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 |
1,823,325:1 |
+G |
17.5% |
intergenic (+62/+66) |
norW → / ← hypF |
NADH:flavorubredoxin oxidoreductase/carbamoyl phosphate phosphatase and maturation protein for [NiFe] hydrogenases |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,823,325 | 1 | . | G | 17.5%
| 175.0
/ 45.8
| 57 | intergenic (+62/+66) | norW/hypF | NADH:flavorubredoxin oxidoreductase/carbamoyl phosphate phosphatase and maturation protein for [NiFe] hydrogenases |
| Reads supporting (aligned to +/- strand): ref base . (20/27); new base G (4/6); total (24/33) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.35e-01 |
GATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGT > minE/1823257‑1823389
|
gATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑Cg < 1:2565379/71‑1 (MQ=255)
gATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑Cg < 1:5339693/71‑1 (MQ=255)
aTGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGc < 1:3050926/71‑1 (MQ=255)
aTGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGc < 1:5402383/71‑1 (MQ=255)
gTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCAt > 1:555788/1‑71 (MQ=255)
tAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCAtg > 1:5614669/1‑71 (MQ=255)
ggTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCAtgtg < 1:2626366/71‑1 (MQ=255)
gTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATgtgt < 1:1008766/71‑1 (MQ=255)
gTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATgtgt < 1:5467348/71‑1 (MQ=255)
ggCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAgg > 1:3997628/1‑71 (MQ=255)
ggCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAgg < 1:2687919/71‑1 (MQ=255)
cTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGc > 1:3974633/1‑67 (MQ=255)
cTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGa < 1:2086222/71‑1 (MQ=255)
tgCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGAt < 1:60408/69‑1 (MQ=255)
tgCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATaa < 1:2136262/71‑1 (MQ=255)
gCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAg > 1:5442851/1‑71 (MQ=255)
cTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCAtgt < 1:4765372/55‑1 (MQ=255)
cTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGc < 1:61392/71‑1 (MQ=255)
cTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGc < 1:839346/71‑1 (MQ=255)
aaaaTGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATgtgt < 1:4665323/55‑1 (MQ=255)
gggtGTCGGATGCGACGCTGACGCGTCTTATCCGACCTACGGGGAGCGCATTTGTAGGCCGGATAAGGc < 1:3300383/66‑1 (MQ=18)
gggtGTCGGATGCGACGCTGACGCGTCTTATCCGACCTACGGGGAGCGCATTTGTAGGCCGGATAAGGCg < 1:5224143/67‑1 (MQ=18)
aaaTGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGtt < 1:2659720/71‑1 (MQ=255)
aaaTGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGtt > 1:3545806/1‑71 (MQ=255)
aaaTGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGt < 1:5583964/70‑1 (MQ=255)
ggtGTCGGATGCGACGCTGACGCGTCTTATCCGACCTACGGGGAGCGCATTTGTAGGCCGGATAAGGCGtt < 1:2093581/69‑1 (MQ=21)
aTGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTa > 1:3678413/1‑71 (MQ=255)
tGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTAc > 1:4195416/1‑71 (MQ=255)
tCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTAcg < 1:226097/70‑1 (MQ=255)
tCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTAcg < 1:1206975/70‑1 (MQ=255)
cGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTAcgcc > 1:1009605/1‑71 (MQ=255)
ggATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTAcgcc < 1:1886594/70‑1 (MQ=255)
gATGCGACGCTGACGCGTCTTATCCGACCTACGGGGAGCGCATTTGTAGGCCGGATAAGGCGTTTAcgccg < 1:3502571/71‑1 (MQ=18)
gATGCGACGCTGACGCGTCTTATCCGACCTACGGGGAGCGCATTTGTAGGCCGGATAAGGCGTTTAcgccg < 1:2220199/71‑1 (MQ=18)
aTGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCg > 1:106473/1‑51 (MQ=255)
gCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCAt < 1:342817/70‑1 (MQ=255)
cGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATc < 1:5260542/70‑1 (MQ=255)
cGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATc < 1:2446669/70‑1 (MQ=255)
gACGCTGACGCGTCTTATCCGACCTACGGGGAGCGCATTTGTAGGCCGGATAAGGCGTTTACGCCGCATcc > 1:4586736/1‑71 (MQ=18)
gTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTc > 1:3734995/1‑71 (MQ=255)
gTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTc > 1:4468053/1‑71 (MQ=255)
ttATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAAt > 1:3773046/1‑62 (MQ=255)
ttATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAAt > 1:2486958/1‑62 (MQ=255)
tCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATg > 1:1056081/1‑71 (MQ=255)
ccGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGgtgt > 1:381741/1‑63 (MQ=255)
cGACCTACGGGGAGCGCATTTGTAGGCCGGATAAGGCGtt < 1:521248/40‑1 (MQ=17)
cGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGc < 1:2103605/70‑1 (MQ=255)
cGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGc < 1:1676696/70‑1 (MQ=255)
cGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGCGTCCAAATGc < 1:150420/70‑1 (MQ=255)
ccTACGGGGAGCGCATTTGTAGGCCGGATAAGGCGTTTa > 1:170489/1‑39 (MQ=14)
cTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAacac > 1:3485102/1‑71 (MQ=255)
aCGGGGAGCGCATTTGTAGGCCGGATAAGGCGTTTAcgcc > 1:2492745/1‑40 (MQ=11)
aCGGGGAGCGCATTTGTAGGCCGGATAAGGCGTTTAcgcc > 1:617926/1‑40 (MQ=11)
aCGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGt > 1:1425518/1‑71 (MQ=255)
cGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGc > 1:4126872/1‑47 (MQ=255)
cGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGc > 1:1035101/1‑47 (MQ=255)
cGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACg < 1:4216816/69‑1 (MQ=255)
|
GATGTAGGTGGGCTACTGTGCCTAAAATGTCGGATGCGACGCTGGCGCGTCTTATCCGACCTACGGGGA‑CGCATGTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAATGGTGTCCAAATGCAACACGT > minE/1823257‑1823389
|
| 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
