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 |
|
A2 F3 I0 R1
|
328 |
90.1 |
2317887 |
85.2% |
1974839 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,097,163 |
Δ2 bp |
100% |
coding (399‑400/1113 nt) |
ydiK → |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,097,163 | 0 | G | . | 100.0%
| 11.5
/ NA
| 4 | coding (399/1113 nt) | ydiK | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (0/4); total (0/4) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
| * | minE | 1,097,164 | 0 | G | . | 100.0%
| 11.5
/ NA
| 4 | coding (400/1113 nt) | ydiK | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base . (0/4); total (0/4) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
AAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGC > minE/1097128‑1097230
||
aaGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑‑GGGGGACGGCGATCATGGCGAAAGTCCGCCCt < 1:1648687/67‑1 (MQ=255)
aaGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑‑GGGGGACGGCGATCATGGCGAAAGTCCGCCCt < 1:1693937/67‑1 (MQ=255)
aaGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑‑GGGGGACGGCGATCATGGCGAAAGTCCGCCCt < 1:23778/67‑1 (MQ=255)
aGCTGTATGCAGGCTGGCACAACTTGCTGGATAT‑‑GGGGGACGGCGATCATGGCGAAAGTCCGCCCt < 1:1507177/66‑1 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTatat > 1:648626/1‑38 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATAtt > 1:1066275/1‑39 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGc > 1:1253491/1‑42 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGc > 1:1710935/1‑67 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGc > 1:626171/1‑67 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGc > 1:499159/1‑67 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGc > 1:34681/1‑67 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGc > 1:322442/1‑67 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGc > 1:2308382/1‑67 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGc > 1:2232513/1‑67 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGc > 1:1930747/1‑67 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGc > 1:1058119/1‑67 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGc > 1:1344857/1‑67 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGc > 1:1069931/1‑67 (MQ=255)
ggggggACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGc > 1:105907/1‑67 (MQ=255)
||
AAGCTGTATGCAGGCTGGCACAACTTGCTGGATATGGGGGGGACGGCGATCATGGCGAAAGTCCGCCCTTATATTGGCACCACCACCACCTGGTTCGTTGGGC > minE/1097128‑1097230
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
