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 |
2,665,537 |
A→C |
31.2% |
P825P (CCT→CCG) |
malT ← |
DNA‑binding transcriptional activator, maltotriose‑ATP‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,665,537 | 0 | A | C | 31.2%
| 71.5
/ 54.4
| 77 | P825P (CCT→CCG) | malT | DNA‑binding transcriptional activator, maltotriose‑ATP‑binding |
| Reads supporting (aligned to +/- strand): ref base A (33/20); new base C (20/4); total (53/24) |
| Fisher's exact test for biased strand distribution p-value = 1.10e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.74e-01 |
CAGCCCCAGTACCTGCCATTCACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCGAATTTATGCCGAT > minE/2665474‑2665595
|
cAGCCCCAGTACCTGCCATTCACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGgatg > 1:1476794/1‑69 (MQ=255)
ccTGCCATTCACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGAc > 1:2582165/1‑69 (MQ=255)
ccTGCCATTCACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGAc > 1:2569026/1‑69 (MQ=255)
ccTGCCATTCACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGAc > 1:2546874/1‑69 (MQ=255)
ccTGCCATTCACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGAc > 1:1422435/1‑69 (MQ=255)
ccTGCCATTCACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGAc > 1:1453070/1‑69 (MQ=255)
ccTGCCATTCACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGAc > 1:2242552/1‑69 (MQ=255)
aTTCACGTTGGGTCAACGGGCTTGTGCGGATCAGCTCTGGCACTTCCGGATGATTTAGCAGACGTTCa < 1:2210125/68‑1 (MQ=255)
aTTCACGTTGGGTCAACGGGCTGGTGCGGATCAGCTCTGGCACTTCCGGATGATTTAGCAGTCGTTCa < 1:439100/68‑1 (MQ=255)
aTTCACGTTGGGTCAACGGGCTGGTGCGGATCAGCTCTGGCACTTCCGGATGATTTAGCAGACGTTCa < 1:600393/68‑1 (MQ=255)
aTTCACGTTGGGTCAACGGGCTGGTGCGGATCAGCTCTGGCACTTCCGGATGATTTAGCAGACGTTCa < 1:1787268/68‑1 (MQ=255)
tCACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAAc > 1:2040293/1‑68 (MQ=255)
tCACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAAc > 1:2774897/1‑68 (MQ=255)
tCACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAAc > 1:1739382/1‑68 (MQ=255)
cACGTTGCGTCAGCGGTCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:3012800/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGGTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:1099065/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:376884/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:354658/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:3325730/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:3093383/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:2868145/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:2784750/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:2152551/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:246370/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:2678400/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:388217/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:1281335/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:2034891/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:1535914/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:928500/1‑64 (MQ=255)
cACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:87570/1‑64 (MQ=255)
cACGTTACGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:701780/1‑64 (MQ=255)
cACGCTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTc > 1:63726/1‑64 (MQ=255)
gCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATtct < 1:1457968/69‑1 (MQ=255)
aGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATc > 1:2196685/1‑68 (MQ=255)
aGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATc > 1:2049676/1‑68 (MQ=255)
aGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATc > 1:1610677/1‑68 (MQ=255)
aGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATc > 1:1432907/1‑68 (MQ=255)
cGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGa < 1:2984039/68‑1 (MQ=255)
cGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGa < 1:2573716/68‑1 (MQ=255)
cGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGa < 1:2129343/68‑1 (MQ=255)
gCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGa < 1:1653423/65‑1 (MQ=255)
cTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGa < 1:265173/64‑1 (MQ=255)
gCGGATCAGTTCAGGTACTTCAGTATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCg < 1:2763687/67‑1 (MQ=255)
gCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCg < 1:1327237/67‑1 (MQ=255)
gCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCg < 1:2510421/67‑1 (MQ=255)
gCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCg < 1:131581/67‑1 (MQ=255)
gATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCGAAtt < 1:2387023/68‑1 (MQ=255)
gATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCGAAtt < 1:744354/68‑1 (MQ=255)
gATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCGAAtt < 1:526231/68‑1 (MQ=255)
gATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCGAAtt < 1:2457096/68‑1 (MQ=255)
gATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCGAAtt < 1:1379693/68‑1 (MQ=255)
gATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCGAAtt < 1:2380834/68‑1 (MQ=255)
gATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCGAAtt < 1:143505/68‑1 (MQ=255)
gATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCGAAtt < 1:2045883/68‑1 (MQ=255)
cAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCGAATTTATGCCgat < 1:2270767/69‑1 (MQ=255)
tACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCGAAtt < 1:582301/56‑1 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:2061842/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:1318034/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:912184/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:1433046/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:1551007/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:1868024/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:1929185/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:420651/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:413430/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:2492838/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:2306141/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:2362495/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:3225632/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:3164795/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:2375580/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:238415/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:1013537/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:2827763/1‑40 (MQ=255)
ttCCGGATGATTTAGCAGACGTTCAACGAAATTCTCATCg > 1:2431882/1‑40 (MQ=255)
ttCCGGATGATTAAGCAGACGTTCAACGAAATTCTCATCg > 1:990500/1‑40 (MQ=38)
|
CAGCCCCAGTACCTGCCATTCACGTTGCGTCAGCGGGCTGGTGCGGATCAGTTCAGGTACTTCAGGATGATTTAGCAGACGTTCAACGAAATTCTCATCGAAATGGGCGAATTTATGCCGAT > minE/2665474‑2665595
|
| 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
