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 |
799,135 |
G→A |
57.6% |
R152R (CGC→CGT) |
treA ← |
periplasmic trehalase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 799,135 | 0 | G | A | 57.6%
| 19.0
/ 54.9
| 73 | R152R (CGC→CGT) | treA | periplasmic trehalase |
| Reads supporting (aligned to +/- strand): ref base G (29/2); new base A (27/15); total (56/17) |
| Fisher's exact test for biased strand distribution p-value = 4.40e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTTCGGCAAGTCCTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCATTTTTCGG > minE/799080‑799193
|
tttCGGCAAGTCCTAACATGGTGAAGTAACTGTCCCAGTAATATGCCTCGCGAAAACGTCCGCCGGGc > 1:81341/1‑68 (MQ=255)
tttCGGCAAGTCCTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGc > 1:223241/1‑68 (MQ=255)
tttCGGCAAGTCCTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGc > 1:3381263/1‑68 (MQ=255)
tttCGGCAAGTCCTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGc > 1:2501869/1‑68 (MQ=255)
tttCGGCAAGTCCTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGc > 1:2396153/1‑68 (MQ=255)
tttCGGCAAGTCCTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGc > 1:1477765/1‑68 (MQ=255)
tttCGGCAAGTCCTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGc > 1:1369795/1‑68 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGt < 1:2721777/69‑1 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGt < 1:204758/69‑1 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:86074/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:2985967/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:2872834/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:3126697/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:2830943/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:2807457/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:540540/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:2519152/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:2485043/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:2476858/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:2404915/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:919279/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:606123/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:891713/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:1254772/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:1528611/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:847041/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:3004736/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:1821250/1‑47 (MQ=255)
ccTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAACg > 1:638334/1‑47 (MQ=255)
gTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGc > 1:1163460/1‑69 (MQ=255)
tAACTGTCCCAGTAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAg > 1:1653604/1‑52 (MQ=255)
tAACTGTCCCAGTAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGt > 1:2887917/1‑66 (MQ=255)
tAACTGTCCCAGTAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGt > 1:2637191/1‑66 (MQ=255)
tGTCCCAGTAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACaga > 1:2449044/1‑68 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:1814340/69‑1 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:3005558/69‑1 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:1313035/69‑1 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:2791089/69‑1 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:2615958/69‑1 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:1745785/69‑1 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:80524/69‑1 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:1972956/69‑1 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:2368546/69‑1 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:1981825/69‑1 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:615884/69‑1 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:2263411/69‑1 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:222910/69‑1 (MQ=255)
gTCCCAGTAATATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAcaga < 1:3110854/69‑1 (MQ=255)
gTAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCa > 1:358886/1‑69 (MQ=255)
gTAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCa > 1:119942/1‑69 (MQ=255)
tAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCa > 1:3063869/1‑68 (MQ=255)
tAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCAt > 1:347214/1‑69 (MQ=255)
tAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCAt > 1:957497/1‑69 (MQ=255)
tAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCAt > 1:1070586/1‑69 (MQ=255)
tAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCAt > 1:1265937/1‑69 (MQ=255)
tAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCAt > 1:185862/1‑69 (MQ=255)
tAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCAt > 1:1991619/1‑69 (MQ=255)
tAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAAAAGAGAATCCCAt > 1:1185827/1‑69 (MQ=255)
aaTATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCAtt > 1:2965852/1‑69 (MQ=255)
aaTATACCTCGCGAAAACGTCCGCCGGGCACGACATAAGGTTTTGGCAGCGGTAATAgaga < 1:2281198/61‑1 (MQ=255)
atatACCTCGCGAAAGCGTCCGCCCGGCACGACATaa > 1:2859876/1‑37 (MQ=255)
atatACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCAttt > 1:2291147/1‑69 (MQ=255)
atatACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCAttt > 1:367176/1‑69 (MQ=255)
atatACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCAttt > 1:773300/1‑69 (MQ=255)
atatACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCAttt > 1:1013861/1‑69 (MQ=255)
ccTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCATTTTTCgg > 1:416574/1‑69 (MQ=255)
ccTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCATTTTTCgg > 1:2527826/1‑69 (MQ=255)
ccTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCATTTTTCgg > 1:2992244/1‑69 (MQ=255)
ccTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCATTTTTCgg > 1:1863319/1‑69 (MQ=255)
ccTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCATTTTTCgg > 1:1556474/1‑69 (MQ=255)
ccTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCATTTTTCgg > 1:1318125/1‑69 (MQ=255)
ccTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCATTTTTCgg > 1:2921012/1‑69 (MQ=255)
ccTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCATTTTTCgg > 1:342748/1‑69 (MQ=255)
|
TTTCGGCAAGTCCTAACATGGTGAAGTAACTGTCCCAGTAATATACCTCGCGAAAGCGTCCGCCCGGCACGACATAAGGTTCCGGCAGCGGTAACAGAGAATCCCATTTTTCGG > minE/799080‑799193
|
| 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
