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 F13 I1 R1
|
59 |
72.5 |
3655346 |
98.4% |
3596860 |
137.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
1,932,640 |
+C |
intergenic (‑107/+43) |
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 | 95.7%
| 75.7
/ ‑3.2
| 23 | 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 . (1/0); new base C (15/7); total (16/7) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGGCGGCGTCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCT‑TG‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACA > NC_002947_CJ‑RC/1932491‑1932776
|
tGGCGGCGTCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCT‑TG‑c < 5:339092/149‑1 (MQ=255)
cATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGGAAACCCCAACCAACAAAAGTTTTTCGGACCCGGTTGGTGAGGGCTGGG‑ACCCGAACGGGTGCAAGGGAGccccc > 8:436050/1‑147 (MQ=255)
cGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCaaa > 1:147723/1‑71 (MQ=255)
cGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCaaa < 2:147723/71‑1 (MQ=255)
tCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCa < 8:200928/116‑1 (MQ=255)
tCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCa > 7:200928/1‑116 (MQ=255)
aaGGATATGCGTCCCCTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGca > 1:266033/1‑148 (MQ=255)
aaGGATATGCGTCCCCTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGca > 2:210992/1‑148 (MQ=255)
aGGATATGCGTCCCCTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGc < 8:255687/81‑1 (MQ=255)
aGGATATGCGTCCCCTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGc > 7:255687/1‑81 (MQ=255)
aGGATATGCGTCCCCTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGcaca > 4:380132/1‑149 (MQ=255)
gCGTCCCCTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGt > 5:26450/1‑149 (MQ=255)
gTCCCCTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTg > 6:154868/1‑149 (MQ=255)
tCCCCTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGc > 6:116959/1‑149 (MQ=255)
tCCCCTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGc < 6:26450/149‑1 (MQ=255)
cccTGTAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCg < 5:154868/149‑1 (MQ=255)
tAGGAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTcc < 3:117407/117‑1 (MQ=255)
tAGGAGCGGGCT‑TGCCCGCGAAGGGCAGCAAGGCAGCCCCAAATTGTAGACTACGCGGATCAGCCATCCGGCAGGGTGAAGTTAAGCTCCAGAATCGAGCAGCTGCCCAGGttttac > 4:117407/1‑115 (MQ=37)
aGGAGCGGGCT‑TGCCCGCGACGGGCTGCAAGGCAGCCCCAAATTGTCCACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCCAGCAGCTGCCGTGGTGAACCAGCTCGATATGCACATCATCGATGCCGATGtt > 2:434189/1‑148 (MQ=255)
ggAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTca < 5:116959/149‑1 (MQ=255)
gAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATTCACATCATCGTTGCCGATGTTca > 3:206257/1‑148 (MQ=255)
gAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTca > 2:329061/1‑148 (MQ=255)
gAGCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGAAGTTca > 8:3365/1‑148 (MQ=255)
gCGGGCT‑TGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTcaca > 4:311201/1‑148 (MQ=255)
|
TGGCGGCGTCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCT‑TG‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACA > NC_002947_CJ‑RC/1932491‑1932776
|
| 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
