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 |
|
A59 F1 I1 R1
|
21 |
55.8 |
3542164 |
96.7% |
3425272 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,883,147 |
(A)5→4 |
intergenic (‑341/+276) |
atpI ← / ← gidB |
F0F1 ATP synthase subunit I/glucose‑inhibited division protein; b3740_1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,883,143 | 0 | A | . | 92.3%
| 218.2
/ 13.8
| 52 | intergenic (‑337/+280) | atpI/gidB | F0F1 ATP synthase subunit I/glucose‑inhibited division protein; b3740_1 |
| Reads supporting (aligned to +/- strand): ref base A (3/1); new base . (26/22); total (29/23) |
| Fisher's exact test for biased strand distribution p-value = 6.21e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.87e-01 |
TGCGCATGTTCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCTAAAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACATTTTTAATAATGT > REL606/3883070‑3883212
|
tGCGCATGTTCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCTaaa < 1:1547583/76‑1 (MQ=255)
tGCGCATGTTCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCTaaa < 1:1569436/76‑1 (MQ=255)
gcgcATGTTCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCTaaaa < 2:1080119/76‑1 (MQ=255)
gcgcATGTTCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCTaaaa < 2:868577/76‑1 (MQ=255)
cgcATGTTCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCTaaaac > 2:1155066/1‑75 (MQ=255)
gcATGTTCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCTaaaaca > 1:1415053/1‑74 (MQ=255)
cATGTTCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCTaaaacag < 1:1487637/76‑4 (MQ=255)
cATGTTCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCTaaaacag < 1:640394/76‑4 (MQ=255)
tGTTCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGAt > 2:450461/1‑76 (MQ=255)
gTTCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATa < 2:1539687/76‑1 (MQ=255)
gTTCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATa < 1:72450/76‑1 (MQ=255)
tCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACt > 2:145553/1‑76 (MQ=255)
cgcACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGtt > 1:1239404/1‑76 (MQ=255)
cacaGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGtttt < 2:1010796/76‑1 (MQ=255)
cacaGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGtttt < 2:1212080/76‑1 (MQ=255)
acaGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTta < 2:336389/76‑1 (MQ=255)
caGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTtaa < 2:152757/76‑1 (MQ=255)
aGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTtaat < 1:178931/76‑1 (MQ=255)
cATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCTAAAAACAGATACTGTTTtaata < 2:915993/76‑1 (MQ=255)
tatttagtTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAAt < 2:1097823/76‑1 (MQ=255)
tttaCTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACAtt < 2:665008/76‑1 (MQ=255)
ttaCTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACAttt < 1:571163/76‑1 (MQ=255)
ttaCTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACAttt > 1:1687005/1‑76 (MQ=255)
ttaCTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACAttt > 2:1032944/1‑76 (MQ=255)
tGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCTAAAAACAGATACTGTTTTAATAAATGACATTTacac > 2:316406/1‑76 (MQ=255)
tGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTAcaca > 1:1707466/1‑76 (MQ=255)
tGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTAcaca > 2:1180186/1‑76 (MQ=255)
gCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACacaac > 2:434528/1‑76 (MQ=255)
cAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACacaaca > 2:1728930/1‑76 (MQ=255)
cAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACacaaca > 2:960927/1‑76 (MQ=255)
aaTGATGCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACaaa < 1:1113453/76‑1 (MQ=255)
atgatgCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACaaaa < 2:1527101/76‑1 (MQ=255)
tgatgCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACaaaaa > 1:1047281/1‑76 (MQ=255)
tgatgCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACaaaaa < 2:546523/76‑1 (MQ=255)
atgCCTTTGCAAGTTTATGATATTTCAGTCTAAAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAac > 2:34089/1‑76 (MQ=255)
atgCCTTTGCAAGTTTATGATATTTCAGTCTAAAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAac > 2:34057/1‑76 (MQ=255)
atgCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAacc > 1:661246/1‑76 (MQ=255)
atgCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAacc < 1:698348/76‑1 (MQ=255)
gCCTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAaccac > 2:1671925/1‑76 (MQ=255)
ccTTTGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAaccacc > 1:1170920/1‑76 (MQ=255)
tttGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCa < 1:99860/76‑1 (MQ=255)
ttGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCAt > 1:1365291/1‑76 (MQ=255)
tGCAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCAtt > 1:760012/1‑76 (MQ=255)
cAAGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGa < 2:988549/76‑1 (MQ=255)
aGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACa > 1:83244/1‑76 (MQ=255)
aGTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACa < 2:946244/76‑1 (MQ=255)
gTTTATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACAt < 2:1447407/76‑1 (MQ=255)
tttATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACAtt > 2:567313/1‑76 (MQ=255)
tttATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACAtt > 2:82667/1‑76 (MQ=255)
ttATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACAttt > 2:609120/1‑76 (MQ=255)
ttATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACAttt > 1:1680401/1‑76 (MQ=255)
ttATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACAttt > 1:335989/1‑76 (MQ=255)
tATGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACAtttt > 2:723155/1‑76 (MQ=255)
aTGATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACAttttt < 1:1216381/76‑1 (MQ=255)
gATATTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACATTTTtaa < 2:1137478/76‑1 (MQ=255)
atatTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACATTTTtaat > 2:1640578/1‑76 (MQ=255)
tatTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACATTTTtaata > 1:175394/1‑76 (MQ=255)
tatTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACATTTTtaata < 2:768263/76‑1 (MQ=255)
tatTTCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACATTTTtaata > 2:101075/1‑76 (MQ=255)
tCAGTCT‑AAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACATTTTTAATAATGt < 2:63116/76‑1 (MQ=255)
|
TGCGCATGTTCGCGCACAGCATATTTATTTACTTGGCAAATGATGCCTTTGCAAGTTTATGATATTTCAGTCTAAAAACAGATACTGTTTTAATAAATGACATTTACACAACAAAAACCACCCATTGACATTTTTAATAATGT > REL606/3883070‑3883212
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
