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 |
|
A42 F1 I1 R1
|
17 |
53.4 |
3386926 |
97.4% |
3298865 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,911,972 |
(T)7→6 |
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 | 3,911,966 | 0 | T | . | 98.0%
| 236.9
/ ‑1.4
| 50 | intergenic (‑167/‑156) | yifB/ilvL | predicted bifunctional enzyme and transcriptional regulator/ilvG operon leader peptide |
| Reads supporting (aligned to +/- strand): ref base T (1/0); new base . (22/27); total (23/27) |
| Fisher's exact test for biased strand distribution p-value = 4.60e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
ATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAA > REL606/3911893‑3912034
|
atgatgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAttt > 2:385774/1‑76 (MQ=255)
tgatgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAtttt < 2:480968/76‑1 (MQ=255)
agatgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAtttt > 1:1172186/2‑76 (MQ=255)
atgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACTAGGAAGGGAACCACAGNCATACTGAAATTGAAtttttt > 2:279661/1‑76 (MQ=255)
atgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACTAGGAAGGGAACCACAGNCATAATGAAATTGACtttttt > 2:279680/1‑76 (MQ=255)
cTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAttttttcac < 1:214347/76‑4 (MQ=255)
gCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTtcactca > 2:18095/1‑76 (MQ=255)
aaaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACta < 1:1033998/76‑1 (MQ=255)
aaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtat < 1:992248/76‑1 (MQ=255)
aaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtatt > 1:1621702/1‑76 (MQ=255)
aTGCAGCGGACAAAGGATGAANCACGCGGAAGGGAACATCATTCATACTGAAATTGAA‑TTTTTTCACTCACtattt < 2:269460/76‑1 (MQ=255)
aTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtattt < 1:1657498/76‑1 (MQ=255)
aTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtattt < 1:28627/76‑1 (MQ=255)
gCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtatttta < 1:275895/76‑1 (MQ=255)
gCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtatttta < 1:1066573/76‑1 (MQ=255)
cAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtattttat < 2:352898/76‑1 (MQ=255)
ggACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTAttttt > 2:873784/1‑76 (MQ=255)
cAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTaaa < 2:953324/76‑1 (MQ=255)
cAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTaaa < 2:586227/76‑1 (MQ=255)
aaaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTaaaa > 2:633077/1‑76 (MQ=255)
aaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTaaaaa > 1:679414/1‑76 (MQ=255)
ggATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAaac < 1:455879/76‑1 (MQ=255)
gATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAaaca < 1:170615/76‑1 (MQ=255)
gAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAacaaca < 1:1252735/76‑1 (MQ=255)
gAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAacaaca < 2:1173713/76‑1 (MQ=255)
aaCTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAAcaacaa > 2:1432086/1‑76 (MQ=255)
aaCTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAAcaacaa > 2:1282727/1‑76 (MQ=255)
tACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAAttt > 1:949676/1‑76 (MQ=255)
aCGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTta < 2:1324192/76‑1 (MQ=255)
gAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTtata > 2:1369186/1‑76 (MQ=255)
gAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTtata > 2:146041/1‑76 (MQ=255)
gAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTtata < 1:1371135/76‑1 (MQ=255)
gAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTtata < 2:221075/76‑1 (MQ=255)
aGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTatat < 1:1267173/76‑1 (MQ=255)
aGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTatat > 2:203903/1‑76 (MQ=255)
gAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTg < 1:1051201/76‑1 (MQ=255)
aaGGGAACAACATTCATACTGAAATTGGA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGa > 2:191794/1‑76 (MQ=255)
aaGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGa > 1:75225/1‑76 (MQ=255)
aGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGaa < 1:1526946/76‑1 (MQ=255)
aacaacATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAatta < 1:1035936/76‑1 (MQ=255)
aacaacATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAatta > 2:461073/1‑76 (MQ=255)
acaacaTTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAattat > 1:838724/1‑76 (MQ=255)
acaacaTTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAattat > 2:1573867/1‑76 (MQ=255)
acaTTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTaa < 1:1407300/76‑1 (MQ=255)
caTTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTaa > 2:541341/1‑76 (MQ=255)
aTTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAAc < 2:1471653/76‑1 (MQ=255)
aTTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAAc < 2:595932/76‑1 (MQ=255)
aTACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcat < 1:385774/76‑1 (MQ=255)
aTACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcat > 2:607382/1‑76 (MQ=255)
aTACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcat > 1:993487/1‑76 (MQ=255)
aCTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatca > 1:227902/1‑76 (MQ=255)
cTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatcat < 2:804847/76‑1 (MQ=255)
tGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATa > 2:898504/1‑76 (MQ=255)
aaaTTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaa > 2:1438307/1‑76 (MQ=255)
aaaTTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaa > 1:1173052/1‑76 (MQ=255)
aaaTTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaa < 2:1334479/76‑1 (MQ=255)
|
ATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAA > REL606/3911893‑3912034
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
