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 |
|
A2 F1 I0 R2
|
230 |
93.6 |
4701257 |
96.3% |
4527310 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,892,019:1 |
+GC |
100% |
intergenic (‑437/+54) |
gudP ← / ← ygdL |
predicted D‑glucarate transporter/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,892,019 | 1 | . | G | 100.0%
| 200.3
/ NA
| 61 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (31/30); total (31/30) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
| * | minE | 1,892,019 | 2 | . | C | 100.0%
| 199.8
/ NA
| 61 | intergenic (‑437/+54) | gudP/ygdL | predicted D‑glucarate transporter/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (31/30); total (31/30) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CTGGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTA > minE/1891951‑1892075
||
cTGGCAGTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagc > 1:2709153/1‑69 (MQ=255)
tGGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagc > 1:2159894/1‑68 (MQ=255)
gCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCagct > 1:423988/1‑66 (MQ=255)
cATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCag < 1:2419015/66‑2 (MQ=255)
gAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc > 1:4151131/1‑71 (MQ=255)
gAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc > 1:1540678/1‑71 (MQ=255)
gAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc > 1:446721/1‑71 (MQ=255)
gAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAc > 1:1084198/1‑70 (MQ=255)
gAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAc > 1:1187165/1‑70 (MQ=255)
aaaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAg < 1:4136822/66‑1 (MQ=255)
aaaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAg < 1:3031333/66‑1 (MQ=255)
aaaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAAcc < 1:797823/70‑1 (MQ=255)
aaaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCgg > 1:4521871/1‑71 (MQ=255)
aaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACgggg < 1:659021/71‑1 (MQ=255)
aaGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCggg > 1:276621/1‑71 (MQ=255)
gattcAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGAt < 1:2694180/70‑1 (MQ=255)
aGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACg > 1:730475/1‑71 (MQ=255)
aGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACg < 1:3108306/71‑1 (MQ=255)
aGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACg < 1:1142349/71‑1 (MQ=255)
aGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACg > 1:3824507/1‑71 (MQ=255)
aGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACg < 1:3318284/71‑1 (MQ=255)
aGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACg < 1:3289771/71‑1 (MQ=255)
aCCGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTc < 1:3497248/71‑1 (MQ=255)
cGCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgc > 1:3892923/1‑71 (MQ=255)
gCTAAAACGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgag > 1:1044832/1‑69 (MQ=255)
gCTAAAACGACATTTACC‑ATCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTcgcg > 1:2020808/1‑70 (MQ=255)
aaaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGCACCGGGTCGGATAAGACGTTCGCGtct > 1:3450395/1‑71 (MQ=255)
aaaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct > 1:3455993/1‑71 (MQ=255)
aaaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGt > 1:2871646/1‑69 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct < 1:882418/70‑1 (MQ=255)
aaaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtc < 1:1851494/69‑1 (MQ=255)
aaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATa > 1:4427362/1‑55 (MQ=255)
aaCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCa > 1:1156017/1‑71 (MQ=255)
aCGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGt > 1:3268980/1‑48 (MQ=255)
cGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGa < 1:3558562/51‑1 (MQ=255)
cGACATTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATc > 1:545908/1‑71 (MQ=255)
aTTTACCGCTCGCTGAACATATCAGCTAAGCACAg < 1:4005295/35‑1 (MQ=25)
aTTTACCGCTCGCTGAACATATCAGCTAAGCACAg < 1:3348493/35‑1 (MQ=25)
aTTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCgg < 1:2582567/46‑1 (MQ=255)
aTTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCgg < 1:1491538/46‑1 (MQ=255)
aTTTACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGtt > 1:1647131/1‑56 (MQ=255)
aTTTACCGCTCGCTGAACATATCAGCTAAGCAAAGAACCGGGTCGGATAAGACGtt > 1:437782/1‑56 (MQ=255)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGa < 1:1749588/51‑1 (MQ=255)
tttACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGa < 1:3039641/51‑1 (MQ=255)
tACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGta > 1:4148791/1‑40 (MQ=255)
tACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGt > 1:1723299/1‑58 (MQ=255)
tACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGAc > 1:2310282/1‑68 (MQ=255)
tACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCt < 1:3262216/70‑1 (MQ=255)
tACCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCt < 1:3914586/70‑1 (MQ=255)
aCCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct > 1:1870464/1‑59 (MQ=255)
aCCGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTg < 1:2709667/70‑1 (MQ=255)
ccGCTCGCTGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGAt > 1:55642/1‑71 (MQ=255)
cgctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGAtt < 1:162777/71‑1 (MQ=255)
cgctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGAtt < 1:168156/71‑1 (MQ=255)
gctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCg < 1:3566566/62‑1 (MQ=38)
gctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTg < 1:1966207/71‑1 (MQ=39)
ctcgctGAACATATCAGCTAAGCACAGAACCGGGTc > 1:473400/1‑36 (MQ=25)
ctcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct > 1:833464/1‑55 (MQ=255)
tcgctGAACATATCAGCTAAGCACAGAACCGGGTCgg < 1:1054900/37‑1 (MQ=25)
tcgctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGtct < 1:512335/54‑1 (MQ=255)
gctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCa > 1:2166676/1‑54 (MQ=255)
gctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCa > 1:4412484/1‑54 (MQ=255)
gctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGttt < 1:542123/70‑1 (MQ=38)
gctGAACATATCAGCTAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTa < 1:2565106/71‑1 (MQ=255)
gAACATATCAGCTAACCACAGAACCGGGTCGGATAAgc > 1:1871751/1‑37 (MQ=16)
||
CTGGCATTTGCCTGAAAAGATTCGATTCAGCACCGCTAAAACGACATTTACCGCTCGCTGAACATATCA‑‑TAAGCACAGAACCGGGTCGGATAAGACGTTCGCGTCTCATCCGACCTGATTGTTTA > minE/1891951‑1892075
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
