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 |
|
A3 F14 I0 R1
|
206 |
76.7 |
3255580 |
98.8% |
3216513 |
146.3 |
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 | 94.1%
| 51.8
/ ‑2.9
| 17 | 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 . (0/1); new base C (12/4); total (12/5) |
| Fisher's exact test for biased strand distribution p-value = 2.94e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.71e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
ATGGCGGCGTCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTT‑G‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCAC > NC_002947_CJ‑RC/1932490‑1932775
|
aTGGCGGCGTCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTT‑g < 2:3735/149‑1 (MQ=255)
gcccGCTTTGGGGCCCTGGTCGGTCAACCCCGCTCAAAAAATGCATCTCCTCCCCCTGTTGTAGCGGGTTTCC‑CCGCTAAGGGCTGCAAGGCAGCCACAAATTGTCGACTACGCGGATCAGAGATCCGGCAGGGTGATGTTCAGCTCCa < 2:248052/147‑1 (MQ=255)
gCATGCCCGCTCCTACAATGGTTATGCGTCCCCTGTAGGTGCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGtt < 6:275625/148‑1 (MQ=39)
gCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGtt > 5:324547/1‑148 (MQ=255)
cAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGttt > 5:275625/1‑148 (MQ=255)
gCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTc > 4:59910/1‑147 (MQ=255)
ccccccaccTACAAAGTATATGCGCCCCGTTTTGGGGGGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTcc < 8:328683/141‑1 (MQ=255)
ccGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAg > 6:71238/1‑148 (MQ=255)
ccGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGc > 3:152950/1‑149 (MQ=255)
cGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGc > 5:272071/1‑148 (MQ=255)
cGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCACGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTACAGCt > 3:228462/1‑149 (MQ=255)
gCTCCAACAATGTATATCCGGCCCCTGTCGGTGGGGTTTG‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCt < 6:292207/148‑1 (MQ=255)
aaaGGATATGCGTCCCCTGTAGGAGCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATg > 7:49648/1‑147 (MQ=255)
aaGGATATGCGTCCCCTGTAGGAGCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGcac < 3:59910/149‑1 (MQ=255)
ccTGTAGGAGCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGa > 2:395140/1‑149 (MQ=255)
tGTAGGAGCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGAt > 6:382431/1‑148 (MQ=255)
tAGGAGCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGtt > 2:298148/1‑149 (MQ=255)
gCGGGCTT‑GCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTcac > 6:21031/1‑147 (MQ=255)
|
ATGGCGGCGTCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGCGGGCTT‑G‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCAC > NC_002947_CJ‑RC/1932490‑1932775
|
| 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
