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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,584,624 |
A→G |
35.4% |
intergenic (‑386/+16) |
ydeN ← / ← ydeO |
conserved hypothetical protein/predicted DNA‑binding transcriptional acfivator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,584,624 | 0 | A | G | 35.4%
| 61.9
/ 67.0
| 65 | intergenic (‑386/+16) | ydeN/ydeO | conserved hypothetical protein/predicted DNA‑binding transcriptional acfivator |
| Reads supporting (aligned to +/- strand): ref base A (15/27); new base G (15/8); total (30/35) |
| Fisher's exact test for biased strand distribution p-value = 3.66e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTAAAAACAACGCGGGGCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCATACCCGTGTGACTTTGA > W3110S.gb/1584558‑1584694
|
cTAAAAACAACGCGGGGCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCg < 1:4096672/71‑1 (MQ=255)
aaaaCAACGCGGGGCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGt > 1:3821848/1‑69 (MQ=255)
acaacGCGGGGCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTGCTCGTTAGCa < 1:3205812/71‑1 (MQ=255)
acaacGCGGGGCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGc > 1:934256/1‑70 (MQ=255)
gcgGGGCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAaataa < 1:2078093/71‑1 (MQ=255)
gcgGGGCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAaataa < 1:2067006/71‑1 (MQ=255)
gggCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCa < 1:996397/71‑1 (MQ=255)
gggCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCa < 1:3107523/71‑1 (MQ=255)
gggCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCa < 1:2724486/71‑1 (MQ=255)
gggCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCa < 1:2109246/71‑1 (MQ=255)
gCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCaaa > 1:1100475/1‑71 (MQ=255)
gCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCaaa > 1:3752336/1‑71 (MQ=255)
aGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCaaa > 1:4727082/1‑69 (MQ=255)
gAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGc > 1:589443/1‑70 (MQ=255)
aaTGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTa < 1:180294/71‑1 (MQ=255)
gCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCAAATAGCTAAAg < 1:1488871/70‑1 (MQ=255)
gCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCAAATAGATAAAg < 1:4675408/70‑1 (MQ=255)
gCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAg > 1:908451/1‑70 (MQ=255)
cTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCaaa > 1:818128/1‑60 (MQ=255)
ccccATTTAATTCTTACGCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCAAATAGCTAAAGCAtt > 1:2371738/1‑70 (MQ=255)
ccccATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTc < 1:4066595/71‑1 (MQ=255)
ccATTTAATTCTTACGCAGCGTGTGTGGTTGacta > 1:3806061/1‑35 (MQ=255)
ccATTTAATTCTTACGCAGCGTGTGTGGTTGacta > 1:4724212/1‑35 (MQ=255)
ccATTTAATTCTTACGCAGCGTGTGTGGTTGacta > 1:693805/1‑35 (MQ=255)
ccATTTAATTCTTACGCAGCGTGTGTGGTTGacta > 1:779267/1‑35 (MQ=255)
cATTTAATTCTTACGCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCAAAt > 1:260394/1‑55 (MQ=255)
tttAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTaaa > 1:3858305/1‑60 (MQ=255)
tttAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAg < 1:4199898/61‑1 (MQ=255)
ttAATTCTTACGCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCAAATAGCTa > 1:5031203/1‑57 (MQ=255)
ttAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAaat > 1:4977905/1‑44 (MQ=255)
tAATTCTTACGCAGCGTGTGTGGTTGACTGCTCGt > 1:3052479/1‑35 (MQ=255)
tAATTCTTACGCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCgtgt > 1:195975/1‑71 (MQ=255)
tAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCa > 1:3457822/1‑65 (MQ=255)
tAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCa > 1:2283760/1‑65 (MQ=255)
ttCTTACGCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCaaa > 1:4877395/1‑47 (MQ=255)
ttCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCa < 1:4846758/37‑1 (MQ=255)
ttCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGc < 1:770585/71‑1 (MQ=255)
cTTACGCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGccc > 1:280703/1‑71 (MQ=255)
cTTACGCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGccc > 1:4217165/1‑71 (MQ=255)
cTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCAt > 1:272911/1‑61 (MQ=255)
aCGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCg < 1:1796180/69‑1 (MQ=255)
aCGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCg < 1:921430/69‑1 (MQ=255)
aCGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGt < 1:4740966/70‑1 (MQ=255)
gCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCAAATAGCTAAAGCATTc < 1:3281438/54‑1 (MQ=255)
gCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCAAATAGCTAAAGCATTc < 1:4472344/54‑1 (MQ=255)
gCAGCGTGTGTGGTTGACTGCTCGTTAGCAAATAATCAAATAGCTAAAGCATTc < 1:95473/54‑1 (MQ=255)
gCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTAtt < 1:4919703/71‑1 (MQ=255)
aGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTc < 1:3313601/70‑1 (MQ=255)
gCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCa > 1:1951147/1‑70 (MQ=255)
tgtgtgGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCATAcc > 1:2965930/1‑71 (MQ=255)
gtgtgGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCAt < 1:1272721/67‑1 (MQ=255)
tgtgGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAg > 1:4932025/1‑41 (MQ=255)
gtgGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCAt < 1:4515764/43‑1 (MQ=255)
gtgGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCAt < 1:1420810/43‑1 (MQ=255)
tgGTTGACTGCTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGc > 1:2074873/1‑54 (MQ=255)
tgGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCATACCCgtg > 1:1918778/1‑71 (MQ=255)
tgGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCATACCCgt > 1:3734144/1‑70 (MQ=255)
gTTGACTGCTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTa > 1:4500507/1‑57 (MQ=255)
gTTGACTGCTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTa > 1:3334855/1‑57 (MQ=255)
gTTGACTGCTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTa > 1:30420/1‑57 (MQ=255)
gTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTAtt < 1:4490246/59‑1 (MQ=255)
gTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTAtt < 1:3706219/59‑1 (MQ=255)
gTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTAtt < 1:4205344/59‑1 (MQ=255)
gTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTAtt < 1:3125426/59‑1 (MQ=255)
gTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCATACCCgtgt < 1:1595410/70‑1 (MQ=255)
ttGACTGCTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCATACCCgtg < 1:1056920/68‑1 (MQ=255)
ttGACTGCTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCATACCCgtg < 1:1586980/68‑1 (MQ=255)
ttGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCAt < 1:1803236/39‑1 (MQ=255)
ttGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCAt < 1:3546566/39‑1 (MQ=255)
actactCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCATACCCGTGTGACtt < 1:1594753/71‑1 (MQ=255)
ctactCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCATACCCGTGTGACttt < 1:2508537/71‑1 (MQ=255)
ctactCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCATACCCGTGTGACttt < 1:4425654/71‑1 (MQ=255)
tactCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCg < 1:3143284/49‑1 (MQ=255)
actCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCATACCCGTGTGACTTTGa > 1:2719467/1‑71 (MQ=255)
actCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCATACCCGTGTGACTTTGa > 1:4689748/1‑71 (MQ=255)
|
CTAAAAACAACGCGGGGCAGGGAATGGCTGCCCCATTTAATTCTTACGCAGCGTGTGTGGTTGACTACTCGTTAGCAAATAATCAAATAGCTAAAGCATTCATCGTGTTGCCCGTATTCATACCCGTGTGACTTTGA > W3110S.gb/1584558‑1584694
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
