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 |
|
A21 F1 I1 R1
|
16 |
43.9 |
3070277 |
96.2% |
2953606 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,911,991 |
(T)5→4 |
intergenic (‑192/‑131) |
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 | 3,911,987 | 0 | T | . | 91.5%
| 191.4
/ 14.5
| 47 | intergenic (‑188/‑135) | yifB/ilvL | predicted bifunctional enzyme and transcriptional regulator/ilvG operon leader peptide |
| Reads supporting (aligned to +/- strand): ref base T (2/2); new base . (23/20); total (25/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
AGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTA > REL606/3911912‑3912057
|
aGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACtattttat > 2:1407735/1‑76 (MQ=255)
ncGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCNCTCACtattttatt > 2:220239/2‑76 (MQ=255)
cGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACtattttattt > 2:838290/1‑76 (MQ=255)
ggACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTattttatttt < 2:506175/76‑1 (MQ=255)
aaaGGATGAACTANGAGGAAGGGAACAACAATCATACTGAAATTGTATTTTTTTCACTCACTATTTTATTTTaaaa < 2:1403582/76‑1 (MQ=255)
aaaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTaaaa > 1:777579/1‑76 (MQ=255)
aaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTAaaaa < 2:1418856/76‑1 (MQ=255)
aGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTCCACTCACTATNTTATTTTaaagag > 1:206334/1‑73 (MQ=255)
aTGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAaacaa > 2:841827/1‑76 (MQ=255)
tGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAaacaac < 1:1024757/76‑1 (MQ=255)
tGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAaacaac < 2:366981/76‑1 (MQ=255)
aaCTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAAcaacaa < 1:993952/76‑1 (MQ=255)
aCGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTta < 1:1478594/76‑1 (MQ=255)
cGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTtat > 2:767539/1‑76 (MQ=255)
gAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTtata > 2:702468/1‑76 (MQ=255)
ggAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATAtt < 1:678985/76‑1 (MQ=255)
aaGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGa > 2:415145/1‑76 (MQ=255)
aaGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGa < 1:992251/76‑1 (MQ=255)
aaGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGa < 1:291297/76‑1 (MQ=255)
aGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGaa < 2:508031/76‑1 (MQ=255)
aGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGaa > 2:1136424/1‑76 (MQ=255)
ggAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAat < 2:470363/76‑1 (MQ=255)
gAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAatt < 1:1407736/76‑1 (MQ=255)
aacaacATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAatta > 2:80104/1‑76 (MQ=255)
acaacaTTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAattat < 1:860439/76‑1 (MQ=255)
acaacaTTCATACTGAAATTGAATTTTTTTCACNCACTATTTTA‑TTTTAAAAAACANCAATTTATATNGAAattat > 2:1289183/1‑76 (MQ=255)
aacaTTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAAttatta > 2:968453/1‑76 (MQ=255)
acaTTCATACTGAGATTGAATTTCTTTCACTCACTATTTTA‑TTTTAAAAAACAAGAATTTATATTGAAATTATTaa < 1:1318560/76‑1 (MQ=255)
acaTTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTaa < 1:335570/76‑1 (MQ=255)
acaTTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTaa > 2:664759/1‑76 (MQ=255)
caTTCATACTGAAATTGAATTTTTTTCNCTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTaaa > 1:1522186/1‑76 (MQ=255)
caTTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTaaa > 1:224122/1‑76 (MQ=255)
caTTCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTaaa < 1:398426/76‑1 (MQ=255)
caTTCATACTGAAATGGAATTTGTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTaaa < 2:53267/76‑1 (MQ=255)
ttCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACg < 2:1420063/76‑1 (MQ=255)
ttCATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACg < 2:701038/76‑1 (MQ=255)
cATACTGAAATTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGca > 1:1470355/1‑76 (MQ=255)
aaaTTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaa > 2:1210531/1‑76 (MQ=255)
aaaTTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaa > 1:1113332/1‑76 (MQ=255)
aaaTTGAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaa < 1:810332/76‑1 (MQ=255)
gAATTTTTTTCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCg < 1:1136518/76‑1 (MQ=255)
tttttCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCaa > 2:24598/1‑76 (MQ=255)
tttCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAGTTATTAAACGCATCATAAAAATCGGCCaaaa > 1:614591/1‑76 (MQ=255)
tttCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCaaaa > 1:313909/1‑76 (MQ=255)
ttCACTCACTATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCaaaaa > 2:827831/1‑76 (MQ=255)
cactcactATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAat > 1:1013814/1‑76 (MQ=255)
cactcactATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAat > 1:669899/1‑76 (MQ=255)
ctcactATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAANGCATCATAAAAATCGGCCAAAAAatat < 1:1533442/76‑1 (MQ=255)
tcactATTTNA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATc > 1:33159/1‑76 (MQ=255)
cactATTTTA‑TTTTAAACAACAGCAATTTATATTGAAATTATTAAACGCATCATAAAAATCTGCCAAAAAATATCt > 2:233652/1‑76 (MQ=255)
actATTTTA‑TTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCtt > 1:275670/1‑76 (MQ=255)
tatttta‑tttTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGt < 2:654275/76‑1 (MQ=255)
tatttta‑tttTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGt < 1:747607/76‑1 (MQ=255)
tatttta‑tttTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGt < 1:386306/76‑1 (MQ=255)
tatttta‑tttTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGt > 1:240879/1‑76 (MQ=255)
atttta‑ttttAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTa > 1:737319/1‑76 (MQ=255)
|
AGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTA > REL606/3911912‑3912057
|
| 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
