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 |
|
A47 F1 I1 R1
|
17 |
69.1 |
4502028 |
96.3% |
4335452 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,161,145 |
G→T |
R97L (CGC→CTC) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,161,145 | 0 | G | T | 97.5%
| 147.4
/ ‑2.4
| 40 | R97L (CGC→CTC) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base G (1/0); new base T (18/21); total (19/21) |
| Fisher's exact test for biased strand distribution p-value = 4.75e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.21e-01 |
TACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAGGCACCGTAAAAGACATTAAAGAACAAGA > REL606/4161072‑4161217
|
tACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGctcg > 1:1008409/1‑76 (MQ=255)
aCCGCCTTGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGt < 1:1139044/76‑1 (MQ=255)
aCCGCCTTGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGt < 1:1591299/76‑1 (MQ=255)
ccGCCTTGGCGAGCCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGtt < 1:1045978/76‑1 (MQ=255)
ccGCCTTGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGtt < 2:1089496/76‑1 (MQ=255)
cGCCTTGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTa < 1:228438/76‑1 (MQ=255)
ccTTGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTaaa < 2:432921/76‑1 (MQ=255)
ttGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACt < 1:2170395/76‑1 (MQ=255)
tGGCGAACCGGTGTTTGACGTCCAGGGATGTAAAATCCGTGGCGTGACCTGTTCCGCACCGCTGCTCGTTAAACTg > 1:1897964/1‑76 (MQ=255)
tGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTg > 2:1907583/1‑76 (MQ=255)
cGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGt < 1:900818/76‑1 (MQ=255)
gAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTc > 2:1060654/1‑76 (MQ=255)
aaCCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCGGCTCGTTAAACAGCgcgg > 2:76438/1‑73 (MQ=255)
tgtTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCCCCGCTGCTCGTTAAACTGCGTCTGGTGAt < 1:2018652/76‑1 (MQ=255)
gtTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATc > 2:8491/1‑76 (MQ=255)
ttGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTa < 1:1880021/76‑1 (MQ=255)
tGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTAt > 1:968757/1‑76 (MQ=255)
tGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTAt > 1:2166009/1‑76 (MQ=255)
aCGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGa > 1:243378/1‑76 (MQ=255)
aCGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGa < 1:1701882/76‑1 (MQ=255)
ccAGGAATGTCAAATCCGTCGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAgcgc < 2:1562849/76‑1 (MQ=255)
cAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGcgcg < 1:1983223/76‑1 (MQ=255)
aGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGa > 1:448142/1‑76 (MQ=255)
aGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGa > 2:123066/1‑76 (MQ=255)
ggAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGaa < 1:272082/76‑1 (MQ=255)
tCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGATGCGCCg < 2:1771686/76‑1 (MQ=255)
tCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCg < 2:743466/76‑1 (MQ=255)
tCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCg < 2:1004013/76‑1 (MQ=255)
aaaTCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGa < 2:467137/76‑1 (MQ=255)
aaaTCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGa > 1:2098951/1‑76 (MQ=255)
aaTCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGaa > 1:533647/1‑76 (MQ=255)
aTCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATTTATGAGCGCGAAGCGCCGGAAg > 2:91964/1‑76 (MQ=255)
aTCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAg > 1:164837/1‑76 (MQ=255)
tCCGTGGCGTGCCCTATTCCGCCCCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAgg < 2:1555553/76‑1 (MQ=255)
tCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAgg > 2:1901982/1‑76 (MQ=255)
tCCGTGGCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAgg < 2:261674/76‑1 (MQ=255)
ggCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAGGCACCg < 2:140379/76‑1 (MQ=255)
gCGTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAGGCACCGt > 1:1437366/1‑76 (MQ=255)
ggTGACCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTAGGAGCGCGAAGCGCCGGAAGGCACCGTa < 2:171567/75‑1 (MQ=255)
cGTGCCCTATTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAGGCACCGTa < 2:698811/76‑1 (MQ=255)
aCCTATTCCGCGCCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAGGCACCGTAAAAg < 2:1850206/76‑1 (MQ=255)
aTTCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAGGCACCGTAAAAGACAt > 1:780540/1‑76 (MQ=255)
ttCCGCACCGCTGCTCGTTAAACTGCGTCTGGTAATCTATGAGCGCGAAGCGCCGGAAGGCACCGTAAAAGACAtt < 2:2192739/76‑1 (MQ=255)
tCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAGGCACCGTAAAAGACATTa > 2:1209776/1‑76 (MQ=255)
tCCGCACCGCTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAGGCACCGTAAAAGACATTa > 1:1461041/1‑76 (MQ=255)
ccGCCCCGCTGCTCTTTAAACTGCGTTTGGTGATCTAAGAGCGCGAGGCGCCGGAAGGCACCGTAAAAGACATTaa < 1:2104163/76‑1 (MQ=255)
ccGCTGCTCTTAAACCGGCGTGGGGTGATTTGGGGGCGGGAGGCCCCGGAAGGCACCATAAAAGACATTAAAGAAc < 1:338717/76‑1 (MQ=255)
cTGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAGGCACCGTAAAAGACATTAAAGAACaag > 2:1959666/1‑76 (MQ=255)
tGCTCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAGGCACCGTAAAAGACATTAAAGAACaaga > 1:1570307/1‑76 (MQ=255)
tGCTCGTTAAACGGCGTCTGGTGATCTAGGAGCGCGAAGCGCCGGAAGGCACCGTAAAAGACATTAAAGAACaaga < 2:65999/76‑1 (MQ=255)
|
TACCGCCTTGGCGAACCGGTGTTTGACGTCCAGGAATGTCAAATCCGTGGCGTGACCTATTCCGCACCGCTGCGCGTTAAACTGCGTCTGGTGATCTATGAGCGCGAAGCGCCGGAAGGCACCGTAAAAGACATTAAAGAACAAGA > REL606/4161072‑4161217
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
