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 |
1,542,969 |
A→G |
42.3% |
G481G (GGT→GGC) |
yfcX ← |
fused enoyl‑CoA hydratase, 3‑hydroxybutyryl‑CoA epimerase, dodecenoyl‑CoA D‑isomerase, and 3‑hydroxyacyl‑CoA dehydrogenase, subunit of anaerobic fatty acid oxidation complex |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,542,969 | 0 | A | G | 42.3%
| 15.0
/ 42.9
| 59 | G481G (GGT→GGC) | yfcX | fused enoyl‑CoA hydratase, 3‑hydroxybutyryl‑CoA epimerase, dodecenoyl‑CoA D‑isomerase, and 3‑hydroxyacyl‑CoA dehydrogenase, subunit of anaerobic fatty acid oxidation complex |
| Reads supporting (aligned to +/- strand): ref base A (26/8); new base G (19/6); total (45/14) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.78e-01 |
AATGTAAGGCGCTAAGATGCGATTGACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTCCCCGCATGAGGAATA > minE/1542903‑1543035
|
aaTGTAAGGCGCTAAGATGCGATTGACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTAcc > 1:2603046/1‑69 (MQ=255)
aaTGTAAGGCGCTAAGATGCGATTGACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTAcc > 1:1876937/1‑69 (MQ=255)
tAAGGCGCTAAGATGCGATTGACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGt > 1:2542564/1‑69 (MQ=255)
tAAGGCGCTAAGATGCGATTGACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGt > 1:935674/1‑69 (MQ=255)
tAAGGCGCTAAGATGCGATTGACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGt > 1:669733/1‑69 (MQ=255)
tAAGGCGCTAAGATGCGATTGACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGt > 1:1472720/1‑69 (MQ=255)
aGGCGCTAAGATGCGATTGACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGttt > 1:985332/1‑69 (MQ=255)
aGGCGCTAAGATGCGATTGACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGttt > 1:64543/1‑69 (MQ=255)
aaaaTGCGATTGACGTAAAACCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGcc < 1:1594046/66‑1 (MQ=255)
aaaaTGCGATTGACGTAAAACCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGcc < 1:2235984/66‑1 (MQ=255)
aaaaTGCGATTGACGTAAAACCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGcc < 1:1807219/66‑1 (MQ=255)
aaaaTGCGATTGACGTAAAACCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGcc < 1:419576/66‑1 (MQ=255)
aaaaTGCGATTGACGTAAAACCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGcc < 1:850202/66‑1 (MQ=255)
aaaaTGCGATTGACGTAAAACCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGcc < 1:127989/66‑1 (MQ=255)
gACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGTTTTTTCGCCAGtttt > 1:294478/1‑64 (MQ=255)
gACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACtgt > 1:3081777/1‑69 (MQ=255)
gACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACtgt > 1:100630/1‑69 (MQ=255)
gACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACtgt > 1:2436774/1‑69 (MQ=255)
aaaacCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGCCTGTTTTACTGTGGTa > 1:2302/1‑68 (MQ=255)
aaaacCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGt > 1:1591839/1‑67 (MQ=255)
aaaacCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTa > 1:3179390/1‑68 (MQ=255)
aaaacCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTa > 1:2683530/1‑68 (MQ=255)
aaaacCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTa > 1:3124138/1‑68 (MQ=255)
aaaacCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTa > 1:3401350/1‑68 (MQ=255)
aaaacCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTa > 1:2765773/1‑68 (MQ=255)
aaaacCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTa > 1:2667818/1‑68 (MQ=255)
aaaacCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTa > 1:987926/1‑68 (MQ=255)
aaaacCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTa > 1:1242514/1‑68 (MQ=255)
aaaacCCGGCTTTGTCACGCACGACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTa > 1:1535816/1‑68 (MQ=255)
aaaaCCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGc > 1:2199981/1‑69 (MQ=255)
aaaaCCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGc > 1:762101/1‑69 (MQ=255)
aaaaCCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGc > 1:1851330/1‑69 (MQ=255)
aaaaCCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGc > 1:1709498/1‑69 (MQ=255)
aaaaCCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGc > 1:153256/1‑69 (MQ=255)
tttGTCACGCACGACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTg < 1:371909/69‑1 (MQ=255)
cacgcacgACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGcc < 1:7240/68‑1 (MQ=255)
cacgcacgACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGcc < 1:1473321/68‑1 (MQ=255)
cacgcacgACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGcc < 1:519301/68‑1 (MQ=255)
gcacgACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTgcg > 1:2053032/1‑63 (MQ=255)
gcacgACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATg > 1:2325530/1‑69 (MQ=255)
gcacgACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATg > 1:957165/1‑69 (MQ=255)
gcacgACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATg > 1:454040/1‑69 (MQ=255)
gcacgACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATg > 1:3258680/1‑69 (MQ=255)
gcacgACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATg > 1:2857139/1‑69 (MQ=255)
gcacgACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATg > 1:2989547/1‑69 (MQ=255)
gcacgACAATGGGCGTTTTGCCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGAGCCGATg > 1:1388735/1‑69 (MQ=255)
gACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTccc < 1:1564015/69‑1 (MQ=255)
gACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTccc < 1:3062167/69‑1 (MQ=255)
gACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTccc < 1:303512/69‑1 (MQ=255)
ttACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTCCCCGCATGAgg < 1:2937067/65‑1 (MQ=255)
ttACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTCCCCGCATGAGGaata > 1:3349762/1‑69 (MQ=255)
ttACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTCCCCGCATGAGGaata > 1:3161421/1‑69 (MQ=255)
ttACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTCCCCGCATGAGGaata > 1:76299/1‑69 (MQ=255)
ttACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTCCCCGCATGAGGaata > 1:828603/1‑69 (MQ=255)
ttACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTCCCCGCATGAGGaata > 1:1369425/1‑69 (MQ=255)
ttACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTCCCCGCATGAGGaata > 1:1318986/1‑69 (MQ=255)
ttACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTCCCCGCATGAGGaata > 1:1067842/1‑69 (MQ=255)
ttACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTCCCCGCATGAGGaat > 1:2277139/1‑68 (MQ=255)
ttACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTCCCCGCATGAGGaat > 1:2568356/1‑68 (MQ=255)
|
AATGTAAGGCGCTAAGATGCGATTGACGTAAAAACCGGCTTTGTCACGCACGACAATTGGCGTTTTACCCTGTTTTTTCGCCAGTTTTACTGTGGTAGCGATGGTTTGCGCCGATGTCCCCGCATGAGGAATA > minE/1542903‑1543035
|
| 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
