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 F8 I0 R1
|
22 |
59.8 |
3060272 |
94.8% |
2901137 |
61.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,763,636 |
A→G |
28.9% |
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 | 28.9%
| 58.0
/ 34.7
| 45 | noncoding (208/1542 nt) | rrsG | 16S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base A (16/16); new base G (3/10); total (19/26) |
| Fisher's exact test for biased strand distribution p-value = 1.82e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01 |
CCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTC > minE/1763568‑1763702
|
ccTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAggg < 1:2751618/71‑1 (MQ=255)
ggTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTc < 1:2588313/69‑1 (MQ=255)
gCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCctct < 1:1010439/71‑1 (MQ=255)
gCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCctct < 1:1006842/71‑1 (MQ=255)
gCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCctct < 1:1499787/71‑1 (MQ=255)
gCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCctct < 1:752786/71‑1 (MQ=39)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAggg < 1:248207/61‑1 (MQ=255)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCtt > 1:2297303/1‑71 (MQ=39)
gTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTg < 1:1405403/71‑1 (MQ=39)
ttACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTgg < 1:1284741/71‑1 (MQ=255)
ttACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTg < 1:3009831/70‑1 (MQ=40)
tACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTgg < 1:2104634/70‑1 (MQ=255)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTc > 1:2311536/1‑71 (MQ=255)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTg > 1:1926428/1‑68 (MQ=40)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTc > 1:613757/1‑71 (MQ=39)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTc > 1:2688804/1‑71 (MQ=39)
cccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTc < 1:2766984/56‑1 (MQ=255)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGaa > 1:1561265/1‑50 (MQ=255)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCt < 1:2827123/68‑1 (MQ=255)
caccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGc > 1:316080/1‑71 (MQ=39)
ccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCctct > 1:1149884/1‑59 (MQ=255)
ccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCtt < 1:2824125/60‑1 (MQ=255)
ccaACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCTTg > 1:3035806/1‑68 (MQ=255)
caacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTgg < 1:236821/62‑1 (MQ=255)
caacaaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTgg < 1:1486736/62‑1 (MQ=255)
gCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATg < 1:2716300/71‑1 (MQ=34)
aTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCgg > 1:2187050/1‑70 (MQ=35)
aTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCgg < 1:835195/70‑1 (MQ=35)
aTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCgg < 1:1385857/70‑1 (MQ=35)
ccATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTAtt < 1:38671/71‑1 (MQ=34)
tCTGGGCACATCCGATGGCAAGAGGCCATAATGTCCGCCTCTTTGGTCTTGCGACATTAttc < 1:1912344/62‑3 (MQ=11)
cTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGc > 1:1895402/1‑70 (MQ=35)
ggCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGc < 1:1213337/67‑1 (MQ=35)
cacaTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGt < 1:176263/71‑1 (MQ=34)
cacaTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGt > 1:435996/1‑71 (MQ=34)
acaTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGtt > 1:770106/1‑71 (MQ=34)
caTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTAt < 1:2324991/52‑1 (MQ=35)
aTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTc < 1:1198541/71‑1 (MQ=34)
tCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTc > 1:1715817/1‑70 (MQ=35)
cGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCag > 1:1095097/1‑71 (MQ=34)
gATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCagt < 1:1334790/71‑1 (MQ=34)
tGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCagtag > 1:288036/1‑71 (MQ=34)
aaGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTAt < 1:1231930/71‑1 (MQ=34)
agagGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTAcc < 1:253570/55‑1 (MQ=35)
ccGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTc > 1:1035097/1‑71 (MQ=34)
cGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTc > 1:1609059/1‑70 (MQ=35)
gAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTa > 1:2810188/1‑45 (MQ=38)
gAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTa > 1:1016604/1‑45 (MQ=38)
|
CCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTC > minE/1763568‑1763702
|
| 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
