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 |
1,834,094 |
A→G |
13.9% |
D65G (GAT→GGT) |
ygbM → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,834,094 | 0 | A | G | 13.9%
| 81.9
/ 8.2
| 36 | D65G (GAT→GGT) | ygbM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (14/17); new base G (3/2); total (17/19) |
| Fisher's exact test for biased strand distribution p-value = 6.50e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTGCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAG > minE/1834027‑1834147
|
cTGCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGatat > 1:1423492/1‑71 (MQ=255)
cAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATAtt < 1:196913/69‑1 (MQ=255)
cAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTaa < 1:1362657/71‑1 (MQ=255)
aaaTCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATAtt < 1:1314852/68‑1 (MQ=255)
aaTCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATAtt < 1:1284517/67‑1 (MQ=255)
tCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCg > 1:1313821/1‑71 (MQ=255)
tCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCg > 1:1587310/1‑71 (MQ=255)
ccAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCgg > 1:199377/1‑71 (MQ=255)
ccAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCgg > 1:2152040/1‑71 (MQ=255)
ccAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCgg > 1:1823232/1‑71 (MQ=255)
cAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCgg < 1:1159377/70‑1 (MQ=255)
cAAAAGCAACTGGAGCAAAACCATCTGACACTGGAGCTGTTCAATACCGCTCCCGGAGATATTAATGCggg < 1:1420321/71‑1 (MQ=255)
aaaGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTa < 1:1779775/62‑1 (MQ=255)
aaaGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCgggg > 1:1584621/1‑70 (MQ=255)
gCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAAt < 1:519617/71‑1 (MQ=255)
aCTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATAtt < 1:1441226/55‑1 (MQ=255)
aCTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATAtt < 1:22223/55‑1 (MQ=255)
tGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGTGGGAATGGGGa > 1:1822591/1‑71 (MQ=255)
tGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGa > 1:1617240/1‑71 (MQ=255)
tGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGa > 1:1015414/1‑71 (MQ=255)
gAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGGTATTAATGCGGGGGAATGGGGa < 1:2210405/69‑1 (MQ=255)
cAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATc < 1:244371/71‑1 (MQ=255)
aaCCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATg < 1:859102/59‑1 (MQ=255)
aaCCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTa < 1:747944/66‑1 (MQ=255)
aaCCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGc > 1:1977077/1‑71 (MQ=255)
aCCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGcc > 1:1250511/1‑71 (MQ=255)
tGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCgg > 1:1113127/1‑45 (MQ=255)
tGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCgg > 1:1228485/1‑45 (MQ=255)
gACACTGGCGCTGTTCAATACCGCTCCCGGAGGTAtt < 1:421386/37‑1 (MQ=255)
gcTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGTATGGGGATTATCCGCCCTTCCCGGACGTGAGc < 1:1809023/71‑1 (MQ=255)
ttCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGAc < 1:1829137/61‑1 (MQ=255)
ttCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACg < 1:1618823/70‑1 (MQ=255)
cAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAg > 1:1786723/1‑71 (MQ=255)
cAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAg > 1:1729028/1‑71 (MQ=255)
aaTACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAg < 1:917342/70‑1 (MQ=255)
ccGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATc > 1:1316465/1‑40 (MQ=255)
ccGCTCCCGGAGGTATTAATGCGGGGGAATGGGGATTATc > 1:914483/1‑40 (MQ=255)
|
CTGCAAATCCAAAAGCAACTGGAGCAAAACCATCTGACACTGGCGCTGTTCAATACCGCTCCCGGAGATATTAATGCGGGGGAATGGGGATTATCCGCCCTTCCCGGACGTGAGCACGAAG > minE/1834027‑1834147
|
| 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
