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 F59 I1 R1
|
58 |
78.7 |
3339874 |
98.5% |
3289775 |
147.1 |
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 | 95.2%
| 67.8
/ ‑2.9
| 21 | 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 (16/4); total (17/4) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
GCGGCGTCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCTTG‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCA > NC_002947_CJ‑RC/1932493‑1932774
|
gcggcgTCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCTTG‑cc < 6:84262/148‑1 (MQ=255)
aGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCCCGGCGGAAAAAGAAATGAGGGCCCGGGAGGAGCGGGGGTGG‑CCGCCAAGGGGAGCAAGGCAGCCCCAAAATGTAGa > 6:403033/1‑149 (MQ=255)
cAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGttt > 6:45478/1‑148 (MQ=255)
aaGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTc > 5:281917/1‑149 (MQ=255)
cccGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAg > 6:390989/1‑149 (MQ=255)
ccGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGAGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGc > 8:194488/1‑149 (MQ=255)
cGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCt > 1:249628/1‑149 (MQ=255)
aCAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGagcag < 1:251776/123‑1 (MQ=255)
aCAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGagcag > 2:251776/1‑123 (MQ=255)
aaaGGATATGCGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGca > 5:32628/1‑149 (MQ=255)
aaaGGATATGCGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTACAGCTCGATATGc > 3:250961/1‑148 (MQ=255)
aaGGATATGCGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGca > 4:211874/1‑148 (MQ=255)
aGGATATGCGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAACGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCACCGATCCGGAAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGcaca > 4:342334/1‑149 (MQ=39)
atatGCGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCAcatca > 4:38729/1‑149 (MQ=255)
tGCGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCg > 8:44964/1‑149 (MQ=255)
cGTCCCCTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGtt < 5:390989/149‑1 (MQ=255)
ccTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGa < 3:38729/149‑1 (MQ=255)
ccTGTAGGAGC‑GGGCCTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCCGATCAGCGATCCGGCACGGGGATGTTCAGCTCCAGAATCGAGCAGCTGCCCAGGTTTTCCAGCTCGATATGCACATCATAGTTGCCGa > 4:275684/1‑149 (MQ=38)
cTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTc > 1:215589/1‑119 (MQ=255)
cTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTc < 2:215589/119‑1 (MQ=255)
cTGTAGGAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGAt > 4:199352/1‑149 (MQ=255)
ggAGC‑GGGCTTGCCCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGTGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTca > 7:272017/1‑149 (MQ=255)
|
GCGGCGTCTTCGAAGAGGATCTGGACATTCGACAGCGGCATTGCAGGTCTCACGAAAATAGCAGTAAACGCTGGGGCCGCTTTGCGGCCCTTCGCGGGCAAGCCCGCTCCTACAAAGGATATGCGTCCCCTGTAGGAGC‑GGGCTTG‑CCGCGAAGGGCTGCAAGGCAGCCCCAAATTGTCGACTACGCGGATCAGCGATCCGGCAGGGTGATGTTCAGCTCCAGAATCGAGCAGCTGCCCTGGTTTTCCAGCTCGATATGCACATCATCGTTGCCGATGTTCA > NC_002947_CJ‑RC/1932493‑1932774
|
| 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
