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 |
|
A142 F1 I1 R1
|
21 |
42.6 |
2691336 |
96.3% |
2591756 |
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 | 97.6%
| 155.6
/ ‑5.6
| 43 | 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); major base T (29/12); minor base C (1/0); total (31/12) |
| 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 |
AGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGC > REL606/3875552‑3875694
|
aGCCTTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tt > 1:1247215/1‑76 (MQ=255)
ttattCCACATTCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tttttt > 1:1223714/1‑76 (MQ=255)
ttCAANACACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAANCTACA‑tttttt‑ttc > 2:1341544/1‑74 (MQ=255)
ttCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑tttttt‑ttc > 2:601287/1‑74 (MQ=255)
cATACGCGTCCTNACNGTAATTTGAGAACGAAGTNAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGt < 1:1086346/76‑1 (MQ=255)
cATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTATATTTTTTT‑TCATCGt > 1:1102036/1‑76 (MQ=255)
aTACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTg < 1:103819/76‑1 (MQ=255)
tACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGa < 2:1166165/76‑1 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGaa > 2:1148752/1‑76 (MQ=255)
cgcgTCCTGACTGTACTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGaaa > 1:122798/1‑76 (MQ=255)
cgcgTCCTGACTGTAATTTGACAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGaaa < 1:647802/76‑1 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATgg > 2:831647/1‑76 (MQ=255)
ccTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGAc > 1:914957/1‑76 (MQ=255)
aCTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACagag < 1:981964/76‑1 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGa > 1:301710/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGAt > 1:1038978/1‑76 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATaa > 1:407002/1‑76 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATaaa > 1:584594/1‑76 (MQ=255)
aTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATaaa > 1:842074/1‑76 (MQ=255)
ttGAGAACGAATTTACACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAAtt > 1:127038/1‑76 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAAtt > 1:628861/1‑76 (MQ=255)
gagaACGAATTTAAACCGCTTCACCTTNAAAAAACTACACTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGt > 1:1167924/1‑76 (MQ=255)
gagaACGAATTTAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGt > 2:690242/1‑76 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTNCA‑TTTTTTGTCTTCGTGAAATGGACAGAGGATAAATTGTTCAATAACg > 1:1181535/1‑76 (MQ=255)
ttAAACCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACgg > 1:157552/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt < 2:834700/76‑1 (MQ=255)
aCCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTa > 2:407249/1‑76 (MQ=255)
aCCGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTa < 1:941432/76‑1 (MQ=255)
ccGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTAt > 1:904652/1‑76 (MQ=255)
cGCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATc < 1:298206/76‑1 (MQ=255)
gCTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcc > 2:1043063/1‑76 (MQ=255)
cTTCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATccc > 1:783345/1‑76 (MQ=255)
ttCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc < 2:1106814/76‑1 (MQ=255)
ttCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATcccc > 2:863420/1‑76 (MQ=255)
tCACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 2:550346/1‑76 (MQ=255)
cACCTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGc > 1:837016/1‑76 (MQ=255)
cTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa > 1:823936/1‑76 (MQ=255)
cTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa > 2:174017/1‑76 (MQ=255)
cTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa > 1:422150/1‑76 (MQ=255)
cTTGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGa > 1:1109303/1‑76 (MQ=255)
ttGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGGTAAATTGTTCAATAACGGATTGTCCCCGCTGAc < 1:1228834/76‑1 (MQ=255)
ttGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc > 1:652706/1‑76 (MQ=255)
tGAAAAAACTACATTTTTTT‑TCATCGTGAAATGGACAGAGGCTAAATTGTTCAATAACGGATTATCCCCGCTGACg < 2:92634/76‑1 (MQ=255)
aaaaCTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAg > 1:815078/1‑76 (MQ=255)
aaaNTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc > 1:1208230/1‑76 (MQ=255)
aaCTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcg < 2:933049/76‑1 (MQ=255)
aCTACATTTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcgc > 1:500578/1‑76 (MQ=255)
|
AGCATTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑TTTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGC > REL606/3875552‑3875694
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ 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
