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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,042,843 |
Δ1 bp |
27.1% |
coding (1790/2181 nt) |
yccC ← |
cryptic autophosphorylating protein tyrosine kinase Etk |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,042,843 | 0 | A | . | 27.1%
| 138.5
/ 68.0
| 70 | coding (1790/2181 nt) | yccC | cryptic autophosphorylating protein tyrosine kinase Etk |
| Reads supporting (aligned to +/- strand): ref base A (24/27); new base . (9/10); total (33/37) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.40e-01 |
AGGTGGCACCTGACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACAGGTTATGC > W3110S.gb/1042776‑1042908
|
aGGTCGCACCTGACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATTCTGGATCACTTTGTTGAGCt > 1:3439818/1‑71 (MQ=255)
ggCACCTGACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCa > 1:966075/1‑69 (MQ=255)
ggCACCTGACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCa > 1:2716353/1‑69 (MQ=255)
ggCACCTGACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTT‑AGCTCa > 1:286413/1‑68 (MQ=255)
aCCTGACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCttt < 1:1053059/71‑1 (MQ=255)
aCCTGACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCttt < 1:3920588/71‑1 (MQ=255)
aCCTGACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGAGCACTTTGTTGAGCTCATCttt < 1:1286081/71‑1 (MQ=255)
ccTGACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTa < 1:981947/71‑1 (MQ=255)
ccTGACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTa < 1:3096458/71‑1 (MQ=255)
cTGACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTAc < 1:3399350/71‑1 (MQ=255)
gACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCt > 1:914491/1‑71 (MQ=255)
gACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCt > 1:499502/1‑71 (MQ=255)
gAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGa < 1:1947091/71‑1 (MQ=255)
gAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGa < 1:2722688/71‑1 (MQ=255)
gAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGa < 1:82973/71‑1 (MQ=255)
gTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGatat < 1:3125190/71‑1 (MQ=255)
gTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGatat < 1:3660945/71‑1 (MQ=255)
gTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGatat < 1:1991312/71‑1 (MQ=255)
tAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGatat < 1:2795972/70‑1 (MQ=255)
aTCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTAcc > 1:1342106/1‑59 (MQ=255)
aTCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTAcc > 1:4020292/1‑59 (MQ=255)
cacaTCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCttt < 1:3412537/54‑1 (MQ=255)
acaTCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCAt > 1:2114898/1‑48 (MQ=255)
caTCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGAc < 1:2380354/71‑1 (MQ=255)
caTCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGAc < 1:92927/71‑1 (MQ=255)
aTCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGATATTCCGAc > 1:2215518/1‑69 (MQ=255)
aTCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGATATTCCGAc > 1:2254242/1‑69 (MQ=255)
aTCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGATATTCCGAc > 1:2642230/1‑69 (MQ=255)
tCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCttt < 1:513459/50‑1 (MQ=255)
cAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGata > 1:2162331/1‑61 (MQ=255)
aaaGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTAc > 1:2745596/1‑50 (MQ=255)
aaaGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTAc > 1:1337732/1‑50 (MQ=255)
aaaGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTAc > 1:369448/1‑50 (MQ=255)
aaaGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTAc > 1:3030298/1‑50 (MQ=255)
aaaGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATAtt > 1:2365273/1‑62 (MQ=255)
aaaGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCATATATTCCGACAAGc > 1:795978/1‑70 (MQ=255)
aaaGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGATATTCCGACAAGc > 1:1846449/1‑70 (MQ=255)
aaGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGATATTCCGACAAGcc < 1:102329/70‑1 (MQ=255)
gCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGc > 1:3823651/1‑37 (MQ=255)
cctcctTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGc < 1:1168230/67‑1 (MQ=255)
cctcctTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGc < 1:3198013/67‑1 (MQ=255)
cctcctTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGc < 1:3259338/67‑1 (MQ=255)
ctTTGCCAAAATGCTGGATCACTTTGTTTAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGtt < 1:1000520/69‑1 (MQ=255)
ctTTGCCAAAATGCTGGATCACTTTGTTTAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGtt < 1:1965601/69‑1 (MQ=255)
ctTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTc < 1:896657/70‑1 (MQ=255)
ctTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTc < 1:1215307/70‑1 (MQ=255)
ctTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCa > 1:2442445/1‑71 (MQ=255)
ctTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCAt < 1:35050/71‑1 (MQ=255)
ctTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCAt < 1:3517142/71‑1 (MQ=255)
ctTTGCCAAAATGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCAt < 1:1315371/71‑1 (MQ=255)
tttGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGtt < 1:3371763/68‑1 (MQ=255)
tGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATg > 1:2610306/1‑64 (MQ=255)
tGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCa > 1:3619538/1‑68 (MQ=255)
tGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCa > 1:2237462/1‑68 (MQ=255)
tGCTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTa < 1:743574/71‑1 (MQ=255)
cTGGATCACTTTGTTG‑GCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTaaa < 1:661472/71‑1 (MQ=255)
cACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACTAGCCATGTTc < 1:3991696/51‑1 (MQ=255)
cACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACAGGt > 1:1397478/1‑71 (MQ=255)
cACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACAGGt > 1:2667291/1‑71 (MQ=255)
cACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACAGGt > 1:1141130/1‑71 (MQ=255)
cACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACAGGt > 1:3312377/1‑71 (MQ=255)
aCTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACAGGt < 1:4033739/70‑1 (MQ=255)
aCTTTGTTG‑GCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGt > 1:195171/1‑47 (MQ=255)
tttGTTGAGCTCATCTTTACCTTCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACa < 1:1526664/65‑1 (MQ=255)
tttGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACa < 1:409449/65‑1 (MQ=255)
tttGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACa < 1:2811125/65‑1 (MQ=255)
tttGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACa < 1:2190442/65‑1 (MQ=255)
ttgttg‑GCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACAGGTTATGc > 1:1335311/1‑71 (MQ=255)
ttgttg‑GCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACAGGTTATGc > 1:3355944/1‑71 (MQ=255)
tgttgAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACAGGTTATGc > 1:3167571/1‑71 (MQ=255)
|
AGGTGGCACCTGACCGCGAGTAATCACATCAAAGCCTCCTTTGCCAAAATGCTGGATCACTTTGTTGAGCTCATCTTTACCTGCCAGATATTCCGACAAGCCATGTTCATTACTCACGGTAAACAGGTTATGC > W3110S.gb/1042776‑1042908
|
| 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
