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 |
696,779 |
C→T |
52.1% |
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 | 52.1%
| 3.1
/ 104.6
| 71 | P262L (CCC→CTC) | appB | cytochrome bd‑II oxidase, subunit II |
| Reads supporting (aligned to +/- strand): ref base C (19/15); new base T (18/19); total (37/34) |
| Fisher's exact test for biased strand distribution p-value = 6.37e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.73e-01 |
CAATCCGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTGATGGCGATTTA > minE/696714‑696842
|
cAATCCGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGttt > 1:3226484/1‑71 (MQ=255)
cAATCCGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGttt > 1:2900686/1‑71 (MQ=255)
cAATCCGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGttt > 1:3079784/1‑71 (MQ=255)
cAATCCGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGttt > 1:3729059/1‑71 (MQ=255)
tCCGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGtt < 1:1023662/67‑1 (MQ=255)
tCCGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGtt < 1:2620813/67‑1 (MQ=255)
tCCGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGtt < 1:1087655/67‑1 (MQ=255)
ccGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGtt < 1:1770122/66‑1 (MQ=255)
cGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTgg < 1:3607219/71‑1 (MQ=255)
ttAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGa > 1:2921929/1‑70 (MQ=255)
ttAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGAt > 1:2875068/1‑71 (MQ=255)
aaTGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGtttt > 1:3208758/1‑63 (MQ=255)
aaTGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCt > 1:2444005/1‑71 (MQ=255)
aaTGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCt > 1:2511260/1‑71 (MQ=255)
aTGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCtt < 1:2649000/71‑1 (MQ=255)
aTGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCt < 1:1276654/70‑1 (MQ=255)
aaaCTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTccc > 1:687659/1‑71 (MQ=255)
aCTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCgc < 1:2927289/71‑1 (MQ=255)
gtggCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCgctgct > 1:192945/1‑71 (MQ=255)
gtggCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCgctgct > 1:836078/1‑71 (MQ=255)
ggCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTgg > 1:2919069/1‑71 (MQ=255)
gTGCTACCT‑GTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGAttc < 1:1994290/71‑1 (MQ=255)
tGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGAttc < 1:989346/71‑1 (MQ=255)
tGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGAttc > 1:1026979/1‑71 (MQ=255)
cTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGAttctt > 1:2005783/1‑71 (MQ=255)
cTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGAttct < 1:1077205/70‑1 (MQ=255)
cTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGAttct > 1:2398787/1‑70 (MQ=255)
cTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGAttct > 1:2986008/1‑70 (MQ=255)
cTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGAt > 1:2569984/1‑50 (MQ=255)
cTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGAt > 1:2364232/1‑50 (MQ=255)
cTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGAt > 1:2721777/1‑50 (MQ=255)
cTACCTGGTGCCTGGATGAATAATTTCGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGAttctt > 1:2923993/1‑71 (MQ=255)
ccTGGTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTg > 1:2477136/1‑71 (MQ=255)
ccTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTg > 1:1330820/1‑71 (MQ=255)
cTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATtcttct < 1:157963/69‑1 (MQ=255)
ggTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGc > 1:1228996/1‑69 (MQ=255)
ggTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTATGTGGATCTTCCCGCTGCTGGGATTCTTCTGc > 1:2551066/1‑69 (MQ=255)
ggTGCATGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGc > 1:3127718/1‑69 (MQ=255)
gTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGcc < 1:3998273/69‑1 (MQ=255)
gTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGcc < 1:4152114/69‑1 (MQ=255)
gTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGcc < 1:3935060/69‑1 (MQ=255)
gTGCCTGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGcc < 1:374040/69‑1 (MQ=255)
tGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCAtt < 1:2792556/68‑1 (MQ=255)
tGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCAtt < 1:557277/68‑1 (MQ=255)
tGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCAtt < 1:2633906/68‑1 (MQ=255)
tGGATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCAtt < 1:3064798/68‑1 (MQ=255)
tGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATtcttct < 1:3318059/61‑1 (MQ=255)
gATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGAt > 1:3889032/1‑36 (MQ=255)
gATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGAt > 1:4015095/1‑36 (MQ=255)
gATGAATAATTTTGTCGAGTCGCTCGTTTTGTGGAt > 1:2504947/1‑36 (MQ=255)
gATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGc > 1:176809/1‑61 (MQ=255)
gATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGc > 1:200564/1‑61 (MQ=255)
aTGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGAc < 1:3996407/71‑1 (MQ=255)
aTGAATAATTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGAc < 1:3021170/71‑1 (MQ=255)
gAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCt < 1:95813/35‑1 (MQ=255)
gAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCt < 1:2690985/35‑1 (MQ=255)
gAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCt < 1:3257713/35‑1 (MQ=255)
gAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCt < 1:3963424/35‑1 (MQ=255)
gAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACgg > 1:3964301/1‑71 (MQ=255)
gAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACg > 1:2439680/1‑70 (MQ=255)
aataatTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGt < 1:1908115/71‑1 (MQ=255)
ataatTTTGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGt < 1:3858010/70‑1 (MQ=255)
taatTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTGa > 1:3914929/1‑71 (MQ=255)
taatTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTGa > 1:1145346/1‑71 (MQ=255)
ttGTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTGATGGc > 1:2687218/1‑70 (MQ=255)
ttGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGa > 1:2258016/1‑41 (MQ=255)
gTCGAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTGATGGCGa < 1:3732996/70‑1 (MQ=255)
gTCGAGGCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTGATGGCGa < 1:207966/70‑1 (MQ=255)
gAGTCGCTCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTGATGGCGATTTa < 1:84445/71‑1 (MQ=255)
tCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTg < 1:2179895/57‑1 (MQ=255)
tCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTg < 1:1296422/57‑1 (MQ=255)
|
CAATCCGTTAATGAAACTGGTGGCAGTGCTACCTGGTGCCTGGATGAATAATTTTGTCGAGTCGCCCGTTTTGTGGATCTTCCCGCTGCTGGGATTCTTCTGCCCATTGCTGACGGTGATGGCGATTTA > minE/696714‑696842
|
| 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
