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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,302,292 |
A→G |
43.5% |
S263S (AGT→AGC) |
dacD ← |
D‑alanyl‑D‑alanine carboxypeptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,302,292 | 0 | A | G | 43.5%
| 6.4
/ 33.7
| 46 | S263S (AGT→AGC) | dacD | D‑alanyl‑D‑alanine carboxypeptidase |
| Reads supporting (aligned to +/- strand): ref base A (6/20); new base G (5/15); total (11/35) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
GTTTTGTTGCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATGAGATTA > minE/1302238‑1302358
|
gTTTTGTTGCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCAt < 1:2298621/69‑1 (MQ=255)
gTTTTGTTGCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCAt < 1:3358929/69‑1 (MQ=255)
gTTTTGTTGCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCAt < 1:1135112/69‑1 (MQ=255)
gTTTTGTTGCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCAt < 1:1210140/69‑1 (MQ=255)
gTTTTGTTGCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCAt < 1:1992600/69‑1 (MQ=255)
gTTTTGTTGCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCAt < 1:2625337/69‑1 (MQ=255)
gTTTTGTTGCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCAt < 1:2518744/69‑1 (MQ=255)
gTTTTGTTGCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCAt < 1:743353/69‑1 (MQ=255)
ttttGTTGCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCAtt < 1:1171543/69‑1 (MQ=255)
ttttGTTGCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCAtt < 1:81453/69‑1 (MQ=255)
ttttGTTGCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCAt < 1:1837964/68‑1 (MQ=255)
ttgttgCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCATTAc < 1:2700608/69‑1 (MQ=255)
ccAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCGCTGTCAGCCCCCATTACCACTGc > 1:937130/1‑66 (MQ=255)
ccAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCGCTGTCAGCCCCCATTACCACTGCa > 1:2331845/1‑67 (MQ=255)
ccAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCGCTGTCAGCCCCCATTACCACTGCa > 1:704630/1‑67 (MQ=255)
ccAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCGCTGTCAGCCCCCATTACCACTGCa > 1:1369474/1‑67 (MQ=255)
ccAACGCAGTAATTTTCTTGCATCTTCCTCACGACCTTTTGCGCTGTCAGCCCCCATTACCACTGCa > 1:1462830/1‑67 (MQ=255)
gTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCATTACCACTGCAATGAgacgac < 1:2859586/69‑1 (MQ=255)
gTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCATTACCACTGCAATGAgacgac < 1:3208477/69‑1 (MQ=255)
gTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCATTACCACTGCAATGAgacgac < 1:885145/69‑1 (MQ=255)
aTTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTGAGCCCCCATTACCACTGc > 1:1122633/1‑55 (MQ=255)
aTTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCATTACCACTGc > 1:1731757/1‑55 (MQ=255)
aTTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCATTACCACTGc > 1:1621532/1‑55 (MQ=255)
aTTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCATTACCACTGc > 1:1536639/1‑55 (MQ=255)
ttCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGcccc < 1:635208/40‑1 (MQ=255)
ttCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGcccc < 1:2660202/40‑1 (MQ=255)
ttCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGcccc < 1:2750049/40‑1 (MQ=255)
ttCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGcccc < 1:2750918/40‑1 (MQ=255)
tGCGCTGTCAGCCCGCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:806935/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:96011/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:961975/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:261315/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:3009444/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:2859397/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:1078286/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:2519954/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:2419094/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:2148964/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:1846603/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:150838/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:1359639/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATga < 1:1112068/65‑1 (MQ=255)
tGCGCTGTCAGCCCCCATTACCACTGCAATGAGACGAAGCTGCCCATCTACAGCCGAAGCAATga < 1:409604/65‑1 (MQ=255)
gCACTGTCAGCCCCCATTACCACTGCAATGAGACGCCGCTGCCCATCTACAGCCGAAGCAATGAGAtt > 1:2538360/1‑68 (MQ=255)
gCACTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATGAGAt < 1:3272255/67‑1 (MQ=255)
gCACTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATGAGATTa > 1:485721/1‑69 (MQ=255)
|
GTTTTGTTGCCCCCAACGCAGTAATTTTCTTGCCTCTTCCTCACGACCTTTTGCACTGTCAGCCCCCATTACCACTGCAATGAGACGACGCTGCCCATCTACAGCCGAAGCAATGAGATTA > minE/1302238‑1302358
|
| 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
