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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
832,718 |
C→T |
31.3% |
G392G (GGC→GGT) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 832,718 | 0 | C | T | 31.3%
| 99.8
/ 46.9
| 67 | G392G (GGC→GGT) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base C (25/21); new base T (2/19); total (27/40) |
| Fisher's exact test for biased strand distribution p-value = 4.57e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGAATGGAAAACTGTCGCCTTTAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCAAAACTGGCGAAGAAACCGAGC > minE/832655‑832788
|
ggAATGGAAAACTGTCGCCTTTAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCt < 1:3559558/71‑1 (MQ=255)
agtGGAAAACCGTAGCAGTTAATACCGCAGGTGAATTGGTAGTGCCGAACGGTTCGATTGGTTTCCGCTgg < 1:2090708/69‑1 (MQ=255)
agtGGAAAACCGTAGCAGTTAATACCGCAGGTGAATTGGTAGTGCCGAACGGTTCGATTGGTTTCCGCTgg < 1:5462661/69‑1 (MQ=255)
agtGGAAAACCGTAGCAGTTAATACCGCAGGTGAATTGGTAGTGCCGAACGGTTCGATTGGTTTCCGCTgg < 1:4568169/69‑1 (MQ=255)
aaTGGAAAACTGTCGCCTTTAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTgg < 1:1443698/71‑1 (MQ=255)
gAAAACTGTCGCCTTTAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGc > 1:3160069/1‑70 (MQ=255)
aaCTGTCGCCTTTAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTggg < 1:4571973/65‑1 (MQ=255)
aCTGTCGCCTTTAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGc > 1:2670162/1‑60 (MQ=255)
gCCTTTAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCaa < 1:3167222/71‑1 (MQ=255)
gCCTTTAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCa > 1:2257604/1‑70 (MQ=255)
gCCTTTAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCa > 1:3800650/1‑70 (MQ=255)
tAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGc > 1:5345206/1‑49 (MQ=255)
tAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGc > 1:1573237/1‑49 (MQ=255)
tAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGc > 1:4182093/1‑49 (MQ=255)
tAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATgg > 1:4799910/1‑70 (MQ=255)
tACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCg < 1:1178768/53‑1 (MQ=255)
tACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATc < 1:4637853/71‑1 (MQ=255)
aCCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCg < 1:2057519/52‑1 (MQ=255)
cAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCtt < 1:1573428/70‑1 (MQ=255)
cAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTg < 1:1672421/71‑1 (MQ=255)
cAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTg < 1:4891240/71‑1 (MQ=255)
gtgAATTGGTAGTGCCGAACGGTTCGATTGGTTTCCGCTGGGGAGAAAAAGGCAAATGGAATCt < 1:3070023/62‑1 (MQ=255)
gCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATg > 1:4714306/1‑58 (MQ=255)
gCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATg > 1:2187086/1‑58 (MQ=255)
gCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATg > 1:148097/1‑58 (MQ=255)
gAATTGGTAGTGCCGAACGGTTCGATTGGTTTCCGCTGGGGAGaaaaa > 1:5324752/1‑47 (MQ=16)
aaaTGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTggg > 1:4203655/1‑39 (MQ=255)
aaaTGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTggg > 1:1987587/1‑39 (MQ=255)
aTGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGaa > 1:76384/1‑44 (MQ=255)
aTGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGa < 1:1441733/71‑1 (MQ=255)
tGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGAc > 1:5576061/1‑71 (MQ=255)
ggTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGaa > 1:2464821/1‑42 (MQ=255)
tGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCtt > 1:1557746/1‑55 (MQ=255)
tGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCtt > 1:2226379/1‑55 (MQ=255)
gcgcCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGagca < 1:1120922/59‑1 (MQ=255)
tgcCGAACGGTTCGATTGGTTTCCGCTGGGGAGAAAAAGGCAAATGGa < 1:2862507/47‑1 (MQ=21)
cgcCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGaa < 1:215322/37‑1 (MQ=255)
cgcCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCaaa < 1:173592/71‑1 (MQ=255)
cgcCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCaa < 1:1460577/70‑1 (MQ=255)
gcCGAACGGTTCGATTGGTTTCCGCTGGGGAGAAAAAGGCa < 1:3965806/41‑1 (MQ=16)
ccGAACGGTTCTATTGGTTTCCGCTGGGGAGAAAAAGGCAAATGGAATCtg > 1:2078621/1‑50 (MQ=37)
ccGAACGGTTCGATTGGTTTCCGCTGGGGAGAAAAAGGCa < 1:2794787/40‑1 (MQ=16)
ccGAACGGTTCGATTGGTTTCCGCTGGGGAGAAAAAGGCAAATGGa < 1:3684995/46‑1 (MQ=21)
ccGAACGGTTCGATTGGTTTCCGCTGGGGAGAAAAAGGCAAATGGa < 1:879464/46‑1 (MQ=21)
ccGAACGGTTCGATTGGTTTCCGCTGGGGAGAAAAAGGCAAATGGa < 1:1606618/46‑1 (MQ=21)
cGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCAAAACt > 1:1844029/1‑71 (MQ=255)
aaCGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCAAAACTgg > 1:4600882/1‑71 (MQ=255)
aaCGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCAAAACTgg > 1:4364605/1‑71 (MQ=255)
aaCGGTTCGATTGGTTTCCGCTGGGGAGAAAAAGGCAAATg < 1:2084685/41‑1 (MQ=16)
aaCGGTTCGATTGGTTTCCGCTGGGGAGAAAAAGGCAAATg < 1:5512708/41‑1 (MQ=16)
aaCGGTTCGATTGGTTTCCGCTGGGGAGAAAAAGGCAAATGGAAt < 1:4563994/45‑1 (MQ=21)
aaCGGTTCGATTGGTTTCCGCTGGGGAGAAAAAGGCAAATGGAAt < 1:3798485/45‑1 (MQ=21)
aaCGGTTCGATTGGTTTCCGCTGGGGAGAAAAAGGCAAATGGAAt < 1:1231966/45‑1 (MQ=21)
cGGTTCTATTGGCTTCCGCTGGGGCGAGAACGGCAAATGGAATCTTGAGCAGCGCGACGGCAAAACTGGCg < 1:61479/71‑1 (MQ=255)
cGGTTCTATTGGCTTACGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCAAAACTGGCg < 1:20356/71‑1 (MQ=255)
ttCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCa > 1:2032609/1‑59 (MQ=255)
ttCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCAAAAc > 1:5263683/1‑63 (MQ=255)
ttCGATTGGTTTCCGCTGGGGAGAAAAAGGCAAATGGaa < 1:622770/39‑1 (MQ=16)
ttGGTTTCCGCTGGGGAGAAAAAGGCAAATGGAATCTGGaa < 1:1539148/41‑2 (MQ=16)
ttGGTTTCCGCTGGGGAGAAAAAGGCAAATGGAATCTGGa < 1:2229447/40‑1 (MQ=16)
ttGGTTTCCGCTGGGGAGAAAAAGGCAAATGGAATCTGGa < 1:5375076/40‑1 (MQ=16)
ttGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAgcgc < 1:915561/47‑1 (MQ=255)
ttGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAgcgc < 1:4067535/47‑1 (MQ=255)
ggCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGag > 1:2284561/1‑39 (MQ=255)
ggCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCAAAACTGGCGAAGAAAcc > 1:1501415/1‑69 (MQ=255)
ggCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCAAAACTGGCGAAGAAACCg < 1:4592070/70‑1 (MQ=255)
gCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCAAAACTGGCGAAGAAACCGAg < 1:599192/71‑1 (MQ=255)
cTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCAAAACTGGCGAAGAAACCGAGc < 1:2787474/71‑1 (MQ=255)
|
GGAATGGAAAACTGTCGCCTTTAATACCAATGGCGAAATGGTTGCGCCGAACGGTTCTATTGGCTTCCGCTGGGGCGAGAAGGGCAAATGGAATCTTGAGCAGCGCGACGGCAAAACTGGCGAAGAAACCGAGC > minE/832655‑832788
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
