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 |
|
A1 F70 I0 R1
|
17 |
27.3 |
622620 |
94.5% |
588375 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
USA300TCH1516_ALE |
2,010,363 |
C→T |
100% |
C146Y (TGT→TAT) |
USA300HOU_RS10125 ← |
Putative multidrug export ATP‑binding/permease protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | USA300TCH1516_ALE | 2,010,363 | 0 | C | T | 100.0%
| 70.5
/ NA
| 24 | C146Y (TGT→TAT) | USA300HOU_RS10125 | Putative multidrug export ATP‑binding/permease protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (9/15); total (9/15) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TGTCAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATACAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGAT‑ATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGTAAATG > USA300TCH1516_ALE/2010233‑2010493
|
tgtCAATTATCTTAATCTTCAAAAGAAAACGTAAACCGTTAAAATGTAAAAAGGGCAGATAAAAAGTGCCGCTAAAGTCAATTGCACATCTAAAAAGAACATTATGTAGAGTGCAATAATAAGTGTTATATAATCTAACCa < 2:155305/141‑1 (MQ=255)
cAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAat > 2:297094/1‑141 (MQ=255)
tttAATCTTCAAAAGAAATCGTACACCGTTAAAATGTAAAATGGAAAGATAAACAGAGCTGGTAAAGTCAATTTCATATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATTTAACCAAATATTCAtt < 2:152208/140‑1 (MQ=255)
gTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATc < 1:250495/141‑1 (MQ=255)
gTACACCGTTAAAATGTAAAATGGGAAGATAAACAGCGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATc < 1:94595/141‑1 (MQ=255)
gacacCGTTAAAATGTAAAATGGTAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTCTGGATAGGTCAATAATAAATGTTATATAATCTAACCAAATATTCATTAACCCGCTTAAAATGAAATCt < 2:112385/140‑1 (MQ=255)
ccGTTAAAATGTCAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACCTCTAAAAAGAACATTATGCTTAGTGCAATAATAATTGTTATATAATCTCACCCAATATGCTTTAATCTGGTTAAAATGAAATCTtttg < 2:206920/141‑1 (MQ=255)
aagaatgtaagatgGGAAGATAAACAGTGCTGGTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTtttgtttg < 2:98884/138‑1 (MQ=255)
gtaaaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCCAc > 2:290293/1‑141 (MQ=255)
taaaatgGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAca > 1:204525/1‑141 (MQ=255)
atgGGAAGATAAACAGTTCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGTATAGTGCAATAATAATTGTTATATAATCTATCCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAAcatcat < 2:24057/141‑1 (MQ=255)
gAAGATAAACAGTGCTGCTAAAGTAAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAAt < 2:85858/141‑1 (MQ=255)
aCAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTGAACATCATTAATCACTCTAg > 1:142228/1‑141 (MQ=255)
ggctAAAGTGAATTTCACATCTAAAAATAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGAT‑ATTAc < 2:173830/140‑1 (MQ=255)
gctAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGAT‑ATTACt > 1:303251/1‑141 (MQ=255)
tCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGAT‑ATTACTTGACCTa < 1:46847/141‑1 (MQ=255)
caTCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATCTTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTCATCACTCTAGAT‑ATTACTTGACCTACTTtattat > 1:200556/1‑141 (MQ=255)
aaaaaGAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGAT‑ATTACTTGACCTACTTGATTATTAGCa < 1:297094/141‑1 (MQ=255)
gAACATTATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGAT‑ATTACTTGACCTACTTGATTATTAGCATaaaa < 1:233837/141‑1 (MQ=255)
tATGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACACGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGAT‑ATTACTTGACCTACTTGATTATTAGCATAAAATATCGc > 2:292687/1‑141 (MQ=255)
tGGATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGAT‑ATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCAc < 1:256222/141‑1 (MQ=255)
aggATAGTGCAATAATAATTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGAT‑ATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCAc < 1:262988/140‑1 (MQ=255)
ggATAGTGCAATAATAATTGTTATATAATCTATCCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTCGTTCAACATCATTAATCACTCTAGAT‑ATTACTTGACCTCCTTGATTATTAGCATAAAATCTCCCACt > 2:274785/1‑141 (MQ=255)
aatTGTTATATAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAAT‑ATTATTAATAAGGACTTTACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGTAAATg > 1:72198/1‑141 (MQ=255)
|
TGTCAATTTTCTTAATCTTCCAAAGAAAACGTACACCGTTAAAATGTAAAATGGGAAGATAAACAGTGCTGCTAAAGTCAATTTCACATCTAAAAAGAACATTATGGATAGTGCAATAATAATTGTTATACAATCTAACCAAATATTCATTAACCCGGTTAAAATGAAATCTTTTGTTTGTTCAACATCATTAATCACTCTAGAT‑ATTACTTGACCTACTTGATTATTAGCATAAAATCTCGCACTTAAAGCTTGTAAATG > USA300TCH1516_ALE/2010233‑2010493
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
