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 |
3,457,094 |
A→G |
I240V (ATC→GTC) |
gspD → |
general secretory pathway component, cryptic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,457,094 | 0 | A | G | 100.0%
| 137.7
/ NA
| 37 | I240V (ATC→GTC) | gspD | general secretory pathway component, cryptic |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (15/22); total (15/22) |
CTGGAATATGCGTCAGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTATCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAA > NC_000913/3456965‑3457225
|
cTGGAATATGCGTCAGCAGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTg > 2:449222/1‑139 (MQ=255)
ggAATATGCGTCAGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGa < 2:180327/139‑1 (MQ=255)
gCGTCAGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGaaa < 1:449222/139‑1 (MQ=255)
aGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCa > 2:506812/1‑139 (MQ=255)
aGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCa > 1:7232/1‑139 (MQ=255)
ggAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGc < 1:506812/139‑1 (MQ=255)
gAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGcc < 2:273780/139‑1 (MQ=255)
gagaTTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGTCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACtt < 2:513702/139‑1 (MQ=255)
agaTTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACtt < 2:389302/138‑1 (MQ=255)
agaTTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACtt > 1:389302/1‑138 (MQ=255)
aTTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGc > 2:557968/1‑123 (MQ=255)
aTTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGc < 1:557968/123‑1 (MQ=255)
ttAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGcc > 1:712798/1‑139 (MQ=255)
aTCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTg < 1:113515/139‑1 (MQ=255)
aaaGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGa < 2:7232/139‑1 (MQ=255)
aaGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGaa < 2:571663/139‑1 (MQ=255)
ggTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGa > 2:223947/1‑78 (MQ=255)
ggTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGa < 1:223947/78‑1 (MQ=255)
ggTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCg < 1:187395/139‑1 (MQ=255)
aaaaGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGagg < 2:715361/139‑1 (MQ=255)
aTGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCGGCGCAt < 1:67408/89‑1 (MQ=255)
aTGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt > 2:67408/1‑89 (MQ=255)
aTGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATa > 2:197872/1‑139 (MQ=255)
ctcCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTAc < 2:309792/139‑1 (MQ=255)
cgcgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAg > 2:317613/1‑59 (MQ=255)
cgcgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAg < 1:317613/59‑1 (MQ=255)
aTTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGttt < 2:109374/124‑1 (MQ=255)
aTTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGttt > 1:109374/1‑124 (MQ=255)
tgtgGCGGCTAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCt < 1:91230/139‑1 (MQ=255)
tgtgGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCt > 2:290277/1‑139 (MQ=255)
tAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACg < 2:712798/139‑1 (MQ=255)
cAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGaa < 2:105943/76‑1 (MQ=255)
cAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGaa > 1:105943/1‑76 (MQ=255)
cAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCtggtg > 2:437683/1‑139 (MQ=255)
aCTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTAcc < 1:341921/108‑1 (MQ=255)
aCTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTAcc > 2:341921/1‑108 (MQ=255)
ctctctTGTCATCAGTGGACCGGACAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGaa < 1:437683/139‑1 (MQ=255)
|
CTGGAATATGCGTCAGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTATCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAA > NC_000913/3456965‑3457225
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
