NC_002947_CJ‑RC/1932543‑1932781
|
cACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCGCCTACAAAAGAGATGCGTCCCCTGTAGGAGCGGGGGT‑GG‑CCGCGCAGGGCGTCAACGGCGCCCCAAAATGTCGACTACGCGGATCAGCGAt > 2:260930/1‑149 (MQ=25)
ggCCCTCCGCGGCCACCCCCGCGCCAACAACGCATATCCCCCCCCTCTCGGCGC‑GGGCTGCC‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGagcag < 8:337016/149‑1 (MQ=255)
tCCTACAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGa > 8:398300/1‑149 (MQ=255)
cTACAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGata > 4:93801/1‑149 (MQ=255)
tACAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCAGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGatat > 6:252793/1‑149 (MQ=255)
aaaGGATATGCGTCCCCTGTAGGAGC‑GGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGca > 8:90160/1‑149 (MQ=255)
aGGATATGCGTCCCCTGTAGGAGC‑GGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATc < 5:450887/113‑1 (MQ=255)
aGGATATGCGTCCCCTGTAGGAGC‑GGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATc > 6:450887/1‑113 (MQ=255)
atatGCGTCCCCTGTAGGAGC‑GGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCAcatca > 7:293604/1‑149 (MQ=255)
tatGCGTCCCCTGTAGGAGC‑GGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCAcatcat > 8:152218/1‑149 (MQ=255)
gTCCCCTGTAGGAGC‑GGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGAACAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTg > 8:39067/1‑149 (MQ=255)
ccTGTAGGAGC‑GGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGa > 8:265520/1‑149 (MQ=255)
ggAGC‑GGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTc > 3:152889/1‑148 (MQ=255)
c‑GGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCTCATCATCGTTGCCGATGTTCACata > 7:46705/1‑149 (MQ=255)
gCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATAttt > 6:147975/1‑149 (MQ=255)
|
CACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCT‑TG‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATATTT > NC_002947_CJ‑RC/1932543‑1932781
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
