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 |
|
A60 F1 I1 R1
|
14 |
61.1 |
3976207 |
96.5% |
3837039 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,097,134 |
G→A |
Q147* (CAG→TAG) |
glpF ← |
glycerol facilitator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,097,134 | 0 | G | A | 97.8%
| 163.2
/ ‑3.7
| 45 | Q147* (CAG→TAG) | glpF | glycerol facilitator |
| Reads supporting (aligned to +/- strand): ref base G (1/0); new base A (21/23); total (22/23) |
| Fisher's exact test for biased strand distribution p-value = 4.89e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.85e-01 |
TGCCATCGTCCGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCG > REL606/4097062‑4097204
|
tGCCATCGTCCGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTacac > 1:1636971/1‑76 (MQ=255)
gCCATCGTCCGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTAcaca < 1:716373/76‑1 (MQ=255)
gCCATCGTCCGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTAcaca > 1:484597/1‑76 (MQ=255)
aTCGTCCGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACaaaa < 2:110957/76‑1 (MQ=255)
tCGTCCGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAAt > 2:143958/1‑76 (MQ=255)
cGTCCGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAAtt > 2:1315225/1‑76 (MQ=255)
cGTCCGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAAtt > 2:1322346/1‑76 (MQ=255)
gTCCGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTg < 1:88847/76‑1 (MQ=255)
gTCCGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTg > 2:1259329/1‑76 (MQ=255)
gTCCGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTg < 1:158103/76‑1 (MQ=255)
tCCGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGa > 1:1666341/1‑76 (MQ=255)
ccGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGat > 1:18343/1‑76 (MQ=255)
gTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGatat < 1:1232040/76‑1 (MQ=255)
ttAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATg > 1:579791/1‑76 (MQ=255)
ttAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATg < 2:1963682/76‑1 (MQ=255)
tAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGa > 1:940064/1‑76 (MQ=255)
cGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGa < 1:1276033/76‑1 (MQ=255)
cAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTa < 1:1897837/76‑1 (MQ=255)
cAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTa > 2:1272118/1‑76 (MQ=255)
cAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTa < 1:558601/76‑1 (MQ=255)
ggATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAgg < 1:864485/76‑1 (MQ=255)
gATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAggg < 1:615409/76‑1 (MQ=255)
ccATCAGAATAGCGGTAATCACCATCTTAACTGCGAAAGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTaga > 2:899089/1‑76 (MQ=255)
cATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTagag < 1:535429/76‑1 (MQ=255)
tCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGaa < 1:335740/76‑1 (MQ=255)
tCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGaa > 2:219927/1‑76 (MQ=255)
tAGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTgcc < 1:612792/76‑1 (MQ=255)
gaGCGGTAATCGCCATCTCATGTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTgcc < 2:1231801/75‑1 (MQ=255)
aGCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTgcca > 1:1520606/1‑76 (MQ=255)
gCGGTAATCACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTgccag < 1:509104/76‑1 (MQ=255)
cACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCa > 1:333663/1‑76 (MQ=255)
cACCATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGAAAGTAGAGAAAGTGCCAGCCAGATCa > 2:1018035/1‑76 (MQ=255)
ccATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAac > 1:1423861/1‑76 (MQ=255)
cATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAaca < 1:1024523/76‑1 (MQ=255)
cATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAaca < 2:1269267/76‑1 (MQ=255)
cATCTCAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAaca > 2:1000348/1‑76 (MQ=255)
tctcAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACt > 1:1149005/1‑76 (MQ=255)
ctcAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCATATCAACACtt < 1:430481/76‑1 (MQ=255)
ctcAACTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACtt > 2:1119450/1‑76 (MQ=255)
aCTGCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCaa < 1:1357920/76‑1 (MQ=255)
gCGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGc > 1:337807/1‑76 (MQ=255)
cGAAAGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCt < 1:806308/76‑1 (MQ=255)
aaaGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGc > 2:1838125/1‑76 (MQ=255)
aaGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGcc > 2:352928/1‑76 (MQ=255)
aGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCcg < 1:187474/76‑1 (MQ=255)
aGCCTACACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCcg < 1:5179/76‑1 (MQ=255)
|
TGCCATCGTCCGTTAACGCCAGGATCAGCCCCATCAGAATAGCGGTAATCACCATCTCAACTGCGAAAGCCTGCACAAAATTGATATGAGGATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCG > REL606/4097062‑4097204
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
