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 |
|
A6 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,216,702 |
T→C |
47.5% |
Q677Q (CAA→CAG) |
prc ← |
carboxy‑terminal protease for penicillin‑binding protein 3 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,216,702 | 0 | T | C | 47.5%
| ‑4.7
/ 55.2
| 40 | Q677Q (CAA→CAG) | prc | carboxy‑terminal protease for penicillin‑binding protein 3 |
| Reads supporting (aligned to +/- strand): ref base T (7/14); new base C (6/13); total (13/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.53e-02 |
CGCTGTTAAAAAATCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGAGTGCGATATTCACCGTCTCATCCAGAT > minE/1216641‑1216769
|
cGCTGTTAAAAAATCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGCTGTTCcgcg > 1:940825/1‑71 (MQ=255)
gCTGTTAAAAAATCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGCTGTTCCGCgg < 1:3590293/71‑1 (MQ=255)
ttAAAAAATCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGt < 1:1536877/69‑1 (MQ=255)
ttAAAAAATCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGt < 1:772533/69‑1 (MQ=255)
ttAAAAAATCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTc < 1:2238637/70‑1 (MQ=255)
ttAAAAAATCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGCTGTTCCGCGGGTc < 1:1796495/70‑1 (MQ=255)
tAAAAAATCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTCTg > 1:1481072/1‑71 (MQ=255)
aaaaaTCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTCTGGc < 1:776386/71‑1 (MQ=255)
aaaTCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGCTGTTCCGCGGGTCTGGCtt > 1:651032/1‑71 (MQ=255)
aTCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTCTGGCtttt < 1:43951/71‑1 (MQ=255)
aTCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTCTGGCtttt < 1:2059974/71‑1 (MQ=255)
aTCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGCTGTTCCGCGGGTCTGGCtttt < 1:561759/71‑1 (MQ=255)
aTCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGCTGTTCCGCGGGTCCGGCtttt < 1:708869/71‑1 (MQ=255)
tCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGCTGTTCCGCGGGTCTGGCttttt < 1:84240/71‑1 (MQ=255)
tCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGCTGTTCCGCGGGTCTGGCtttt > 1:2922181/1‑70 (MQ=255)
aGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGCTGTTCCGCGGGTCTGGCTTTTTCa < 1:558096/71‑1 (MQ=255)
acaATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTCTGGCTTTTTCAAGCt < 1:2962992/71‑1 (MQ=255)
acaATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTCTGGCTTTTTCAAGCt > 1:1227180/1‑71 (MQ=255)
aaTTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTCTGGCTTTTTCAAGCTTc > 1:2442573/1‑71 (MQ=255)
aTTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTc < 1:3251056/53‑1 (MQ=255)
tttCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGc > 1:1789675/1‑71 (MQ=255)
ttCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGCTGTTCCGCGGGTCTGGCTTTTTCa < 1:1622715/62‑1 (MQ=255)
aattGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCcg > 1:3532698/3‑44 (MQ=255)
ttGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTTTGGCTTTTTCAAGCTTCGCCa < 1:1992505/69‑1 (MQ=255)
ttccTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATc < 1:1477415/68‑1 (MQ=255)
ccTGATTGATATTACTTGACGGGAGCGGGCTGTTCCGCGGGTc < 1:191076/43‑1 (MQ=255)
ccTGATTGATATTACTTGACGGGAGCGGGCTGTTCCGCGGGTc < 1:2703118/43‑1 (MQ=255)
attgatATTACTTGACGGGAGCGGGTTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGAGTg < 1:1005589/69‑1 (MQ=255)
ttgatATTACTTGACGGGAGCGGGCTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGAGTGCGa > 1:1038577/1‑71 (MQ=255)
atTACTTGACGGGAGCGGGCTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGAGTGCGATAtt < 1:236918/70‑1 (MQ=255)
gACGGGAGCGGGTTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGAGTGCGATATTCACCGtct > 1:1087673/1‑71 (MQ=255)
gACGGGAGCGGGCTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGAGTGCGATATTCACCGtc < 1:2477758/70‑1 (MQ=255)
aCGGGAGCGGGTTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATc < 1:3252647/50‑1 (MQ=255)
aCGGGAGCGGGTTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGAGTGCGATATTCACCGtctc < 1:601337/71‑1 (MQ=255)
cGGGAGCGGGCTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGAGTGCGATATTCACCGTCTCa < 1:2880456/71‑1 (MQ=255)
gggAGCGGGTTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGa > 1:2639630/1‑50 (MQ=255)
gAGCGGGCTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGAGTGCGATATTCACCGTCTCATc > 1:2484004/1‑70 (MQ=255)
gAGCGGGCTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGAGTGCGATATTCACCGTCTCATc > 1:679612/1‑70 (MQ=255)
aGCGGGTTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGAGTGCGATATTCACCGTCTCATcc < 1:2417351/70‑1 (MQ=255)
gggCTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGAGTGCGATATTCACCGTCTCATCCAGAt < 1:2483511/71‑1 (MQ=255)
|
CGCTGTTAAAAAATCAGGCACAATTTCTTGTGCCTGATTGATATTACTTGACGGGAGCGGGTTGTTCCGCGGGTCTGGCTTTTTCAAGCTTCGCCAGATCGAGTGCGATATTCACCGTCTCATCCAGAT > minE/1216641‑1216769
|
| 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
