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 |
|
A32 F1 I1 R1
|
13 |
41.3 |
2638873 |
95.5% |
2520123 |
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 | 96.9%
| 111.7
/ ‑2.1
| 32 | 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 (16/15); total (17/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.17e-01 |
TTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875556‑3875695
|
ttattCAACATACGCGTCCTGACTGTAATTTCAGAACGAANNTAAACCGCTTNNCCTTGAAAAAACTACA‑t‑ttttt > 1:1182521/1‑76 (MQ=255)
ttattCAACATACGCGTCCTGACTGCAATTTTAGAACGATNNTAAACCGCTTNNCATTGAAAAAACTACA‑t‑ttttt > 1:1182512/1‑76 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑ttttt‑ttca > 1:641651/1‑73 (MQ=255)
tCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑t‑ttttt‑ttca < 2:1170713/76‑4 (MQ=255)
aCATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCg < 1:293429/76‑1 (MQ=255)
cATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGt > 2:1033941/1‑76 (MQ=255)
aCGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGaa < 1:451247/76‑1 (MQ=255)
gcgTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAAt < 1:102169/76‑1 (MQ=255)
gTCCTGACTNTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATgg > 1:31073/1‑76 (MQ=255)
gTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATgg > 1:1117396/1‑76 (MQ=255)
tGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACag < 1:430169/76‑1 (MQ=255)
gACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACaga > 2:1297888/1‑76 (MQ=255)
tGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGa > 1:867926/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGAt > 2:424121/1‑76 (MQ=255)
gTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGAt < 2:642713/76‑1 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATa > 1:986008/1‑76 (MQ=255)
tAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATa > 1:985993/1‑76 (MQ=255)
aaTTTGAGAACGGATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATaa < 1:393325/76‑1 (MQ=255)
aaTTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATaa > 1:182350/1‑76 (MQ=255)
ttGAGAACTAATTAAAACCACTTCCAGTAGAAAAAACTTCA‑T‑TTTTTATAAATATAAAATGGACAGAGGATAAAtt < 2:533938/76‑1 (MQ=255)
ttGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATAAAtt < 2:533930/76‑1 (MQ=255)
tGAGAACGAATTTAAACAGCTNCACCTNGAAAAAACTACA‑TGTTTTT‑TNATCCTGAAATGAAACACGGATAAATTg > 1:1276731/1‑76 (MQ=255)
aaCGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGNCAGAGGATAAATTGTTCa < 1:1250420/76‑1 (MQ=255)
cGAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAAt < 1:734799/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGNAATGGACAGAGGATAAATTGTTCAATa < 1:1314166/76‑1 (MQ=255)
gAATTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATa < 1:808118/76‑1 (MQ=255)
aTTTAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAAc < 1:612524/76‑1 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCNTGAAATGGACAGAGGATAAGTTGTTCAATAACg < 2:1112039/76‑1 (MQ=255)
tttAAACCGCTTCACCTTGAAAAAACTACA‑T‑TTTTTGTCATCGTGAAATGGACAGAGGATAAATTGTNCAATAACg > 1:1155796/1‑76 (MQ=255)
aaaCCGCTTCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGAt > 2:866274/1‑76 (MQ=255)
tCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 1:930813/1‑76 (MQ=255)
tCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 2:465988/1‑76 (MQ=255)
tCACCTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCg > 2:744118/1‑76 (MQ=255)
ccTTGAAAAAACTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTg < 1:290096/76‑1 (MQ=255)
ttGAAAAAACTACATT‑TTTTT‑TCATCGTCAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGAc > 2:672611/1‑76 (MQ=255)
aaaCTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgc > 2:689666/1‑76 (MQ=255)
aaCTACATT‑TTTTT‑TCATCGTGAGATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAgcg < 1:1125060/76‑1 (MQ=255)
cTACATT‑TTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGcc > 1:189777/1‑76 (MQ=255)
|
TTATTCAACATACGCGTCCTGACTGTAATTTGAGAACGAATTTAAACCGCTTCACCTTGAAAAAACTACA‑T‑TTTTT‑TCATCGTGAAATGGACAGAGGATAAATTGTTCAATAACGGATTATCCCCGCTGACGAAAGCGCC > REL606/3875556‑3875695
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ 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
