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 F8 I0 R1
|
82 |
77.9 |
2158605 |
86.8% |
1873669 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,820,597 |
T→A |
100% |
intergenic (‑90/‑97) |
norR ← / → norV |
DNA‑binding transcriptional activator/flavorubredoxin oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,820,597 | 0 | T | A | 97.7%
| 143.0
/ ‑3.6
| 44 | intergenic (‑90/‑97) | norR/norV | DNA‑binding transcriptional activator/flavorubredoxin oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base A (43/0); total (43/1) |
| Fisher's exact test for biased strand distribution p-value = 2.27e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.36e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GATATTGTCATATCGACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTTTATTTATAGAGTAAAAACAATCAGATAAAAAACTGGCACGCAATCTGCAATTAGCAAGA > minE/1820535‑1820656
|
gATATTGTCATATCGACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATtttatt > 1:950806/1‑67 (MQ=255)
gATATTGTCATATCGACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATtttatt > 1:2011995/1‑67 (MQ=255)
gATATTGTCATATCGACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATtttatt > 1:1471737/1‑67 (MQ=255)
gATATTGTCATATCGACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATtttatt > 1:173474/1‑67 (MQ=255)
gATATTGTCATATCGACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATtttatt > 1:2014441/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTaaaaa > 1:971152/1‑66 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTaaaaa > 1:1959350/1‑66 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTaaaaa > 1:704174/1‑66 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTaaaaa > 1:1870584/1‑66 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTaaaaa > 1:62473/1‑66 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTaaaaa > 1:1735847/1‑66 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTaaaaa > 1:791698/1‑66 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTaaaaa > 1:2129919/1‑66 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTaaaaa > 1:226697/1‑66 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:565614/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:550290/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:53254/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:2083389/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:51036/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:659497/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:763563/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:770182/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:780474/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:822565/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:866709/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:914315/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:93598/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:9459/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:963589/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1671200/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1193026/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1203094/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1208879/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:123232/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1276731/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1360468/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1523778/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1632351/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1636026/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1738579/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1747161/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1874230/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1985410/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:199888/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:2066467/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:1003049/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:22962/1‑67 (MQ=255)
gACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTATATTTATAGAGTAAAAAc > 1:400904/1‑67 (MQ=255)
cATAATTTTATTTATAGAGTAAAAACAATCAGATAAAAAACTGGCACGCAATCTGCAATTAGCAAGa < 1:420775/67‑1 (MQ=255)
|
GATATTGTCATATCGACCATTTGATTGATAGTCATTTTGACTACTCATTAATGGGCATAATTTTATTTATAGAGTAAAAACAATCAGATAAAAAACTGGCACGCAATCTGCAATTAGCAAGA > minE/1820535‑1820656
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
