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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,775,059 |
C→T |
77.7% |
L422L (CTC→CTT) |
aceK → |
isocitrate dehydrogenase kinase/phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,775,059 | 0 | C | T | 77.7%
| 61.4
/ 12.2
| 49 | L422L (CTC→CTT) | aceK | isocitrate dehydrogenase kinase/phosphatase |
| Reads supporting (aligned to +/- strand): ref base C (6/5); new base T (26/12); total (32/17) |
| Fisher's exact test for biased strand distribution p-value = 4.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
ATCACCGATCTCGGCGAACAAATTGTGATTCGCCATCTTTATATTGAGCGGCGGATGGTGCCGCTCAATATCTGGCTGGAACAAGTGGAAGGTCAGCAGTTGCGCGACGCCATTGAAGAATACGGTAACGCTAT > minE/2774994‑2775127
|
aTCACCGATCTCGGCGAACAAATTGTGATTCGCCATCTTTATATTGAGCGGCGGATGGTGCCGCTCaa > 1:2840389/1‑68 (MQ=255)
aTCACCGATCTCGGCGAACAAATTGTGATTCGCCATCTTTATATTGAGCGGCGGATGGTGCCGCTCaa > 1:2714605/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:2283845/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:2764314/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:2893464/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:2691938/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:2895793/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:3016130/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:3330624/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:2439212/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:2381350/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:2295810/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:343182/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:2270577/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:397259/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:216585/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:416654/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:427327/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:554138/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:1844964/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:636231/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:663250/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:718915/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:126538/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:937849/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTCGAGGGGca > 1:1215625/1‑68 (MQ=255)
aTTCGCCATCTCTATATCGAACGACGGATGGTGCAGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:1013973/1‑68 (MQ=255)
aTTCGCAATCTCTATATCGAACGACGGATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGca > 1:7289/1‑68 (MQ=255)
ttCGCCATCTTTATATTGAGCGGCGGATGGTGCCGCTCAATATCTGGCTGGAACAAGTGGAAGGTcagc > 1:616181/1‑69 (MQ=255)
ttCGCCATCTTTATATTGAGCGGCGGATGGTGCCGCTCAATATCTGGCTGGAACAAGTGGAAGGTcagc > 1:506630/1‑69 (MQ=255)
ttCGCCATCTTTATATTGAGCGGCGGATGGTGCCGCTCAATATCTGGCTGGAACAAGTGGAAGGTcagc > 1:2214537/1‑69 (MQ=255)
tCGCCATCTTTATATTGAGCGGCGGATGGTGCCGCTCAATATCTGGCTGGAACAAGTGGAAGGTcagc < 1:420986/68‑1 (MQ=255)
tttATATTGAGCGGCGGATGGTGCCGCTCAATATCTGGCTGGAACAAGTGGAAGGTCAGCAGTTGcgcg > 1:1484759/1‑69 (MQ=255)
atTGAGCGGCGGATGGTGCCGCTCAATATCTGGCTGGAACAAGTGGAAGGTCAGCAGTTGCGCGACGc < 1:2531840/68‑1 (MQ=255)
atTGAGCGGCGGATGGTGCCGCTCAATATCTGGCTGGAACAAGTGGAAGGTCAGCAGTTGCGCGACGc < 1:2291331/68‑1 (MQ=255)
gcggcgGATGGTGCCGCTCAATATCTGGCTGGAACAAGTGGAAGGTCAGCAGTTGCGCGACGCCATTg < 1:1423419/68‑1 (MQ=255)
cgacggATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGCAGCAATTGCGTGATGCCATTgaa < 1:481778/66‑1 (MQ=255)
cgacggATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGCAGCAATTGCGTGATGCCATTgaa < 1:2757306/66‑1 (MQ=255)
cgacggATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGCAGCAATTGCGTGATGCCATTgaa < 1:779145/66‑1 (MQ=255)
cgacggATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGCAGCAATTGCGTGATGCCATTgaa < 1:2628405/66‑1 (MQ=255)
cgacggATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGCAGCAATTGCGTGATGCCATTgaa < 1:1503174/66‑1 (MQ=255)
cgacggATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGCAGCAATTGCGTGATGCCATTgaa < 1:285096/66‑1 (MQ=255)
cgacggATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGCAGCAATTGCGTGATGCCATTgaa < 1:2118915/66‑1 (MQ=255)
gacggATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGCAGCAATTGCGTGATGCCATTgaa < 1:430523/66‑1 (MQ=255)
gacggATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGCAGCAATTGCGTGATGCCATTgaa < 1:314571/66‑1 (MQ=255)
gacggATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGCAGCAATTGCGTGATGCCATTgaa < 1:2022960/66‑1 (MQ=255)
gacggATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGCAGCAATTGCGTGATGCCATTgaa < 1:3373729/66‑1 (MQ=255)
acggATGGTGCCGCTTAATATCTGGCTTGAGCAAGTTGAGGGGCAGCAATTGCGTGATGCCATTgaa < 1:792709/66‑1 (MQ=255)
gTGCCGCTCAATATCTGGCTGGAACAAGTGGAAGGTCAGCAGTTGCGCGACGCCATTGAAGAATACGGt < 1:2058630/69‑1 (MQ=255)
cAATATCTGGCTGGAACAAGTGGAAGGTCAGCAGTTGCGCGACGCCATTGAAGAATACGGTAACGCTAt > 1:2537396/1‑69 (MQ=255)
cAATATCTGGCTGGAACAAGTGGAAGGTCAGCAGTTGCGCGACGCCATTGAAGAATACGGTAACGCTAt > 1:293067/1‑69 (MQ=255)
cAATATCTGGCTGGAACAAGTGGAAGGTCAGCAGTTGCGCGACGCCATTGAAGAATACGGTAACGCTAt > 1:3055271/1‑69 (MQ=255)
cAATATCTGGCTGGAACAAGTGGAAGGTCAGCAGTTGCGCGACGCCATTGAAGAATACGGTAACGCTAt > 1:3313665/1‑69 (MQ=255)
|
ATCACCGATCTCGGCGAACAAATTGTGATTCGCCATCTTTATATTGAGCGGCGGATGGTGCCGCTCAATATCTGGCTGGAACAAGTGGAAGGTCAGCAGTTGCGCGACGCCATTGAAGAATACGGTAACGCTAT > minE/2774994‑2775127
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
