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 |
|
A4 F21 I0 R1
|
1009 |
73.8 |
4146436 |
87.4% |
3623985 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,889,046 |
G→A |
14.0% |
P395S (CCC→TCC) |
gudX ← |
predicted glucarate dehydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,889,046 | 0 | G | A | 14.0%
| 133.5
/ 10.6
| 50 | P395S (CCC→TCC) | gudX | predicted glucarate dehydratase |
| Reads supporting (aligned to +/- strand): ref base G (19/24); new base A (5/2); total (24/26) |
| Fisher's exact test for biased strand distribution p-value = 2.39e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGGCAGACGTTTATAGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGATTTTGGGTCAGGCGACAATCGCCCT > minE/1888978‑1889114
|
aGGCAGACGTTTATAGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGacg < 1:3427570/71‑1 (MQ=255)
gCAGACGTTTATAGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCa < 1:195819/71‑1 (MQ=255)
aCGTTTATAGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAg > 1:3563529/1‑71 (MQ=255)
cGTTTATAGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAgg < 1:1191375/71‑1 (MQ=255)
cGTTTATAGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAgg < 1:2526415/71‑1 (MQ=255)
cGTTTATAGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAgg < 1:1418351/71‑1 (MQ=255)
cGTTTATAGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAgg < 1:472233/71‑1 (MQ=255)
cGTTTATAGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGACGCATCAg > 1:410641/1‑70 (MQ=255)
gTTTATAGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAgg > 1:937939/1‑70 (MQ=255)
ttATAGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAAc > 1:2871190/1‑71 (MQ=255)
ttATAGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAAc > 1:1930386/1‑71 (MQ=255)
taGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGACGCAt < 1:3700487/61‑1 (MQ=255)
ccTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACTGCAAtt < 1:534432/71‑1 (MQ=255)
ccTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAAtt < 1:2739004/71‑1 (MQ=255)
aTGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAg > 1:2877497/1‑56 (MQ=255)
aTGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTc > 1:3328885/1‑71 (MQ=255)
aTGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTc > 1:2574980/1‑71 (MQ=255)
aTGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTc > 1:25988/1‑71 (MQ=255)
aTGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAAAGGCAATTTTTc > 1:3654054/1‑71 (MQ=255)
tgCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCg < 1:1289480/70‑1 (MQ=255)
tgCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCg < 1:2856511/70‑1 (MQ=255)
tgCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGt > 1:941793/1‑71 (MQ=255)
tgCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGt < 1:4051154/71‑1 (MQ=255)
tgCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGt > 1:1583559/1‑71 (MQ=255)
ccTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGtt < 1:3947755/70‑1 (MQ=255)
cTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGtttt > 1:2042332/1‑71 (MQ=255)
ttGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTaa > 1:1967358/1‑71 (MQ=255)
ttGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTa < 1:3778408/70‑1 (MQ=255)
tGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAAt > 1:1739858/1‑71 (MQ=255)
aCCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAAtct > 1:2920279/1‑70 (MQ=255)
gTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGaa > 1:631884/1‑42 (MQ=255)
gTTCCCAGTCCAGTTCCACGCCCAGACCGGACGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGc > 1:3544442/1‑71 (MQ=255)
gTTCCCAGTCCAGTTCCACGCCCAGACCGGACGCATCAGGAACGGCAATTTTTCCGTATTTAATCTCCAGc > 1:3312382/1‑71 (MQ=255)
ttCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAg < 1:2163302/69‑1 (MQ=255)
ttCCCAGTCCAGTTCAACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAg < 1:782395/69‑1 (MQ=255)
ccagtccagtTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGTAt < 1:2932434/71‑1 (MQ=255)
gtccagtTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATGTCCAGCGGAttt < 1:1959056/70‑1 (MQ=255)
gtccagtTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGAttt < 1:733815/70‑1 (MQ=255)
tccagtTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGATTTTg < 1:818796/71‑1 (MQ=255)
tccagtTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGATTTTg < 1:1175752/71‑1 (MQ=255)
ttCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGAt < 1:1493524/62‑1 (MQ=255)
ttCCACGCCCAGACCGGACGCATCAGGAACGG‑AATTTTTCCGTTTTTAATCTCCAGCGGATTTTGGGTCAg > 1:1341022/1‑71 (MQ=255)
tCCACGCCCAGCCCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGATTTTGGGTCAg > 1:3797263/1‑71 (MQ=255)
ccACGCCCAGACCGGACGCATCAGGAACGGCAATTTTTCCGTTTTTaa > 1:3727489/1‑48 (MQ=255)
gCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGATTTTGGGTCAGGCGAc < 1:3254577/71‑1 (MQ=255)
cccAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGATTTTGGGTCAGGCGACa < 1:498136/71‑1 (MQ=255)
cccAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGATTTTGGGTCAGGCGACa < 1:2126548/71‑1 (MQ=255)
aGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAAt > 1:846646/1‑41 (MQ=255)
gACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGATTTTGGGTCAGGCGa > 1:203940/1‑65 (MQ=255)
gACCGGACGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGATTTTGGGTCAGGCGACAATCg < 1:4015333/71‑1 (MQ=255)
aCCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGATTTTGGGTCAGGCGACAATCGc < 1:3599083/71‑1 (MQ=255)
gggCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGATTTTGGGTCAGGCGACAATCGccc < 1:2151370/70‑1 (MQ=255)
gggCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGATTTTGGGTCAGGCGACAATCGCcct < 1:1496114/71‑1 (MQ=255)
|
AGGCAGACGTTTATAGGCCTCATGTGCCTTTTGTACCTGTTCCCAGTCCAGTTCCACGCCCAGACCGGGCGCATCAGGAACGGCAATTTTTCCGTTTTTAATCTCCAGCGGATTTTGGGTCAGGCGACAATCGCCCT > minE/1888978‑1889114
|
| 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
