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 |
|
A80 F1 I1 R1
|
17 |
48.4 |
3161007 |
95.9% |
3031405 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,497,693 |
C→T |
E115K (GAA→AAA) |
glgP ← |
glycogen phosphorylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,497,693 | 0 | C | T | 96.3%
| 195.7
/ ‑1.5
| 54 | E115K (GAA→AAA) | glgP | glycogen phosphorylase |
| Reads supporting (aligned to +/- strand): ref base C (0/2); new base T (23/29); total (23/31) |
| Fisher's exact test for biased strand distribution p-value = 5.02e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.50e-01 |
TCGCCAGAGAATCAAGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTCATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATCTTCGTAAATTCCTAGC > REL606/3497621‑3497763
|
tCGCCAGAGAATCAAGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTttatc < 1:820506/76‑1 (MQ=255)
cAGAGAATCAAGGAAGCAAGCCGCCAGTCGTCCCAGGCCGCCGTTACCGAGGCCCGGATCATTTTCTTTatcaatc < 1:582248/76‑1 (MQ=255)
cAGAGAATCAAGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTatcaatc < 2:188424/76‑1 (MQ=255)
cAGAGAATCAAGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTatcaatc > 2:492693/1‑76 (MQ=255)
cgagaACCAAGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTatcaatca < 2:706033/75‑1 (MQ=255)
agagAATCAAGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTatcaatca < 1:1404089/76‑1 (MQ=255)
aTCAAGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGctct < 1:503604/76‑1 (MQ=255)
aTCAAGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGctct < 2:1160621/76‑1 (MQ=255)
tCAAGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCtt < 1:1445448/76‑1 (MQ=255)
cAAGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTc < 2:1576128/76‑1 (MQ=255)
aaGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCg < 2:1121782/76‑1 (MQ=255)
aaGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCg < 1:120639/76‑1 (MQ=255)
aaGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCg < 2:692644/76‑1 (MQ=255)
aGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCgg > 2:567413/1‑75 (MQ=255)
aGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCga < 2:1358028/76‑1 (MQ=255)
aGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCga > 2:1029532/1‑76 (MQ=255)
aGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCga > 2:1105298/1‑76 (MQ=255)
ggAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCgag > 1:339829/1‑76 (MQ=255)
ggAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTCATCAATCAGCTCTTCgag < 2:22288/76‑1 (MQ=255)
ggAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCACTTTCTTTTTCAATTAGCTCTTccgt > 1:1286021/1‑73 (MQ=25)
caagcCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTa < 2:89170/76‑1 (MQ=255)
aagcCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTaa > 1:1452933/1‑76 (MQ=255)
cgccAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAAcccc > 2:151743/1‑76 (MQ=255)
gccAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCa > 1:206824/1‑76 (MQ=255)
gccAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCa < 1:655690/76‑1 (MQ=255)
gccAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCa < 2:389209/76‑1 (MQ=255)
ccAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTCATCAATCAGCTCTTCGAGATTTAACCCCAt < 2:255368/76‑1 (MQ=255)
aGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCg < 1:868373/76‑1 (MQ=255)
aGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCg > 2:1134334/1‑76 (MQ=255)
gTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTc > 1:1031522/1‑76 (MQ=255)
gTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTc > 1:1071626/1‑76 (MQ=255)
cccAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCa > 1:279485/1‑76 (MQ=255)
ggCCACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTgc < 1:1377951/76‑1 (MQ=255)
cACCGTTTCCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGcc > 2:1320863/1‑76 (MQ=255)
cACCGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGcc > 2:1219671/1‑76 (MQ=255)
ccGTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCt < 2:1286433/76‑1 (MQ=255)
ccttACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTg < 2:135595/74‑1 (MQ=255)
cGTGACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTg < 2:912159/76‑1 (MQ=255)
gTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGt < 1:1022651/76‑1 (MQ=255)
gTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGt < 1:911025/76‑1 (MQ=255)
gTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGt > 1:195981/1‑76 (MQ=255)
gTTACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGt < 1:811716/76‑1 (MQ=255)
tACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTa > 2:465426/1‑75 (MQ=255)
tACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTa < 1:465427/75‑1 (MQ=255)
tACCGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTAc > 1:616079/1‑76 (MQ=255)
cGAGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATc > 2:276964/1‑76 (MQ=255)
aGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATCtt > 2:381566/1‑76 (MQ=255)
aGGCCCGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATCtt < 2:691503/76‑1 (MQ=255)
ccGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATCTTCGTa < 2:1435187/76‑1 (MQ=255)
cGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCGCATCGCTTCCAGTGCGCCCTGTACATCTTCGTaa > 1:1317602/1‑76 (MQ=255)
cGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATCTTCGTaa > 1:1188052/1‑76 (MQ=255)
cGGATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATCTTCGTaa < 1:1115612/76‑1 (MQ=255)
gATCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATCTTCGTAAAt < 2:1452751/76‑1 (MQ=255)
aTCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATCTTCGTAAAtt > 1:556453/1‑76 (MQ=255)
aTCATTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCACCGCTTCCAGCGCGCCCCGTACATCTTCGTAAAtt > 1:950355/1‑76 (MQ=255)
aTTTTCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATCTTCGTAAATTCCt < 2:428185/76‑1 (MQ=255)
ttttCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATCTTCGTAAATTCCTa > 1:1134358/1‑76 (MQ=255)
tttCTTTATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATCTTCGTAAATTCCTAg > 2:1106302/1‑76 (MQ=255)
ttctttATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATCTTCGTAAATTCCTAGc > 2:137610/1‑76 (MQ=255)
|
TCGCCAGAGAATCAAGGAAGCAAGCCGCCAGACGTCCCAGGCCACCGTTACCGAGGCCCGGATCATTTTCTTCATCAATCAGCTCTTCGAGATTTAACCCCATCGCTTCCAGTGCGCCCTGTACATCTTCGTAAATTCCTAGC > REL606/3497621‑3497763
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
