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 |
|
A22 F1 I1 R1
|
17 |
44.7 |
2806446 |
96.5% |
2708220 |
76.0 |
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 | 97.1%
| 129.4
/ ‑2.8
| 35 | 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 . (1/0); new base T (20/14); total (21/14) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGC > REL606/3875550‑3875694
|
aTAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACa < 1:366780/76‑1 (MQ=255)
aGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGGATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑t < 2:1200637/76‑1 (MQ=255)
gCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑tt < 2:738893/76‑1 (MQ=255)
tattCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑tttttt < 2:398918/76‑1 (MQ=255)
attTAACATACGCGTCCTGACTGTAATTTTAGAACGAATTTAAAACGCTTCACCTTGAAAAAACTACA‑t‑ttttttt > 2:337239/1‑75 (MQ=255)
attCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑ttttttt > 2:602393/1‑75 (MQ=255)
ttCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑tttttttc < 1:684132/76‑3 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTg < 1:1374473/76‑1 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGaa > 1:752611/1‑76 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACNGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAANTgg > 2:1303468/1‑76 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGAc > 1:1135375/1‑76 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGAc > 1:279391/1‑76 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACag < 1:891578/76‑1 (MQ=255)
aCNGTAATTTGAGAACGAATTTAAAGCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGATagag < 2:1321627/76‑1 (MQ=255)
cTGTAATTTGAGAANGAATTTAAACCGCATCACCNTGAAACAANTACATT‑TTTTTTCATCGTGGAATGGACAGAgg < 2:1162491/76‑1 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGa < 1:369936/76‑1 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGa > 1:1114915/1‑76 (MQ=255)
aTTTGAGAACGAATTGAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATaaa < 2:47055/76‑1 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAAtt < 2:1119111/76‑1 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAAtt > 2:159778/1‑76 (MQ=255)
gagaACGAGTGTAAACNGATTCACCTTGAAGANACTACA‑TATTTTTTCATCGTGAAATGGACAGANGATAACntnt > 1:104384/1‑76 (MQ=255)
gagaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGt > 1:1100825/1‑76 (MQ=255)
aaCGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCa > 2:382144/1‑76 (MQ=255)
aCGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCaa < 1:799771/76‑1 (MQ=255)
cGAATTTAAACCGCTTCACCTTGAACAAACTCCATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAAt > 2:1130445/1‑76 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAAc < 2:1114915/76‑1 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAAc > 2:417394/1‑76 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAAc > 2:482883/1‑76 (MQ=255)
ttAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATTGTGAAATGGACAGAGGATAAATTGTTCAATAACgg > 2:1354022/1‑76 (MQ=255)
tAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGa > 2:938936/1‑76 (MQ=255)
aaCCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAtt < 1:894489/76‑1 (MQ=255)
aCCGCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTa < 1:1139284/76‑1 (MQ=255)
gCTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcc < 1:1366689/76‑1 (MQ=255)
cTTCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATccc < 1:403445/76‑1 (MQ=255)
ttCACCTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc > 1:66350/1‑76 (MQ=255)
ccTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTg > 1:1019495/1‑76 (MQ=255)
cTTGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGANTATCCCCGCTGa < 1:19313/76‑1 (MQ=255)
tGAAAAAACTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACg > 1:1170648/1‑76 (MQ=255)
aaaaaCTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGaaa > 2:779654/1‑76 (MQ=255)
aaaCTACATT‑TTTTTTCATCGTGAAATGGACANAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGANAgc > 2:1300075/1‑76 (MQ=255)
aaCTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcg > 1:625796/1‑76 (MQ=255)
aaCTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcg < 1:104845/76‑1 (MQ=255)
aCTACATT‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcgc > 1:985027/1‑76 (MQ=255)
|
ATAGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TTTTTTCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGC > REL606/3875550‑3875694
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ 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
