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 |
|
A10 F1 I1 R1
|
77 |
35.1 |
1569012 |
96.6% |
1515665 |
112.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,503,221 |
A→G |
pseudogene (429/432 nt) |
insP ← |
pseudogene, IS609 transposase A,IS, phage, Tn, Transposon‑related functions, extrachromosomal, transposon related |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,503,221 | 0 | A | G | 100.0%
| 115.2
/ NA
| 31 | pseudogene (429/432 nt) | insP | pseudogene, IS609 transposase A,IS, phage, Tn, Transposon‑related functions, extrachromosomal, transposon related |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (19/12); total (19/12) |
GGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAGTTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGACCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGACTCCACAAAACGCCTTTGTAGTAATACCTG > NC_000913/1503086‑1503332
|
ggCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAGTTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCa > 1:465046/1‑139 (MQ=255)
gcCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCAcc > 1:443378/1‑139 (MQ=255)
cgcTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAg > 1:167991/1‑75 (MQ=255)
cgcTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAg < 2:167991/75‑1 (MQ=255)
cgcTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTg > 2:62918/1‑82 (MQ=255)
cgcTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTg < 1:62918/82‑1 (MQ=255)
cgcTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTgg > 1:268715/1‑101 (MQ=255)
cgcTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTgg < 2:268715/101‑1 (MQ=255)
cgcTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGc > 1:35242/1‑139 (MQ=255)
cgcTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGc > 2:255329/1‑139 (MQ=255)
tttATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAAt > 1:583266/1‑139 (MQ=255)
tGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGAc > 2:307175/1‑139 (MQ=255)
ccccATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGACTCCACAAAACGc > 1:630503/1‑139 (MQ=255)
tCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCgg < 1:102223/73‑1 (MQ=255)
tCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCgg > 2:102223/1‑73 (MQ=255)
tCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGACTCCACAAAAc < 1:256104/132‑1 (MQ=255)
tCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGACTCCACAAAAc > 2:256104/1‑132 (MQ=255)
tCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGACTCCACAAAACGCCTTTg > 1:731834/1‑139 (MQ=255)
gggATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCaaa < 2:226701/99‑1 (MQ=255)
gggATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCaaa > 1:226701/1‑99 (MQ=255)
gggATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGACTCCACAAAACGCCTTTGTAGTAATACCTg > 2:256544/1‑139 (MQ=255)
gggATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGACTCCACAAAACGCCTTTGTAGTAATACCTg < 2:465046/139‑1 (MQ=255)
gggATATAAGGCGCGGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGACTCCACAAAACGCCTTTGTAGTAATACCTg < 2:731834/139‑1 (MQ=255)
cgcgGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGAc < 1:720859/99‑1 (MQ=255)
cgcgGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGAc > 2:720859/1‑99 (MQ=255)
gcgGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACg > 1:662998/1‑55 (MQ=255)
gcgGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACg < 2:662998/55‑1 (MQ=255)
cgGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGACTCCACAAAACGCCTTTGTAGTAATACCt < 1:400252/125‑1 (MQ=255)
cgGTTTTCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGACTCCACAAAACGCCTTTGTAGTAATACCt > 2:400252/1‑125 (MQ=255)
ttttCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCAcc > 1:643055/1‑65 (MQ=255)
ttttCCACCTGGCCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCAcc < 2:643055/65‑1 (MQ=255)
|
GGCGACCGATGCCACCATGTTTGACGTTAACAAAAAGTAGTTCCAGACGCGCCATCGTTAGATGGCGCTTTTTATCCGGTGCGCCGTAAAACCCCATCCTTCAGGGCGGGGATATAAGGCGCGGTTTTCCACCTGACCAGGTGTTTGCTGTTGTTCAATGTATTGGCGGATGACGGATATTGGCGCACCTCCGCAGCTACTGGCAAAATAGCCAGGACTCCACAAAACGCCTTTGTAGTAATACCTG > NC_000913/1503086‑1503332
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
