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 |
973,796 |
C→T |
38.6% |
G10S (GGC→AGC) |
ycbC ← |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 973,796 | 0 | C | T | 38.6%
| 47.0
/ 61.8
| 57 | G10S (GGC→AGC) | ycbC | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (17/18); new base T (16/6); total (33/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.74e-01 |
AAACCACAGCAGCGCCAGGCCAGCGCCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCATATAGCAAGGGATCG > W3110S.gb/973728‑973862
|
aaaCCACAGCAGCGCCAGGCCAGCGCCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCTaa > 1:723961/1‑71 (MQ=255)
aaaCCACAGCAGCGCCAGGCCAGCGCCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCTaa > 1:4477859/1‑71 (MQ=255)
aaCCACAGCAGCGCCAGGCCAGCGCCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCTAAt < 1:3623276/71‑1 (MQ=255)
aCCACAGCAGCGCCAGGCCAGCGCCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAAt > 1:2187776/1‑70 (MQ=255)
agcGCCAGGCCAGCGCCTATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACtttt < 1:1177935/69‑1 (MQ=255)
ccaggccagCGCCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAgt > 1:4664811/1‑71 (MQ=255)
aggccagCGCCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCTAATCACTTTTTTCAg > 1:2919817/1‑68 (MQ=255)
aggccagCGCCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAgt > 1:4937163/1‑69 (MQ=255)
aggccagCGCCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAgt > 1:2121259/1‑69 (MQ=255)
aggccagCGCCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAgt > 1:2532866/1‑69 (MQ=255)
gcgcCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAg < 1:1758614/71‑1 (MQ=255)
cgcCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGc < 1:1960437/71‑1 (MQ=255)
cgcCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGc < 1:2373122/71‑1 (MQ=255)
ccAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCAt > 1:564581/1‑71 (MQ=255)
cAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATc > 1:4784598/1‑71 (MQ=255)
atCAACAACATCAGCGGAAGTGGCAGCAACATATTGCTAATCACTTTTTTc > 1:3723176/1‑51 (MQ=255)
atCAACAACATCAGCGGAAGTGGCAGCAACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTc < 1:2706682/71‑1 (MQ=255)
atCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTaaaa > 1:2994537/1‑60 (MQ=255)
atCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTaaaa > 1:1809814/1‑60 (MQ=255)
atCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCttt > 1:2065372/1‑70 (MQ=255)
atCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCttt > 1:3397321/1‑70 (MQ=255)
atCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTc < 1:398630/71‑1 (MQ=255)
aacaTCAGCGGTAGTGGCAGCAACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTgg < 1:1681623/68‑1 (MQ=255)
aacaTCAGCGGAAGTGGCAGCAACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTgg < 1:935647/68‑1 (MQ=255)
caTCAGCGGAAGTGGCAGCAACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGtt > 1:2361412/1‑68 (MQ=255)
caTCAGCGGAAGTGGCAGCAACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGtt > 1:821794/1‑68 (MQ=255)
caTCAGCGGAAGTGGCAGCAACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGtt > 1:4756286/1‑68 (MQ=255)
tCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAg < 1:1439382/52‑1 (MQ=255)
tCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAg < 1:4288796/52‑1 (MQ=255)
cAGCGGAAGTGGCAGCAACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCtttt > 1:2847922/1‑71 (MQ=255)
aGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCttttt > 1:3453444/1‑71 (MQ=255)
aGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCttttt > 1:2869475/1‑71 (MQ=255)
aGCGGAAGTGG‑AGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCttttt > 1:2391185/1‑70 (MQ=255)
cGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTaa < 1:3465597/44‑1 (MQ=255)
ggAAGTGGCAGCAACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCt > 1:666681/1‑57 (MQ=255)
ggAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTaa < 1:4105884/71‑1 (MQ=255)
gAAGTGGCAGCAACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCa > 1:2049400/1‑48 (MQ=255)
gAAGTGGCAGCAACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCa > 1:4546087/1‑48 (MQ=255)
aGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCa < 1:3749200/71‑1 (MQ=255)
gTGGCAGCAACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCt < 1:2940758/49‑1 (MQ=255)
tGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCata < 1:2127075/71‑1 (MQ=255)
ggCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCata > 1:547921/1‑70 (MQ=255)
gcagcaACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCatat < 1:4282297/70‑1 (MQ=255)
gcagcaACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCAtata < 1:1000721/71‑1 (MQ=255)
cagcaACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAAc > 1:87284/1‑64 (MQ=255)
cagcaACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCa < 1:2313379/66‑1 (MQ=255)
gcaACATATTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAAc > 1:3652865/1‑62 (MQ=255)
gcaACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCATATAGc < 1:4052222/70‑1 (MQ=255)
gcaACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCATATAGCa < 1:3718872/71‑1 (MQ=255)
aCATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTc < 1:2211866/49‑1 (MQ=255)
aCATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTc < 1:2305977/49‑1 (MQ=255)
atatTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCATATAGCAAGGGa > 1:764464/1‑71 (MQ=255)
atatTGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCATATAGCAAGGGa > 1:2594616/1‑71 (MQ=255)
atatTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCATATAGCAAggg > 1:1963026/1‑70 (MQ=255)
tatTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCt < 1:4459723/37‑1 (MQ=255)
ttGCTAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCATATAGCAAGGGATCg > 1:1927018/1‑71 (MQ=255)
ttGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCATATAGCAAGGGATc > 1:2657327/1‑70 (MQ=255)
ccAATCACTTTTTTCAGTGTATAAAGCATCCTTTc < 1:1636186/35‑1 (MQ=255)
|
AAACCACAGCAGCGCCAGGCCAGCGCCAATAATCAACAACATCAGCGGAAGTGGCAGCAACATATTGCCAATCACTTTTTTCAGTGTAAAAAGCATCCTTTCTGGTTCCTTTTTTAACCATATAGCAAGGGATCG > W3110S.gb/973728‑973862
|
| 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
