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 F3 I0 R2
|
232 |
76.3 |
4135488 |
90.9% |
3759158 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
696,779 |
C→T |
32.0% |
P262L (CCC→CTC) |
appB → |
cytochrome bd‑II oxidase, subunit II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 696,779 | 0 | C | T | 32.0%
| 64.5
/ 41.8
| 50 | P262L (CCC→CTC) | appB | cytochrome bd‑II oxidase, subunit II |
| Reads supporting (aligned to +/- strand): ref base C (21/13); new base T (4/12); total (25/25) |
| Fisher's exact test for biased strand distribution p-value = 3.22e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.27e-01 |
CAATCCGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTGATGGCGA > minE/696714‑696838
|
cAATCCGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGttt > 1:534274/1‑71 (MQ=255)
cAATCCGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGttt > 1:3736118/1‑71 (MQ=255)
aaTGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATc < 1:1072101/70‑1 (MQ=255)
aaTGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATc < 1:2951636/70‑1 (MQ=255)
aaTGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCt > 1:1902396/1‑71 (MQ=255)
ggtggCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCgctgc > 1:803713/1‑71 (MQ=255)
ggtggCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCgctgc > 1:647421/1‑71 (MQ=255)
ggtggCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCgctgc > 1:3813715/1‑71 (MQ=255)
ggtggCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCAgctgc > 1:3311174/1‑71 (MQ=255)
tggCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGctgctg < 1:3131834/71‑1 (MQ=255)
tggCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGctgctg < 1:4068272/71‑1 (MQ=255)
aGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGAt > 1:2897874/1‑71 (MQ=255)
gTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTgg < 1:336652/51‑1 (MQ=255)
gTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTgg < 1:3053666/51‑1 (MQ=255)
gTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTgg < 1:2440492/51‑1 (MQ=255)
gCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGAttct > 1:3340159/1‑71 (MQ=255)
gCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGAttct > 1:3142521/1‑71 (MQ=255)
gCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGAttct > 1:3152997/1‑71 (MQ=255)
cTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCTCCCGTTTTGTGGATCTTCCCGCTGCTGGGAttct < 1:914322/70‑1 (MQ=255)
cTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGAttctt > 1:1386705/1‑71 (MQ=255)
cTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGAttctt > 1:451505/1‑71 (MQ=255)
ccTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCgctgc > 1:2537145/1‑58 (MQ=255)
ccTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTg > 1:2500965/1‑71 (MQ=255)
ccTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTg > 1:1903010/1‑71 (MQ=255)
ccTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTg > 1:1312747/1‑71 (MQ=255)
tGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTtg > 1:1146965/1‑40 (MQ=255)
ggTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGcc > 1:50426/1‑70 (MQ=255)
gTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGcc < 1:3163249/69‑1 (MQ=255)
gTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGccc < 1:330891/70‑1 (MQ=255)
gTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGccc < 1:3733673/70‑1 (MQ=255)
gTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGccc < 1:2294894/70‑1 (MQ=255)
gTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCa > 1:2723198/1‑71 (MQ=255)
tGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGccc < 1:3150156/69‑1 (MQ=255)
tGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCAt < 1:2673520/71‑1 (MQ=255)
ccTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTg < 1:385774/71‑1 (MQ=255)
ccTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTg < 1:747000/71‑1 (MQ=255)
tGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTgg > 1:2153649/1‑36 (MQ=255)
tGGATGAATAATTTTGTCGAGTCCCCCGTTTTGTgg > 1:3966245/1‑36 (MQ=255)
gATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCt < 1:2472040/69‑1 (MQ=255)
gATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCt < 1:1472773/69‑1 (MQ=255)
aataatTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGt < 1:3504232/71‑1 (MQ=255)
aataatTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGt < 1:475390/71‑1 (MQ=255)
aataatTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGt < 1:1625947/71‑1 (MQ=255)
taatTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCt < 1:3172848/63‑1 (MQ=255)
atTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTGATg > 1:547371/1‑71 (MQ=255)
ttGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGc > 1:2141396/1‑57 (MQ=255)
gTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTGATGGCGa < 1:12716/70‑1 (MQ=255)
gAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGAttcttc > 1:1420662/1‑42 (MQ=255)
cGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGt < 1:3790078/55‑1 (MQ=255)
cGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGt < 1:1744993/55‑1 (MQ=255)
|
CAATCCGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTGATGGCGA > minE/696714‑696838
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
