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 |
1,896,276 |
G→A |
54.0% |
intergenic (‑229/‑3) |
amiC ← / → argA |
N‑acetylmuramoyl‑L‑alanine amidase/fused acetylglutamate kinase homolog (inactive) and amino acid N‑acetyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,896,276 | 0 | G | A | 54.0%
| 3.3
/ 52.3
| 63 | intergenic (‑229/‑3) | amiC/argA | N‑acetylmuramoyl‑L‑alanine amidase/fused acetylglutamate kinase homolog (inactive) and amino acid N‑acetyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (8/21); new base A (21/13); total (29/34) |
| Fisher's exact test for biased strand distribution p-value = 1.08e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.97e-01 |
ACTTGCACCCTGCGAAAAAACAGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCGGTTCCCTATATCAA > minE/1896211‑1896340
|
acTTGCACCCTGCGAAAAAACAGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGcc < 1:2017986/68‑1 (MQ=255)
acTTGCACCCTGCGAAAAAACAGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGcc < 1:185149/68‑1 (MQ=255)
acTTGCACCCTGCGAAAAAACAGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGcc < 1:901229/68‑1 (MQ=255)
acTTGCACCCTGCGAAAAAACAGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGcc < 1:729464/68‑1 (MQ=255)
acTTGCACCCTGCGAAAAAACAGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGcc < 1:422390/68‑1 (MQ=255)
cTTGCACCCTGCGAAAAAACAGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGcc < 1:2951470/67‑1 (MQ=255)
tGCACCCTGCGAAAAAACAGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGCCGTg > 1:2623022/1‑68 (MQ=255)
cTGCGAAAAAACAGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGCCGTGGTAAAgg < 1:994668/69‑1 (MQ=255)
cTGCGAAAAAACAGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGCCGTGGTAAAgg < 1:1260932/69‑1 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAgg > 1:2880593/1‑68 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:1658093/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:2179720/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:1060929/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:1989445/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:1875264/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:1108904/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:1818777/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:1020622/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:2325587/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:1376175/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:814523/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:1601468/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:2788222/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:1596636/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:2915688/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:467111/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:3150829/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGa > 1:1382469/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGAAAAGGa > 1:2223957/1‑69 (MQ=255)
tGCAAAAAAACAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGAAAAGGa > 1:2220071/1‑69 (MQ=255)
aaaaaaCAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAATGAACGt < 1:2733689/69‑1 (MQ=255)
aaaaaaCAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGAACGt < 1:2981242/69‑1 (MQ=255)
aaaaaaCAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGAACGt < 1:103329/69‑1 (MQ=255)
aaaaaaCAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGAACGt < 1:606795/69‑1 (MQ=255)
aaaaaaCAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGAACGt < 1:3050808/69‑1 (MQ=255)
aaaaaaCAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGAACGt < 1:2986707/69‑1 (MQ=255)
aaaaaaCAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGAACGt < 1:1460670/69‑1 (MQ=255)
aaaaaaCAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGAACGt < 1:151664/69‑1 (MQ=255)
aaaaaaCAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGAACGt < 1:2766286/69‑1 (MQ=255)
aaaaaaCAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGAACGt < 1:1977891/69‑1 (MQ=255)
aaaaaaCAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGAACGt < 1:2533620/69‑1 (MQ=255)
aaaaaaCAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGAACGt < 1:1695043/69‑1 (MQ=255)
aaaaaaCAGAATAAAAATACAATAATTTCGAATAATCATGCAAAGAGGTGTACCGTGGTAAAGGAACGt < 1:2372540/69‑1 (MQ=255)
aGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCg < 1:1657568/69‑1 (MQ=255)
aGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCg < 1:934953/69‑1 (MQ=255)
aGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCg < 1:123818/69‑1 (MQ=255)
aTAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCGAGt < 1:3268196/69‑1 (MQ=255)
aTAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCGAGt < 1:1335489/69‑1 (MQ=255)
aaaaTACACTAATTTCGAATAATCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTgg > 1:3192545/1‑69 (MQ=255)
cTAATTTCGAATAATCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGa < 1:444332/69‑1 (MQ=255)
atCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCgg > 1:1436626/1‑69 (MQ=255)
atCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCgg > 1:1413286/1‑69 (MQ=255)
atCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCgg > 1:3422293/1‑69 (MQ=255)
atCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCgg > 1:676382/1‑69 (MQ=255)
atCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCgg > 1:128622/1‑69 (MQ=255)
atCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCgg > 1:246802/1‑69 (MQ=255)
aTGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCGGTTc < 1:2950816/69‑1 (MQ=255)
agGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCGGTTCCCTATATc < 1:2917731/69‑1 (MQ=255)
agGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCGGTTCCCTATATc < 1:1297137/69‑1 (MQ=255)
agGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCGGTTCCCTATATc < 1:160062/69‑1 (MQ=255)
agGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCGGTTCCCTATATc < 1:1230087/69‑1 (MQ=255)
agGTGTGCCGTGGTAAAAGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCGGTTCCCTATATc < 1:2741917/69‑1 (MQ=255)
gtgtGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCGGTTCCCTATATCaa < 1:1761059/69‑1 (MQ=255)
gtgCCGTGGTAAAGGTACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTAGGTTCCCTATATCaa < 1:2201641/67‑1 (MQ=255)
|
ACTTGCACCCTGCGAAAAAACAGAATAAAAATACACTAATTTCGAATAATCATGCAAAGAGGTGTGCCGTGGTAAAGGAACGTAAAACCGAGTTGGTCGAGGGATTCCGCCATTCGGTTCCCTATATCAA > minE/1896211‑1896340
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
