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 |
|
A84 F1 I1 R1
|
17 |
47.9 |
3074446 |
96.0% |
2951468 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,007,369 |
A→T |
L154* (TTG→TAG) |
ECB_02804 ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,007,369 | 0 | A | T | 97.3%
| 136.2
/ ‑3.3
| 37 | L154* (TTG→TAG) | ECB_02804 | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base T (17/19); total (18/19) |
| Fisher's exact test for biased strand distribution p-value = 4.86e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.13e-01 |
TTACGCCCTGCAGCATCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCAACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTCTGCGGGCCCTGAAAACCC > REL606/3007298‑3007440
|
ttACGCCCTGCAGCATCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGctacaa < 2:980646/76‑1 (MQ=255)
ttACGCCCTGCAGCATCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGctacaa < 1:516107/76‑1 (MQ=255)
ttACGCCCTGCAGCATCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGctacaa > 1:737570/1‑76 (MQ=255)
ttACGCCCTGCAGCATCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGctacaa > 2:1229531/1‑76 (MQ=255)
ttACGCCCTGCAGCATCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGctacaa > 2:97601/1‑76 (MQ=255)
tACGCCCTGCAGCATCCGGAATGCCGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCtacaac > 2:8865/1‑76 (MQ=255)
tACGCCCTGCAGCATCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCtacaac > 2:1336322/1‑76 (MQ=255)
tACGCCCTGCAGCATCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCtacaac > 1:264395/1‑76 (MQ=255)
cccTGCAGCATCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAActttc < 1:931849/76‑1 (MQ=255)
cTGCAGCATCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAActttcct > 1:281708/1‑76 (MQ=255)
tGCAGCATCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAActttcctt < 1:1281658/76‑1 (MQ=255)
gcagcaTCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAActttccttt < 2:170219/76‑1 (MQ=255)
agcaTCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCt < 2:776778/76‑1 (MQ=255)
ccGGAATGCAGCGCCATTCTGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCg > 2:205632/1‑76 (MQ=255)
gAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAg < 2:1073574/76‑1 (MQ=255)
aaTGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGc > 1:1264360/1‑76 (MQ=255)
aaTGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGATACAAATTTCATTTCTGCCAGGAga > 2:1525791/1‑75 (MQ=255)
aTGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCg > 2:827107/1‑76 (MQ=255)
cAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATg > 2:26247/1‑76 (MQ=255)
aGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGa < 2:983292/76‑1 (MQ=255)
gcCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGc < 1:428036/76‑1 (MQ=255)
cATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGccc < 1:1486945/76‑1 (MQ=255)
aTTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCg > 1:292719/1‑76 (MQ=255)
tATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGc > 1:1049985/1‑76 (MQ=255)
aTGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCg > 1:118093/1‑76 (MQ=255)
aTGCGCATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCg < 1:1085754/76‑1 (MQ=255)
cgcATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAgc < 2:1220473/76‑1 (MQ=255)
gcATCATCGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAgcg > 2:923755/1‑76 (MQ=255)
tcatcGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAg < 2:1348366/76‑1 (MQ=255)
atcGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGtc < 2:406303/76‑1 (MQ=255)
tcGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGtct < 2:977839/76‑1 (MQ=255)
cGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGtctc < 1:1507216/76‑1 (MQ=255)
cGACTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGtctc > 1:1366214/1‑76 (MQ=255)
naCTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCa > 1:1098359/2‑76 (MQ=255)
cTGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCAtt > 1:466213/1‑76 (MQ=255)
tGAATGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTc < 1:380772/76‑1 (MQ=255)
aaTGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTCTg < 1:215064/76‑1 (MQ=255)
aaTGGAGAGAAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTCTg < 2:756716/76‑1 (MQ=255)
agaAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTCTGCGGGccc > 1:1421501/1‑76 (MQ=255)
agaAGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTCTGCGGGccc < 1:114859/76‑1 (MQ=255)
agaAGCACAATGCAACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTCTGCGGGccc > 2:475839/1‑76 (MQ=255)
aGCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTCTGCGGGCCCTGa > 2:284277/1‑76 (MQ=255)
gCACAATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTCTGCGGGCCCTGaa > 1:1520293/1‑76 (MQ=255)
cacaATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTCTGCGGGCCCTGaca > 2:285963/1‑74 (MQ=255)
cacaATGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTCTGCGGGCCCTGaaa > 2:407595/1‑76 (MQ=255)
aaTGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTCTGCGGGCCCTGAAAAcc < 1:511265/76‑1 (MQ=255)
aTGCTACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTCTGCGGGCCCTGAAAAccc > 1:612891/1‑76 (MQ=255)
|
TTACGCCCTGCAGCATCCGGAATGCAGCGCCATTATGCGCATCATCGACTGAATGGAGAGAAGCACAATGCAACAACTTTCCTTTCTGCCCGGAGCGATGACGCCCGGCGAGCGCAGTCTCATTCTGCGGGCCCTGAAAACCC > REL606/3007298‑3007440
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
