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 |
|
A1 F29 I1 R1
|
57 |
65.8 |
2790598 |
98.6% |
2751529 |
146.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
3,845,705 |
+G |
intergenic (‑72/+26) |
PP_3394 ← / ← PP_3395 |
3‑hydroxy‑3‑methylglutaryl‑CoA lyase/LysR family transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 3,845,703 | 1 | . | G | 94.1%
| 52.9
/ NA
| 17 | intergenic (‑70/+28) | PP_3394/PP_3395 | 3‑hydroxy‑3‑methylglutaryl‑CoA lyase/LysR family transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base . (0/0); major base G (11/5); minor base T (0/1); total (11/6) |
| Fisher's exact test for biased strand distribution p-value = 3.53e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCTGCTGTCGGCATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGC‑‑GGCTGATCCATCGTCAGCCACGATGGATCAGCCCGCGCCCTGCCAGGCCGGTGCACGCAGCAACAGGTGGTCAAGCAGGCGCCGAGCC > NC_002947_CJ‑RC/3845557‑3845791
|
gctgctGTCGGCATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGAGTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGC‑‑gg > 6:15607/1‑149 (MQ=255)
ctgTCGGCATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGATGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGC‑‑gggc < 3:148323/147‑3 (MQ=255)
ctgTCGGCATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGACTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGC‑‑gggct < 5:15607/148‑4 (MQ=255)
gTCGGCATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCTGAt > 5:203949/1‑149 (MQ=255)
tCGGCATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCTGAt < 3:203734/148‑1 (MQ=255)
ggCATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCTGATCCa < 2:106225/149‑1 (MQ=255)
cATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCTGATCCATc < 4:294076/149‑1 (MQ=255)
cATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCTGATCCATc < 6:203949/149‑1 (MQ=255)
aCTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTTCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCT‑GGCTGATCCATCGTCAGc < 8:355159/148‑1 (MQ=255)
aGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCTGATCCATCGTCAGCCACGATg < 7:178104/149‑1 (MQ=255)
gCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCTGATCCATCGTCAGCCACGATGGa > 6:92251/1‑149 (MQ=255)
tGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCTTATACAACGGCAGCCCCGCTGGATCAg > 1:47015/1‑149 (MQ=255)
ttCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCT‑GATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCTTATACATAGTGAGCCACGATGGATAAGCCCGCGCCCGGCCCGGGCGGTgga > 2:186352/1‑147 (MQ=255)
ttgttattgttGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCTGATCCATCGTCAGCCACGATGGATCAGCCCGCGCCCTGCCAGGCCGGTGCACgcagc > 6:172179/1‑148 (MQ=255)
tgttattgttGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCAGATACAACGTCAGCCACGATGGATCAGCCCCCGCCCAGCCAGGCCGGTGCCCccagca > 2:16857/1‑148 (MQ=255)
attgttGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCGGGGCTGATCAATCGGCCGCCACGATGGATCAGCCCCCCCCCTCCCAGGGCGGTGCACCCAGAAACAg > 1:76157/1‑149 (MQ=255)
attgttGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCTTATACATCCTCAGCCACGATTGGTAAGCCCGCGCCCCGGCAGGCCGGTGGACGGCGCAACaag > 5:146031/1‑147 (MQ=255)
ttgtCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCAGATAAATCGTCAGCCCCCATGGATCAGCCCGCGCCCTGCCAGGCCCGTGCACGCAGCAACAcgtgg > 8:89419/1‑148 (MQ=255)
gtCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCAGATACAAAGTAACGCACGAATGATAACCCCGCCCCCAGCCAGGGCGGTGCAAGCAACAACAAGTGGTc > 5:349045/1‑148 (MQ=255)
ctgtctgAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCG‑GGCTGATCCATAGTCAGCCACGATGGGTCAGCCCGCGCCCTGCCAGGCCGGTGGACGCCGCAACAGGTGGTGAAGCAGgcgccgcgcc > 2:4107/1‑149 (MQ=255)
|
GCTGCTGTCGGCATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGC‑‑GGCTGATCCATCGTCAGCCACGATGGATCAGCCCGCGCCCTGCCAGGCCGGTGCACGCAGCAACAGGTGGTCAAGCAGGCGCCGAGCC > NC_002947_CJ‑RC/3845557‑3845791
|
| 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
