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 |
915,319 |
T→A |
26.4% |
P421P (CCT→CCA) |
ycjX → |
conserved hypothetical protein with nucleoside triphosphate hydrolase domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 915,319 | 0 | T | A | 26.4%
| 104.8
/ 38.6
| 72 | P421P (CCT→CCA) | ycjX | conserved hypothetical protein with nucleoside triphosphate hydrolase domain |
| Reads supporting (aligned to +/- strand): ref base T (7/46); new base A (6/13); total (13/59) |
| Fisher's exact test for biased strand distribution p-value = 9.06e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TAATCGACTTAGCGATGGCGCACCGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTGATGG > minE/915256‑915380
|
tAATCGACTCAGCGATGGAGCACCGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCAGGTc > 1:1023472/1‑68 (MQ=255)
tAATCGACTCAGCGATGGAGCACCGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCAGGTc > 1:39874/1‑68 (MQ=255)
tAATCGACTCAGCGATGGAGCACCGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCAGGTCa > 1:1233286/1‑69 (MQ=255)
tAATCGACTCAGCGATGGAGCACCGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCAGGTCa > 1:2399660/1‑69 (MQ=255)
gACTTAGCGATGGCGCACCGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGt < 1:2505303/69‑1 (MQ=255)
gACTTAGCGATGGCGCACCGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGt < 1:2009501/69‑1 (MQ=255)
gACTTAGCGATGGCGCACCGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGt < 1:3262538/69‑1 (MQ=255)
gTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGt > 1:2733528/1‑67 (MQ=255)
gTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGt > 1:2499804/1‑67 (MQ=255)
gTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGt > 1:2918708/1‑67 (MQ=255)
gTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGt > 1:3285987/1‑67 (MQ=255)
gTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGt > 1:36533/1‑67 (MQ=255)
tttATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTg > 1:527330/1‑69 (MQ=255)
tATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGa < 1:349613/68‑1 (MQ=255)
tATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGa < 1:556013/68‑1 (MQ=255)
tATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGa < 1:3154880/68‑1 (MQ=255)
tATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGa < 1:960811/68‑1 (MQ=255)
tATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGa > 1:2143252/1‑68 (MQ=255)
cTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCAt < 1:358366/69‑1 (MQ=255)
cTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCAt < 1:872505/69‑1 (MQ=255)
tCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCa < 1:2977994/69‑1 (MQ=255)
tCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCa < 1:852137/69‑1 (MQ=255)
tCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCa < 1:275917/69‑1 (MQ=255)
tCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCa < 1:3039245/69‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTcc < 1:827031/66‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTcc < 1:2859873/66‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTcc < 1:458830/66‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTcc < 1:751816/66‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTcc < 1:3112420/66‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTcc < 1:976993/66‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTcc < 1:1364723/66‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTcc < 1:1379353/66‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTcc < 1:1624435/66‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTcc < 1:2687971/66‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTcc < 1:186824/66‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTcc < 1:1924692/66‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTcc < 1:1994818/66‑1 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTCCGCa > 1:800615/1‑69 (MQ=255)
tCCCGCACGTTTGCCAGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCGTTTCGTCCGCa > 1:1555790/1‑69 (MQ=255)
gCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGGAGGt < 1:962342/68‑1 (MQ=255)
gCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGt < 1:3348317/68‑1 (MQ=255)
gCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGt < 1:596902/68‑1 (MQ=255)
gCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGt < 1:595173/68‑1 (MQ=255)
gCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGt < 1:342062/68‑1 (MQ=255)
gCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGt < 1:2929116/68‑1 (MQ=255)
gCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGt < 1:2162425/68‑1 (MQ=255)
gCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGt < 1:2880410/68‑1 (MQ=255)
gCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGt < 1:2988937/68‑1 (MQ=255)
gCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTCTGAGGCATTTCGTCCGCAGGt < 1:2687519/68‑1 (MQ=255)
cGTTTGCCTGGTCAGGCGTTCTGGGATATGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTgatg < 1:2983450/69‑1 (MQ=255)
cGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTgatg < 1:1436313/69‑1 (MQ=255)
cGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTgatg < 1:2950854/69‑1 (MQ=255)
cGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTgatg < 1:1432385/69‑1 (MQ=255)
gTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTgatgg < 1:3172921/69‑1 (MQ=255)
gTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTgatgg < 1:285602/69‑1 (MQ=255)
gTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTgatgg < 1:1451132/69‑1 (MQ=255)
gTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTgatg < 1:1647191/68‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:1384154/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:844214/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:1488252/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:2730110/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:968703/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:2725154/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:2326523/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:1440726/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:2278188/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:1660983/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:1772923/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:3324949/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:1803338/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:2070250/59‑1 (MQ=255)
tttGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGc < 1:1954836/59‑1 (MQ=255)
|
TAATCGACTTAGCGATGGCGCACCGCTCACTGTTTATCCTGGCGAAGTTCCCGCACGTTTGCCTGGTCAGGCGTTCTGGGATAAGCAAGGCTTCCAGTTTGAGGCATTTCGTCCGCAGGTGATGG > minE/915256‑915380
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
