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 |
701,092 |
T→C |
23.2% |
S309G (AGT→GGT) |
nagC ← |
DNA‑binding transcriptional dual regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 701,092 | 0 | T | C | 23.2%
| 106.7
/ 31.1
| 56 | S309G (AGT→GGT) | nagC | DNA‑binding transcriptional dual regulator |
| Reads supporting (aligned to +/- strand): ref base T (18/25); new base C (8/5); total (26/30) |
| Fisher's exact test for biased strand distribution p-value = 3.42e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAGCGGCACGCGGCTCTGG > W3110S.gb/701028‑701159
|
aTAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGc < 1:781491/70‑1 (MQ=255)
aaTGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTg < 1:1156591/70‑1 (MQ=255)
aTGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGtt < 1:1704189/71‑1 (MQ=255)
ggCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACCATCGCCTTTGTTcg > 1:3944361/1‑71 (MQ=255)
ggCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACCATCGCCTTTGTTcg > 1:2514798/1‑71 (MQ=255)
gCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTcgc > 1:2807877/1‑71 (MQ=255)
gCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACCATCGCCTTTGTTcgc > 1:2423768/1‑71 (MQ=255)
gTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCACGGCttt > 1:4820426/1‑71 (MQ=255)
ttttACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGc < 1:3624543/54‑1 (MQ=255)
ttttACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGc < 1:4168942/54‑1 (MQ=255)
tttACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTg > 1:820802/1‑70 (MQ=255)
ttACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTAt > 1:4714532/1‑49 (MQ=255)
tACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACCATCGCCTTTGTTCGCGGCTTTg > 1:950604/1‑68 (MQ=255)
aTGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtt < 1:442230/70‑1 (MQ=255)
aTGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtt < 1:1027698/70‑1 (MQ=255)
tGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTg < 1:4236091/60‑1 (MQ=255)
tGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtttt < 1:3790276/71‑1 (MQ=255)
tGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtttt < 1:1984671/71‑1 (MQ=255)
tGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtt < 1:3968552/69‑1 (MQ=255)
gacgacCGACATACTCAATTACTTCCGACGCCAGACTAt > 1:4241902/1‑39 (MQ=255)
acgacCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGa < 1:313560/71‑1 (MQ=255)
cgacATACTCAATTACTTCCGACGCCAGACCATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTg < 1:930839/71‑1 (MQ=255)
cgacATACTCAATTACTTCCGACCCCAGACCATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTg < 1:3344146/71‑1 (MQ=255)
gacATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGttt > 1:3883404/1‑62 (MQ=255)
gacATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGatt > 1:4298693/1‑62 (MQ=255)
aTACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAgt > 1:1353268/1‑71 (MQ=255)
tACTCAATTACTTCCGACGCCAGACTATCGCCTTTg < 1:3004720/36‑1 (MQ=255)
tACTCAATTACTTCCGACGCCAGACTATCGCCTTTg < 1:3408494/36‑1 (MQ=255)
tACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTg < 1:939602/60‑1 (MQ=255)
tACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTg < 1:3030041/60‑1 (MQ=255)
tACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTg < 1:3035881/60‑1 (MQ=255)
aCTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTg < 1:554740/59‑1 (MQ=255)
aaTTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAgtcgtc > 1:3926854/1‑69 (MQ=255)
aTTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATa > 1:1471242/1‑48 (MQ=255)
aTTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATa > 1:2186685/1‑48 (MQ=255)
ttACTTCCGACGCCAGACCATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCa < 1:3626497/61‑1 (MQ=255)
aCTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAg > 1:3461657/1‑42 (MQ=255)
cTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAGCgg < 1:5028822/70‑1 (MQ=255)
cTTCCGACGCCAGACCATCGCCTTTGTTCGCGGCtt > 1:322041/1‑36 (MQ=255)
ccGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATgg > 1:2425149/1‑51 (MQ=255)
ccGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATgg > 1:2033861/1‑51 (MQ=255)
ccGACGCCAGACCATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGAt > 1:686151/1‑49 (MQ=255)
ccGACGCCAGACCATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAGCgcc > 1:4173291/1‑66 (MQ=255)
gCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAGCGGCACGCGGct > 1:2348517/1‑71 (MQ=255)
ccAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtttt < 1:2094401/40‑1 (MQ=255)
ccAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtttt < 1:1812914/40‑1 (MQ=255)
ccAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtttt < 1:2801218/40‑1 (MQ=255)
ccAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGtttt < 1:2100298/40‑1 (MQ=255)
ccAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAGCGGCACGCGGctc > 1:4736143/1‑71 (MQ=255)
cAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAGCGGCACGCGGctct > 1:1426016/1‑71 (MQ=255)
cAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAGCGGCACGCGGctc < 1:4352498/70‑1 (MQ=255)
cAGACCATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAGCGGCACGCGGctct < 1:4683607/71‑1 (MQ=255)
cAGACCATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAGCGGCACGCGGctct > 1:4961010/1‑71 (MQ=255)
aGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAGCGGCACGCGGCTCTg < 1:179712/71‑1 (MQ=255)
aGACCATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGa < 1:4254233/40‑1 (MQ=255)
cTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAGCGGCACGCGGCTCTgg > 1:2448733/1‑69 (MQ=255)
tATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAg < 1:500326/52‑1 (MQ=255)
tATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAg < 1:814044/52‑1 (MQ=255)
tATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAg < 1:2060412/52‑1 (MQ=255)
|
ATAGCAATGGCGATGGTTTTACCCAGATGACGACCGACATACTCAATTACTTCCGACGCCAGACTATCGCCTTTGTTCGCGGCTTTGCAGATAGTTTTGATGGTGCAGTCGTCCAGCGGCACGCGGCTCTGG > W3110S.gb/701028‑701159
|
| 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
