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 |
|
A4 F21 I0 R1
|
1009 |
73.8 |
4146436 |
87.4% |
3623985 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,695,852 |
G→A |
38.9% |
A53V (GCC→GTC) |
yfhQ ← |
predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,695,852 | 0 | G | A | 38.9%
| 43.0
/ 56.2
| 54 | A53V (GCC→GTC) | yfhQ | predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (21/12); new base A (11/10); total (32/22) |
| Fisher's exact test for biased strand distribution p-value = 5.71e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCAGGCTACAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGATTAACCAGCCACAGAT > minE/1695783‑1695915
|
accaGGCTACAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGc > 1:283306/1‑71 (MQ=255)
accaGGCTACAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGc > 1:390615/1‑71 (MQ=255)
accaGGCTACAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGc > 1:1915911/1‑71 (MQ=255)
ccaGGCTACAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGAcc < 1:2575458/71‑1 (MQ=255)
caGGCTACAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGAccc > 1:1026146/1‑71 (MQ=255)
caGGCTACAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGAccc > 1:2849674/1‑71 (MQ=255)
ggCTACAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCTATCACATCGCTGACCCct < 1:3757315/71‑1 (MQ=255)
ggCTACAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGcccc > 1:2501840/1‑70 (MQ=255)
gCTACAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGCCCctg > 1:2576381/1‑71 (MQ=255)
gCTACAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGCCCct < 1:701253/70‑1 (MQ=255)
gCTACAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGACCCct < 1:2711734/70‑1 (MQ=255)
cAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGCCCCtgctgc > 1:2084675/1‑71 (MQ=255)
aCCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGACCCctgct > 1:1610681/1‑67 (MQ=255)
gCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGACCCctg < 1:3115453/61‑1 (MQ=255)
cTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAg > 1:1989147/1‑61 (MQ=255)
cTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGcc > 1:3977198/1‑71 (MQ=255)
cTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGc > 1:2200837/1‑70 (MQ=255)
ttCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCa < 1:3355094/59‑1 (MQ=255)
cgtcgAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAg > 1:1586953/1‑58 (MQ=255)
gtcgAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGACCCCtgctgc < 1:1764456/54‑1 (MQ=255)
gAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGACCCCTGCTGCCAGGGCAATCGCCTGGGAGt > 1:1687568/1‑71 (MQ=255)
aGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGACCCCTGCTGCCAGGGCAATCGCCTGGGAGTc < 1:2948568/71‑1 (MQ=255)
gCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCg < 1:827858/71‑1 (MQ=255)
gCGTATCGACGATGTGAGCATTACCAATCACATCGCTGACCCCTGCTGCCAGGGCAATCGCCTGGGAGTCg < 1:2181021/71‑1 (MQ=255)
tATCGACGATGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAAt > 1:1552463/1‑55 (MQ=255)
tCGACGATGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGttt < 1:3804908/71‑1 (MQ=255)
gacgaTGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCa > 1:1769848/1‑71 (MQ=255)
cgaTGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCAcc < 1:3410765/71‑1 (MQ=255)
cgaTGTGAGCATTACCAATCACATCGCTGACCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCAcc < 1:870772/71‑1 (MQ=255)
gaTGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCa < 1:2478714/71‑1 (MQ=255)
gaTGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCa < 1:3215728/71‑1 (MQ=255)
tgtgAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGt > 1:216531/1‑71 (MQ=255)
gtgAGCATTACCAATCACATCGCTGACCCCTGCTGCCAGGGCaa > 1:1637807/1‑44 (MQ=255)
gtgAGCATTACCAATCACATCGCTGACCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTg > 1:3448824/1‑71 (MQ=255)
gCATTACCAATCACATCGCTGACCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGAtt < 1:649398/71‑1 (MQ=255)
cATTACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTc < 1:1916477/52‑1 (MQ=255)
cATTACCAATCACATCGCTGACCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGAtt > 1:3553896/1‑70 (MQ=255)
ttACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCAcc < 1:600597/60‑1 (MQ=255)
ttACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGATTAAc < 1:2716131/71‑1 (MQ=255)
ttACCAATCACATCGCTGACCCCTGCTGCCAGGGCaa < 1:2170921/37‑1 (MQ=255)
aCCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAg > 1:2602539/1‑60 (MQ=255)
aCCAATCACATCGCTGACCCCTGCTGCCAGGGCAAt > 1:3766156/1‑36 (MQ=255)
aCCAATCACATCGCTGACCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGATTAAc > 1:607069/1‑69 (MQ=255)
aCCAATCACATCGCTGACCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGATTAAc > 1:2248869/1‑69 (MQ=255)
ccAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGATTAACCAg > 1:3703034/1‑71 (MQ=255)
ccAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGATTAACCAg > 1:3995261/1‑71 (MQ=255)
cAATCACATCGCTGACCCCTGCTGCCAGGGCAATCGc > 1:117312/1‑37 (MQ=255)
tCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGATTAACCAGCca > 1:751132/1‑70 (MQ=255)
cacaTCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCAc > 1:4137597/1‑51 (MQ=255)
acaTCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCaa > 1:324953/1‑49 (MQ=255)
acaTCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGATTAACCAGCca > 1:3747210/1‑68 (MQ=255)
acaTCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGATTAACCAGCCACAg < 1:243946/71‑1 (MQ=255)
caTCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGATTAACCAGCCACAGa < 1:2228465/71‑1 (MQ=255)
aTCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGATTAACCAGCCACAGAt > 1:248360/1‑71 (MQ=255)
|
ACCAGGCTACAACCGGCTAACGCTTCGTCGAGCGTATCGACGATGTGAGCATTACCAATCACATCGCTGGCCCCTGCTGCCAGGGCAATCGCCTGGGAGTCGGGTTTCACCAGTGGATTAACCAGCCACAGAT > minE/1695783‑1695915
|
| 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
