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 |
|
A23 F110 I1 R1
|
27 |
27.0 |
575272 |
98.6% |
567218 |
141.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
USA300TCH1516_ALE |
2,361,729 |
G→A |
P193S (CCA→TCA) |
secY ← |
Protein translocase subunit SecY |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | USA300TCH1516_ALE | 2,361,729 | 0 | G | A | 100.0%
| 76.3
/ NA
| 21 | P193S (CCA→TCA) | secY | Protein translocase subunit SecY |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (10/11); total (10/11) |
GTACATAAATAGCACCTACAGTTAATAGTATCAGTGACACTAAAAGTCCTAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGGCAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACTGAGTGATTTGATCACCAAGCCATATTAAGAAAGCAGTTCCTGCTGTCAAAACTAGTGCTATTAATAAATAACTCATA > USA300TCH1516_ALE/2361603‑2361865
|
gTACATAAATAGCACCTACAGTTAATAGTATCAGTGACACTAAAAGTCCTAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAGATTGAATTAGACTGGCTGACAACGTTGATaaaa < 1:149498/141‑1 (MQ=255)
gTACATAAATAGCACCTACAGTTAATAGTATCAGTGACACTAAAAGTCCTAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATaaaa > 1:178233/1‑141 (MQ=255)
gTTAATAGTATCAGTGACACTAAAAGTCCTAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGataata > 2:61919/1‑141 (MQ=255)
tAATAGTATCAGTGACACTAAAAGTCCTAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGa < 2:52215/141‑1 (MQ=255)
tAATAGTATCAGTGACACTAAAAGTCCTAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGa > 2:381/1‑141 (MQ=255)
tAATAGTATCAGTGACACTAAAAGTCCTAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGa > 2:205734/1‑141 (MQ=255)
aGTGACACTAAAAGTCCTAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTa > 2:5594/1‑141 (MQ=255)
cacTAAAAGTCCTAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAac > 1:282426/1‑141 (MQ=255)
cacTAAAAGTCCTAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAac > 1:149887/1‑141 (MQ=255)
gTCCTAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACt > 1:259950/1‑141 (MQ=255)
gTCCTAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACt > 2:244812/1‑141 (MQ=255)
tAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACTGAGt > 1:25403/1‑141 (MQ=255)
gCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACTGAGTGATTTGATCACCAAGc < 1:778/141‑1 (MQ=255)
tATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACTGAGTGATTTGATCACCAAGCCATATTAAGa < 1:102309/141‑1 (MQ=255)
gaacgCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACTGAGTGATTTGATCACCAAGCCATATTAAGAAAGCAGTTCCTGCTGt < 1:5594/141‑1 (MQ=255)
acgCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACTGAGTGATTTGATCACCAAGCCATATTAAGAAAGCAGTTCCTGCTGTCa < 1:282766/141‑1 (MQ=255)
cgCAGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACTGAGTGATTTGATCACCAAGCCATATTAAGAAAGCAGTTCCTGCTGTCaa < 2:178233/141‑1 (MQ=255)
aGTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACTGAGTGATTTGATCACCAAGCCATATTAAGAAAGCAGTTCCTGCTGTCAAAAc < 2:135806/141‑1 (MQ=255)
gTTTGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACTGAGTGATTTGATCACCAAGCCATATTAAGAAAGCAGTTCCTGCTGTCAAAACt < 1:77448/141‑1 (MQ=255)
tttGTCCAAATTGAATTAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACTGAGTGATTTGATCACCAAGCCATATTAAGAAAGCAGTTCCTGCTGTCAAAACTa < 1:61919/141‑1 (MQ=255)
ttAGACTGGCTGACAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACTGAGTGATTTGATCACCAAGCCATATTAAGAAAGCAGTTCCTGCTGTCAAAACTAGTGCTATTaataaat < 1:8635/141‑1 (MQ=255)
gctgacAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACTGAGTGATTTGATCACCAAGCCATATTAAGAAAGCAGTTCCTGCTGTCAAAACTAGTGCTATTAATAAATAACTCATa > 2:21201/1‑141 (MQ=255)
|
GTACATAAATAGCACCTACAGTTAATAGTATCAGTGACACTAAAAGTCCTAATACTTTCAACCATGCTAATGATGTATCTTCTTGCCCAACGAACGCAGTTTGTCCAAATTGAATTAGACTGGCTGGCAACGTTGATAAAATACCCGCAAATATGATAATAGAAATACCATTACCAACACCGAACTGAGTGATTTGATCACCAAGCCATATTAAGAAAGCAGTTCCTGCTGTCAAAACTAGTGCTATTAATAAATAACTCATA > USA300TCH1516_ALE/2361603‑2361865
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
