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 I1 R1
|
20 |
51.0 |
3438118 |
91.8% |
3156192 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,875,632 |
(T)7→8 |
intergenic (‑66/+287) |
glmU ← / ← atpC |
bifunctional N‑acetylglucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyltransferase/F0F1 ATP synthase subunit epsilon |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,875,625 | 1 | . | T | 93.9%
| 169.7
/ 5.5
| 49 | intergenic (‑59/+294) | glmU/atpC | bifunctional N‑acetylglucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyltransferase/F0F1 ATP synthase subunit epsilon |
| Reads supporting (aligned to +/- strand): ref base . (3/0); new base T (21/25); total (24/25) |
| Fisher's exact test for biased strand distribution p-value = 1.10e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.25e-01 |
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCCAT > REL606/3875550‑3875697
|
aTAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACa < 1:535194/76‑1 (MQ=255)
aGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑tt > 2:1478227/1‑76 (MQ=255)
gCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACTGCTTCACCTTGAAAAAACTACA‑‑ttt < 1:178140/76‑1 (MQ=255)
gCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑ttt < 1:1122353/76‑1 (MQ=255)
gCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑ttt > 2:1104086/1‑76 (MQ=255)
tattCAACATACGCGTCCTGACTGTAANTTGAGAACAAAATTAAACCGCTTCACCTTGAAAAAACTACA‑‑ttttt‑tt > 1:1501057/1‑76 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑ttttt‑ttt > 1:422228/1‑75 (MQ=255)
tCAACTGACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTGCA‑‑ttttt‑tttca < 2:75380/76‑4 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑ttttt‑tttca > 1:489892/1‑73 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTg > 1:285381/1‑76 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGaa < 1:484158/76‑1 (MQ=255)
cgcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGaaa > 1:303012/1‑76 (MQ=255)
cgcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGaaa > 1:1095834/1‑76 (MQ=255)
cgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATg < 1:176936/76‑1 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATgg > 1:1265923/1‑76 (MQ=255)
gTCCTGACNGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATgg > 1:1645381/1‑76 (MQ=255)
tCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGa < 1:321087/76‑1 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGAc < 1:1062615/76‑1 (MQ=255)
ccTGACTGTAAATTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGAc > 1:1570056/1‑76 (MQ=255)
ccTGACTGTAAATTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGAc > 1:1570052/1‑76 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGNCag < 1:1533730/76‑1 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACag < 1:602506/76‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACaga > 2:1430533/1‑76 (MQ=255)
aCTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACagag > 2:1235950/1‑76 (MQ=255)
cTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAgg > 2:792868/1‑76 (MQ=255)
cTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAgg < 1:1410298/76‑1 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGAt < 1:421332/76‑1 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGAt < 2:940627/76‑1 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGAt < 2:207395/76‑1 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGAt > 1:1325192/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGAt < 1:623223/76‑1 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATa < 2:523277/76‑1 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAAtt < 1:1216676/76‑1 (MQ=255)
gagaACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGt > 1:847485/1‑76 (MQ=255)
gaACGAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTc < 2:1244214/76‑1 (MQ=255)
aaCGAATTNAAAACGCTTCACCTTCAAGAAACTTCAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCa < 2:276471/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATa > 1:1234495/1‑76 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACg < 1:1429018/76‑1 (MQ=255)
aaaCCGCTTCNCCGTGAAAAANCTACA‑‑TTTTT‑TTACATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 2:1688475/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 2:228224/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 2:1471859/1‑76 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 1:679221/76‑1 (MQ=255)
aaCCGCTTCACCGTGAAAAAACTTCAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAANTTGTTCAATAACGGAtt < 1:218475/76‑1 (MQ=255)
aCCGCTTCCCCTTGAAAAAACTACATTTTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 1:379572/76‑1 (MQ=255)
aCCGCTTCACCTTGAAAAAACNACN‑‑TTTTT‑TTACATCGTGAAATGGNCAGAGGANANATTGTTCAATAACGGATTa > 2:247556/1‑76 (MQ=255)
ccGCTTCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt > 2:473309/1‑76 (MQ=255)
ttCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAACTGGACAGAGGATAAATTGTTCAATAAGGCATTATcccc < 1:89727/76‑1 (MQ=255)
tCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 1:679404/1‑76 (MQ=255)
tCACCTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 1:604142/1‑76 (MQ=255)
tCACCGTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 1:104376/1‑76 (MQ=255)
aCCTTCAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGTATTATCCCCGCt < 2:71156/76‑1 (MQ=255)
cTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa < 2:1621295/76‑1 (MQ=255)
cTTGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa < 2:850424/76‑1 (MQ=255)
ttGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc > 2:456805/1‑76 (MQ=255)
ttGAAAAAACTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc < 1:361135/76‑1 (MQ=255)
aaaaaCTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCTCGCTGACGaaa < 1:99798/76‑1 (MQ=255)
tcTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAACCCCGCTGACGAAAgcgc > 2:1609018/2‑76 (MQ=255)
cTACAT‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTCACGAAAGCGcc < 1:47035/76‑1 (MQ=255)
aCA‑‑TTTTNGTT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCCAt > 2:1383226/1‑76 (MQ=255)
|
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑‑TTTTT‑TT‑CATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCCAT > REL606/3875550‑3875697
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
