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 |
|
A2 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,763,556 |
T→C |
35.5% |
noncoding (288/1542 nt) |
rrsG ← |
16S ribosomal RNA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,763,556 | 0 | T | C | 35.5%
| 71.9
/ 79.5
| 76 | noncoding (288/1542 nt) | rrsG | 16S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base T (26/23); new base C (13/14); total (39/37) |
| Fisher's exact test for biased strand distribution p-value = 8.11e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
GGAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGC > minE/1763502‑1763624
|
ggAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCtt < 1:1808565/70‑1 (MQ=14)
aGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGt < 1:1434455/71‑1 (MQ=34)
tGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGc > 1:1693325/1‑71 (MQ=21)
gACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAg < 1:350113/68‑1 (MQ=35)
gACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGcc < 1:585996/70‑1 (MQ=25)
gACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGcc < 1:432341/70‑1 (MQ=25)
aCCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGt < 1:81632/71‑1 (MQ=34)
aCCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGt < 1:1282251/71‑1 (MQ=34)
aCCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGt < 1:322464/71‑1 (MQ=34)
aCCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGt < 1:2018428/71‑1 (MQ=21)
ccGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGtt < 1:2140732/71‑1 (MQ=34)
ccGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGtt < 1:99142/71‑1 (MQ=34)
ccGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGtt < 1:2114527/71‑1 (MQ=34)
ccGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGtt < 1:916505/71‑1 (MQ=34)
cGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTa > 1:842022/1‑71 (MQ=34)
tgtCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc < 1:595085/71‑1 (MQ=34)
tctcAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTgg > 1:2025218/1‑57 (MQ=35)
tctaAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTgg > 1:1835638/1‑57 (MQ=255)
tcAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGt > 1:165940/1‑56 (MQ=255)
tcAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccac > 1:1948/1‑71 (MQ=21)
aGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTAcc > 1:1474687/1‑65 (MQ=35)
ccAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACcaac > 1:922074/1‑69 (MQ=40)
gtgtGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGc > 1:1618193/1‑70 (MQ=255)
tgtgGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGcc < 1:1235735/51‑1 (MQ=35)
tgtgGCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCt > 1:1297258/1‑70 (MQ=255)
gtgGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTaa > 1:517764/1‑71 (MQ=255)
tgGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGt > 1:282944/1‑51 (MQ=35)
gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc > 1:836679/1‑71 (MQ=255)
gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc > 1:785657/1‑71 (MQ=255)
gCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATcc < 1:758721/71‑1 (MQ=255)
cTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACcaacaa < 1:1512703/62‑1 (MQ=255)
tGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATccc > 1:1927114/1‑70 (MQ=255)
gTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCa < 1:1434777/69‑1 (MQ=255)
gTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCAt > 1:1429881/1‑70 (MQ=255)
gTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATc > 1:674032/1‑71 (MQ=255)
gTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATc > 1:422543/1‑71 (MQ=255)
gTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATc > 1:271987/1‑71 (MQ=255)
gTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATc > 1:1432421/1‑71 (MQ=255)
gTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATc < 1:6005/71‑1 (MQ=255)
gTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATc < 1:1965137/71‑1 (MQ=255)
gTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATc > 1:1855398/1‑71 (MQ=255)
gTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATc < 1:1177473/71‑1 (MQ=255)
atCATCCTCTCAGACCAGTTACGGATCGTCGCCTTGGTAGGCCTTTAc > 1:219900/2‑48 (MQ=11)
atCATCCTCTCAGACCAGTTACGGATCGTCGCCTTGGTAGGCCTTTAc > 1:1685974/2‑48 (MQ=11)
tCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCt > 1:1983398/1‑71 (MQ=255)
tCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCt < 1:2102280/71‑1 (MQ=255)
aTCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTgg > 1:567323/1‑71 (MQ=255)
tCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGtt < 1:1976436/42‑1 (MQ=38)
tCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGcc < 1:1494913/39‑1 (MQ=255)
tCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCt < 1:934836/58‑1 (MQ=255)
ctctCAGACCAGCTAGGGATCTTCGCCTTGGTGAGCCg > 1:2205879/1‑38 (MQ=255)
ctctCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTA‑CCCACCAACAAGCTAATCCCATCTGGGca > 1:1629522/1‑70 (MQ=255)
ctctCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca > 1:669746/1‑71 (MQ=255)
tcAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATccc < 1:1727581/59‑1 (MQ=255)
tcAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATccc < 1:1665579/59‑1 (MQ=255)
tcAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACAt > 1:2099376/1‑71 (MQ=255)
tcAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCa < 1:1285282/60‑1 (MQ=255)
cAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATc > 1:1802782/1‑61 (MQ=255)
cAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATc > 1:178734/1‑71 (MQ=255)
cAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATc > 1:1501515/1‑71 (MQ=255)
aGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTAc > 1:614207/1‑37 (MQ=255)
aGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATcc > 1:2070707/1‑71 (MQ=255)
aGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATcc < 1:305451/71‑1 (MQ=255)
aGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATcc < 1:70705/71‑1 (MQ=255)
aGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATcc > 1:1555727/1‑71 (MQ=255)
gACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca < 1:519351/43‑1 (MQ=255)
aCCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGa < 1:1387844/71‑1 (MQ=255)
aCCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCt < 1:1875184/49‑1 (MQ=255)
cAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATcc > 1:371481/1‑67 (MQ=255)
aGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATgg < 1:2161217/71‑1 (MQ=255)
gCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAAt > 1:24950/1‑48 (MQ=255)
gCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCAt > 1:508204/1‑53 (MQ=255)
gCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGca < 1:70643/60‑1 (MQ=255)
gCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGc > 1:790733/1‑59 (MQ=255)
gCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGc < 1:736284/71‑1 (MQ=255)
gCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGc < 1:1300605/71‑1 (MQ=255)
tAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGc > 1:1520576/1‑69 (MQ=255)
|
GGAGTCTGGACCGTGTCTCAGTTCCAGTGTGGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGC > minE/1763502‑1763624
|
| 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
