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 |
|
A5 F1 I0 R2
|
201 |
99.6 |
7939938 |
96.9% |
7693799 |
60.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,824,533:1 |
+G |
100% |
pseudogene (666/687 nt) |
rph → |
ECK3633:JW3618:b3643; ribonuclease PH |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,824,533 | 1 | . | G | 100.0%
| 258.6
/ NA
| 75 | pseudogene (666/687 nt) | rph | ECK3633:JW3618:b3643; ribonuclease PH |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (31/44); total (31/44) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
| Rejected as polymorphism: Polymorphic base substitution creates a homopolymer stretch. |
AAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑GGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACT > W3110S.gb/3824463‑3824597
|
aaGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGa < 1:6395146/71‑1 (MQ=255)
aGTGCAGGGGACGGGAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g < 1:4604734/71‑1 (MQ=255)
cAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑gggg > 1:1947380/1‑70 (MQ=255)
gggACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑ggggg < 1:7788002/68‑2 (MQ=255)
aCGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcga < 1:1829609/71‑1 (MQ=255)
aGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCa < 1:874521/71‑1 (MQ=255)
aGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCa < 1:2354629/71‑1 (MQ=255)
aGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g > 1:4164726/1‑56 (MQ=255)
aGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTg > 1:2139122/1‑71 (MQ=255)
ggCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaa > 1:4936076/1‑63 (MQ=255)
ggCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑gggg > 1:2317236/1‑55 (MQ=255)
ggCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑gggg > 1:2707366/1‑55 (MQ=255)
ggCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑gggg > 1:3953243/1‑55 (MQ=255)
gCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGa > 1:587410/1‑71 (MQ=255)
ccGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGAc < 1:5469895/71‑1 (MQ=255)
ccGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑gggg > 1:4413152/1‑49 (MQ=255)
ccGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑gggg > 1:5145938/1‑49 (MQ=255)
cGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACg < 1:434113/71‑1 (MQ=255)
gTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcg < 1:2184134/53‑1 (MQ=255)
gTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGc < 1:754001/71‑1 (MQ=255)
cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg < 1:563260/70‑1 (MQ=255)
cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg > 1:939873/1‑70 (MQ=255)
cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg > 1:1133733/1‑70 (MQ=255)
cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg < 1:118785/70‑1 (MQ=255)
aCCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg < 1:1362021/69‑1 (MQ=255)
aCCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg < 1:5987580/69‑1 (MQ=255)
aCCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg < 1:6390437/69‑1 (MQ=255)
ccATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACg < 1:2411538/64‑1 (MQ=255)
ccATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAgg > 1:4978768/1‑71 (MQ=255)
cATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg < 1:5028531/66‑1 (MQ=255)
cATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg < 1:4405816/66‑1 (MQ=255)
cATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg < 1:3974716/66‑1 (MQ=255)
cATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg < 1:3828196/66‑1 (MQ=255)
cATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAggc > 1:1497411/1‑71 (MQ=255)
aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGa > 1:2885762/1‑35 (MQ=37)
aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAggcg > 1:613779/1‑71 (MQ=255)
gAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCAtt < 1:5185575/51‑1 (MQ=255)
aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCAt > 1:925024/1‑49 (MQ=255)
aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGgcggcg < 1:1942244/71‑1 (MQ=255)
aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGgcggcg < 1:1932923/71‑1 (MQ=255)
agagCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaa > 1:4814406/1‑43 (MQ=25)
agagCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGgcgc < 1:5166287/71‑1 (MQ=255)
agagCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGgcgc > 1:535655/1‑71 (MQ=255)
agagCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGgcgc < 1:477527/71‑1 (MQ=255)
gagCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCt < 1:7861937/71‑1 (MQ=255)
agCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcg < 1:3347950/39‑1 (MQ=25)
agCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcg < 1:1156647/39‑1 (MQ=25)
gCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaatc > 1:2011530/1‑42 (MQ=25)
gCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaatc > 1:6919679/1‑42 (MQ=25)
gCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGa > 1:3442749/1‑53 (MQ=255)
cTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCa > 1:2789926/1‑56 (MQ=255)
cTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg < 1:3301187/57‑1 (MQ=255)
aCTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg > 1:3092102/1‑55 (MQ=255)
cTCACCTTGTTGGCGCTGTCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCaa < 1:614989/70‑1 (MQ=255)
cTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTg > 1:1214244/1‑43 (MQ=25)
cTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTg > 1:2628075/1‑43 (MQ=25)
cTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGaa > 1:106136/1‑56 (MQ=255)
cTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCaa > 1:3010704/1‑70 (MQ=255)
tCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAggc > 1:2177203/1‑58 (MQ=255)
accTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGt < 1:2396534/39‑1 (MQ=25)
ccTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGt < 1:5535833/39‑1 (MQ=37)
ccTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGt < 1:6116878/39‑1 (MQ=37)
ccTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGt < 1:615981/39‑1 (MQ=37)
cTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGt < 1:5628676/39‑1 (MQ=37)
cTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGt < 1:6974619/39‑1 (MQ=37)
cTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg > 1:4175538/1‑49 (MQ=255)
cTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAt > 1:7760573/1‑71 (MQ=255)
cTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAt < 1:1814349/71‑1 (MQ=255)
ttgttgGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGa > 1:3111647/1‑43 (MQ=37)
ttgttgGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAt < 1:4593070/70‑1 (MQ=255)
tgttgGCGCTGGCCCGAGGGGGAATCGATTCCATTGt > 1:3879258/1‑37 (MQ=25)
tgttgGCGCTGGCCCGAGGGGGAATCGAATCCATTGt > 1:2667718/1‑37 (MQ=37)
tgttgGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAt > 1:6185108/1‑69 (MQ=255)
tgGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAggc < 1:1812781/49‑1 (MQ=255)
tgGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAggc < 1:1122502/49‑1 (MQ=255)
ggCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCa < 1:2834532/42‑1 (MQ=37)
ggCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTa < 1:2535501/70‑1 (MQ=255)
gcgctGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTaa < 1:6710025/67‑1 (MQ=255)
gcgctGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAg > 1:1623123/4‑71 (MQ=255)
ctGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAg > 1:2493049/1‑42 (MQ=38)
ctGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAg > 1:84577/1‑42 (MQ=38)
ctGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAg > 1:93850/1‑42 (MQ=38)
gCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAg < 1:5224802/36‑1 (MQ=37)
gCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:72309/71‑1 (MQ=255)
gCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:1615528/71‑1 (MQ=255)
gCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:1663000/71‑1 (MQ=255)
|
AAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑GGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACT > W3110S.gb/3824463‑3824597
|
| 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
