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 |
1,763,636 |
A→G |
10.0% |
noncoding (208/1542 nt) |
rrsG ← |
16S ribosomal RNA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,763,636 | 0 | A | G | 10.0%
| 132.6
/ 6.8
| 50 | noncoding (208/1542 nt) | rrsG | 16S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base A (23/22); new base G (3/2); total (26/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.52e-01 |
CCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCC > minE/1763568‑1763699
|
ccTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAggg > 1:365259/1‑71 (MQ=255)
cTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGt < 1:70406/71‑1 (MQ=255)
cTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGt < 1:1499909/71‑1 (MQ=255)
tGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTcc > 1:619897/1‑71 (MQ=40)
tGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTccgcc < 1:3428773/71‑1 (MQ=255)
tGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTccccc < 1:1808259/71‑1 (MQ=39)
gAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCct > 1:562958/1‑71 (MQ=255)
gAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCct > 1:3553934/1‑71 (MQ=255)
gAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCct > 1:3059507/1‑71 (MQ=39)
gAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCct > 1:1043056/1‑71 (MQ=39)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCctc < 1:2951008/71‑1 (MQ=39)
gTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTg < 1:1981182/71‑1 (MQ=255)
ttACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTgg > 1:2652147/1‑71 (MQ=39)
tACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTgg > 1:3519608/1‑70 (MQ=40)
tACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGt > 1:1472931/1‑71 (MQ=39)
tACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTAGGt > 1:2398251/1‑71 (MQ=255)
tACCCCACCAACAAGCTAATCACATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTcc > 1:291792/1‑60 (MQ=255)
ccccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTc < 1:2903739/70‑1 (MQ=40)
cccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCtt < 1:2280313/64‑1 (MQ=40)
cccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCtt < 1:1445576/71‑1 (MQ=39)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGc > 1:376812/1‑71 (MQ=39)
accaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCTTGCg < 1:236455/71‑1 (MQ=255)
accaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTc > 1:231286/1‑53 (MQ=255)
accaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTc > 1:162511/1‑53 (MQ=255)
accaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTg > 1:3682720/1‑69 (MQ=40)
ccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCTTGCGa > 1:264813/1‑71 (MQ=255)
aaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTa < 1:1017426/71‑1 (MQ=35)
aGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTAt < 1:1708801/71‑1 (MQ=34)
ccATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTAt > 1:1744232/1‑70 (MQ=35)
ccATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTAt < 1:3274009/70‑1 (MQ=35)
aTCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGt < 1:2351618/66‑1 (MQ=35)
tGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa > 1:2342178/1‑54 (MQ=31)
ggCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTa > 1:1416810/1‑65 (MQ=35)
gCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTAcc < 1:2017838/70‑1 (MQ=35)
acaTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGtt > 1:1905915/1‑71 (MQ=34)
acaTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGtt > 1:286950/1‑71 (MQ=34)
acaTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCCTTGGTCTTGCGACATTATGCGGTATTAGCTACCGtt < 1:1038094/71‑1 (MQ=21)
caTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGttt < 1:464715/71‑1 (MQ=34)
aTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTc < 1:3293789/71‑1 (MQ=34)
gATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTAt < 1:683515/54‑1 (MQ=35)
aTGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCagta < 1:1134827/71‑1 (MQ=34)
gCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCagtagt < 1:2489207/70‑1 (MQ=35)
aaGCGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTAt > 1:1332589/1‑71 (MQ=21)
gagGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTa < 1:1372305/68‑1 (MQ=35)
ggCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGttt < 1:3045166/56‑1 (MQ=35)
ggCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGttt < 1:534421/56‑1 (MQ=35)
cccGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTcc > 1:2401362/1‑56 (MQ=35)
cccGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTcc > 1:406220/1‑56 (MQ=35)
cGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATcc > 1:2548283/1‑65 (MQ=35)
gAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATcccc > 1:3176647/1‑66 (MQ=35)
gAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATcccc > 1:2815220/1‑66 (MQ=35)
aaGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTa < 1:2032476/37‑1 (MQ=40)
aaGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTa < 1:199729/37‑1 (MQ=40)
|
CCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCC > minE/1763568‑1763699
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
