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 |
|
A2 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
507,425 |
C→A |
32.2% |
A71D (GCT→GAT) |
ybhH → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 507,425 | 0 | C | A | 32.2%
| 126.0
/ 39.6
| 62 | A71D (GCT→GAT) | ybhH | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (22/20); new base A (14/6); total (36/26) |
| Fisher's exact test for biased strand distribution p-value = 2.72e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.71e-01 |
ACGGTATTGGCGGCGGTAATCCACTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCACGCCTAACTGCGG > minE/507356‑507494
|
aCGGTATTGGCGGCGGTAATCCACTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCt < 1:3811456/71‑1 (MQ=255)
gTATTGGCGGCGGTAATCCACTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGAt < 1:3162020/71‑1 (MQ=255)
gTATTGGCGGCGGTAATCCACTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGAt < 1:1451332/71‑1 (MQ=255)
ttGGCGGCGGTAATCCACTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGAt < 1:684528/68‑1 (MQ=255)
ggcggcGGTAATCCACTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGa > 1:2951130/1‑71 (MQ=255)
ggcggcGGTAATCCACTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGa > 1:1318991/1‑71 (MQ=255)
ggcggcGGTAATCCACTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGa > 1:1654438/1‑71 (MQ=255)
ggcggTAATCCACTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGtgatga > 1:1344417/1‑62 (MQ=255)
tAATCCACTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCt < 1:522630/55‑1 (MQ=255)
aaTCCACTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGATGATGTCGATTATCTGtt > 1:1824407/1‑71 (MQ=255)
cTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCt < 1:3436037/48‑1 (MQ=255)
cTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCt < 1:1378931/48‑1 (MQ=255)
cTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTgcg > 1:205680/1‑69 (MQ=255)
gACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGATGATGTCGATTATCTGTTTgc > 1:396687/1‑66 (MQ=255)
gACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGATGATGTCGATTATCTGTTTgc > 1:4046476/1‑66 (MQ=255)
gACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGATGATGTCGATTATCTGTTTgc > 1:1307399/1‑66 (MQ=255)
gACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGATGATGTCGATTATCTGTTTgc > 1:1197983/1‑66 (MQ=255)
ccAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGATGATGTCGATTATCTGTTTGCGCAGGTa < 1:3043223/71‑1 (MQ=255)
tAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCg > 1:854041/1‑71 (MQ=255)
tAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGATGATGTCGATTATCTGTTTGCGCAGGTAATCg < 1:606333/71‑1 (MQ=255)
aaaGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATc > 1:4227718/1‑69 (MQ=255)
aaaGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGt > 1:107680/1‑71 (MQ=255)
aaaGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGt > 1:2387103/1‑71 (MQ=255)
aaaGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGt > 1:3117712/1‑71 (MQ=255)
aaGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTgatgat < 1:1054289/41‑1 (MQ=255)
aaGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTgatgat < 1:3735250/41‑1 (MQ=255)
aaGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTgatgat < 1:3553378/41‑1 (MQ=255)
aaGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTgatgat < 1:3384362/41‑1 (MQ=255)
aaGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTgatgat < 1:1255331/41‑1 (MQ=255)
aaGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGATGATGTCGATTATCTGTTTGCGCAGGTAATCGtt > 1:3909295/1‑71 (MQ=255)
aaGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGATGATGTCGATTATCTGTTTGCGCAGGTAATCGtt > 1:3052838/1‑71 (MQ=255)
gTCGCCATTATTAGCCGTTCCAGCGATCCGTGTgatgat < 1:3653091/39‑1 (MQ=38)
tCGCCATTATTTGCCGTTCCAGCGATCGGCGTGCTGATGTCGATTATc < 1:1486169/48‑1 (MQ=255)
tCGCCATTATTAGCCGTTCCAGCGATCCGCGTGATGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCAt < 1:1963732/71‑1 (MQ=255)
gCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCAt > 1:1304063/1‑69 (MQ=255)
gCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCAt > 1:3734907/1‑69 (MQ=255)
cATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGc < 1:3582269/71‑1 (MQ=255)
attattAGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCt < 1:2747593/44‑1 (MQ=255)
ttattaGTCGTTCCATCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCaa > 1:2010327/1‑71 (MQ=255)
ttattaGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCaa > 1:2462343/1‑71 (MQ=255)
tattaGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGt > 1:4017429/1‑44 (MQ=255)
tattaGCCGTTCCAGCGATCCGCGTGATGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAAc > 1:68854/1‑71 (MQ=255)
tattaGCCGTTCCAGCGATCCGCGTGATGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAAc > 1:3931475/1‑71 (MQ=255)
attaGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACg > 1:1297519/1‑71 (MQ=255)
attaGCCGTTCCAGCGATCCGCGTGATGATGTCGAt > 1:685385/1‑36 (MQ=255)
attaGCCGTTCCAGCGATCCGCGTGATGATGTCGAt > 1:2500025/1‑36 (MQ=255)
attaGCCGTTCCAGCGATCCGCGTGATGATGTCGATTATCTGTTTGCGCAGGTAATCGTTc > 1:2592257/1‑61 (MQ=255)
attaGCAGTTCCAGCGATCCGCGTGATGATGTCGAt > 1:247069/1‑36 (MQ=37)
gCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTc < 1:2994921/71‑1 (MQ=255)
gCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTc < 1:1658756/71‑1 (MQ=255)
ccAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATAc > 1:3762596/1‑70 (MQ=255)
ccAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATAc > 1:3223221/1‑70 (MQ=255)
cAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCa < 1:3186730/71‑1 (MQ=255)
cAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCa < 1:3430225/71‑1 (MQ=255)
cAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCa < 1:3425305/71‑1 (MQ=255)
cAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCa < 1:374307/71‑1 (MQ=255)
cAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCa < 1:4179364/71‑1 (MQ=255)
gCGATCCGCGTGATGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCACg > 1:3269116/1‑71 (MQ=255)
gATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCaa > 1:1329040/1‑54 (MQ=255)
gATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCaa > 1:2951345/1‑54 (MQ=255)
gATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCaa > 1:1013734/1‑54 (MQ=255)
gATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCaa > 1:1645447/1‑54 (MQ=255)
gATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCaa > 1:1798406/1‑54 (MQ=255)
tCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCACGCCTa < 1:3767065/71‑1 (MQ=255)
tCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCACGCCTa < 1:3196849/71‑1 (MQ=255)
tCCGCGTGCTGATGTCGATTATCTGTTTGCGCAAGTAATCGTTCATGAGCAACGTGTCGATACCACGCCTa < 1:1564407/71‑1 (MQ=255)
cgTGATGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCACGCCTAACTg < 1:3103279/71‑1 (MQ=255)
cgTGATGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCACGCCTAACTg < 1:1941655/71‑1 (MQ=255)
cgTGATGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCACGCCTAACTg < 1:3330119/71‑1 (MQ=255)
cTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCACGCCTAACTGCgg > 1:3248158/1‑70 (MQ=255)
|
ACGGTATTGGCGGCGGTAATCCACTGACCAGTAAAGTCGCCATTATTAGCCGTTCCAGCGATCCGCGTGCTGATGTCGATTATCTGTTTGCGCAGGTAATCGTTCATGAGCAACGTGTCGATACCACGCCTAACTGCGG > minE/507356‑507494
|
| 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
