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 F2 I1 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
Exported |
222,988 |
T→G |
49.0% |
intergenic (+43/‑137) |
lpcA → / → prfH |
D‑sedoheptulose 7‑phosphate isomerase/predicted peptide chain release factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | Exported | 222,988 | 0 | T | G | 49.0%
| 48.7
/ 106.1
| 69 | intergenic (+43/‑137) | lpcA/prfH | D‑sedoheptulose 7‑phosphate isomerase/predicted peptide chain release factor |
| Reads supporting (aligned to +/- strand): ref base T (24/11); new base G (14/19); total (38/31) |
| Fisher's exact test for biased strand distribution p-value = 4.99e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTTGATTGAAAAAGAGATGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACAAATCTGTACGCGAACCGTA > Exported/222918‑223056
|
gTTGATTGAAAAAGAGATGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCAt < 1:3064617/71‑1 (MQ=255)
gTTGATTGAAAAAGAGATGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCAt < 1:2530753/71‑1 (MQ=255)
ttgattgaAAAAGAGATGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCTGCAtt < 1:41700/71‑1 (MQ=255)
ttgattgaAAAAGAGATGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCAtt < 1:570566/71‑1 (MQ=255)
aaaaGAGATGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGct < 1:1090087/71‑1 (MQ=255)
aaaaGAGATGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGct < 1:3333644/71‑1 (MQ=255)
aaaaGAGATGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGct > 1:155804/1‑71 (MQ=255)
aaaGAGATGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGctg < 1:764669/71‑1 (MQ=255)
agagATGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGctgat > 1:3852053/1‑71 (MQ=255)
agagATGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGctgat > 1:1296964/1‑71 (MQ=255)
agaTGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTgcg > 1:1077818/1‑64 (MQ=255)
tGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGctgatgcctg < 1:1196182/71‑1 (MQ=255)
gTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCAttt > 1:3970016/1‑54 (MQ=255)
agtaagtCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCg < 1:3505789/70‑1 (MQ=255)
agtCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCt < 1:1655151/71‑1 (MQ=255)
cTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGAc > 1:434380/1‑71 (MQ=255)
tgTAGGCCGGACAAGACGTTTA‑‑TCGCATCCGGCAGTCGTGTGcagatgcct < 1:2467046/50‑1 (MQ=9)
tgTAGGCCGGACAAGACGTTTA‑‑TCGCATCCGGCAGTCGTGTGCAGATGCCTGATGCGACGCTAACGCGTCt < 1:3991590/70‑1 (MQ=9)
tgTAGGCCGGACAAGACGTTTA‑‑TCGCATCCGGCAGTCGTGTGCAGATGCCTGATGCGACGCTAACGCGTCt < 1:4325091/70‑1 (MQ=9)
ggCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTgcgc > 1:1101933/1‑41 (MQ=255)
ggCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTa > 1:4039942/1‑71 (MQ=255)
ggCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTa < 1:3968490/71‑1 (MQ=255)
ggCCGGACAAGACGTTTA‑‑TCGCATCCGGCAGTCGTGTGCAGATGCCTGATGCGACGCTAACGCGTCTTAt < 1:4582333/70‑1 (MQ=9)
ggCCGGACAAGACGTTTA‑‑TCGCATCCGGCAGTCGTGTGCAGATGCCTGATGCGACGCTAACGCGTCTTAt < 1:3118110/70‑1 (MQ=9)
ggCCGGACAAGACGTTTA‑‑TCGCATCCGGCAGTCGTGTGCAGATGCCTGATGCGACGCTAACGCGTCTTAt < 1:4683535/70‑1 (MQ=9)
ggCCGGACAAGACGTTTA‑‑TCGCATCCGGCAGTCGTGTGCAGATGCCTGATGCGACGCTAACGCGTCTTAt > 1:2766014/1‑70 (MQ=9)
ggCCGGACAAGACGTTTA‑‑TCGAATCCGGCAGTCGTGTGCAGATGCCTGATGCGACGCTAACGCGTCTTAt < 1:834604/70‑1 (MQ=2)
gCCGGATAAGGCGTTTATGCCGCATCCGGCAGTTATGCGCAGATGCCTGATGCGACGCTGGCGCGTCTTa > 1:4619478/1‑70 (MQ=11)
cGGATAAGGCGTTTACGCCGCATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGCTAACGCGt < 1:2226868/64‑1 (MQ=14)
ggATAAGGCGTTTATGCCGCATCCGGCAGTTATGCGcagatgcctgatgc < 1:1756742/50‑1 (MQ=11)
ggATAAGGCGTTTATGCCGCATCCGGCAGTTATGCGcagatgcctgatgc < 1:422928/50‑1 (MQ=11)
ggATAAGGCGTTTACGCCGCATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGCTAACGCGTCTTAt > 1:1063915/1‑68 (MQ=14)
ggACAAGACGTTTA‑‑TCGCATCCGGCAGTCGTGTGCAGATGCCTGATGCGACGCTAACGCGTCTTATc < 1:3573976/67‑1 (MQ=9)
gATAAGGCGTTTACGCCGCATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGCTAACGCGTCTTATCagg > 1:4350560/1‑69 (MQ=11)
gATAAGGCGTTTACGCCGCATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGCTAACGCGTCTTATCagg > 1:5554197/1‑69 (MQ=11)
gATAAGGCGTTTACGCCGCATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGCTAACGCGTCTTATCagg > 1:824945/1‑69 (MQ=11)
gATAAGACGTTTACGCCGCATCCGGCATTTGTGCGctgatgcct < 1:1701772/44‑1 (MQ=255)
aTAAGACGTTTACGCCGCATCCGGCATTTGTGCGctgatgcctga > 1:2609340/1‑45 (MQ=255)
aTAAGACGTTTACGCCGCATCCGGCATTTGTGCGctgatgcctga > 1:1805980/1‑45 (MQ=255)
aTAAGACGTTTACGCCGCATCCGGCATTTGTGCGctgatgcctga > 1:3616525/1‑45 (MQ=255)
tAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGGCGCGTCTTATCATGcc < 1:3814930/71‑1 (MQ=11)
tAAGACGTTTACGCCGCATCCGGCATTTGTGCGctga > 1:4290447/1‑37 (MQ=255)
aggcGTTTATGCCGCATCCGGCAGTTATGCGCAGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTa < 1:1875605/68‑1 (MQ=11)
aggcGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGGCGCGTCTTATCATGCCt < 1:75157/67‑1 (MQ=11)
aGACGTTTACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTa > 1:989136/1‑71 (MQ=255)
aGACGTTTACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTa > 1:3666333/1‑71 (MQ=255)
ggcGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTAc < 1:5436686/69‑1 (MQ=11)
gTTTATGCCGCATCCGGCAGTTATGCGCAGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACaaa > 1:1943052/1‑71 (MQ=14)
gTTTACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATg > 1:1076548/1‑63 (MQ=255)
gTTTACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGc > 1:2237443/1‑64 (MQ=255)
gTTTACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACaaa > 1:2742367/1‑71 (MQ=255)
tttATGCCGCATCCGGCAGTTATGCGCAGATGCCTGATGCGACGCTGGCGCGTCTTATc < 1:3095830/59‑1 (MQ=11)
ttcaCGCCGCATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGCTAACGCGTCTTATCAGACCTACAAAt < 1:316021/68‑1 (MQ=11)
ttATGCCGCATCCGGCAGTTATGCGCAGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACaaact > 1:187324/1‑69 (MQ=11)
ttACGCCGCATCCGGCATTTGTGCGATGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACAAATc > 1:2157744/1‑71 (MQ=255)
tACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACAAATCt > 1:3034541/1‑71 (MQ=255)
tACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACAAATCt > 1:5551855/1‑71 (MQ=255)
tACGCCGCATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGc > 1:5012285/1‑43 (MQ=14)
caCGCCGCATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGCTAACGCGTCTTATCAGGCCTACAAAtt > 1:3545990/2‑69 (MQ=11)
caCGCCGCATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGCTAACGCGTCTTATCAGACCTACAAAttc > 1:4035262/2‑69 (MQ=11)
caCGCCGCATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGCTAACGCGTCTTATCAGACCTACAAAttc > 1:2380082/2‑69 (MQ=11)
cgccgcATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGCTAACGCGTCTTATCAGGCCTACAAAttct < 1:3513868/70‑4 (MQ=11)
ccgcATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACAAATCTGTAc > 1:4984833/1‑71 (MQ=255)
ccgcATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACAAATCTGTAc < 1:5228399/71‑1 (MQ=255)
cgcATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACAAATCTGTAcg < 1:4007667/71‑1 (MQ=255)
cgcATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGCTAACGCGt > 1:557805/1‑46 (MQ=14)
gcATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACAAATCTGTAcgc > 1:3970778/1‑71 (MQ=255)
gcATCCGGCAGTCGTGCGCAGATGCCTGATGCGACGCTAACGCGTCTTATCAGGCCTACa < 1:1360600/60‑1 (MQ=11)
cATCCGGCA‑CTGTGTGCCGATGCCTGATGCGACGCTGACGCGTTTTATCATGCCTAcg < 1:1850183/58‑2 (MQ=14)
tCCGGCAGTCGTGCGCAGATGCCTGATGCGACGCTAACGCGTCTTATCAGGCCTACAAAttc > 1:1944324/1‑60 (MQ=11)
cATTTGTGCGCTGATGCCTGATGCGACGCTGCCGCGTCTTATCATGCCTACAAATCTGTACGCGAACCg > 1:1816658/1‑69 (MQ=255)
cATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACAAATCTGTACGCGAACCg > 1:2460913/1‑69 (MQ=255)
cATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACAAATCTGTACGCGAACCg > 1:374981/1‑69 (MQ=255)
cATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACAAATCTGTACGCGAACCGTa < 1:1381827/71‑1 (MQ=255)
tttGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACaa < 1:1505484/51‑1 (MQ=255)
|
GTTGATTGAAAAAGAGATGGTTAAGTAAGTCTGGCGTAGGCCGGATAAGACGTTTACGCCGCATCCGGCATTTGTGCGCTGATGCCTGATGCGACGCTGACGCGTCTTATCATGCCTACAAATCTGTACGCGAACCGTA > Exported/222918‑223056
|
| 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
