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 |
|
A32 F1 I1 R1
|
13 |
41.3 |
2638873 |
95.5% |
2520123 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,911,972 |
(T)7→8 |
intergenic (‑173/‑150) |
yifB ← / → ilvL |
predicted bifunctional enzyme and transcriptional regulator/ilvG operon leader peptide |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,911,965 | 1 | . | T | 91.2%
| 114.7
/ 4.9
| 34 | intergenic (‑166/‑157) | yifB/ilvL | predicted bifunctional enzyme and transcriptional regulator/ilvG operon leader peptide |
| Reads supporting (aligned to +/- strand): ref base . (1/2); new base T (17/14); total (18/16) |
| Fisher's exact test for biased strand distribution p-value = 5.91e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01 |
CTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑A‑TTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATA > REL606/3911899‑3912032
|
cTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑A‑tttttt‑ttc > 1:497058/1‑74 (MQ=255)
tCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑A‑tttttt‑ttca < 2:875960/76‑4 (MQ=255)
tCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑A‑tttttt‑ttca < 1:409435/76‑4 (MQ=255)
aaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑ATTTTTTT‑T‑cactcact < 1:1169522/76‑1 (MQ=255)
tGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACtatt < 2:4847/76‑1 (MQ=255)
cAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACtatttt < 2:421676/76‑1 (MQ=255)
aaaGGATGAACTATGAGGAAGGGGACAACATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTaa < 1:1136556/76‑1 (MQ=255)
aaaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑A‑TTTTTTCT‑TACTCACTATTTTATTTTTaa < 1:6561/76‑1 (MQ=255)
aTGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAaac > 1:1116687/1‑76 (MQ=255)
aTGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTGATTTTTAAAAaac < 1:88695/76‑1 (MQ=255)
gAACTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAaacaa > 2:939252/1‑76 (MQ=255)
aCTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAacaaca < 1:972692/76‑1 (MQ=255)
cTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAAcaacaa < 1:232646/76‑1 (MQ=255)
aCGAGGAAGGGAACAACATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAAtt < 2:128283/76‑1 (MQ=255)
cGAGGAAGGGAACAACATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAAttt < 2:497058/76‑1 (MQ=255)
gAGGAAGGGAACAANATTCATACTGAAATTGA‑A‑TNTTTT‑TACANTCACTATTTTATTTTTAAACAACAACAATTta < 2:1091462/76‑1 (MQ=255)
ggAAGGGAACAACATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTtata > 1:1222102/1‑76 (MQ=255)
aaGAGAACAACATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATAtt > 2:981314/1‑76 (MQ=255)
aGGGAACAACATTCATACTGAAATTGACT‑TTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTAATATTg > 1:1292326/1‑76 (MQ=255)
aacaacATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAat > 1:589019/1‑76 (MQ=255)
aacaacATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAat > 1:1005606/1‑76 (MQ=255)
aacaacATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAat > 1:1143781/1‑76 (MQ=255)
aacaacATTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAat < 2:389913/76‑1 (MQ=255)
aacaTTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAattat > 1:525585/1‑76 (MQ=255)
caTTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAAttatta > 2:819944/1‑76 (MQ=255)
caTTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAAttatta > 1:105699/1‑76 (MQ=255)
aTTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTaa > 1:749077/1‑76 (MQ=255)
aTTCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTaa < 2:1264447/76‑1 (MQ=255)
tCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAAc < 2:385838/76‑1 (MQ=255)
tCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAAc < 1:743372/76‑1 (MQ=255)
tCATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAAc < 1:1030861/76‑1 (MQ=255)
cATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACg < 1:888999/76‑1 (MQ=255)
cATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACg > 1:510503/1‑76 (MQ=255)
cATACTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACg > 1:1051939/1‑76 (MQ=255)
aCTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAACNCANCAATTTATATTGAANTTATTAAACGcat > 2:1188991/1‑76 (MQ=255)
aCTGAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcat > 1:287809/1‑76 (MQ=255)
gAAATTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatcat > 2:976104/1‑76 (MQ=255)
aaaTTGA‑ATTTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATa > 2:833419/1‑76 (MQ=255)
|
CTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGA‑A‑TTTTTT‑T‑CACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATA > REL606/3911899‑3912032
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
