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 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,068,647 |
T→C |
10.5% |
E381E (GAA→GAG) |
aer ← |
fused signal transducer for aerotaxis sensory component and methyl accepting chemotaxis component |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,068,647 | 0 | T | C | 10.5%
| 152.7
/ 7.8
| 57 | E381E (GAA→GAG) | aer | fused signal transducer for aerotaxis sensory component and methyl accepting chemotaxis component |
| Reads supporting (aligned to +/- strand): ref base T (30/21); new base C (2/4); total (32/25) |
| Fisher's exact test for biased strand distribution p-value = 3.88e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGCAGCATTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGCAATATCG > minE/2068578‑2068713
|
ggCAGCATTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGtt > 1:3471432/1‑71 (MQ=255)
ggCAGCATTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGt < 1:702663/70‑1 (MQ=255)
ggCAGCATTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGt < 1:2261530/70‑1 (MQ=255)
gcagcaTTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGt < 1:2653016/69‑1 (MQ=255)
gcagcaTTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTc < 1:2997266/71‑1 (MQ=255)
cagcaTTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCg > 1:1117961/1‑71 (MQ=255)
agcaTTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGc > 1:2980478/1‑71 (MQ=255)
gcaTTAGCGCTGCGGCTGGCTAAATGATGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGcc < 1:2286305/71‑1 (MQ=255)
gcaTTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGcc > 1:230434/1‑71 (MQ=255)
caTTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCg > 1:709122/1‑71 (MQ=255)
aTTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGcc < 1:396802/69‑1 (MQ=255)
tAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCa > 1:489407/1‑71 (MQ=255)
aGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCAc > 1:2970178/1‑71 (MQ=255)
cgcTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCAcgc < 1:3004703/71‑1 (MQ=255)
cTGCGGCTGGCTAAATGACGCACTTTCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACgcgc < 1:1124074/71‑1 (MQ=255)
tGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGcgcc > 1:1805957/1‑71 (MQ=255)
tGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGcgcc > 1:3499464/1‑71 (MQ=255)
tGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGcgcc > 1:1183329/1‑71 (MQ=255)
cGGCTGGCTAAATTACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGcgccgc < 1:454314/71‑1 (MQ=255)
cGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGcgccgc < 1:1270620/71‑1 (MQ=255)
ggctggctAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCt > 1:3540792/1‑71 (MQ=255)
ctggctAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTc < 1:682898/71‑1 (MQ=255)
gctAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCa < 1:2719636/70‑1 (MQ=255)
aaaTGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCAccgc > 1:231308/1‑71 (MQ=255)
aaaTGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCAccgc > 1:3403829/1‑71 (MQ=255)
cGCACTTCACCTGCCACTACCGCAAAACCACGCCCCTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCAtt < 1:3730117/71‑1 (MQ=255)
cGCACTTCACCTGCCACTACCGCAAAACCACGCCCCTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCAtt < 1:3435111/71‑1 (MQ=255)
cACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCa < 1:2034237/71‑1 (MQ=255)
cACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCa < 1:2029644/71‑1 (MQ=255)
cTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAgg > 1:3333029/1‑71 (MQ=255)
cTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAgg > 1:2427210/1‑71 (MQ=255)
cTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAgg > 1:2422504/1‑71 (MQ=255)
ttCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAggg > 1:3030166/1‑71 (MQ=255)
tcaccTGCCACTACCGCAAAACCACGCCCCTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCATTCAGGGc > 1:2678180/4‑71 (MQ=255)
tCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGc > 1:522385/1‑71 (MQ=255)
caccTGCCACTACCGCAAAACCACGCCCCTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCATTCAGGGc < 1:203244/68‑1 (MQ=255)
ccTGCCACTACCGCAAAACCACGCCCCTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCATTCAGGGCCAg < 1:712940/71‑1 (MQ=255)
tGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACcgccgc > 1:549988/1‑57 (MQ=255)
tGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCa > 1:437268/1‑58 (MQ=255)
gCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGaa > 1:3533332/1‑70 (MQ=255)
gCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGaa > 1:3066835/1‑70 (MQ=255)
ccaccaCTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGaa < 1:1781001/69‑1 (MQ=255)
ccaccaCTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAat < 1:436552/70‑1 (MQ=255)
accacTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGaa < 1:3054758/67‑1 (MQ=255)
cTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTc > 1:564839/1‑71 (MQ=255)
tGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCAt < 1:3442404/50‑1 (MQ=255)
tGCAAAACCTTTGCCCTGTTCGCCGGCACCCGCCGCTTCCACCGCCGCAt < 1:797656/50‑1 (MQ=255)
gCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCAc > 1:37272/1‑41 (MQ=255)
cAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCt > 1:591776/1‑69 (MQ=255)
cAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGa < 1:343315/71‑1 (MQ=255)
aaaaCCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGaa < 1:3173156/71‑1 (MQ=255)
aaaaCCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGa > 1:2974443/1‑70 (MQ=255)
aaaCCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCa > 1:1879894/1‑45 (MQ=255)
aaaCCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCa > 1:1016410/1‑45 (MQ=255)
aCCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCa > 1:3699123/1‑35 (MQ=255)
aCCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAAc > 1:2651862/1‑70 (MQ=255)
accttGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGc < 1:2492293/68‑1 (MQ=255)
cccTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCa > 1:1596129/1‑40 (MQ=255)
ccTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGCAATATCg < 1:2028251/71‑1 (MQ=255)
ccTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGCAATATCg < 1:1350658/71‑1 (MQ=255)
cTGCTCTCCGGCGCGAGCCGCTTCCACTGCCGCATTCAGGGCCAGAATATTGGTCTGGAAAGCAattc > 1:3663648/1‑66 (MQ=255)
ttCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGCAATATCg < 1:2259955/67‑1 (MQ=255)
|
GGCAGCATTAGCGCTGCGGCTGGCTAAATGACGCACTTCCCCTGCCACCACTGCAAAACCTTTGCCCTGTTCGCCGGCACGCGCCGCTTCCACCGCCGCATTCAGGGCCAGAATATTGGTCTGAAACGCAATATCG > minE/2068578‑2068713
|
| 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
