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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,627,107 |
A→G |
35.7% |
E234E (GAA→GAG) |
rpoH → |
RNA polymerase, sigma 32 (sigma H) factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,627,107 | 0 | A | G | 35.7%
| 26.5
/ 22.3
| 42 | E234E (GAA→GAG) | rpoH | RNA polymerase, sigma 32 (sigma H) factor |
| Reads supporting (aligned to +/- strand): ref base A (17/10); new base G (9/6); total (26/16) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.63e-01 |
ATTGAAGATGATAACTGGGAAGAGCAGGCGGCAAACCGTCTGACCGACGCGATGCAGGGTCTGGACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCACGTTGCAGGAACT > minE/2627039‑2627172
|
aTTGAAGATGATAACTGGGAAGAGCAGGCGGCAAACCGTCTGACCGACGCGATGCAGGGTCTGGACGaa > 1:706786/1‑69 (MQ=255)
gAAGATGATAACTGGGAAGAGCAGGCGGCAAACCGTCTGACCGACGCGATGCAGGGTCTGGACGAACGc > 1:1086681/1‑69 (MQ=255)
gAAGATGATAACTGGGAAGAGCAGGCGGCAAACCGTCTGACCGACGCGATGCAGGGTCTGGACGAACGc > 1:1044407/1‑69 (MQ=255)
aGATGATAACTGGGAAGAGCAGGCGGCAAACCGTCTGACCGACGCGATGCAGGGTCTGGACGAACGCa < 1:1601106/68‑1 (MQ=255)
gatAACTGGGAAGAGCAGGCGGCAAACCGTCTGACCGACGCGATGCAGGGTCTGGACGAACGCAGCCAg > 1:910011/1‑69 (MQ=255)
gatAACTGGGAAGAGCAGGCGGCAAACCGTCTGACCGACGCGATGCAGGGTCTGGACGAACGCAGCCAg > 1:353816/1‑69 (MQ=255)
gatAACTGGGAAGAGCAGGCGGCAAACCGTCTGACCGACGCGATGCAGGGTCTGGACGAACGCAGCCAg > 1:710920/1‑69 (MQ=255)
gatAACTGGGAAGAGCAGGCGGCAAACCGTCTGACCGACGCGATGCAGGGTCTGGACGAACGCAGCCAg > 1:3000510/1‑69 (MQ=255)
gatAACTGGGAAGAGCAGGCGGCAAACCGTCTGACCGACGCGATGCAGGGTCTGGACGAACGCAGCCAg > 1:2322959/1‑69 (MQ=255)
gatAACTGGGAAGAGCAGGCGGCAAACCGTCTGACCGACGCGATGCAGGGTCTGGACGAACGCAGCCAg > 1:231656/1‑69 (MQ=255)
gatAACTGGGAAGAGCAGGCGGCAAACCGTCTGACCGACGCGATGCAGGGTCTGGACGAACGCAGCCAg > 1:1439100/1‑69 (MQ=255)
cgatgcgatgCAAGGTCTGGACGAGCGTAGTCAGGa < 1:2703424/36‑1 (MQ=16)
cgatgcgatgCAAGGTCTGGACGAGCGTAGTCAGGa < 1:722421/36‑1 (MQ=16)
cgatgcgatgCAAGGTCTGGACGAGCGTAGTCAGGa < 1:781461/36‑1 (MQ=16)
cgatgcgatgCAAGGTCTGGACGAGCGTAGTCAGGa < 1:820287/36‑1 (MQ=16)
cgatgcgatgCAAGGTCTGGACGAGCGTAGTCAGGa < 1:3425612/36‑1 (MQ=16)
cgatgcgatgCAAGGTCTGGACGAGCGTAGTCAGGa < 1:1649677/36‑1 (MQ=16)
gCAGGGTCTGGACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCAc < 1:2438659/69‑1 (MQ=255)
gCAGGGTCTGGACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCAc < 1:91287/69‑1 (MQ=255)
gCAGGGTCTGGACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCAc < 1:2820685/69‑1 (MQ=255)
gCAGGGTCTGGACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCAc < 1:219576/69‑1 (MQ=255)
gCAGGGTCTGGACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCAc < 1:1100802/69‑1 (MQ=255)
gCAGGGTCTGGACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCAc < 1:301195/69‑1 (MQ=255)
gCAGGGTCTGGACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCAc < 1:3115050/69‑1 (MQ=255)
gCAGGGTCTGGACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCAc < 1:1401763/69‑1 (MQ=255)
gCAGGGTCTGGACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCAc < 1:2231095/69‑1 (MQ=255)
gACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCACGTTg > 1:2247009/1‑63 (MQ=255)
gACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCACGTTGCAGGaa > 1:423151/1‑69 (MQ=255)
gACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCACGTTGCAGGaa > 1:399328/1‑69 (MQ=255)
gACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCACGTTGCAGGaa > 1:1293498/1‑69 (MQ=255)
gACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCACGTTGCAGGaa > 1:513453/1‑69 (MQ=255)
gACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCACGTTGCAGGaa > 1:3405870/1‑69 (MQ=255)
gACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCACGTTGCAGGa > 1:3253080/1‑68 (MQ=255)
gACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCACGTTGCAGGa > 1:493650/1‑68 (MQ=255)
cGAGCGTAGTCAGGATATCATCCGCGCGCGctggctgg > 1:1109095/1‑38 (MQ=12)
cGAGCGTAGTCAGGATATCATCCGCGCGCGCTGGCTGGATGAAGACAACAAGTCCACGTTGCAGGAAc > 1:939131/1‑68 (MQ=255)
cGAGCGTAGTCAGGATATCATCCGCGCGCGCTGGCTGGATGAAGACAACAAGTCCACGTTGCAGGAAc > 1:3386689/1‑68 (MQ=255)
cGAGCGTAGTCAGGATATCATCCGCGCGCGCTGGCTGGATGAAGACAACAAGTCCACGTTGCAGGAACt > 1:3310525/1‑69 (MQ=255)
cGAGCGTAGTCAGGATATCATCCGCGCGCGCTGGCTGGATGAAGACAACAAGTCCACGTTGCAGGAACt > 1:2933225/1‑69 (MQ=255)
cGAGCGTAGTCAGGATATCATCCGCGCGCGCTGGCTGGATGAAGACAACAAGTCCACGTTGCAGGAACt > 1:280812/1‑69 (MQ=255)
cGAGCGTAGTCAGGATATCATCCGCGCGCGCTGGCTGGATGAAGACAACAAGTCCACGTTGCAGGAACt > 1:2477361/1‑69 (MQ=255)
cGAGCGTAGTCAGGATATCATCCGCGCGCGCTGGCTGGATGAAGACAACAAGTCCACGTTGCAGGAACt > 1:2436709/1‑69 (MQ=255)
cGAGCGTAGTCAGGATATCATCCGCGCGCGCTGGCTGGATGAAGACAACAAGTCCACGTTGCAGGAACt > 1:2305190/1‑69 (MQ=255)
|
ATTGAAGATGATAACTGGGAAGAGCAGGCGGCAAACCGTCTGACCGACGCGATGCAGGGTCTGGACGAACGCAGCCAGGACATCATCCGTGCGCGCTGGCTGGACGAAGACAACAAGTCCACGTTGCAGGAACT > minE/2627039‑2627172
|
| 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
