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 |
|
A5 F43 I1 R1
|
9 |
18.9 |
431162 |
94.5% |
407448 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
USA300TCH1516_ALE |
1,981,290 |
T→C |
T38A (ACT→GCT) |
USA300HOU_RS09870 ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | USA300TCH1516_ALE | 1,981,290 | 0 | T | C | 100.0%
| 58.6
/ NA
| 18 | T38A (ACT→GCT) | USA300HOU_RS09870 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (3/15); total (3/15) |
TTGTTTGAACGATTTCTAATGGATCACAGCCAAATGTACTGTTTAATACTTCAGAGTCTCTGAATAATGCACAAATTGAAATACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGTCTTTTTAGAAAGTCCAATTGTTTGCGCCATAGTATCTTGCGTATAACCAGCCTCTATACGAACCATTTTAAATTTTGTTTGAATTAAATCTGTAAAACTCTGTCTATCCATTCTGTTATCTACCTTTCTGTTTGG > USA300TCH1516_ALE/1981158‑1981425
|
ttGTCTGAACGATTTCTAATGGATCACAGCCAAATGTACTGTTTAATACTGCAGAGTCTCTGAATAATGCACAAATTGAAATACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAg < 1:37154/141‑1 (MQ=255)
ttGAACGATTTCTAATGGATCACAGCCAAATGTACTGTTTAATACTTCAGAGTCTCTGAATAATGCACAAATTGAAATACAAGTTGTCCAGTTTGGTAATCCTCTCTCTTTTCTGCTCTGTACTAAAGCCTTTTTAGAAAg < 1:41720/141‑1 (MQ=255)
gAACGATTTCTAATGGATCACAGCCAAATGTACTGTTTAATACTTCAGAGTCTCTGAATAATGCACAAATTGAAATACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAGAAAGTc > 2:153859/1‑141 (MQ=255)
taaggtaTCACAGCCAAATGTACTGTTTAATACTTCAGAGTCTCTGAATAATGCACAAATTGAAATACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTg > 2:79210/7‑141 (MQ=255)
gATCACAGCCAATTGTACTGTTTAATACTTCAGAGTCTCTGAATAATGCACAAATTGAAATACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTGCGCCa < 1:133881/141‑1 (MQ=255)
gATCACAGCCAAATGTACTGTTTAATACTTCAGAGTCTCTGAATAATGCACAAATTGAAATACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTGCGCCa < 1:76051/141‑1 (MQ=255)
tCACAGCCAAATGTACTGTTTAATACTTCAGAGTCTCTGAATAATGCACAAATTGAAATACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTGCGCCATa < 2:15544/141‑1 (MQ=255)
tGTTTAATACTTCAGAGTCTCTGAATAATGCACAAATTGAAATACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTGCGCCATAGTATCTTGCGTATAAc < 2:122153/141‑1 (MQ=255)
tGTTTAATACTTCAGAGTCTCTGAATAATGCACAAATTGAAATACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTGCGCCATAGTATCTTGCGTATAAc < 2:203317/141‑1 (MQ=255)
ttttAATAGTTCAGAGTGTCTGGAGAATGCACAAATTGAATTACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTGGGCCATATTATCTTGCGTATAAcc < 2:164346/140‑1 (MQ=255)
tACTTCAGAGTCTCTGAATAATGCACAAATTGAAATACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTCTCGATTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTGCGCCATAGTATCTTGCGTATAACCAGCctc < 1:115118/141‑1 (MQ=255)
tGAATAATGCACAAATTGAAATACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTGCGCCATAGTATCTTGCGTATACCCAGCCTCTATACGAACCAttt > 2:2764/1‑141 (MQ=255)
aTTGAAATACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTGCGCCATAGTATCTTGCGTATAACCAGCCTCTATACGAACCATTTTAAATTTTGTTTGa < 1:168584/141‑1 (MQ=255)
aaGGTGTCCAGTTTGGTAATACTCTCTCTTTTTCGAGTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTGCGCCATAGTATCTTGCGTATAACCAGCCTCTATACGAACCATTTTAAATTTTGTTTGAATTAAATCTg < 2:148587/141‑1 (MQ=255)
gTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTGCGCCATAGTATCTTGCGTATAACCAGCCTCTATACGAACCATTTTAAATTTTGTTTGAATTAAATCTGTa < 1:118909/141‑1 (MQ=255)
aTACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTGCGCCATAGTATCTTGCGTATAACCAGCCTCTATACGAACCATTTTAAATTTTGTTTGAATTAAATCTGTAAAACTCTGTCTATCCa < 1:25462/141‑1 (MQ=255)
aTACTCTCTCTTTTTCGATTTGTACTAAAGCCTTTTTAGAAAGTCCAATTGTTTGCGCCATAGTATCTTGCGTATAACCAGCCTCTATACGAACCATTTTAAATTTTGTTTGAATTAAATCTGTAAAACTCTGTCTATCCa < 1:25258/141‑1 (MQ=255)
tAAAGCCTTTTTAGAAAGTCCAATTGTTTGCGCCATAGTATCTTGCGTATAACCAGCCTCTATACGAACCATTTTAAATTTTGTTTGAATTAAATCTGTAAAACTCTGTCTATCCATTCTGTTATCTACCTTTCTGTTTgg < 2:147417/141‑1 (MQ=255)
|
TTGTTTGAACGATTTCTAATGGATCACAGCCAAATGTACTGTTTAATACTTCAGAGTCTCTGAATAATGCACAAATTGAAATACAAGTTGTCCAGTTTGGTAATACTCTCTCTTTTTCGATTTGTACTAAAGTCTTTTTAGAAAGTCCAATTGTTTGCGCCATAGTATCTTGCGTATAACCAGCCTCTATACGAACCATTTTAAATTTTGTTTGAATTAAATCTGTAAAACTCTGTCTATCCATTCTGTTATCTACCTTTCTGTTTGG > USA300TCH1516_ALE/1981158‑1981425
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
