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 F43 I1 R1
|
60 |
76.0 |
3234326 |
98.3% |
3179342 |
146.8 |
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 | 81.2%
| 42.3
/ 4.6
| 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 . (3/0); new base C (10/3); total (14/3) |
| 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 |
GCGGCGTCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTG‑TAGGAGCGGGCTTG‑CC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATATTT > NC_002947_CJ‑RC/1932493‑1932781
|
gcggggTCTTCTATGTGTATCTGGACATTCGACAGCGGAATTGCAGGTCTCACTAAATTAGCTGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTG‑TAGGAGCGGGCTTG‑ccc < 4:287371/149‑2 (MQ=37)
ggACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCCCGGCGTCAAAGGTTATTGGTGCCCGGTTTGGGGCGGGGTGG‑CC‑GCGCAGGGCGGGAAGGCCGccc > 2:24823/1‑149 (MQ=255)
gACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAACCCCCACCAACAAAGGAAATGCCTACCCAG‑TAAGAGCGGGCATGACC‑GCGCAAGGCAGCAAAGCAGCCCCAAAATg > 2:241648/1‑148 (MQ=255)
ctcACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGGCAGCCCGCTCCGAGAAAGGATATGCGTGCGCGG‑TAGGGGCGGGGGTG‑CCGGCGCAGGGGTGGAAGGGAGCCGCCAAGTGTGGCCGACGCGGaggaggg > 6:371788/1‑143 (MQ=255)
ccgcgGGGGCCGTTTTGGGCCCCTTGGGGGTAACGCCCGCTCATAAAATGTATTTGGGCCCCTTG‑TCGGCGGGGGCTTGCCC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTc < 6:82126/148‑1 (MQ=255)
ggCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTG‑TAGGAGCGGGCTTG‑CCAGCGAATGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATAAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATAGAGCAGCTGCCATGGtt > 4:290007/1‑149 (MQ=255)
gCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTG‑TAGGAGCGGGCTTGCCC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGttt > 3:138757/1‑149 (MQ=255)
ccGCTCCTACAAAGGATATGCGTCCCCTG‑TAGGAGCGGGCTTGCCC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAg > 8:93326/1‑103 (MQ=255)
ccGCTCCTACAAAGGATATGCGTCCCCTG‑TAGGAGCGGGCTTGCCC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAg < 7:93326/103‑1 (MQ=255)
ccGCTCCTACAAAGGATATGCGTCCCCTG‑TAGGAGCGGGCTTGCCC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGc > 4:156072/1‑149 (MQ=255)
tCCTACAAAGGATATGCGTCCCCTG‑TAGGAGCGGGCTTGCCC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGa > 7:267271/1‑149 (MQ=255)
cTACAAAGGATATGCGTCCCCTG‑TAGGAGCGGGCTTGCCC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGata > 7:118295/1‑149 (MQ=255)
tACAATGGATATGCGTCCCCTG‑TAGGAGCGGGCTTGCCC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGatat > 5:48969/1‑149 (MQ=255)
tACAAAGGATATGCGTCCCCTG‑TAGGAGCGGGCTTGCCC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGatat < 4:138757/149‑1 (MQ=255)
tACAAAGGATATGCGTCCCCTG‑TAGGAGCGGGCTTGCCC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGatat > 2:13698/1‑149 (MQ=255)
cAAAGGATATGCGTCCCCTG‑TAGGAGCGGGCTTGCCC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATg > 1:82537/1‑148 (MQ=255)
tGCGTCCCCTG‑TAGGAGCGGGCTTGCCC‑GCGAAGGGCTGCAATGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCg > 3:202528/1‑149 (MQ=255)
gCTTGCCC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATAttt > 5:377323/1‑149 (MQ=255)
|
GCGGCGTCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTG‑TAGGAGCGGGCTTG‑CC‑GCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCACATATTT > NC_002947_CJ‑RC/1932493‑1932781
|
| 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
