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 |
|
A65 F1 I1 R1
|
19 |
67.5 |
4307580 |
97.2% |
4186967 |
74.9 |
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 | 97.6%
| 160.7
/ ‑3.5
| 42 | 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 . (0/1); new base T (18/23); total (18/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
TAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCG > REL606/3875551‑3875693
|
tAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACa < 1:247999/75‑1 (MQ=255)
tAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACa < 1:1308110/75‑1 (MQ=255)
tAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACa > 1:1530061/1‑75 (MQ=255)
gCATTATTTAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tt > 1:1592606/1‑75 (MQ=255)
gCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tt > 1:1592618/1‑75 (MQ=255)
cATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttt > 1:2071962/1‑75 (MQ=255)
ttattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttt‑tt > 1:2067381/1‑75 (MQ=255)
ttCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttt‑ttttt > 1:990556/1‑74 (MQ=255)
ttCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttt‑ttttt < 1:434809/75‑2 (MQ=255)
ttCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttt‑ttttt > 1:613805/1‑74 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑ttt‑tttttc < 2:1868850/75‑3 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGt > 1:278829/1‑75 (MQ=255)
gcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGaaa > 2:1192452/1‑75 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATg > 2:978149/1‑75 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATg < 2:1828996/75‑1 (MQ=255)
gTCCTGACTGTAATTCGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATg < 1:1240683/75‑1 (MQ=255)
tCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATgg < 1:1211587/75‑1 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGa < 1:1678376/75‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACag < 2:1889319/75‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACag < 2:600160/75‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACag > 1:965135/1‑75 (MQ=255)
aCTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACaga > 2:1464609/1‑75 (MQ=255)
cTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACagag < 2:1399217/75‑1 (MQ=255)
cTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACagag < 2:1399233/75‑1 (MQ=255)
cTGTAAGTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACagag < 2:807381/75‑1 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAgg < 1:1397268/75‑1 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGAt < 1:307935/75‑1 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATaa > 1:236881/1‑75 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATaa > 1:236876/1‑75 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATaa > 1:207223/1‑75 (MQ=255)
gagaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTg > 1:1860153/1‑75 (MQ=255)
gaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGtt > 1:259249/1‑75 (MQ=255)
gaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGtt > 2:731574/1‑75 (MQ=255)
aaTTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATa < 2:1530061/75‑1 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATaa < 1:460296/75‑1 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATaa < 1:1017849/75‑1 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAAc < 2:751931/75‑1 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa < 2:1898526/75‑1 (MQ=255)
aCCGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt > 2:687787/1‑75 (MQ=255)
ccGCTTCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTa < 2:2150659/75‑1 (MQ=255)
ttCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATccc > 2:1826089/1‑75 (MQ=255)
tCACCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc < 2:888178/75‑1 (MQ=255)
aCCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGATGATAAATTGTTCAATAACGGATTATCCCCGc > 1:1786222/1‑75 (MQ=255)
aCCTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGc < 2:743071/75‑1 (MQ=255)
aCCTTGAAAAAACTACA‑TTTCTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGc < 1:108106/75‑1 (MQ=255)
ccTTGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCt < 1:558836/75‑1 (MQ=255)
ttGAAAAAACTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa > 2:1490768/1‑75 (MQ=255)
aaaaaaCTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGa < 1:1648207/75‑1 (MQ=255)
aaaaaaCTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGa < 1:305825/75‑1 (MQ=255)
aaaaaaCTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGa < 2:1667292/75‑1 (MQ=255)
aaCTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc > 2:825003/1‑75 (MQ=255)
aCTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcg > 1:1545343/1‑75 (MQ=255)
aCTACATTTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcg > 1:1276423/1‑75 (MQ=255)
|
TAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTT‑TTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCG > REL606/3875551‑3875693
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
