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 |
|
A27 F1 I1 R1
|
17 |
37.2 |
2333115 |
96.5% |
2251455 |
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 | 95.0%
| 142.1
/ 1.0
| 41 | 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 . (2/0); new base T (16/22); total (19/22) |
| Fisher's exact test for biased strand distribution p-value = 1.96e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.79e-01 |
AGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875552‑3875695
|
aGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t > 2:128346/1‑76 (MQ=255)
attattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑tttt > 1:795037/1‑76 (MQ=255)
tattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑tttttt > 1:710433/1‑76 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑ttttttt < 2:542858/76‑2 (MQ=255)
cATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGt > 1:80506/1‑76 (MQ=255)
tACGCGTCCTGAATGTAATTTGAGAACGAATTNAAACCGCTNCACCTTGAAAAAACTACA‑TNTTTTTTCATCGTGa > 2:962124/1‑76 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGaa > 1:682587/1‑76 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATgg > 2:140873/1‑76 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGAc > 2:630376/1‑76 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGAc < 1:585352/76‑1 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGAc < 1:574023/76‑1 (MQ=255)
cTGACTGTAATTAGAGAACGAATTTAAACCGCNTCGCCTTGNAAAAACTACATT‑TTTTTTCNTCGTGAAATGGACa > 2:966348/1‑76 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACag < 1:457254/76‑1 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACag < 2:757687/76‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACaga > 2:607255/1‑76 (MQ=255)
aCTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACagag < 2:420303/76‑1 (MQ=255)
cTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAgg < 1:834719/76‑1 (MQ=255)
cTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAgg > 1:463317/1‑76 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGa < 2:709889/76‑1 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGAt > 1:194466/1‑76 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGTAATGGACAGAGGATa < 1:1042243/76‑1 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATaa > 2:451680/1‑76 (MQ=255)
tttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAAt < 1:630376/76‑1 (MQ=255)
ctaagaACGAATTNAAACCGCTTCTCCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAAtt < 1:155364/73‑1 (MQ=255)
agaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGtt > 2:648760/1‑76 (MQ=255)
aaCGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCa < 2:636112/76‑1 (MQ=255)
aaCGAATTTAAACCGCTGCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGATAGAGGATAAATTGTTCa < 1:128346/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATa < 2:272371/76‑1 (MQ=255)
gAATTTAAACCGCNTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATa < 2:1063399/76‑1 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATaa < 2:279388/76‑1 (MQ=255)
ttAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACgg < 2:256087/76‑1 (MQ=255)
ccGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt > 1:980368/1‑76 (MQ=255)
cTTCACCTNGAAAAAACTACATT‑TTTTTTCATCGTGAAAAGGACAGAGGATAAATTGTTCAATAACGGATTATccc < 1:1019212/76‑1 (MQ=255)
ttCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc < 1:228735/76‑1 (MQ=255)
ttCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc > 1:832528/1‑76 (MQ=255)
ttCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc < 1:537652/76‑1 (MQ=255)
tCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 1:111114/1‑76 (MQ=255)
cTTGAAAAAACTACATT‑TTTTTTCATCGTGAGATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa < 1:194659/76‑1 (MQ=255)
cTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa > 1:514657/1‑76 (MQ=255)
ttGAAAACACTACATT‑TTTTTTCATCGTGTAATGGACAGAGGATAAATTGTTTAATAATGGATTATCCCCGCTGAc < 1:57540/76‑1 (MQ=255)
ttGAAAAAACTACA‑T‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg > 1:729957/1‑76 (MQ=255)
aaaaatCTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaa > 2:76363/1‑76 (MQ=255)
aaaaCTACACT‑TTTTTTCATCGTNAAATGNACAGAGGATAAATTNTTTAATCACGGATTATCCCCGCTGACGAAAg > 2:145169/1‑76 (MQ=255)
aaaCTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc < 2:200319/76‑1 (MQ=255)
cTACATT‑TTTTTTCATCGTGTAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGcc > 1:8587/1‑76 (MQ=255)
|
AGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875552‑3875695
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
