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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
453,572 |
Δ1 bp |
22.2% |
intergenic (+119/+31) |
phr → / ← ybgH |
deoxyribodipyrimidine photolyase, FAD‑binding/predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 453,572 | 0 | A | . | 22.2%
| 142.5
/ 48.3
| 63 | intergenic (+119/+31) | phr/ybgH | deoxyribodipyrimidine photolyase, FAD‑binding/predicted transporter |
| Reads supporting (aligned to +/- strand): ref base A (21/28); new base . (5/9); total (26/37) |
| Fisher's exact test for biased strand distribution p-value = 7.62e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.22e-01 |
CTTATCCAGCCTACAAATTTGTGCAAATTCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTCCAGCGCCAGCGCGCGGTTTCTGAATTTCA > minE/453502‑453640
|
cTTATCCAGCCTACAAATTTGTGCAAATTCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCa < 1:5168356/71‑1 (MQ=255)
cTTATCCAGCCTACAAATTTGTGCAAATTCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCa < 1:1470684/71‑1 (MQ=255)
aTCCAGCCTACAAATTTGTGCAAATTCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGc > 1:1796233/1‑71 (MQ=255)
ccAGCCTACAAATTTGTGCAAATTCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCaa > 1:4139378/1‑67 (MQ=255)
tACAAATTTGTGCAAATTCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGc < 1:2398575/63‑1 (MQ=255)
tACAAATTTGTGCAAATTCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCAt > 1:3518111/1‑70 (MQ=255)
cAAATTTGTGCAAATTCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATc < 1:3902978/69‑1 (MQ=255)
ttGTGCAAATTCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGc > 1:3092361/1‑56 (MQ=255)
cAAATTCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTg < 1:469339/70‑1 (MQ=255)
cAAATTCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTg < 1:1882276/70‑1 (MQ=255)
cAAATTCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGc > 1:3704886/1‑71 (MQ=255)
ttCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCgg > 1:3490295/1‑64 (MQ=255)
tCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCa > 1:2564631/1‑55 (MQ=255)
tCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCa > 1:108133/1‑55 (MQ=255)
tAAATTGCAGGAAATACGTAGGCCTGATAAGCCGCGTCAAg > 1:2380836/1‑41 (MQ=255)
tAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAg > 1:5636674/1‑41 (MQ=255)
tAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAg > 1:2242683/1‑41 (MQ=255)
tAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAg > 1:2052126/1‑41 (MQ=255)
tAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGc < 1:1872565/47‑1 (MQ=255)
tAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGc < 1:1023345/47‑1 (MQ=255)
tAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCAt < 1:5446975/49‑1 (MQ=255)
tAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTAtt < 1:1772202/71‑1 (MQ=255)
aaaTTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCg > 1:5413041/1‑57 (MQ=255)
aaTTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGc > 1:1411317/1‑45 (MQ=255)
aTTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGc < 1:1704320/44‑1 (MQ=255)
aTTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTaa < 1:1819958/70‑1 (MQ=255)
ttGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTaaa > 1:4168872/1‑69 (MQ=255)
ttGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTaa > 1:3083005/1‑69 (MQ=255)
tGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATc > 1:1146138/1‑45 (MQ=255)
tGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATc > 1:3792552/1‑45 (MQ=255)
cAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTc < 1:4068127/71‑1 (MQ=255)
aGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTcc < 1:3233539/71‑1 (MQ=255)
aaaTACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTccagc > 1:4814873/1‑71 (MQ=255)
ccccgtaGGCCTGATAAGTCGCGTC‑AGCGgcgcatcaggcatcggttgtcggatgcgacgctatgcgtctt < 1:5162831‑M1/68‑43 (MQ=255)
ccccgtaGGCCTGATAAGTCGCGTC‑AGCGgcgcatcaggcatcggttgtcggatgcgacgctatgcgtct > 1:5376657‑M1/4‑29 (MQ=255)
ccccgtaGGCCTGATAAGTCGCGTC‑AGCGgcgcatcaggcatcggttgtcggatgcgacgctatgcgtct > 1:354102‑M1/4‑29 (MQ=255)
aTACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTccagcgc < 1:1415049/71‑1 (MQ=255)
aTACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTccagcgc > 1:2764064/1‑71 (MQ=255)
cccgtAGGCCTGATAAGTCGCGTC‑AGCGgcgcatcaggcatcggttgtcggatgcgacgctatgcgtctta < 1:701243‑M1/69‑44 (MQ=255)
cGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTccagcgccag < 1:4830765/71‑1 (MQ=255)
cGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTccagcgcca < 1:297224/70‑1 (MQ=255)
gTAGGCCTGATAAGTCGCGTC‑AGCGgcgcatcaggcatcggttgtcggatgcgacgctatgcgtcttatcc < 1:845347‑M1/71‑47 (MQ=255)
gTAGGCCTGATAAGTCGCGTC‑AGCGgcgcatcaggcatcggttgtcggatgcgacgctatgcgtcttatcc < 1:3546526‑M1/71‑47 (MQ=255)
gTAGGCCTGATAAGTCGCGTC‑AGCGgcgcatcaggcatcggttgtcggatgcgacgctatgcgtcttatcc < 1:3553236‑M1/71‑47 (MQ=255)
gTAGGCCTGATAAGTCACGTC‑AGCGgcgcatcaggcatcggttgtc > 1:887445‑M1/1‑25 (MQ=255)
tAGGCCTGATAAGTCGCGTC‑AGCGgcgcatcaggcatcggttgtcggatgcgacgctatgcgtcttatcc > 1:4465251‑M1/1‑24 (MQ=255)
tAGGCCTGATAAGTCGCGTC‑AGCGgcgcatcaggcatcggttgtcggatgcgacgctatgcgtcttatcc > 1:4976579‑M1/1‑24 (MQ=255)
gCCTGATAAGTCGCGTC‑AGCGgcgcatcaggcatcggttgtcggatgcgacgc < 1:987004‑M1/53‑33 (MQ=255)
gCCTGATAAGTCGCGTC‑AGCGgcgcatcaggcatcggttgtcggatgcgacgc < 1:553258‑M1/53‑33 (MQ=255)
tGATAAGTCGCGTC‑AGCGgcgcatcaggcatcggttgtcggatgcgacgc < 1:3753859‑M1/50‑33 (MQ=255)
tGATAAGTCGCGTC‑AGCGgcgcatcaggcatcggttgtcggatgcgacgc < 1:906803‑M1/50‑33 (MQ=255)
tGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTaa < 1:3030704/49‑1 (MQ=255)
tGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTaa < 1:2366748/49‑1 (MQ=255)
gATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTcca < 1:1787791/55‑1 (MQ=255)
gATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTcca < 1:2447993/55‑1 (MQ=255)
aTAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGc < 1:3682591/36‑1 (MQ=255)
aTAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTCCAGCGCCAGCGCGCGGtt < 1:3756168/70‑1 (MQ=255)
aTAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTCCAGCGCCAGCGCGCGGtt > 1:1308465/1‑70 (MQ=255)
aTAAGACGCGT‑AAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTCCAGCGCCAGCGCGCGGtt < 1:835991/69‑1 (MQ=255)
aaGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTccag > 1:5120385/1‑53 (MQ=255)
aGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTCCAGCGCCAGCGCGCGGTTTCTg < 1:941609/71‑1 (MQ=255)
gACGCGTCAAGCGTCGCATCAGGCATAGGTGCTGGCCTATTAAGACTCCAGCGCCAGCGCGCGGTTTCTGa < 1:5637452/71‑1 (MQ=255)
gcgTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTCCAGCGCCAGCGCGCGGTTTCTGAAtt < 1:1500171/71‑1 (MQ=255)
gTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTCCAGCGCCAgcgcg < 1:4447817/56‑1 (MQ=255)
tCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTCCAGCGCCAGCGCGCGGTTTCTg < 1:1160827/64‑1 (MQ=255)
tCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTCCAGCGCCAGCGCGCGGTTTCTGAATTTCa < 1:1189997/71‑1 (MQ=255)
|
CTTATCCAGCCTACAAATTTGTGCAAATTCAATAAATTGCAGGAAATACGTAGGCCTGATAAGACGCGTCAAGCGTCGCATCAGGCATCGGTGCTGGCCTATTAAGACTCCAGCGCCAGCGCGCGGTTTCTGAATTTCA > minE/453502‑453640
|
| 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
