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 |
|
A3 F1 I2 R1
|
777 |
59.2 |
2955938 |
92.5% |
2734242 |
106.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,080,915 |
(G)5→6 |
intergenic (+102/‑441) |
putP → / → efeU |
proline:sodium symporter/ferrous iron permease (pseudogene) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,080,910 | 1 | . | G | 100.0%
| 129.0
/ NA
| 39 | intergenic (+97/‑446) | putP/efeU | proline:sodium symporter/ferrous iron permease (pseudogene) |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (22/17); total (22/17) |
CTCCGCCGTCACGGTTGCAGGAAAGCTAAGGGACTTAGCCTGCGGCGGTTTTGTTTGGCTTCAGCAGCGGGTTGCGCTCCCTTAATGTGCCTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCA‑GGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAGCTGTTATTATGTTCCGGGCAAAAAGTTAGATTTGATAATCGCGGATGGAC > NC_000913/1080785‑1081042
|
cTCCGCCGTCACGGTTGCAGGAAAGCTAAGGGACTTAGCCTGCGGCGGTTTTGTTTGGCTTCAGCAGCGGGTTGCGCTCCCTTAATGTGCCTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCa < 1:242118/126‑1 (MQ=255)
cTCCGCCGTCACGGTTGCAGGAAAGCTAAGGGACTTAGCCTGCGGCGGTTTTGTTTGGCTTCAGCAGCGGGTTGCGCTCCCTTAATGTGCCTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCa > 2:242118/1‑126 (MQ=255)
aGGGACTTAGCCTGCGGCGGTTTTGTTTGGCTTCAGCAGCGGGTTGCGCTCCCTTAATGTGCCTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCt > 1:1003960/1‑139 (MQ=255)
ggACTTAGCCTGCGGCGGTTTTGTTTGGCTTCAGCAGCGGGTTGCGCTCCCTTAATGTGCCTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTc > 2:1197753/1‑139 (MQ=255)
tAGCCTGCGGCGGTTTTGTTTGGCTTCAGCAGCGGGTTGCGCTCCCTTAATGTGCCTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGa > 1:1079297/1‑139 (MQ=255)
cggcggTTTTGTTTGGCTTCAGCAGCGGGTTGCGCTCCCTTAATGTGCCTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTc > 2:1327986/1‑139 (MQ=255)
tgGCTTCAGCAGCGGGTTGCGCTCCCTTAATGTGCCTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACg < 1:1327986/139‑1 (MQ=255)
tCAGCAGCGGGTTGCGCTCCCTTAATGTGCCTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGccacc < 1:1197753/139‑1 (MQ=255)
gTTGCGCTCCCTTAATGTGCCTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAg < 2:1012475/139‑1 (MQ=255)
ccTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACg > 1:1333979/1‑105 (MQ=255)
ccTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACg < 2:1333979/105‑1 (MQ=255)
ccTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCg > 1:1280618/1‑118 (MQ=255)
ccTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCg < 2:1280618/118‑1 (MQ=255)
ccTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCg > 2:622225/1‑118 (MQ=255)
ccTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCg < 1:622225/118‑1 (MQ=255)
ccTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAg > 1:11699/1‑120 (MQ=255)
ccTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAg > 1:1167017/1‑120 (MQ=255)
ccTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAg < 2:11699/120‑1 (MQ=255)
ccTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAg < 2:1167017/120‑1 (MQ=255)
ccTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAGCTGTTATTATGTTCCGGGc > 1:1029005/1‑139 (MQ=255)
ccTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAGCTGTTATTATGTTCCGGGc > 2:220141/1‑139 (MQ=255)
gCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCt > 1:1366254/1‑74 (MQ=255)
gCCATATAAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCt < 2:1366254/74‑1 (MQ=255)
taAATTGAATGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGaa > 2:18399/1‑76 (MQ=255)
taAATTGAATGGGGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGaa < 1:18399/76‑1 (MQ=25)
aTGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCg < 2:107174/100‑1 (MQ=255)
aTGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCg > 1:107174/1‑100 (MQ=255)
aTGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAGCTGTTATTATGTTCCGGGCAAAAAGTTAGATTTGATa > 2:1144249/1‑139 (MQ=255)
tGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAg > 1:427379/1‑101 (MQ=255)
tGGTGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAg < 2:427379/101‑1 (MQ=255)
tGCAGGGAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAGCTGTTATTATGTTCCGGGCAAAAAGTTAGATTTGATAATcg > 1:1031192/1‑139 (MQ=255)
cAGGGAGCGCGCAGGGGGGCGGCCAATCgccgccgcc > 1:1433588/1‑37 (MQ=14)
cAGGGAGCGCGCAGGGGGGCGGCCAATCgccgccgcc < 2:1433588/37‑1 (MQ=14)
gggAGCGCGCAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAGCTGTTATTATGTTCCGGGCAAAAAGTTAGATTTGATAATCGCGGa < 1:220141/139‑1 (MQ=255)
cgcgcAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAGCTGTTATTATGTTCCGGGCAAAAAGTTAGATTTGATAATCGCGGATGGAc > 1:1147668/1‑139 (MQ=255)
cgcgcAGGGGGGCGGCCAATCGCCGCCGCCCCCTCCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGa < 1:576961/88‑1 (MQ=38)
cgcgcAGGGGGGCGGCCAATCGCCGCCGCCCCCTCCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGa > 2:576961/1‑88 (MQ=37)
gcgcAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGaa < 2:356871/54‑1 (MQ=25)
gcgcAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGaa > 1:356871/1‑54 (MQ=25)
gcgcAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAg < 1:925598/88‑1 (MQ=255)
gcgcAGGGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAg > 2:925598/1‑88 (MQ=255)
|
CTCCGCCGTCACGGTTGCAGGAAAGCTAAGGGACTTAGCCTGCGGCGGTTTTGTTTGGCTTCAGCAGCGGGTTGCGCTCCCTTAATGTGCCTCGCCATATAAATTGAATGGTGCAGGGAGCGCGCA‑GGGGGCGGCCAATCGCCGCCGCCCCCTGCTGTCCCGGCCTTCGGGGAACGCTTCAGCGATTTTGACGCCACCAACACCCGAGCTGTTATTATGTTCCGGGCAAAAAGTTAGATTTGATAATCGCGGATGGAC > NC_000913/1080785‑1081042
|
| 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
