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 |
|
A1 F28 I1 R1
|
354 |
41.7 |
3110465 |
93.1% |
2895842 |
61.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,493,301 |
+A |
coding (851/1080 nt) |
frwC ← |
predicted enzyme IIC component of PTS |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,493,298 | 1 | . | A | 96.5%
| 91.4
/ ‑2.8
| 29 | coding (854/1080 nt) | frwC | predicted enzyme IIC component of PTS |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base A (7/21); total (7/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.61e-01 |
ATCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑AAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGG > W3110S.gb/3493238‑3493356
|
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:669066/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:2205349/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:1974138/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:748025/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:1018464/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:1879189/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:2323646/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:1676493/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:1665669/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:475993/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:870644/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:1370544/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:2905672/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:3015652/65‑2 (MQ=255)
aTCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:3071385/65‑2 (MQ=255)
ccTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCatga > 1:1607427/1‑65 (MQ=255)
ccTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCatga > 1:1733483/1‑65 (MQ=255)
gCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATgg < 1:404254/65‑1 (MQ=255)
gCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATgg < 1:2891641/65‑1 (MQ=255)
gCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATgg < 1:2495679/65‑1 (MQ=255)
gCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATgg < 1:448361/65‑1 (MQ=255)
gCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATgg < 1:1893749/65‑1 (MQ=255)
gCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATgg < 1:1556570/65‑1 (MQ=255)
gCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATgg < 1:1337969/65‑1 (MQ=255)
gCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATgg < 1:1049367/65‑1 (MQ=255)
gCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑AAATCTGAACCGACCATGATgg < 1:208341/65‑1 (MQ=255)
tAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaag < 1:2263609/65‑1 (MQ=255)
tAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaag < 1:1539747/65‑1 (MQ=255)
tAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaag < 1:967619/65‑1 (MQ=255)
aGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaag < 1:844917/64‑1 (MQ=255)
aCTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑aaaa < 1:41033/40‑2 (MQ=255)
tGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg > 1:1848409/1‑60 (MQ=255)
tGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg > 1:1787999/1‑60 (MQ=255)
tGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg > 1:2844985/1‑60 (MQ=255)
tGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg > 1:112459/1‑60 (MQ=255)
tGCGCACCGACCAGCGCCGCAGTTACTGCACCACAAAA‑CTGAACCGACCATGATggaagg > 1:3011527/1‑60 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGa < 1:2288707/65‑1 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGa < 1:299313/65‑1 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGa < 1:1951217/65‑1 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGa < 1:1614943/65‑1 (MQ=255)
aCTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGa < 1:1538170/65‑1 (MQ=255)
cTGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGa < 1:347185/64‑1 (MQ=255)
tGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGaa < 1:2799743/64‑1 (MQ=255)
tGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGaa < 1:2605438/64‑1 (MQ=255)
tGCACCACAAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGaa < 1:940120/64‑1 (MQ=255)
caccacaAAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAgg > 1:1043150/1‑65 (MQ=255)
|
ATCAGACCACCCCAGCCTGCATAGCACTGCGCACCGACCAGCGCCGCAGTTACTGCACCAC‑AAA‑CTGAACCGACCATGATGGAAGGAATGACACGCAGCGGATCGGCAGCGGCGAAAGG > W3110S.gb/3493238‑3493356
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
