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 |
|
A5 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,084,947 |
A→G |
18.0% |
K384E (AAA→GAA) |
ycdB → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,084,947 | 0 | A | G | 18.0%
| 138.5
/ 25.2
| 61 | K384E (AAA→GAA) | ycdB | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (19/31); new base G (6/5); total (25/36) |
| Fisher's exact test for biased strand distribution p-value = 3.33e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACTGGATATGGGGTTGCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTATTTTTTTGCGCTGCC > W3110S.gb/1084879‑1085017
|
aaCTGGATATGGGGTTGCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACaagaa < 1:3654653/71‑1 (MQ=255)
tGGATATGGGGTTGCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAGAAAgg > 1:937130/1‑71 (MQ=255)
gATATGGGGTTGCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCt > 1:2661563/1‑71 (MQ=255)
atatGGGGTTGCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTc < 1:1593293/71‑1 (MQ=255)
tGGGGTTGCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCaa < 1:65278/70‑1 (MQ=255)
tGGGGTTGCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCaa < 1:2990540/70‑1 (MQ=255)
tGGGGTTGCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGCCTTCCTGACAGTACAAAAAAGGCTCaa < 1:1059031/70‑1 (MQ=255)
gggTTGCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATgg > 1:2777977/1‑71 (MQ=255)
gTTGCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAGAAAGGCTCAATGGCg < 1:4269882/71‑1 (MQ=255)
gTTGCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATgg < 1:984535/69‑1 (MQ=255)
ttGCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGa < 1:829003/71‑1 (MQ=255)
gCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCa < 1:4569540/62‑1 (MQ=255)
gCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAg > 1:4242193/1‑71 (MQ=255)
cTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAg < 1:2397154/70‑1 (MQ=255)
tttGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAGAAAGGCTCAATGGCGAAGCGCt > 1:131689/1‑71 (MQ=255)
tttGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAGAAAGGCTCAATGGCGAAGCGCt > 1:126232/1‑71 (MQ=255)
tGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCaa < 1:377674/57‑1 (MQ=255)
tGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTg < 1:4490666/70‑1 (MQ=255)
tGCTACTAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGa < 1:471958/59‑1 (MQ=255)
cTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAGAAAGGCTCAATGGCGAAGCGCTggagg < 1:3236191/68‑1 (MQ=255)
cTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTggagg < 1:2761229/68‑1 (MQ=255)
aCCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCt < 1:4436206/61‑1 (MQ=255)
ccAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTggagga < 1:1788317/66‑1 (MQ=255)
cAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAAt > 1:3513839/1‑48 (MQ=255)
aaCACGATCTGGAAAAAGGCTTCCTGACAGTACAAGAAAGGCTCaa < 1:2757156/46‑1 (MQ=255)
aaCACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAAt > 1:3108996/1‑66 (MQ=255)
aaCACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGt > 1:1069250/1‑70 (MQ=255)
acacGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTa < 1:544160/71‑1 (MQ=255)
acacGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTa < 1:1943799/71‑1 (MQ=255)
cacGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCaa > 1:1838233/1‑44 (MQ=255)
cacGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGc > 1:1181408/1‑48 (MQ=255)
cacGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAgcgc > 1:1395145/1‑55 (MQ=255)
acGATCTGGAAAAAGGCTTCCTGACAGTACAAGAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTaaa > 1:1255810/1‑71 (MQ=255)
acGATCTGGAAAAAGGCTTCCTGACAGTACAAGAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTaa < 1:2445810/70‑1 (MQ=255)
acGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTa > 1:114428/1‑69 (MQ=255)
acGATCTGGAAAAAGGCTT‑CTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAAc > 1:2863833/1‑71 (MQ=255)
gATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTg < 1:4241157/54‑1 (MQ=255)
aTCTGGAAAAAGGCTTCCTGAGAGTACAAAAAAGGCTCATTGGCGAAGCGCTGGAGGATTACGTTa < 1:2137030/66‑1 (MQ=255)
tCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAAt < 1:3906274/59‑1 (MQ=255)
cTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTAt > 1:4451036/1‑71 (MQ=255)
tGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTaaa > 1:2641198/1‑65 (MQ=255)
gAAAAAGGCTTCCTGACAGTACAAGAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTa < 1:1540731/67‑1 (MQ=255)
gAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATcg > 1:2568974/1‑70 (MQ=255)
aaaaGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGaa > 1:347318/1‑52 (MQ=255)
aaaaGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTa < 1:1720367/65‑1 (MQ=255)
aaaGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATcggcgg < 1:1604097/71‑1 (MQ=255)
aaGGCTTCCTGACAGTACAAGAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATcggcggc > 1:1797906/1‑71 (MQ=255)
aaGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATcggcggc < 1:1243135/71‑1 (MQ=255)
cTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGtt < 1:484371/71‑1 (MQ=255)
ccTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTAt < 1:388968/70‑1 (MQ=255)
cTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTggag > 1:3647015/1‑39 (MQ=255)
cTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTggag > 1:3763901/1‑39 (MQ=255)
cTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTAttt < 1:1398116/71‑1 (MQ=255)
aCAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTAttttt < 1:1308979/70‑1 (MQ=255)
aCAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTAttttt < 1:2294638/70‑1 (MQ=255)
aGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTATTTTTTTg < 1:3197758/71‑1 (MQ=255)
gTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCt < 1:3210383/48‑1 (MQ=255)
tACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGt < 1:1501791/40‑1 (MQ=255)
tACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTAttttt > 1:1015990/1‑66 (MQ=255)
tACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTAttttt < 1:1276462/66‑1 (MQ=255)
aCAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTAttttt > 1:935121/1‑65 (MQ=255)
cAAGAAAGGCTCAATGGCGAAGCGCTGGAGGAATAc > 1:4252626/1‑36 (MQ=255)
aaaaaGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTa > 1:3597580/1‑44 (MQ=255)
aaaaaGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTATTTTTTTGCGCTGc > 1:94012/1‑71 (MQ=255)
aaaaGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGt > 1:2548444/1‑54 (MQ=255)
aaaaGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTAttttttttg > 1:3962789/1‑63 (MQ=255)
aaaaGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTATTTTTTTGCGCTg > 1:68869/1‑69 (MQ=255)
aaaaGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTATTTTTTTGCGCTGcc > 1:3187712/1‑71 (MQ=255)
|
AACTGGATATGGGGTTGCTGTTTGTCTGCTACCAACACGATCTGGAAAAAGGCTTCCTGACAGTACAAAAAAGGCTCAATGGCGAAGCGCTGGAGGAATACGTTAAACCTATCGGCGGCGGTTATTTTTTTGCGCTGCC > W3110S.gb/1084879‑1085017
|
| 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
