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 |
|
A1 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,750,169 |
C→T |
12.0% |
T228M (ACG→ATG) |
yfjB → |
NAD kinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,750,169 | 0 | C | T | 12.0%
| 216.6
/ 16.0
| 75 | T228M (ACG→ATG) | yfjB | NAD kinase |
| Reads supporting (aligned to +/- strand): ref base C (32/34); new base T (6/3); total (38/37) |
| Fisher's exact test for biased strand distribution p-value = 4.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
TACCCTGGTGCCCATGTTCCCGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCAGATAGCACTGCC > W3110S.gb/2750104‑2750238
|
tACCCTGGTGCCCATGTTCCCGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATc > 1:1937118/1‑70 (MQ=255)
tGGTGCCCATGTTCCCGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCt > 1:662686/1‑70 (MQ=255)
cATGTTCCCGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCATGATCCGTCTGCGttttt > 1:1524916/1‑71 (MQ=255)
cATGTTCCCGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCATGATCCGTCTGCGtttt > 1:86778/1‑70 (MQ=255)
ttCCCGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGtttt > 1:696965/1‑66 (MQ=255)
ttCCCGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCa > 1:694885/1‑71 (MQ=255)
ttCCCGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCa > 1:582312/1‑71 (MQ=255)
ttCCCGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCa < 1:340570/71‑1 (MQ=255)
ttCCCGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCa > 1:525671/1‑71 (MQ=255)
ttCACGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCa > 1:1223029/1‑71 (MQ=255)
cccGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATc > 1:2407305/1‑71 (MQ=255)
cccGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATc > 1:2690074/1‑71 (MQ=255)
ccGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATcc < 1:1863691/52‑1 (MQ=255)
ccGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATcc < 1:2699566/52‑1 (MQ=255)
ccGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATcc < 1:2775465/52‑1 (MQ=255)
cGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGc < 1:713330/71‑1 (MQ=255)
gCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGcc < 1:1698359/71‑1 (MQ=255)
aTACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGt < 1:1560358/71‑1 (MQ=255)
aTACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGt < 1:704736/71‑1 (MQ=255)
aTACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGt < 1:193846/71‑1 (MQ=255)
aTACGTTGT‑AGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGt < 1:2638225/70‑1 (MQ=255)
tACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATcc < 1:1599222/47‑1 (MQ=255)
cGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCATGAt > 1:238343/1‑43 (MQ=255)
cGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGc > 1:1358218/1‑51 (MQ=255)
cGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAAc > 1:2430375/1‑71 (MQ=255)
cGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAAc > 1:2547942/1‑71 (MQ=255)
cGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAAc > 1:2558702/1‑71 (MQ=255)
gTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACg < 1:775696/68‑1 (MQ=255)
cAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGt < 1:2679687/62‑1 (MQ=255)
aGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTg > 1:2190214/1‑70 (MQ=255)
aGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTg > 1:1912529/1‑70 (MQ=255)
cACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGaa < 1:2235610/71‑1 (MQ=255)
cGACCACTGGTCATAAACAGCAGCAGCATTATCCGTCTGCGTTTTTCGCATCGCCGTAACGAc < 1:465833/63‑1 (MQ=255)
ccACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGttttt > 1:2428207/1‑43 (MQ=255)
cACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGt > 1:2570558/1‑71 (MQ=255)
cACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGt < 1:828562/71‑1 (MQ=255)
cACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGt < 1:2622022/71‑1 (MQ=255)
aCTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGtt < 1:2367800/71‑1 (MQ=255)
gTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGa > 1:2658512/1‑71 (MQ=255)
tCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAAt < 1:1044962/61‑1 (MQ=255)
tCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGc < 1:580020/68‑1 (MQ=255)
cATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGa > 1:2109776/1‑69 (MQ=255)
cATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGa > 1:271004/1‑69 (MQ=255)
cATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTAGCATCGCCGTAACGACCTGGAAATCAGTTGCGa > 1:1551506/1‑69 (MQ=255)
tAAACAGCAGCAGCATGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGa < 1:1490988/55‑1 (MQ=255)
tAAACAGCAGCAGCATGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGa < 1:2062752/55‑1 (MQ=255)
tAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATc < 1:2644903/59‑1 (MQ=255)
tAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATc < 1:537529/59‑1 (MQ=255)
aaCAGCAGCAGCATGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGc > 1:1010845/1‑69 (MQ=255)
aaCAGCAGCAGCATGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGc > 1:332301/1‑69 (MQ=255)
aaCAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGAc > 1:483977/1‑66 (MQ=255)
aaCAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGc > 1:428890/1‑69 (MQ=255)
aaCAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGc > 1:874582/1‑69 (MQ=255)
aaCAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGc > 1:2600873/1‑69 (MQ=255)
aaCAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGc > 1:1708228/1‑69 (MQ=255)
aaCAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGc > 1:2692757/1‑69 (MQ=255)
aaCAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGc > 1:2077020/1‑69 (MQ=255)
aaCAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCa < 1:1147556/71‑1 (MQ=255)
aaCAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCa < 1:17990/71‑1 (MQ=255)
aaCAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCa < 1:1442194/71‑1 (MQ=255)
aaCAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCa < 1:693277/71‑1 (MQ=255)
aaCAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGAGACAGc > 1:1352260/1‑69 (MQ=255)
aCAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGAc < 1:1352166/47‑1 (MQ=255)
cagcagcagCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCTACAGCCAGa < 1:1223776/71‑1 (MQ=255)
gcagcagcaTGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAg > 1:336616/1‑55 (MQ=255)
agcagcaCGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCAGATAGc < 1:1582093/71‑1 (MQ=255)
agcagcaCGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCAGATAGc < 1:1571723/71‑1 (MQ=255)
gcagcaCGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCa < 1:2332781/64‑1 (MQ=255)
gcagcaCGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCa < 1:582219/64‑1 (MQ=255)
agcaCGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCAGATAGCACt < 1:217171/71‑1 (MQ=255)
agcaCGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCAGATAGCACt > 1:415031/1‑71 (MQ=255)
gcaCGATCCGTCTGCGTTTTTAGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCAGATAGCa > 1:1380331/1‑68 (MQ=255)
caCGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGaaa > 1:375717/1‑44 (MQ=255)
aCGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCAGATAGCACTGcc < 1:2773405/71‑1 (MQ=255)
aCGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCAGATAGCACTGcc < 1:262556/71‑1 (MQ=255)
cGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCAGATAg < 1:1896603/63‑1 (MQ=255)
|
TACCCTGGTGCCCATGTTCCCGCATACGTTGTCAGCACGACCACTGGTCATAAACAGCAGCAGCACGATCCGTCTGCGTTTTTCGCATCGCCGTAACGACCTGGAAATCAGTTGCGACAGCCAGATAGCACTGCC > W3110S.gb/2750104‑2750238
|
| 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
