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 |
|
A77 F1 I1 R1
|
21 |
53.0 |
3608474 |
95.6% |
3449701 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,949,211 |
G→A |
Q182* (CAG→TAG) |
tap ← |
methyl‑accepting protein IV |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,949,211 | 0 | G | A | 97.9%
| 179.3
/ ‑3.6
| 48 | Q182* (CAG→TAG) | tap | methyl‑accepting protein IV |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (21/26); total (21/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.49e-01 |
CACTGCTGATGTAGATCGCCGCAACAATAATCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTGGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCAAAGTTAACGTCAAACG > REL606/1949139‑1949282
|
cACTGCTGATGTAGATCGCCGCAACAATAATCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCt < 1:896172/76‑1 (MQ=255)
aCTGCTGATGTAGATCGCCGCAACAATAATCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCta < 2:705596/76‑2 (MQ=255)
gctgATGTAGATCGCCGCAACAATAATCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTgc < 2:1500217/76‑1 (MQ=255)
gctgATGTAGATCGCCGCAACAATAATCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTgc > 2:635162/1‑76 (MQ=255)
aTCGCCGCAACAATAATCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTggcgg > 2:556862/1‑76 (MQ=255)
cgccgcAACAATAATCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCt < 1:763725/76‑1 (MQ=255)
ccgcAACAATAATCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTc > 1:1197253/1‑76 (MQ=255)
ccgcAACAATAATCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTc < 1:160959/76‑1 (MQ=255)
gcAACAATAATCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCa > 2:1241919/1‑76 (MQ=255)
caacaaTAATCATGCTGATAAACACCAGTGCCTAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAg > 1:912113/1‑76 (MQ=255)
aataatCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGcaca < 2:1061502/76‑1 (MQ=255)
aataatCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGcaca < 1:339664/76‑1 (MQ=255)
ataatCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACAt > 1:1510206/1‑76 (MQ=255)
aatCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATgg > 2:1402324/1‑76 (MQ=255)
tCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGtt > 1:969230/1‑76 (MQ=255)
cATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTg < 2:308481/76‑1 (MQ=255)
cTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGAtct > 1:1007247/1‑76 (MQ=255)
tGATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGAtctc > 2:1610587/1‑76 (MQ=255)
gATAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTcc > 2:644234/1‑76 (MQ=255)
aTAAACACCAGTGCCGAAATCTGATAGTTACGCTGGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCa < 2:1275062/76‑1 (MQ=255)
aTAAACACCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCa > 1:1076353/1‑76 (MQ=255)
acacCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTg > 1:1681041/1‑76 (MQ=255)
cacCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCGCCTGGGTGGTCTCCAGCTGc > 2:75350/1‑76 (MQ=255)
acCAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGcc < 2:562319/76‑1 (MQ=255)
ccAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCCCTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCa < 1:1050137/76‑1 (MQ=255)
ccAGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCa < 2:1626997/76‑1 (MQ=255)
ccAGTGCCGAAATCTGATAGTTACACTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCa < 1:407207/76‑1 (MQ=255)
aGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAgg < 1:1266131/76‑1 (MQ=255)
aGTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAgg < 1:1698607/76‑1 (MQ=255)
gTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGc < 1:123573/76‑1 (MQ=255)
gTGCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGc < 1:1594420/76‑1 (MQ=255)
gCCGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCt < 2:1056748/76‑1 (MQ=255)
cGAAATCTGATAGTTACGCTAGCTTTGCGCCCTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCa < 2:939543/76‑1 (MQ=255)
cGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCa < 2:1056393/76‑1 (MQ=255)
cGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCa < 2:939559/76‑1 (MQ=255)
cGAAATCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCa < 1:7861/76‑1 (MQ=255)
aTCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCCGGCCTCAAAGt > 1:1356779/1‑76 (MQ=255)
aTCTGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCAAAGt > 1:1025292/1‑76 (MQ=255)
tGATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCAAAGTTaa > 2:1195042/1‑76 (MQ=255)
gATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCAAAGTTAAc < 1:792590/76‑1 (MQ=255)
gATAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCAAAGTTAAc > 1:741125/1‑76 (MQ=255)
aTAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCAAAGTTAACg > 1:1531331/1‑76 (MQ=255)
aTAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCAAAGTTAACg < 1:1464537/76‑1 (MQ=255)
aTAGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCAAAGATAACg > 1:310792/1‑76 (MQ=255)
aGTTACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCAAAGTTAACGTc < 1:1265844/76‑1 (MQ=255)
ttACGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCAAAGTTAACGTCaa > 2:29046/1‑76 (MQ=255)
aCGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCAAAGTTAACGTCAAAc < 1:1095744/76‑1 (MQ=255)
cGCTAGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCAAAGTTAACGTCAAACg < 1:1424274/76‑1 (MQ=255)
|
CACTGCTGATGTAGATCGCCGCAACAATAATCATGCTGATAAACACCAGTGCCGAAATCTGATAGTTACGCTGGCTTTGCGCACTGGCGGCTTCCAGCACATGGTTGATCTCCAGCTGCCAGGCCTCAAAGTTAACGTCAAACG > REL606/1949139‑1949282
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ 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
