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 F17 I0 R1
|
71 |
95.7 |
2922988 |
91.7% |
2680379 |
65.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
798,949 |
C→T |
34.1% |
M214I (ATG→ATA) |
treA ← |
periplasmic trehalase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 798,949 | 0 | C | T | 34.1%
| 47.9
/ 40.4
| 44 | M214I (ATG→ATA) | treA | periplasmic trehalase |
| Reads supporting (aligned to +/- strand): ref base C (27/2); new base T (9/6); total (36/8) |
| Fisher's exact test for biased strand distribution p-value = 1.26e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.86e-01 |
CAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATA > minE/798898‑799012
|
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:1822738/1‑71 (MQ=255)
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:2270361/1‑71 (MQ=255)
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:2326717/1‑71 (MQ=255)
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:2396192/1‑71 (MQ=255)
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:2059266/1‑71 (MQ=255)
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:1952472/1‑71 (MQ=255)
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:2763324/1‑71 (MQ=255)
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:2892460/1‑71 (MQ=255)
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:57955/1‑71 (MQ=255)
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:1665767/1‑71 (MQ=255)
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:588487/1‑71 (MQ=255)
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:71342/1‑71 (MQ=255)
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:824292/1‑71 (MQ=255)
cAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:1064111/1‑71 (MQ=255)
cAGGTAATGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCg > 1:1235756/1‑71 (MQ=255)
ggTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCgg > 1:1798398/1‑70 (MQ=255)
ggTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGt > 1:1131596/1‑71 (MQ=255)
ggTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGt > 1:2814384/1‑71 (MQ=255)
ggTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGt > 1:2742122/1‑71 (MQ=255)
ggTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGt > 1:2596344/1‑71 (MQ=255)
ggTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGt > 1:1369977/1‑71 (MQ=255)
ggTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGt > 1:1687701/1‑71 (MQ=255)
ggTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGt > 1:2127689/1‑71 (MQ=255)
ggTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGt > 1:2127009/1‑71 (MQ=255)
cgGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTaaa < 1:460721/71‑1 (MQ=255)
ggCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTaaa < 1:53436/70‑1 (MQ=255)
aTCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGt < 1:1885623/71‑1 (MQ=255)
aTCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGt < 1:849988/71‑1 (MQ=255)
aTCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGt < 1:1561607/71‑1 (MQ=255)
aTCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGt < 1:336733/71‑1 (MQ=255)
aTCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGt < 1:2548928/71‑1 (MQ=255)
tCGCCTTCATGCTGCGCCAGTAACTCTACTATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGt < 1:1730259/70‑1 (MQ=255)
aCTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAATTAGTAACTGCGGTTGCCGTTGGGAata > 1:1452130/1‑71 (MQ=255)
aCTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGaa > 1:2699786/1‑69 (MQ=255)
aCTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata > 1:2740852/1‑71 (MQ=255)
aCTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata > 1:1887991/1‑71 (MQ=255)
aCTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata > 1:2220873/1‑71 (MQ=255)
aCTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata > 1:2873297/1‑71 (MQ=255)
aCTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata > 1:2495980/1‑71 (MQ=255)
aCTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata > 1:2421410/1‑71 (MQ=255)
aCTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata > 1:2413436/1‑71 (MQ=255)
aCTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata > 1:738162/1‑71 (MQ=255)
aCTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata > 1:214428/1‑71 (MQ=255)
aCTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAata > 1:2362474/1‑71 (MQ=255)
|
CAGGTATTGCTTCAACGCGGCATCGCCTTCATGCTGCGCCAGTAACTCTACCATCAGGGCAAAGAAGGGCGGTTGCGAGCGGCTTAAATAGTAACTGCGGTTGCCGTTGGGAATA > minE/798898‑799012
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
