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 |
600,547 |
T→C |
22.1% |
C145C (TGT→TGC) |
dmsB → |
dimethyl sulfoxide reductase, anaerobic, subunit B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 600,547 | 0 | T | C | 22.1%
| 93.8
/ 20.0
| 72 | C145C (TGT→TGC) | dmsB | dimethyl sulfoxide reductase, anaerobic, subunit B |
| Reads supporting (aligned to +/- strand): ref base T (36/20); new base C (10/6); total (46/26) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.31e-01 |
TGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTAAAAAACAT > minE/600480‑600598
|
tGACCAAATGGGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc < 1:2575951/69‑1 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc > 1:104665/1‑69 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc < 1:984901/69‑1 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc > 1:732957/1‑69 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc > 1:725863/1‑69 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc > 1:375619/1‑69 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc > 1:3005265/1‑69 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc > 1:2778517/1‑69 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc > 1:2748287/1‑69 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc < 1:2648700/69‑1 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc > 1:2540920/1‑69 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc > 1:1913020/1‑69 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc > 1:1652910/1‑69 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc > 1:1009705/1‑69 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc > 1:1288943/1‑69 (MQ=255)
tGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTc > 1:1484668/1‑69 (MQ=255)
gttgttATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTgg > 1:2721789/1‑69 (MQ=255)
gttgttATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTgg > 1:782895/1‑69 (MQ=255)
gttgttATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTgg > 1:2644615/1‑69 (MQ=255)
tGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTc > 1:566454/1‑67 (MQ=255)
tGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCgg > 1:1511350/1‑69 (MQ=255)
tGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCgg > 1:1386871/1‑69 (MQ=255)
gACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCgg < 1:1778081/68‑1 (MQ=255)
gACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCgg < 1:1613414/68‑1 (MQ=255)
aCCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGt > 1:2549692/1‑44 (MQ=255)
aCCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGc > 1:811681/1‑68 (MQ=255)
aCCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGc > 1:1443125/1‑68 (MQ=255)
aCCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGc > 1:234379/1‑68 (MQ=255)
gtTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATc < 1:3182408/69‑1 (MQ=255)
gtTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATc < 1:1825213/69‑1 (MQ=255)
gtTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATc < 1:3057055/69‑1 (MQ=255)
gtTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATc < 1:1454588/69‑1 (MQ=255)
gtTGCGGAAGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATc < 1:2990846/69‑1 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:148853/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:817901/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:937652/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:1787895/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:372127/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:3034058/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:1918571/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:3142960/1‑68 (MQ=255)
aGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa > 1:2944792/1‑69 (MQ=255)
aGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa > 1:638323/1‑69 (MQ=255)
aGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa > 1:1654183/1‑69 (MQ=255)
aGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa > 1:1677454/1‑69 (MQ=255)
aGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa > 1:2563538/1‑69 (MQ=255)
aGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa > 1:2137095/1‑69 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:1201173/69‑1 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:660962/69‑1 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:2517649/69‑1 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:2293559/69‑1 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:3245806/69‑1 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:2056622/69‑1 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:2052734/69‑1 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGCTTTCGGACCTATCGACGAGCTGCGTAAAAAACa > 1:2233302/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGAt > 1:2156433/1‑36 (MQ=19)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:1741115/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:976327/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:3232381/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:3133524/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:1206470/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:2829044/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:2440226/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:2142610/1‑68 (MQ=255)
cTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa < 1:2754409/62‑1 (MQ=255)
cTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa < 1:1151059/62‑1 (MQ=255)
ttGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:3000979/59‑1 (MQ=255)
ttGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTaaaaaa < 1:1202253/52‑1 (MQ=255)
ttGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTaaaaaa < 1:2793834/52‑1 (MQ=255)
ttGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTaaaaaa < 1:1324400/52‑1 (MQ=255)
ttGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTaaaaaa < 1:1734795/52‑1 (MQ=255)
ttGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTaaaaaa < 1:2467035/52‑1 (MQ=255)
ttGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTaaaaaa < 1:2096578/52‑1 (MQ=255)
|
TGACCAAATGCGATGGTTGTTATGACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTAAAAAACAT > minE/600480‑600598
|
| 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
