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 |
|
A61 F1 I1 R1
|
19 |
50.7 |
3232285 |
96.8% |
3128851 |
74.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,097,224 |
G→A |
Q117* (CAG→TAG) |
glpF ← |
glycerol facilitator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,097,224 | 0 | G | A | 97.1%
| 124.4
/ ‑3.0
| 34 | Q117* (CAG→TAG) | glpF | glycerol facilitator |
| Reads supporting (aligned to +/- strand): ref base G (1/0); new base A (20/13); total (21/13) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.90e-01 |
GATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCCGCAGCGCAGAAAGCGCCGGCAACT > REL606/4097152‑4097294
|
gATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACt < 2:1463995/75‑1 (MQ=255)
aTTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTc > 1:1312977/1‑75 (MQ=255)
aTTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTc > 1:1562010/1‑75 (MQ=255)
tAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGa < 2:775326/75‑1 (MQ=255)
tAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGa > 1:1359229/1‑75 (MQ=255)
tAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGa < 1:9342/75‑1 (MQ=255)
gggTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAg < 1:1365488/75‑1 (MQ=255)
ggTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGt < 2:1128250/75‑1 (MQ=255)
gTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGaaa > 1:1004218/1‑75 (MQ=255)
gaAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAaaataa > 2:1052518/1‑75 (MQ=255)
gaAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAaaataa > 2:385252/1‑75 (MQ=255)
aaaGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAaaataaa < 2:487644/75‑1 (MQ=255)
aaGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAaaataaat > 1:626465/1‑75 (MQ=255)
cagccagATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAAAATAAATTgtagt > 1:145267/1‑75 (MQ=255)
gccagATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAAAATAAATTGTAGTaa > 1:1064987/1‑75 (MQ=255)
ccagATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAAAATAAATTGTAGTaaa < 2:1043639/75‑1 (MQ=255)
cagATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAg > 1:900773/1‑75 (MQ=255)
tCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCg > 2:329522/1‑75 (MQ=255)
tttCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTa < 2:590112/75‑1 (MQ=255)
tCAACGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTaaa > 2:1342718/1‑75 (MQ=255)
aCGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGcc < 2:884618/75‑1 (MQ=255)
aCGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGcc < 2:1014966/75‑1 (MQ=255)
cGCTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCcg > 2:350195/1‑75 (MQ=255)
cTGCCGCGAACAATGTGATGAGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCcgca > 1:1142924/1‑75 (MQ=255)
ccGCGAACAATGTGATGAGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCcgcagcg > 1:333410/1‑75 (MQ=255)
cgAACAATGTGATGAGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCcgcagcgcag > 1:1439620/1‑75 (MQ=255)
gAACAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCCGCAGCGCAGa > 1:777622/1‑75 (MQ=255)
gatgaGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCCGCAGCGCAGAAAGCGCCgg > 2:248213/1‑75 (MQ=255)
gatgaGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCCGCAGCGCAGAAAGCGCCgg > 1:228935/1‑75 (MQ=255)
tgaGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCCGCAGCGCAGAAAGCGCCGGCa < 2:1286599/75‑1 (MQ=255)
tgaGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCCGCAGCGCAGAAAGCGCCGGCa < 2:1272275/75‑1 (MQ=255)
tgaGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCCGCAGCGCAGAAAGCGCCGGCa > 1:881254/1‑75 (MQ=255)
gaGTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCCGCAGCGCAGAAAGCGCCGGCaa > 1:10597/1‑75 (MQ=255)
gTCTACTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCCGCAGCGCAGAAAGCGCCGGCAACt < 2:1573954/75‑1 (MQ=255)
|
GATTAGGGTAAGTAGAGAAAGTGCCAGCCAGATCAACACTTTCAACGCTGCCGCGAACAATGTGATGAGTCTGCTCGAAGTCGAAAAATAAATTGTAGTAAAGCCCGTAAACTAAAGCCGCAGCGCAGAAAGCGCCGGCAACT > REL606/4097152‑4097294
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
