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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,495,966:1 |
+T |
100% |
coding (820/924 nt) |
ydcI ← |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,495,966 | 1 | . | T | 95.0%
| 107.1
/ 0.6
| 40 | coding (820/924 nt) | ydcI | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base T (16/22); total (17/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.10e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AACTGGCAACCAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑TCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAGAAGGGACA > W3110S.gb/1495899‑1496033
|
aaCTGGCAACCAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑tt < 1:963510/70‑2 (MQ=255)
gCAACCAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑TCCCGGaa < 1:1516575/71‑1 (MQ=255)
cAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAAcagg < 1:2984490/71‑1 (MQ=255)
cAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAAcagg < 1:951699/71‑1 (MQ=255)
cAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAAcagg < 1:929013/71‑1 (MQ=255)
aagaGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAAcagg < 1:3545897/68‑1 (MQ=255)
aagaGAACGTCGCATCTACGCGGGTCAGTATTCCAATAGGTTCGCCTGCACCATGTTCCCGGAAcagg < 1:2201833/68‑1 (MQ=255)
gaACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGcc < 1:2458097/71‑1 (MQ=255)
cGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGccac > 1:946976/1‑70 (MQ=255)
cGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCAGGAACAGGCAGGGccac > 1:1150786/1‑70 (MQ=255)
gCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCg > 1:94218/1‑71 (MQ=255)
gCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCg > 1:3000389/1‑71 (MQ=255)
tCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGt < 1:119598/69‑1 (MQ=255)
tCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGt < 1:3397597/69‑1 (MQ=255)
tCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGt < 1:235570/69‑1 (MQ=255)
tACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAAcaggca > 1:1163395/1‑54 (MQ=39)
aCGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAAcaggc < 1:1563561/52‑1 (MQ=39)
cgcgGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCAt < 1:2326181/70‑1 (MQ=255)
cgcgGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCAt < 1:1729724/70‑1 (MQ=255)
cgcgGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCAt < 1:3023202/70‑1 (MQ=255)
cgcgGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCAt < 1:827921/70‑1 (MQ=255)
cgcgGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCAt < 1:680941/70‑1 (MQ=255)
cgcgGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCAt < 1:3556617/70‑1 (MQ=255)
cgcgGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCAt < 1:3432399/70‑1 (MQ=255)
tCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAg > 1:1798927/1‑71 (MQ=255)
aGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGgt > 1:1827735/1‑71 (MQ=255)
aGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGgt > 1:310330/1‑71 (MQ=255)
ccAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCtt > 1:2215227/1‑71 (MQ=255)
ccAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCtt > 1:1941544/1‑71 (MQ=255)
ccAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCtt > 1:1074415/1‑71 (MQ=255)
cGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGccacca > 1:1892458/1‑42 (MQ=38)
cGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGccacca > 1:1606783/1‑42 (MQ=38)
ggTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCttt > 1:2013371/1‑66 (MQ=255)
ccTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAg < 1:1850886/71‑1 (MQ=255)
ccTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAg < 1:3081200/71‑1 (MQ=255)
ccTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAg < 1:785023/71‑1 (MQ=255)
ccTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAg < 1:908614/71‑1 (MQ=255)
ccTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAg < 1:127362/71‑1 (MQ=255)
tGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAg > 1:3645421/1‑69 (MQ=255)
tGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAg > 1:774793/1‑69 (MQ=255)
aTG‑TCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAGAAGGGACa > 1:3067555/1‑70 (MQ=255)
|
AACTGGCAACCAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑TCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAGAAGGGACA > W3110S.gb/1495899‑1496033
|
| 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
