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 |
|
A5 F1 I0 R1
|
44 |
27.8 |
2109400 |
97.8% |
2062993 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,093,686 |
T→C |
100% |
V130A (GTA→GCA) |
ycdT → |
predicted diguanylate cyclase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,093,686 | 0 | T | C | 100.0%
| 57.9
/ NA
| 18 | V130A (GTA→GCA) | ycdT | predicted diguanylate cyclase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (6/12); total (6/12) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GTCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGTATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAA > W3110S.gb/1093619‑1093742
|
gtCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCAt < 1:999435/70‑1 (MQ=255)
aaaTGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTg > 1:1776239/1‑70 (MQ=255)
aTTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGt < 1:184695/71‑1 (MQ=255)
aaTCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATaaa > 1:1110878/1‑64 (MQ=255)
attattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGt > 1:1359104/1‑52 (MQ=255)
ttattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaaa < 1:1431377/69‑1 (MQ=255)
attTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAacac > 1:2025369/1‑70 (MQ=255)
tttGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGt > 1:299457/1‑61 (MQ=255)
tttCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAAc < 1:2012299/70‑1 (MQ=255)
ttCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAg < 1:1098334/55‑1 (MQ=255)
aGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCaa < 1:1745271/70‑1 (MQ=255)
gAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaaaa > 1:385930/1‑58 (MQ=255)
aGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAatttatt < 1:1683594/71‑1 (MQ=255)
gCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaa < 1:352004/42‑1 (MQ=255)
cATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCaaa < 1:1585884/70‑1 (MQ=255)
cATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCaaa < 1:1462660/70‑1 (MQ=255)
tatTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCaaaaaa < 1:1112386/71‑1 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCaaaaaaa < 1:103764/70‑1 (MQ=255)
|
GTCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGTATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAA > W3110S.gb/1093619‑1093742
|
| 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
