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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
756,089 |
A→G |
57.7% |
P72P (CCA→CCG) |
lolD → |
outer membrane‑specific lipoprotein transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 756,089 | 0 | A | G | 57.7%
| 17.6
/ 42.6
| 59 | P72P (CCA→CCG) | lolD | outer membrane‑specific lipoprotein transporter subunit |
| Reads supporting (aligned to +/- strand): ref base A (11/14); new base G (19/15); total (30/29) |
| Fisher's exact test for biased strand distribution p-value = 4.35e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
TGCACCTGCTGGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCAAACTGTCGTCGGCAGCGAAAGCTGAACTGCGCAACCAGAAGCTGGGCTTTATTTATC > minE/756028‑756153
|
tgcACCTGTTAGGCTGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:2553855/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:1642026/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:2502614/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:2480684/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:2403138/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:3322109/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:46349/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:2733827/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:2128401/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:329439/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:2021065/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:1367228/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:3289808/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:1157410/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:3021656/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:3009144/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:1559039/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATCTTTAACGGTCAACCGATGAGCa > 1:1479791/1‑69 (MQ=255)
tgcACCTGTTAGGCGGGATGGATACGCCAACCTCCGGCGATGTGATCTTTAAAGGTCAACCGATGAGCa > 1:1810906/1‑69 (MQ=255)
gcACCTGCTGGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCaa < 1:1526423/69‑1 (MQ=255)
gcACCTGCTGGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCaa < 1:700827/69‑1 (MQ=255)
gcACCTGCTGGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCaa < 1:1771860/69‑1 (MQ=255)
gcACCTGCTGGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCaa < 1:924552/69‑1 (MQ=255)
gcACCTGCTGGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCaa < 1:2672396/69‑1 (MQ=255)
gcACCTGCTGGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCaa < 1:1614892/69‑1 (MQ=255)
gcACCTGCTGGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCaa < 1:1591694/69‑1 (MQ=255)
gcACCTGCTGGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCaa < 1:1089512/69‑1 (MQ=255)
ccTGCTGGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCAAACt > 1:382598/1‑69 (MQ=255)
ccTGCTGGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCAAACt > 1:639051/1‑69 (MQ=255)
gctgGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCAAACTgtc > 1:1074869/1‑69 (MQ=255)
gctgGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCAAACTgtc > 1:2604047/1‑69 (MQ=255)
gctgGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCAAACTgtc > 1:2270415/1‑69 (MQ=255)
gctgGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCAAACTgtc > 1:2244984/1‑69 (MQ=255)
gctgGGCGCGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCAAACTgtc > 1:95558/1‑69 (MQ=255)
aCGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCAAACTGTCGTCGGCAGCGAAAGc > 1:342403/1‑68 (MQ=255)
cGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCaa > 1:2377204/1‑46 (MQ=255)
cGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCaa > 1:472316/1‑46 (MQ=255)
cGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCaa > 1:857116/1‑46 (MQ=255)
ccAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCAAACTGTCGTCGGCAGCGAAAGCTGa < 1:2549299/68‑1 (MQ=255)
cggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:308108/67‑1 (MQ=255)
cggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:997947/67‑1 (MQ=255)
cggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:1303492/67‑1 (MQ=255)
cggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:894667/67‑1 (MQ=255)
cggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:1359508/67‑1 (MQ=255)
cggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:803276/67‑1 (MQ=255)
cggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:2065434/67‑1 (MQ=255)
cggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:2262893/67‑1 (MQ=255)
cggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:2727273/67‑1 (MQ=255)
cggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:3298396/67‑1 (MQ=255)
cggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:2743736/67‑1 (MQ=255)
cggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:3136977/67‑1 (MQ=255)
ggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:2263352/67‑1 (MQ=255)
ggTCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:3308368/67‑1 (MQ=255)
tCAACCGATGAGCAAACTGTCGTCGGCGGCCAAAGCGGAACTGCGCAACCAGAAGCTGGGAttta < 1:118272/65‑1 (MQ=255)
aGCCAATGAGCAAACTGTCGTCGGCAGCGAAAGCTGAACTGCGCAACCAGAAGCTGGGCTTTATTTATc < 1:1026450/69‑1 (MQ=255)
aGCCAATGAGCAAACTGTCGTCGGCAGCGAAAGCTGAACTGCGCAACCAGAAGCTGGGCTTTATTTATc < 1:49581/69‑1 (MQ=255)
aGCCAATGAGCAAACTGTCGTCGGCAGCGAAAGCTGAACTGCGCAACCAGAAGCTGGGCTTTATTTATc < 1:1587271/69‑1 (MQ=255)
aGCCAATGAGCAAACTGTCGTCGGCAGCGAAAGCTGAACTGCGCAACCAGAAGCTGGGCTTTATTTATc < 1:1524356/69‑1 (MQ=255)
aGCCAATGAGCAAACTGTCGTCGGCAGCGAAAGCTGAACTGCGCAACCAGAAGCTGGGCTTTATTTATc < 1:929011/69‑1 (MQ=255)
|
TGCACCTGCTGGGCGGGCTGGATACGCCAACCTCCGGCGATGTGATTTTTAATGGTCAGCCAATGAGCAAACTGTCGTCGGCAGCGAAAGCTGAACTGCGCAACCAGAAGCTGGGCTTTATTTATC > minE/756028‑756153
|
| 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
