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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,081,858 |
T→C |
27.3% |
N104S (AAC→AGC) |
ydhY ← |
predicted 4Fe‑4S ferridoxin‑type protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,081,858 | 0 | T | C | 27.3%
| 65.3
/ 30.8
| 44 | N104S (AAC→AGC) | ydhY | predicted 4Fe‑4S ferridoxin‑type protein |
| Reads supporting (aligned to +/- strand): ref base T (13/19); new base C (4/8); total (17/27) |
| Fisher's exact test for biased strand distribution p-value = 7.39e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.61e-01 |
TGCATTGACGGCAGGTGTCCGCGGTATAGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGAGAAGAATGTCCCTACTGAGCCATCGTTGA > minE/1081790‑1081927
|
tGCATTGACGGCAGGTGTCCGCGGTATAGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTg > 1:1321332/1‑71 (MQ=255)
tGCATTGACGGCAGGTGTCCGCGGTATAGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGCTg > 1:49483/1‑71 (MQ=255)
gCATTGACGGCAGGTGTCCGCGGTATAGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTg < 1:670073/70‑1 (MQ=255)
ggTGTCCGCGGTATAGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAaat < 1:1137488/71‑1 (MQ=255)
ggTGTCCGCGGTATAGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGCTGTCGCCAAAGAaat < 1:1016005/71‑1 (MQ=255)
cgcgGTATAGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGc < 1:1611726/71‑1 (MQ=255)
cgcgGTATAGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGCTGTCGCCAAAGAAATAATTGc < 1:911584/71‑1 (MQ=255)
gcgGTATAGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGCTGTCGCCAAAGAaat < 1:809556/64‑1 (MQ=255)
gcgGTATAGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGCTGTCGCCAAAGAaat < 1:617688/64‑1 (MQ=255)
gTATAGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGCTGTCGCCa < 1:1052196/54‑1 (MQ=255)
tataGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATgg < 1:1410366/71‑1 (MQ=255)
tataGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATg > 1:1602271/1‑70 (MQ=255)
tataGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGCTGTCGCCAAAGAaat < 1:792552/60‑1 (MQ=255)
tataGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGCTGTCGCCAAAGAAATAATTGCGATg < 1:1450989/70‑1 (MQ=255)
taGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGCTGTCGCCAAAGAaataa > 1:903254/1‑60 (MQ=255)
tGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAaataa > 1:1015650/1‑56 (MQ=255)
gagaTCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGaaa > 1:306690/1‑52 (MQ=255)
gagaTCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAaata > 1:207000/1‑54 (MQ=255)
gagaTCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGa > 1:639075/1‑71 (MQ=255)
gagaTAGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGa > 1:1222516/1‑71 (MQ=255)
agaTCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAaataa < 1:1374717/54‑1 (MQ=255)
agaTCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAaataa < 1:2084098/54‑1 (MQ=255)
aTCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATAc < 1:660571/71‑1 (MQ=255)
aTCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATAc < 1:2204201/71‑1 (MQ=255)
cATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGga < 1:140056/70‑1 (MQ=255)
aTACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGa < 1:1217686/62‑1 (MQ=255)
cAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAg > 1:1919031/1‑37 (MQ=255)
cAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGagaag > 1:219430/1‑70 (MQ=255)
cAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGagaag < 1:906491/70‑1 (MQ=255)
cAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGagaag < 1:1112744/70‑1 (MQ=255)
ccgccgccAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGAGAAGAATGt < 1:561937/71‑1 (MQ=255)
tccgccAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGa < 1:1569827/52‑1 (MQ=255)
cgccAGAGCCAACCGCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGAGAAGAATGTccc > 1:408890/1‑70 (MQ=255)
cgccAGAGCCAACCCCGCTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGAGAAGAATGTccc < 1:1023141/70‑1 (MQ=255)
agCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGAGAAGAATGTCCCTACTGAg > 1:195838/1‑71 (MQ=255)
gCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGAGAAGAATGTCCCTACTGAGc > 1:1441972/1‑71 (MQ=255)
gCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGAGAAGAATGTCCCTACTGAGc > 1:1990404/1‑71 (MQ=255)
gCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGAGAAGAATGTCCCTAATGAGc < 1:1314607/71‑1 (MQ=255)
ccccGTTGTCGCCAAAGAAATAATTGCGATGGAtttt < 1:2205584/37‑1 (MQ=255)
ccccGTTGTCGCCAAAGAAATAATTGCGATGGAtttt < 1:709408/37‑1 (MQ=255)
ccccGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGa < 1:1904312/39‑1 (MQ=255)
cccGCTGTCGCCAAAGAAATAATTGCGATGGATTTTGATa > 1:1563508/1‑40 (MQ=255)
ccGCTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGAGAAGAATGTCCCTACTGAGCCAt > 1:31428/1‑67 (MQ=255)
gTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGAGAAGAATGTCCCTACTGAGCCATCGTTGa < 1:1100445/71‑1 (MQ=255)
|
TGCATTGACGGCAGGTGTCCGCGGTATAGTTGAGATCGCCATACAGGCCGCCGCCAGAGCCAACCCCGTTGTCGCCAAAGAAATAATTGCGATGGATTTTGATACGGGAGAAGAATGTCCCTACTGAGCCATCGTTGA > minE/1081790‑1081927
|
| 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
