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 |
1,472,917 |
G→A |
45.6% |
E167E (GAG→GAA) |
nrdA → |
ribonucleoside diphosphate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,472,917 | 0 | G | A | 45.6%
| 8.9
/ 43.5
| 57 | E167E (GAG→GAA) | nrdA | ribonucleoside diphosphate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base G (11/20); new base A (14/12); total (25/32) |
| Fisher's exact test for biased strand distribution p-value = 1.90e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTGCCGTTAAGCAGCTGGAAGGCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTGCCGCGTGCTTGT > minE/1472853‑1472957
|
ctgcCGTTAAGCAGCTGGAAGGCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAgcg > 1:2523633/1‑69 (MQ=255)
ttAAGCAGCTGGAAGGCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGt < 1:1607636/69‑1 (MQ=255)
ttAAGCAGCTGGAAGGCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGt < 1:2169897/69‑1 (MQ=255)
ttAAGCAGCTGGAAGGCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGt < 1:1860637/69‑1 (MQ=255)
cagcTGGAAGGCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCtt < 1:1345362/69‑1 (MQ=255)
aGGCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCt < 1:9130/69‑1 (MQ=255)
aGGCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCt < 1:2288916/69‑1 (MQ=255)
aGGCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCt < 1:645498/69‑1 (MQ=255)
gCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCtgg < 1:2520104/69‑3 (MQ=255)
gCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCtgg < 1:2732554/69‑3 (MQ=255)
gCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCtgg < 1:2619955/69‑3 (MQ=255)
gCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCtgg < 1:2698340/69‑3 (MQ=255)
gCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCtgg < 1:2723820/69‑3 (MQ=255)
gCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCtgg < 1:2865233/69‑3 (MQ=255)
gCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCtgg < 1:3329346/69‑3 (MQ=255)
gCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCtgg < 1:3424308/69‑3 (MQ=255)
gCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCtgg < 1:461088/69‑3 (MQ=255)
gCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCtgg < 1:59712/69‑3 (MQ=255)
gCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCtgg < 1:88463/69‑3 (MQ=255)
gCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCtgg < 1:941483/69‑3 (MQ=255)
aaaTATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGtt < 1:1291038/69‑1 (MQ=255)
aaaTATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGtt < 1:830684/69‑1 (MQ=255)
aaaTATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGtt < 1:1581001/69‑1 (MQ=255)
aaaTATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGtt < 1:518334/69‑1 (MQ=255)
aaaTATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGtt < 1:482390/69‑1 (MQ=255)
aaaTATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGtt < 1:3316962/69‑1 (MQ=255)
aaaTATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGtt < 1:3263797/69‑1 (MQ=255)
aaaTATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGtt < 1:2766269/69‑1 (MQ=255)
tatCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTatat > 1:2431270/1‑59 (MQ=255)
tatCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTTcc > 1:3260865/1‑69 (MQ=255)
tatCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTGcc > 1:499884/1‑69 (MQ=255)
tatCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTGcc > 1:2706487/1‑69 (MQ=255)
tatCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTGcc > 1:52046/1‑69 (MQ=255)
tatCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTGcc > 1:1870169/1‑69 (MQ=255)
tatCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTGc > 1:3299800/1‑68 (MQ=255)
tatCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATAATCTAGTTGcc > 1:2103267/1‑69 (MQ=255)
tatCTGATACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTGcc > 1:436209/1‑69 (MQ=255)
tGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTGCcgcg < 1:2774968/68‑1 (MQ=255)
aCAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTGCCGCGTGCtt > 1:3033767/1‑69 (MQ=255)
aCAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTGCCGCGTGCt < 1:1855917/68‑1 (MQ=255)
aCAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTGCCGCGTGCt < 1:2239792/68‑1 (MQ=255)
aCAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTGCCGCGTGCt < 1:288059/68‑1 (MQ=255)
cAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCt < 1:1024425/53‑1 (MQ=255)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGt > 1:2509229/1‑39 (MQ=37)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCTGGTTGCCGCGTGCCTGt > 1:1503019/1‑69 (MQ=255)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCTGGTTGCCGCGTGCCTGt > 1:2602887/1‑69 (MQ=255)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCTGGTTGCCGCGTGCCTGt > 1:1317792/1‑69 (MQ=255)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCTGGTTGCCGCGTGCCTGt > 1:2101454/1‑69 (MQ=255)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCTGGTTGCCGCGTGCCTGt > 1:1131132/1‑69 (MQ=255)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCTGGTTGCCGCGTGCCTGt > 1:1724071/1‑69 (MQ=255)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCTGGTTGCCGCGTGCCTGt > 1:413683/1‑69 (MQ=255)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCTGGTTGCCGCGTGCCTGt > 1:2042400/1‑69 (MQ=255)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCTGGTTGCCGCGTGCCTGt > 1:31396/1‑69 (MQ=255)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCTGGTTGCCGCGTGCCTGt > 1:3036428/1‑69 (MQ=255)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCTGGTTGCCGCGTGCCTGt > 1:2956252/1‑69 (MQ=255)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCTGGTTGCCGCGTGCCTGt > 1:2952269/1‑69 (MQ=255)
aGAACCGCGTGACCGGCGAAATCTACGAAAGCGCCCAGTTCCTTTATATTCTGGTTGCCGCGTGCCTGt > 1:194006/1‑69 (MQ=255)
|
CTGCCGTTAAGCAGCTGGAAGGCAAATATCTGGTACAGAACCGCGTGACCGGCGAAATCTATGAGAGCGCCCAGTTCCTTTATATTCTAGTTGCCGCGTGCTTGT > minE/1472853‑1472957
|
| 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
