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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
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%
| 125.7
/ NA
| 37 | V130A (GTA→GCA) | ycdT | predicted diguanylate cyclase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (22/15); total (22/15) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGTATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTG > W3110S.gb/1093622‑1093750
|
cAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTg > 1:3623939/1‑69 (MQ=255)
cAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTg < 1:1819847/69‑1 (MQ=255)
gCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTg > 1:1561662/1‑60 (MQ=255)
gCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGtt > 1:198933/1‑69 (MQ=255)
cTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGt > 1:2115903/1‑63 (MQ=255)
cTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTg > 1:2008984/1‑68 (MQ=255)
tattatTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa > 1:506471/1‑69 (MQ=255)
attTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAac > 1:3599689/1‑68 (MQ=255)
attTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAac > 1:1899606/1‑68 (MQ=255)
tGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:2041386/69‑1 (MQ=255)
tGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:1735333/69‑1 (MQ=255)
gAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATaa > 1:285418/1‑39 (MQ=255)
gAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATaa > 1:2396962/1‑39 (MQ=255)
gAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATaa > 1:564595/1‑39 (MQ=255)
gAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAattt > 1:392303/1‑69 (MQ=255)
gCATATTAATATTTCTGGCATTGGTGAATAAAGtt < 1:1286146/35‑1 (MQ=255)
atTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCaaaaa < 1:1479014/69‑1 (MQ=255)
atTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCaaaaa < 1:1029143/69‑1 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaaa < 1:1322993/38‑1 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaaa < 1:1310312/38‑1 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa > 1:570551/1‑43 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa > 1:3557202/1‑43 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa > 1:2995078/1‑43 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa > 1:2128800/1‑43 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa > 1:2558648/1‑43 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCaaaaaa > 1:1675379/1‑69 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCaaaaaa > 1:491253/1‑69 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCaaaaaa > 1:1310417/1‑69 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCaaaaaa > 1:1302294/1‑69 (MQ=255)
atTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:3283674/38‑1 (MQ=255)
atTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:1938347/38‑1 (MQ=255)
atTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaa < 1:1412935/38‑1 (MQ=255)
tttCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGAGCAATTTATTTTCCAAAAAAATGACt > 1:540891/1‑69 (MQ=255)
tCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACttt < 1:2766753/69‑1 (MQ=255)
tCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACtt < 1:347889/68‑1 (MQ=255)
cTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACttt < 1:896943/68‑1 (MQ=255)
tGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTtg < 1:2527025/68‑1 (MQ=255)
|
CAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGTATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTG > W3110S.gb/1093622‑1093750
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
