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 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,590,693 |
A→G |
8.9% |
L341L (CTT→CTC) |
ydeT ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,590,693 | 0 | A | G | 8.9%
| 152.0
/ 7.0
| 56 | L341L (CTT→CTC) | ydeT | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (27/24); new base G (3/2); total (30/26) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01 |
TCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCATTTTTATTCTCTCCGTGTGTGAC > W3110S.gb/1590631‑1590761
|
tCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAg < 1:455514/65‑1 (MQ=255)
tCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGt > 1:1997710/1‑66 (MQ=255)
cGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGt > 1:2140803/1‑70 (MQ=255)
gACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGt < 1:674002/69‑1 (MQ=255)
gACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGt > 1:4597645/1‑69 (MQ=255)
gACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGt > 1:2219796/1‑69 (MQ=255)
aCAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGGAGTCCAGTCAg < 1:748488/71‑1 (MQ=255)
aTACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATa < 1:2849431/71‑1 (MQ=255)
aCAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGa > 1:3161718/1‑67 (MQ=255)
cAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATaaa < 1:1128758/70‑1 (MQ=255)
cAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAAc > 1:1876200/1‑71 (MQ=255)
cAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCAAGTCAGATAAAc > 1:3662980/1‑71 (MQ=255)
gTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCt < 1:1643533/71‑1 (MQ=255)
gTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCAt > 1:1283677/1‑71 (MQ=255)
tttATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGt < 1:3899200/46‑1 (MQ=255)
ttATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTc > 1:377559/1‑71 (MQ=255)
tATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTcc > 1:1122581/1‑71 (MQ=255)
tCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTcc < 1:2291370/69‑1 (MQ=255)
cTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATaa < 1:1332934/53‑1 (MQ=255)
cTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCcgc > 1:1602178/1‑70 (MQ=255)
tttGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGta > 1:2117298/1‑40 (MQ=255)
tGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCcgc < 1:3542703/67‑1 (MQ=255)
gCCCCATGAAACCTTTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGAc < 1:2215982/69‑1 (MQ=255)
gCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACaa > 1:70861/1‑71 (MQ=255)
gCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACa < 1:248537/70‑1 (MQ=255)
gCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACa < 1:1168804/70‑1 (MQ=255)
ccccATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGt < 1:2190374/41‑1 (MQ=255)
cATGAAACCTGTAATTGCCCTGACTGTGGGAGTCCAGTCAGATAAACCt < 1:3708129/49‑1 (MQ=255)
cATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACaa > 1:2668255/1‑67 (MQ=255)
cATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAAtgct > 1:3257545/1‑71 (MQ=255)
tGAAACCTGTAATTGCCCTGACTGTGGGAGTCCAGTCAGATAAACCTGa > 1:2314379/1‑49 (MQ=255)
tGAAACCTGTAATTGCCCTGACTGTGGGAGTCCAGTCAGATAAACCTGa > 1:3604718/1‑49 (MQ=255)
tGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCcgcg < 1:4565544/61‑1 (MQ=255)
tGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAAtgctgc > 1:2838328/1‑71 (MQ=255)
gAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGt > 1:65424/1‑35 (MQ=255)
gAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCt < 1:1399398/46‑1 (MQ=255)
aaaCCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATaa < 1:3927598/41‑1 (MQ=255)
aaaCCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGa > 1:2078704/1‑47 (MQ=255)
aaaCCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCa > 1:1203024/1‑71 (MQ=255)
ccTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCAttt < 1:4529325/71‑1 (MQ=255)
cTGTAATTGCCCTGACTGTGGGAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGGCAtttt > 1:3157845/1‑71 (MQ=255)
gTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCATTTTTa > 1:1902495/1‑71 (MQ=255)
tAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCATTTTTAt > 1:1807285/1‑71 (MQ=255)
aTTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCATTTTTATtc > 1:2109137/1‑71 (MQ=255)
ttGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAAtg < 1:4148631/55‑1 (MQ=255)
ttGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCATTTTTATtct < 1:2708958/71‑1 (MQ=255)
gCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACaa > 1:2545146/1‑51 (MQ=255)
ccTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCATTTTTATTATCTcc < 1:2194694/71‑1 (MQ=255)
gACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACa < 1:2217438/45‑1 (MQ=255)
gACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACa < 1:1166292/45‑1 (MQ=255)
gACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCATTTTTATTCTCTCCgtg > 1:2377440/1‑71 (MQ=255)
cTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCAtttt > 1:723661/1‑56 (MQ=255)
tgtgGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGAc < 1:1529191/41‑1 (MQ=255)
ggAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCATTTTTATTCTCTCCGTGTGTGa > 1:3392584/1‑70 (MQ=255)
gAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCATTTTTATTCTCTCCGTGTGTGAc > 1:4410934/1‑70 (MQ=255)
gAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCATTTTTATTCTCTCCGTGTGTGAc < 1:652684/70‑1 (MQ=255)
|
TCGACAATACAGTTTGAGTTTTTATCTTTGCCCCATGAAACCTGTAATTGCCCTGACTGTGGAAGTCCAGTCAGATAAACCTGACCATTTTCCGCGACAATGCTGCCATTTTTATTCTCTCCGTGTGTGAC > W3110S.gb/1590631‑1590761
|
| 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
