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 |
|
A12 F56 I1 R1
|
165 |
53.8 |
2611523 |
96.4% |
2517508 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
331,668 |
A→G |
intergenic (+172/‑703) |
betT → / → yahA |
choline transporter of high affinity/c‑di‑GMP‑specific phosphodiesterase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 331,668 | 0 | A | G | 88.2%
| 135.7
/ 5.9
| 51 | intergenic (+172/‑703) | betT/yahA | choline transporter of high affinity/c‑di‑GMP‑specific phosphodiesterase |
| Reads supporting (aligned to +/- strand): ref base A (3/3); new base G (26/19); total (29/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAGCCCTTAGTATCTATTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGAATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGAAATGTGTATCGTAAATCAACTG > NC_000913/331576‑331761
|
aaGCCCTTAGTATCTATTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCa < 2:53898/100‑1 (MQ=255)
cacTTAGTATCTATTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTTGGCTGTTGCGAATGTTCAAt < 2:985754/97‑1 (MQ=255)
ccTTAGTATCTATTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATaa > 2:216817/1‑100 (MQ=255)
ccTTAGTATCTATTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATa < 2:100785/99‑1 (MQ=255)
ttAGTATCTATTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGAATGTTCAATAAGt < 2:96424/100‑1 (MQ=255)
aGTATCTATTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGttt > 1:1253198/1‑100 (MQ=255)
cTATTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGCTGCGGATGTTCAATAAGTTTAGTc > 2:558506/1‑99 (MQ=255)
tATTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCtt < 2:582895/100‑1 (MQ=255)
aTTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTa < 2:1253187/100‑1 (MQ=255)
aTTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTa < 1:143609/100‑1 (MQ=255)
aTTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTa > 1:954610/1‑100 (MQ=255)
aTTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTa < 1:680492/100‑1 (MQ=255)
tgatgaTTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTAtt > 2:811327/1‑100 (MQ=255)
atTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATg < 1:932602/100‑1 (MQ=255)
aCCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTaa > 1:1125415/1‑100 (MQ=255)
aCCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTaa > 2:670021/1‑100 (MQ=255)
aacaGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGc < 2:162257/100‑1 (MQ=255)
aacaGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGc > 1:105222/1‑100 (MQ=255)
acaGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCt < 2:574290/100‑1 (MQ=255)
acaGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGACTGTTGCGAATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCt > 2:630145/1‑100 (MQ=255)
aGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGAACTGTTGCGGATGTTCAATAAGTTTAGTCTTCTTTAATGTAAATATTGCTg > 2:93066/1‑99 (MQ=255)
gATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGAt < 1:388944/100‑1 (MQ=255)
gATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGATGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGa > 2:321382/1‑99 (MQ=255)
ataataAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATc < 2:1125405/100‑1 (MQ=255)
taataaAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCa > 2:436550/1‑100 (MQ=255)
agaaaaaaGAAAAGAACTATTGCAGCCCAAACCCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCAtt > 1:880399/3‑100 (MQ=255)
taaAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCAttt > 1:1045089/1‑100 (MQ=255)
aaaaaaGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTg > 1:69189/1‑100 (MQ=255)
aaaaaaGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGAATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTg < 2:225844/100‑1 (MQ=255)
aaaagaaaagAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGaa < 2:2314/100‑1 (MQ=255)
aaagaaaagaACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGaaa < 1:273020/100‑1 (MQ=255)
gaaaagacCTATTGCAGCCCAAAAACTAAATATGGGCTATTGACGATGTTAAATAAGTTTAGTCATATTTAATGTAAATATTTATGATGATATGAAATGa > 2:268393/1‑100 (MQ=255)
aaaagaaCTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGAc > 1:1205945/1‑100 (MQ=255)
aaaagaaCTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGAc > 2:867998/1‑100 (MQ=255)
gaaCTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCat > 1:1024616/1‑100 (MQ=255)
gaaCTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCat > 1:1266291/1‑100 (MQ=255)
aaCTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCatt > 1:982148/1‑100 (MQ=255)
gCAGCCCAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATg < 1:264130/100‑1 (MQ=255)
cccAAAACCTACATTTGGGCTGTTGCGAATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATgaga > 1:1218615/1‑99 (MQ=255)
ccAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGaaa > 2:163826/1‑100 (MQ=255)
cAAAACCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGAAAt > 1:190345/1‑100 (MQ=255)
aaaaCCTACATTTGGGCGGTTGCGGATGTGCAATAAGGTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGAAAtg < 1:29746/100‑1 (MQ=255)
aaCCTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGAAAtgtg < 2:1205934/100‑1 (MQ=255)
ccTACATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGAAATGTGTa < 1:104693/100‑1 (MQ=255)
cTACATTTGGGCTGTTGCGAATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGAAATGTGTAt > 1:71401/1‑100 (MQ=255)
cATTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGAAATGTGTATCGt > 1:593953/1‑100 (MQ=255)
aTTTGTGCTGTTGAGGATGTTCAAAAAGTTTAGTATTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGAAATGTGTATCGTa < 2:1005814/100‑1 (MQ=255)
aTTTGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGAAATGTGTATCGTa > 1:937097/1‑100 (MQ=255)
tttGGGCTGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGAAATGTGTATCGTaa > 2:481340/1‑100 (MQ=255)
tGTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGAAATGTGTATCGTAAATCAACt < 2:1024607/100‑1 (MQ=255)
gTTGCGGATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGAAATGTGTATCGTAAATCAACTg > 2:171547/1‑100 (MQ=255)
|
AAGCCCTTAGTATCTATTGATGATTACCAGACAACAGATAATAAAAAAGAAAAGAACTATTGCAGCCCAAAACCTACATTTGGGCTGTTGCGAATGTTCAATAAGTTTAGTCTTATTTAATGTAAATATTGCTGATCATTTGAAATGACGCATTATTCATGAGAAATGTGTATCGTAAATCAACTG > NC_000913/331576‑331761
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
