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 |
|
A79 F1 I1 R1
|
19 |
52.0 |
3333102 |
95.7% |
3189778 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,911,964 |
2 bp→TT |
intergenic (‑165/‑157) |
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 | 3,911,964 | 0 | A | T | 95.2%
| 156.2
/ ‑0.8
| 42 | intergenic (‑165/‑158) | yifB/ilvL | predicted bifunctional enzyme and transcriptional regulator/ilvG operon leader peptide |
| Reads supporting (aligned to +/- strand): ref base A (1/1); new base T (16/24); total (17/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.79e-01 |
| * | REL606 | 3,911,965 | 0 | A | T | 95.2%
| 157.7
/ ‑0.7
| 42 | intergenic (‑166/‑157) | yifB/ilvL | predicted bifunctional enzyme and transcriptional regulator/ilvG operon leader peptide |
| Reads supporting (aligned to +/- strand): ref base A (1/1); new base T (16/24); total (17/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.18e-01 |
TGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAA > REL606/3911894‑3912034
||
tgatgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGtttttt < 2:1112164/76‑1 (MQ=255)
cGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTtctcc > 1:209137/1‑73 (MQ=255)
aaaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTcactcact < 1:796638/76‑1 (MQ=255)
aaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACta > 2:402873/1‑76 (MQ=255)
aTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACtatt > 1:1234795/1‑76 (MQ=255)
cAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACtatttta > 1:413494/1‑76 (MQ=255)
ggACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTattttatttt > 1:823162/1‑76 (MQ=255)
gACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTAttttt < 1:1447913/76‑1 (MQ=255)
aaaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTaaa < 1:150552/76‑1 (MQ=255)
ggATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTaaaaaa > 2:1203783/1‑76 (MQ=255)
ggATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTaaaaaa > 1:1049317/1‑76 (MQ=255)
gATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAaac < 2:1490244/76‑1 (MQ=255)
aTGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAaaca < 2:103899/76‑1 (MQ=255)
tGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAaacaa < 2:1247413/76‑1 (MQ=255)
tGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAaacaa < 1:665505/76‑1 (MQ=255)
gAACTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAaacaac < 1:1547395/76‑1 (MQ=255)
aCTACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAAcaacaa < 1:754284/76‑1 (MQ=255)
tACGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAAtt < 1:306521/76‑1 (MQ=255)
aCGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAAttt < 1:926820/76‑1 (MQ=255)
aCGAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAAttt < 1:56330/76‑1 (MQ=255)
gAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTtat < 1:730472/76‑1 (MQ=255)
gAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTtat < 2:345745/76‑1 (MQ=255)
gAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTtat < 2:678853/76‑1 (MQ=255)
gAGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTtat < 1:1111426/76‑1 (MQ=255)
aGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTtata < 1:1047284/76‑1 (MQ=255)
aGGAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTtata < 2:1060550/76‑1 (MQ=255)
tgAAGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTatat > 2:1140690/2‑76 (MQ=255)
aaGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTg > 1:885167/1‑76 (MQ=255)
aaGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTg < 2:503207/76‑1 (MQ=255)
aaGGGAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTg > 1:829107/1‑76 (MQ=255)
gggAACAACATTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGaa > 2:1612752/1‑76 (MQ=255)
acaacaTTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAatta > 1:1335138/1‑76 (MQ=255)
aacaTTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAattatt > 2:366857/1‑76 (MQ=255)
caTTCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTaa < 1:237968/76‑1 (MQ=255)
caTTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTaa < 2:553993/76‑1 (MQ=255)
ttCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAAc < 2:1399482/76‑1 (MQ=255)
ttCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAAc > 2:706634/1‑76 (MQ=255)
tCATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACg < 1:956394/76‑1 (MQ=255)
cATACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGc < 1:1154509/76‑1 (MQ=255)
tACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcat > 1:964614/1‑76 (MQ=255)
tACTGAAATTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcat > 1:1383434/1‑76 (MQ=255)
aaaTTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaa > 2:209415/1‑76 (MQ=255)
aaTTGTTTTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaa < 2:1324657/76‑1 (MQ=255)
||
TGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAA > REL606/3911894‑3912034
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
