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 |
3,845,703:1 |
+G |
100% |
intergenic (‑70/+28) |
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 | 93.3%
| 46.5
/ ‑3.2
| 15 | intergenic (‑70/+28) | PP_3394/PP_3395 | 3‑hydroxy‑3‑methylglutaryl‑CoA lyase/LysR family transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base G (9/5); total (10/5) |
| 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 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CTGCTGTCGGCATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑C‑GGCTGATCCATCGTCAGCCACGATGGATCAGCCCGCGCCCTGCCAGGCCGGTGCACGCAGCAACAGGTGGTCAAGCAGGCGCCGAGCCGACAGCGAGAGCGTGTGCCGGTCGCGCATGCAGATGACGAATT > NC_002947_CJ‑RC/3845558‑3845834
|
ctgctgTCGGCATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑C‑gg < 6:323070/148‑1 (MQ=255)
gctgTCGGCATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTATCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑C‑gggc > 5:281038/1‑146 (MQ=255)
ctgTCGGCATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑C‑gggc < 7:1957/147‑3 (MQ=255)
cATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑CGGGCTGATCCAt < 6:35192/148‑1 (MQ=255)
aTCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑CGGGCTGATCCATCGt < 8:398347/147‑1 (MQ=255)
tCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑CGGGCTGATCCATCGt > 6:386165/1‑146 (MQ=255)
aCTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTTAAGCGTTGCTCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑CGGGCTGATCCATCGTCAGc < 8:161094/148‑1 (MQ=255)
ctctGCAAGCCATCGCGCAGGCCGACTTGATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGGGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑CGGGCTCATCCATCGTCAGCCACGATGGAt < 3:375267/149‑1 (MQ=255)
ctctGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑CGGGCAGAAACATAGTAAGCCACCATggg > 8:205402/1‑147 (MQ=255)
aaGCCATCGCGCTGGCCGACTTCATTGATTGTTTTTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGAGGGGCAGAAAAGACGTGTTTCG‑CGGGCTGATCCATCGTCAGCCACGATGGATCAGccc < 2:189733/149‑1 (MQ=255)
aaGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGAGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCGCC‑GGCGGATACAACCTCACCCAACATGGCACAGccc > 2:283360/1‑149 (MQ=255)
cATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑CGGGCTTATACAAAGTCAGCCCAGATGGATAAGcccccc > 7:407545/1‑145 (MQ=255)
tCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTcg‑c > 2:220299/1‑108 (MQ=255)
tCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTcg‑c < 1:220299/108‑1 (MQ=255)
ttgttgTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑CGGGCTTATGCATACTAAGCCACGAGTGATCAGCCCGCCCCCGGCCCGGCCGGTGCCCGGCGCAACAgg > 5:184686/1‑148 (MQ=255)
ttgtCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑CGGGCTTATCCAATGGACGCCCCGCTGGGTGAGCCCGCGCCCAGGCCGGCCGGTGGCCCCCGCAACAggggg > 5:372312/1‑148 (MQ=255)
aTCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑CGGGCTGATCCATCGTCAGCCCCGATGGATAAGCCCGCGCCCTGCCAGGCCGGTGCACGCCGCAACAGGTGGTCAAg > 2:281617/1‑148 (MQ=255)
cgcgGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑CGGGCTGATCCATCGTCAGCCCCGATGGATCAGCCCGCGCCCTGCCAGGCCGGTGCACGCAGCCACAGGTGGTCAAg > 6:377692/1‑146 (MQ=255)
gggCAGAAAAGACGTGTTTCG‑CGGGCAGATACAAAGGGAGCCCCGAAGGGTGAGCCCCCCCCCAGCCCCGCCGGGGGCCCCAGCCACAGGTGGTGAAACAGGCGCCCCGCCGCCACCGAGAGCGTGTGGCGGTGGCGCAATCAGATGAc > 2:86116/1‑149 (MQ=255)
aaaGACGTGTTTCG‑CGGGCTGATACATAGTAAGCCACGATGGATCAGCCCCCCCCCAGCCAGGCCGGTGCACGCAGCAACAGGTGGTGAAACAGGCGCCCAGCCGACAGCGAGCGCGTGTGCCGGTCGCGCCAGCAGATGACGAAtt > 8:414689/1‑147 (MQ=255)
|
CTGCTGTCGGCATGATCACTTGCAGGCTCTGCAAGCCATCGCGCAGGCCGACTTCATTGATTGTTATTGTTGTCATCGCGGTCTCTCTGTCTGAAGCGTTGCGCCAGACTAAGAGCTGGATGACGGGCAGAAAAGACGTGTTTCG‑C‑GGCTGATCCATCGTCAGCCACGATGGATCAGCCCGCGCCCTGCCAGGCCGGTGCACGCAGCAACAGGTGGTCAAGCAGGCGCCGAGCCGACAGCGAGAGCGTGTGCCGGTCGCGCATGCAGATGACGAATT > NC_002947_CJ‑RC/3845558‑3845834
|
| 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
