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 F18 I1 R1
|
59 |
77.7 |
3515218 |
98.5% |
3462489 |
145.9 |
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 | 87.5%
| 46.6
/ 0.7
| 16 | 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 (13/1); total (14/2) |
| Fisher's exact test for biased strand distribution p-value = 2.42e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGGCGTCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGC‑TCCTACAAAGGATATGCG‑TCCCCTGTAGGAGC‑GGGCTT‑G‑CCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCA > NC_002947_CJ‑RC/1932494‑1932774
|
cggcgTCTGCCACGCGGAGCGGGACCTTCGACAGCGGCATGGCAGGTCGCACGAAAATCGCAGTAACCGCTGGGGCCGCTTGGCGGCCCGTCGCGGGCAAGCCCGC‑TCCTACAAAGGATATGCG‑CCCCCTGTAGGAGC‑GGGCTT‑G‑cccg < 8:426146/149‑3 (MQ=25)
aCGCTGGGGCCGCTTTGCGGCCCTTCGCGGGGCAGCCCGCGGCGTAAAAAGG‑TATGGG‑TGCCCGGTTGGGGCGGGGGTG‑G‑GCCCGCAGGGCGGGCAGGGCGGCCCC‑AATTTTGGGCTACGCGGGTCAGCGCTACGGGCGGGTGGTGtt > 2:6092/1‑148 (MQ=255)
gccggCTTGGGGGCCCTGCGCGGCCACGCCCCC‑CCCTACAATGTATA‑GCGCCCCCCTTTCGGCGG‑GGGCTTCC‑CCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCa < 2:277706/145‑1 (MQ=255)
gggCAAGCCCGC‑TCCTACAAAGGATATGCG‑TCCCCTGTAGGAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGa > 7:436616/1‑135 (MQ=255)
gCCCGC‑TCCTACAAAGGATATGCG‑TCCCCTGTAGGAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTc > 4:69071/1‑147 (MQ=255)
cccGC‑TCCTACAAAGGATATGCG‑TCCCCTGTAGGAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAg > 8:340452/1‑149 (MQ=255)
gC‑TCCTACAAAGGATATGCG‑TCCCCTGTAGGAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCa < 4:197797/118‑1 (MQ=255)
gC‑TCCTACAAAGGATATGCG‑TCCCCTGTAGGAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCa > 3:197797/1‑118 (MQ=255)
gC‑TCCTACAAAGGATATGCG‑TCCCCTGTAGGAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTc > 2:172622/1‑149 (MQ=255)
tCCTACAAAGGATATGCG‑TCCCCTGTAGGAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGa > 7:74129/1‑149 (MQ=255)
aaaGGATATGCG‑TCCCCTGTAGGAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGca > 5:41079/1‑149 (MQ=255)
aaGGATATGCG‑TCCCCTGTAGGAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGca > 3:313331/1‑148 (MQ=255)
gCG‑TCCCCTGTAGGAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGt > 6:377470/1‑149 (MQ=255)
ccccTGTAGGAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGcc > 4:19360/1‑149 (MQ=255)
cTGTAGGAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGAt > 6:333732/1‑149 (MQ=255)
tGTAGGAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATg > 7:106037/1‑149 (MQ=255)
gAGC‑GGGCTT‑GCCCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTca > 1:344215/1‑148 (MQ=255)
|
CGGCGTCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGC‑TCCTACAAAGGATATGCG‑TCCCCTGTAGGAGC‑GGGCTT‑G‑CCGCGAAGGGC‑TGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCA > NC_002947_CJ‑RC/1932494‑1932774
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
