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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
833,939 |
T→C |
35.1% |
N799N (AAT→AAC) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 833,939 | 0 | T | C | 35.1%
| 53.8
/ 51.9
| 57 | N799N (AAT→AAC) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (18/19); new base C (8/12); total (26/31) |
| Fisher's exact test for biased strand distribution p-value = 5.87e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01 |
TCGAGCACCTGTCTCTATTCCGACATCATTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAG > minE/833871‑834000
|
tCGAGCACCTGTCTCTATTCCGACATCATTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATAc > 1:1785461/1‑71 (MQ=255)
gAGCACCTGTCTCTATTCCGACATCATTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACtt > 1:1507433/1‑71 (MQ=255)
ctctATTCCGACATCATTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCa > 1:1652325/1‑71 (MQ=255)
ttctCCGATATCGTTCTGCCCACCGCCACCTGGTACGAAAAAGACGATATGAACACCTCGGATATGCAt < 1:2153056/66‑1 (MQ=255)
ttCCGACATCATTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCg < 1:2145552/70‑1 (MQ=255)
tCCGACATCATTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGtt > 1:729285/1‑71 (MQ=255)
ccGACATCATTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATc > 1:406587/1‑66 (MQ=255)
cGATATCGTTCTGCCCACCGCCACCTGGTACGAAAAAGACGATATGAACACCTCGGa > 1:2581712/1‑57 (MQ=255)
cGATATCGTTCTGCCCACCGCCACCTGGTACGAAAAAGACGATATGAACACCTCGGATATGCATCCGTTTa < 1:1145252/71‑1 (MQ=255)
cGATATCGTTCTGCCCACCGCCACCT‑GTACGAAAAAGACGATATGAACACCTCGGATATGc > 1:684424/1‑61 (MQ=255)
gACATCATTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGt < 1:3459817/67‑1 (MQ=255)
gACATCATTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGt < 1:2051805/67‑1 (MQ=255)
atatcgtTCTGCCCACCGCCACCTGGTACGAAAAAGACGATATGAACACCTCGGATATGCAt > 1:3230386/3‑62 (MQ=255)
tatcgtTCTGCCCACCGCCACCTGGTACGAAAAAGACGATATGAACACCTCGGATATGCATCCGTTTATTc < 1:3029061/70‑1 (MQ=255)
tatcgtTCTGCCCACCGCCACCTGGTACGAAAAAGACGATATGAACACCTCGGATATGCATCCGTTTATTc < 1:2742127/70‑1 (MQ=255)
tatcgtTCTGCCCACCGCCACCTGGTACGAAAAAGACGATATGAACACCTCGGATATGCATCCGTTTATTc < 1:2565881/70‑1 (MQ=255)
catcatTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTATTc < 1:169395/71‑1 (MQ=255)
catcatTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTATTc < 1:720934/71‑1 (MQ=255)
atcatTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTATTCa < 1:171742/71‑1 (MQ=255)
catTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGc > 1:2837136/1‑56 (MQ=255)
catTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTATTCAc > 1:1547707/1‑70 (MQ=255)
ttttGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTAtt < 1:3586881/65‑1 (MQ=255)
tctGCCCACCGCCACCTGGTACGAAAAAGACGATATGAACACCTCGGat > 1:2069477/3‑49 (MQ=255)
cGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGa < 1:300223/43‑1 (MQ=255)
aCGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGatat > 1:2091941/1‑44 (MQ=255)
aCGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGata > 1:1347391/1‑43 (MQ=255)
aCGGCGACCTGGTACGAAAAAGACGACATGAATACTTAGGATATGCATCCGTTTATTCACCCGCTGTCTgc > 1:184044/1‑71 (MQ=255)
cGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTgcggcg < 1:1316571/71‑1 (MQ=255)
caCCTGGTACGAAAAAGACGATATGAACACCTCGGATATGCATCCGTTTa < 1:3568388/49‑1 (MQ=255)
aCCTGGTACGAAAAAGACGATATGAACACCTCGGATATGCATCCGTTTATTCATCCGCTTTCTGCGGCGGt < 1:3340782/71‑1 (MQ=255)
ccTTGTACGAAAAAGACGATATGAACACCTCGGATATGCATCCGTTTATTc < 1:2701348/51‑1 (MQ=255)
ccTGGTACGAAAAAGACGATATGAACACCTCGGATATGCATCCGTTTATTCATCCGCTTTCTGCGGCGGTc > 1:1082343/1‑71 (MQ=255)
ccTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTc > 1:523411/1‑71 (MQ=255)
ccTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTc > 1:645282/1‑71 (MQ=255)
cTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTATTCAc < 1:2702202/52‑1 (MQ=255)
cTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCg < 1:1147388/71‑1 (MQ=255)
tGGTACGAAAAACACGACATGAATACTTCGGATATGCATCCGTTTATTCAcc < 1:382861/52‑1 (MQ=255)
ggTACGAAAAAGACGATATGAACACCTCGGATATGCATCCGTTTa > 1:2218132/1‑45 (MQ=255)
ggTACGAAAAAGACGATATGAACACCTCGGATATGCATCCGTTTATTCATCCGCTTTCTGCGGCGGTCGAt > 1:539908/1‑71 (MQ=255)
gTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGAt < 1:2894652/70‑1 (MQ=255)
aCGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCg > 1:1174350/1‑71 (MQ=255)
aaaaaGACGACATGAATACTTCGGATATGCATCCGttt > 1:827096/1‑38 (MQ=255)
aaaaaGACGACATGAATACTTCGGATATGCATCCGttt > 1:2951607/1‑38 (MQ=255)
aaaaaGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCg < 1:3899757/47‑1 (MQ=255)
aaaaGACGATATGAACACCTCGGATATGCATCCGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGcgt < 1:2898435/71‑3 (MQ=255)
aaaaGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCt < 1:2567963/71‑1 (MQ=255)
aaaaGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCt > 1:3946166/1‑71 (MQ=255)
aaaGACGATATGAACACCTCGGATATGCATCCGtt < 1:3112855/35‑1 (MQ=25)
aaaGACGATATGAACACCTCGGATATGCATCCGTTTa > 1:981683/1‑37 (MQ=37)
aaaGACGATATGAACACCTCGGATATGCATCCGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTg < 1:3714343/71‑1 (MQ=255)
aaaGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTc > 1:1896657/1‑60 (MQ=255)
aaaGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTg > 1:2116689/1‑71 (MQ=255)
aaaGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTg < 1:942542/71‑1 (MQ=255)
cgacATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGaa < 1:3126815/70‑1 (MQ=255)
cgacATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAg < 1:404217/71‑1 (MQ=255)
ataTGAACACCTCGGATATGCATCCGTTTATTCATCCGCTTTCTGCGGCGGTCGATCCGGCGTGGGaa < 1:2987246/66‑1 (MQ=255)
aTACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTgg < 1:1288601/59‑1 (MQ=255)
|
TCGAGCACCTGTCTCTATTCCGACATCATTTTGCCGACGGCGACCTGGTACGAAAAAGACGACATGAATACTTCGGATATGCATCCGTTTATTCACCCGCTGTCTGCGGCGGTCGATCCGGCCTGGGAAG > minE/833871‑834000
|
| 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
