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 |
2,228,356 |
T→A |
30.5% |
P120P (CCT→CCA) |
yhdZ → |
predicted amino‑acid transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,228,356 | 0 | T | A | 30.5%
| 96.8
/ 54.2
| 82 | P120P (CCT→CCA) | yhdZ | predicted amino‑acid transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (40/17); new base A (11/14); total (51/31) |
| Fisher's exact test for biased strand distribution p-value = 2.91e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCTCTTCCCTCATCTGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTGAGAATTGCCGAACATGCG > minE/2228290‑2228419
|
tctcTTCCCTCATCTGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTa > 1:2441862/1‑68 (MQ=255)
tctcTTCCCTCATCTGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTa > 1:3376214/1‑68 (MQ=255)
tctcTTCCCTCATCTGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTa > 1:485890/1‑68 (MQ=255)
tctcTTCCCTCATCTGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTa > 1:2775423/1‑68 (MQ=255)
tctcTTCCCTCATCTGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTa > 1:336075/1‑68 (MQ=255)
tctcTTCCCTCATCTGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTa > 1:3158301/1‑68 (MQ=255)
ctctTCCCTCATCTGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTaa > 1:800257/1‑68 (MQ=255)
tGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAgg > 1:682746/1‑63 (MQ=255)
tGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGc > 1:2284956/1‑64 (MQ=255)
tGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGc > 1:2730974/1‑64 (MQ=255)
tGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGc > 1:1386983/1‑64 (MQ=255)
tGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGc > 1:2089788/1‑64 (MQ=255)
tGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGc > 1:2341564/1‑64 (MQ=255)
tGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGc > 1:95341/1‑64 (MQ=255)
tGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGc > 1:1936502/1‑64 (MQ=255)
tGACAGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTaagaaaga > 1:1688980/1‑61 (MQ=255)
gTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTg < 1:1845244/69‑1 (MQ=255)
gTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTg < 1:2647626/69‑1 (MQ=255)
ttttACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTg < 1:2347472/68‑1 (MQ=255)
aGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTg < 1:2294239/68‑1 (MQ=255)
aGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTg < 1:861704/68‑1 (MQ=255)
aGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTg < 1:951520/68‑1 (MQ=255)
aGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTg < 1:2206767/68‑1 (MQ=255)
gAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTg < 1:2878610/67‑1 (MQ=255)
aCTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:1686684/1‑69 (MQ=255)
aCTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:1924668/1‑69 (MQ=255)
aCTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:1078743/1‑69 (MQ=255)
tGGCACCGATTTGGGTACGCAAGATGCCAAAGAAAGAGGCTGAAgct > 1:2547114/1‑45 (MQ=255)
tGGCACCGATTTGGGTACGCAAGATGCCAAAGAAAGAGGCTGAAgct > 1:2633750/1‑45 (MQ=255)
tGGCACCGATTTGGGTACGCAAGATGCCAAAGAAAGAGGCTGAAgct > 1:2623277/1‑45 (MQ=255)
tGGCACCGATTTGGGTACGCAAGATGCCAAAGAAAGAGGCTGAAgct > 1:2214022/1‑45 (MQ=255)
tGGCACCGATTTGGGTACGCAAGATGCCAAAGAAAGAGGCTGAAgct > 1:3036557/1‑45 (MQ=255)
tGGCACCGATTTGGGTACGCAAGATGCCAAAGAAAGAGGCTGAAgct > 1:3275081/1‑45 (MQ=255)
tGGCACCGATTTGGGTACGCAAGATGCCAAAGAAAGAGGCTGAAgct > 1:1758294/1‑45 (MQ=255)
tGGCACCGATTTGGGTACGCAAGATGCCAAAGAAAGAGGCTGAAgct > 1:545442/1‑45 (MQ=255)
tGGCACCGATTTGGGTACGCAAGATGCCAAAGAAAGAGGCTGAAgct > 1:1403309/1‑45 (MQ=255)
tGGCACCGATTTGGGTACGCAAGATGCCAAAGAAAGAGGCTGAAgct > 1:1312107/1‑45 (MQ=255)
tGGCACCGATTTGGGTACGCAAGATGCCAAAGAAAGAGGCTGAAgct > 1:1285205/1‑45 (MQ=255)
aTTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGTGGTGCATTACCTAGAGCGGGTgaga < 1:1000544/69‑1 (MQ=255)
aTTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTgaga < 1:743582/69‑1 (MQ=255)
aTTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTgaga < 1:957485/69‑1 (MQ=255)
aTTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTgaga < 1:1031483/69‑1 (MQ=255)
aTTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTgaga < 1:1807893/69‑1 (MQ=255)
aTTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTgaga < 1:1273898/69‑1 (MQ=255)
aTTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTgaga < 1:1913922/69‑1 (MQ=255)
aTTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTgaga < 1:1670333/69‑1 (MQ=255)
tttGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTgaga < 1:3258382/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCGGGTGAGAATTGc < 1:2041646/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCGGGTGAGAATTGc < 1:798057/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCGGGTGAGAATTGc < 1:32578/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCGGGTGAGAATTGc < 1:754133/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCGGGTGAGAATTGc < 1:67291/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCGGGTGAGAATTGc < 1:89354/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCGGGTGAGAATTGc < 1:1166599/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCGGGTGAGAATTGc < 1:1049471/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCGGGTGAGAATTGc < 1:2274344/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCGGGTGAGAATTGc < 1:2361697/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCGGGTGAGAATTGc < 1:1036753/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCGGGTGAGAATTGc < 1:960024/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCGGGTGAGAATTGc < 1:967604/68‑1 (MQ=255)
gTACGCAAGATGCCAAAGAAAGAGGCTGAAGCTCTGGCGATGCATTACCTTGAGCCGGTGAGAATTGc < 1:3081543/68‑1 (MQ=255)
cAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTGAGAATTGCCGAACa > 1:3094428/1‑69 (MQ=255)
aTGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:2535593/1‑37 (MQ=255)
aTGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:855385/1‑37 (MQ=255)
aTGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:517665/1‑37 (MQ=255)
aTGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:482453/1‑37 (MQ=255)
aTGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:2601813/1‑37 (MQ=255)
aTGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:253421/1‑37 (MQ=255)
aTGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:2478674/1‑37 (MQ=255)
aTGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:2866763/1‑37 (MQ=255)
aTGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:2224396/1‑37 (MQ=255)
aTGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:1757231/1‑37 (MQ=255)
aTGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:1716904/1‑37 (MQ=255)
aTGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCAt > 1:3265285/1‑36 (MQ=255)
aTGCATAAGAAAGAGGCTGAAGATCTGGCGGTGCAtt > 1:1458493/1‑37 (MQ=255)
tGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTGAGAATTGCCGAACATgcg > 1:1859215/1‑68 (MQ=255)
tGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTGAGAATTGCCGAACATgcg > 1:802298/1‑68 (MQ=255)
tGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTGAGAATTGCCGAACATgcg > 1:305751/1‑68 (MQ=255)
tGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTGAGAATTGCCGAACATgcg > 1:123577/1‑68 (MQ=255)
tGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTGAGAATTGCCGAACATgcg > 1:1317290/1‑68 (MQ=255)
tGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTGAGAATTGCCGAACATgcg > 1:2798271/1‑68 (MQ=255)
tGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTGAGAATTGCCGAACATgcg > 1:3385526/1‑68 (MQ=255)
|
TCTCTTCCCTCATCTGACCGTTTTACAGAACTGTACCCTGGCACCGATTTGGGTACGCAAGATGCCTAAGAAAGAGGCTGAAGATCTGGCGGTGCATTACCTAGAGCGGGTGAGAATTGCCGAACATGCG > minE/2228290‑2228419
|
| 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
