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 |
554,004 |
A→G |
47.4% |
M151T (ATG→ACG) |
ybiY ← |
predicted pyruvate formate lyase activating enzyme |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 554,004 | 0 | A | G | 47.4%
| ‑2.3
/ 31.0
| 38 | M151T (ATG→ACG) | ybiY | predicted pyruvate formate lyase activating enzyme |
| Reads supporting (aligned to +/- strand): ref base A (13/7); new base G (8/10); total (21/17) |
| Fisher's exact test for biased strand distribution p-value = 3.28e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.61e-01 |
AGGTTTCTACCGCAGTATGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTGCATAAAGGGCTCACCACCCGAAAGCGTTAAACCGCCGCCGCTGCGATC > minE/553951‑554068
|
aGGTTTCTACCGCAGTATGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCgg > 1:1570467/1‑67 (MQ=255)
aGGTTTCTACCGCAGTATGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGc > 1:1040649/1‑68 (MQ=255)
aGGTTTCTACCGCAGTATGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGc > 1:517335/1‑68 (MQ=255)
aGGTTTCTACCGCAGTATGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGc > 1:692743/1‑68 (MQ=255)
tttCTACCGCAGTATGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTg < 1:116816/67‑1 (MQ=255)
tttCTACCGCAGTATGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTg < 1:2799231/67‑1 (MQ=255)
tttCTACCGCAGTATGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTg < 1:2084235/67‑1 (MQ=255)
tttCTACCGCAGTATGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTg < 1:652622/67‑1 (MQ=255)
tttCTACCGCAGTATGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTg < 1:1557900/67‑1 (MQ=255)
tttCTACCGCAGTATGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTg < 1:803029/67‑1 (MQ=255)
tttCTACCGCAGTATGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTg < 1:1236819/67‑1 (MQ=255)
tGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTGCATAAAGGGc > 1:317294/1‑63 (MQ=255)
tGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTGCATAAAGGGCTcacca > 1:1912952/1‑69 (MQ=255)
tGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTGCATAAAGGGCTcacca > 1:2412750/1‑69 (MQ=255)
tGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTGCATAAAGGGCTcacca > 1:328482/1‑69 (MQ=255)
tGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTGCATAAAGGGCTcacca > 1:2774543/1‑69 (MQ=255)
ctCGTGGCTGGCTTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGt < 1:647061/69‑1 (MQ=255)
ctCGTGGCTGGCTTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGt < 1:390170/69‑1 (MQ=255)
ctCGTGGCTGGCTTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGt < 1:3314223/69‑1 (MQ=255)
ctCGTGGCTGGCTTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGt < 1:915567/69‑1 (MQ=255)
ctCGTGGCTGGCTTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGt < 1:3118498/69‑1 (MQ=255)
ctCGTGGCTGGCTTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGt < 1:3078550/69‑1 (MQ=255)
ctCGTGGCTGGCTTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGt < 1:3054992/69‑1 (MQ=255)
ctCGTGGCTGGCTTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGt < 1:2895660/69‑1 (MQ=255)
ctCGTGGCTGGCTTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGt < 1:1625375/69‑1 (MQ=255)
tCGTGGCTGGCTTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGt < 1:1694716/68‑1 (MQ=255)
ggctTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGTTAAgccgcc > 1:289767/1‑69 (MQ=25)
ggctTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGTTAAgccgcc > 1:2664145/1‑69 (MQ=25)
ggctTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGTTAAgccgcc > 1:2630402/1‑69 (MQ=25)
ggctTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGTTAAgccgcc > 1:2590993/1‑69 (MQ=25)
ggctTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGTTAAgccgcc > 1:3384847/1‑69 (MQ=25)
ggctTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGTTAAgccgcc > 1:3410239/1‑69 (MQ=25)
ggctTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGTTAAgccgcc > 1:1342487/1‑69 (MQ=25)
ggctTGCAGCAGCGCCGTCGCCATTTCCGGCTGCATAAACGGTTCACCGCCAGAAAGCGTTAAgccgcc > 1:499818/1‑69 (MQ=25)
gcgcCATCGCCATTTCCGGCTGCATAAAGGGCTCACCACCCGAAAGCGTTAAACCGCCGCCGCTGCGAt > 1:1978631/1‑69 (MQ=255)
gcgcCATCGCCATTTCCGGCTGCATAAAGGGCTCACCACCCGAAAGCGTTAAACCGCCGCCGCTGCGAt > 1:1336350/1‑69 (MQ=255)
gcgcCATCGCCATTTCCGGCTGCATAAAGGGCTCACCACCCGAAAGCGTTAAACCGCCGCCGCTGCGAt > 1:541103/1‑69 (MQ=255)
gcgcCATCGCCATTTCCGGCTGCATAAAGGGCTCACCACCCGAAAGCGTTAAACCGCCGCCGCTGCGAt > 1:1921113/1‑69 (MQ=255)
gccatcgccatTTCCGGCTGCATAAAGGGCTCACCACCCGAAAGCGTTAAACCGCCGCCGCTGCGAt > 1:2970276/1‑67 (MQ=255)
gccatcgccatTTCCGGCTGCATAAAGGGCTCACCACCCGAAAGCGTTAAACCGCCGCCGCTGCGATc > 1:1775444/1‑68 (MQ=255)
gccatcgccatTTCCGGCTGCATAAAGGGCTCACCACCCGAAAGCGTTAAACCGCCGCCGCTGCGATc > 1:3022680/1‑68 (MQ=255)
|
AGGTTTCTACCGCAGTATGAATGCCTGCCTCGTGGCTGGCTTGCAGTAGCGCCATCGCCATTTCCGGCTGCATAAAGGGCTCACCACCCGAAAGCGTTAAACCGCCGCCGCTGCGATC > minE/553951‑554068
|
| 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
