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 |
1,486,340 |
G→A |
40.9% |
A324A (GCC→GCT) |
nuoN ← |
NADH:ubiquinone oxidoreductase, membrane subunit N |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,486,340 | 0 | G | A | 40.9%
| 23.7
/ 40.5
| 61 | A324A (GCC→GCT) | nuoN | NADH:ubiquinone oxidoreductase, membrane subunit N |
| Reads supporting (aligned to +/- strand): ref base G (13/23); new base A (7/18); total (20/41) |
| Fisher's exact test for biased strand distribution p-value = 5.86e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
CACCGACCGCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGCATCATCACCGTCATCACTGCCGCGAGGATCGGACGATGCCAGAACAGACCGC > minE/1486285‑1486404
|
cacCGACCGCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGc < 1:939873/68‑1 (MQ=255)
cacCGACCGCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGc < 1:351012/68‑1 (MQ=255)
cacCGACCGCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGc < 1:1509149/68‑1 (MQ=255)
cacCGACCGCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGc < 1:315940/68‑1 (MQ=255)
cacCGACCGCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGc < 1:2984052/68‑1 (MQ=255)
cacCGACCGCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGc < 1:2940157/68‑1 (MQ=255)
cacCGACCGCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGc < 1:2638094/68‑1 (MQ=255)
accgaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGc < 1:1019412/67‑1 (MQ=255)
cgaccgacAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAGTGAAAGcatc > 1:1811262/1‑68 (MQ=255)
cgaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAGTGAAAGcatc > 1:1042090/1‑68 (MQ=255)
cgaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAGTGAAAGcatc > 1:709385/1‑68 (MQ=255)
cgaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAGTGAAAGcatc > 1:554576/1‑68 (MQ=255)
cgaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAGTGAAAGcatc > 1:3337339/1‑68 (MQ=255)
cgaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAGTGAAAGcatc > 1:2259088/1‑68 (MQ=255)
cgaccgCCAGCAAGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAGTGAAAGcatc > 1:1855480/1‑68 (MQ=255)
gaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGcatcat > 1:1871471/1‑69 (MQ=255)
gaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGcatcat > 1:2869363/1‑69 (MQ=255)
gaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGcatcat > 1:2772058/1‑69 (MQ=255)
gaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGcatcat > 1:2771509/1‑69 (MQ=255)
gaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGcatcat > 1:3415101/1‑69 (MQ=255)
gaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGcatcat > 1:359436/1‑69 (MQ=255)
gaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGcatcat > 1:743941/1‑69 (MQ=255)
gaccgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGcatcat > 1:1234120/1‑69 (MQ=255)
accgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGCatcatc < 1:142734/69‑1 (MQ=255)
accgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGCatcatc < 1:2914722/69‑1 (MQ=255)
accgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGCatcatc < 1:3211541/69‑1 (MQ=255)
accgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGCatcatc < 1:2149008/69‑1 (MQ=255)
accgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGCatcatc < 1:911567/69‑1 (MQ=255)
accgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGCatcatc < 1:1752639/69‑1 (MQ=255)
accgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGCatcatc < 1:1837477/69‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCGAGCGTCATTGGGATACCAGCCAgtga < 1:679566/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:1043650/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:453661/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:1439900/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:348246/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:777245/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:801216/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:1631934/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:897121/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:1665669/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:2562807/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:2128440/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:1748749/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:2051537/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:2006058/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:2591723/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:277232/57‑1 (MQ=255)
cgCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATTGGGATACCAGCCAgtga < 1:2700952/57‑1 (MQ=255)
cACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGCATCATCACCGtcat < 1:1688249/69‑1 (MQ=255)
cACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGCATCATCACCGtcat < 1:225859/69‑1 (MQ=255)
cGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGCCTCATCACCGTCATCACTGCCGCGAgg < 1:3239007/68‑1 (MQ=255)
cGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGCATCATCACCGTCATCACTGCCGCGAgg < 1:2614607/68‑1 (MQ=255)
gATAAAGCCCAGCGTCATGGGGATACCGGCCAGAGACAGCATCATCACCGTCATCACTGCCGCGAgg < 1:2379509/67‑1 (MQ=255)
gCCCAGCGTCATCGGGATACCGGCCAGAGACAGCATCATCACCGTCATCACTGCCGCGAGGATCGGAc < 1:594996/68‑1 (MQ=255)
gCCCAGCGTCATCGGGATACCGGCCAGAGACAGCATCATCACCGTCATCACTGCCGCGAGGATCGGAc < 1:2376528/68‑1 (MQ=255)
gCCCAGCGTCATCGGGATACCGGCCAGAGACAGCATCATCACCGTCATCACTGCCGCGAGGATCGGAc < 1:1572077/68‑1 (MQ=255)
tCATCGGGATACCGGCCAGAGACAGCATCATCACCGTCATCACTGCCGCGAGGATCGGACGATGCCAg > 1:1920881/1‑68 (MQ=255)
tCATCGGGATACCGGCCAGAGACAGCATCATCACCGTCATCACTGCCGCGAGGATCGGACGATGCCAg > 1:2402149/1‑68 (MQ=255)
tCATCGGGATACCGGCCAGAGACAGCATCATCACCGTCATCACTGCCGCGAGGATCGGACGATGCCAg > 1:1447005/1‑68 (MQ=255)
aCCGGCCAGAGACAGCATCATCACCGTCATCACTGCCGCGAGGATCGGACGATGCCAGAACAGACcgc > 1:2128839/1‑68 (MQ=255)
aCCGGCCAGAGACAGCATCATCACCGTCATCACTGCCGCGAGGATCGGACGATGCCAGAACAGACcgc > 1:2472780/1‑68 (MQ=255)
|
CACCGACCGCCAGCACGTAGAACTTACCGATAAAGCCCAGCGTCATCGGGATACCGGCCAGAGACAGCATCATCACCGTCATCACTGCCGCGAGGATCGGACGATGCCAGAACAGACCGC > minE/1486285‑1486404
|
| 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
