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 F8 I0 R2
|
53 |
71.6 |
5374071 |
98.5% |
5293459 |
62.4 |
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%
| 271.4
/ NA
| 77 | V130A (GTA→GCA) | ycdT | predicted diguanylate cyclase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (46/31); total (46/31) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GTCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGTATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTG > W3110S.gb/1093619‑1093752
|
gtCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCAtt > 1:4109603/1‑71 (MQ=255)
cAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGt > 1:550927/1‑71 (MQ=255)
aaaaTGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGt > 1:207670/1‑70 (MQ=255)
aaaTGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTg > 1:4212671/1‑70 (MQ=255)
aaaTGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTg > 1:4814382/1‑70 (MQ=255)
aaTGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGaa > 1:2072727/1‑71 (MQ=255)
aTGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCAt < 1:2484347/63‑1 (MQ=255)
aCATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATaa < 1:3436679/70‑1 (MQ=255)
cATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAg > 1:2163140/1‑71 (MQ=255)
cATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAg < 1:1557459/71‑1 (MQ=255)
aTTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATa < 1:1187973/67‑1 (MQ=255)
tGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAg > 1:2918751/1‑68 (MQ=255)
tGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGt > 1:2168602/1‑69 (MQ=255)
cAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGt < 1:4379949/71‑1 (MQ=255)
aaTCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAg > 1:2495695/1‑65 (MQ=255)
aaTCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGt > 1:1319076/1‑70 (MQ=255)
aaTCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTg < 1:3823977/71‑1 (MQ=255)
tCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGa < 1:1789639/57‑1 (MQ=255)
tCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGa > 1:3351010/1‑70 (MQ=255)
ttattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaa < 1:1526261/68‑1 (MQ=255)
ttattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaa < 1:2645627/68‑1 (MQ=255)
ttattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:5165647/67‑1 (MQ=255)
ttattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:3644436/67‑1 (MQ=255)
ttattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:4433199/67‑1 (MQ=255)
ttattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGATAGTGaa < 1:4700445/67‑1 (MQ=255)
tattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaa < 1:1383050/67‑1 (MQ=255)
tattTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAaca > 1:5040219/1‑70 (MQ=255)
attTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaaa > 1:5017723/1‑67 (MQ=255)
attTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAaca > 1:3032077/1‑69 (MQ=255)
ttGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:430497/63‑1 (MQ=255)
gTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaa > 1:954102/1‑62 (MQ=255)
tttCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACa < 1:808128/71‑1 (MQ=255)
ttCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATaaa > 1:3348679/1‑50 (MQ=255)
ttCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAacac > 1:3917418/1‑64 (MQ=255)
ttCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAAcaca > 1:946997/1‑65 (MQ=255)
ttCGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaaaa > 1:1253466/1‑68 (MQ=255)
cGTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGtt < 1:1410476/51‑1 (MQ=255)
gTCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAAc > 1:4911814/1‑66 (MQ=255)
tCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:3848374/55‑1 (MQ=255)
tCAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCa < 1:296648/71‑1 (MQ=255)
cAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGaa > 1:997009/1‑41 (MQ=255)
cAGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAAc < 1:3212457/64‑1 (MQ=255)
aGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGtt > 1:1288027/1‑47 (MQ=255)
aGATGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGtt > 1:4800258/1‑47 (MQ=255)
aTGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAatt > 1:5199593/1‑70 (MQ=255)
tGAGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAattta > 1:3398243/1‑71 (MQ=255)
aGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAatttat < 1:4663161/70‑1 (MQ=255)
aGTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAatttat < 1:2663816/70‑1 (MQ=255)
gTTTGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAatttattt < 1:2606096/71‑1 (MQ=255)
tttGTGCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTAtttt > 1:211701/1‑71 (MQ=255)
tgtgCATATTAATATTTCTGGCATTGGTGAATAAAGTGAGTGAAAACACAAAACAGCGCAat > 1:3556327/1‑62 (MQ=255)
tgtgCATATTAATATTACTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTc > 1:5175995/1‑70 (MQ=255)
tgCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCa < 1:944927/70‑1 (MQ=255)
tgCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCa > 1:663936/1‑70 (MQ=255)
gCATATTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAgc > 1:1404745/1‑54 (MQ=255)
atatTAATATTTCTGGCATTGGTGAATAAAGTTAGTGaa < 1:4737986/39‑1 (MQ=255)
tatTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCaaaaaa < 1:4827688/71‑1 (MQ=255)
tatTAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCaaaaa > 1:1279066/1‑70 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAattta < 1:3014826/57‑1 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCaaaaaaa < 1:3723756/70‑1 (MQ=255)
ttAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAAt > 1:4366049/1‑71 (MQ=255)
tAATATTTCTGGCATTGGTGAATAAAGTTAGTGaaaa > 1:3134821/1‑37 (MQ=255)
tAATATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACaaaa > 1:2336974/1‑44 (MQ=255)
aaTATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACa > 1:2483560/1‑45 (MQ=255)
aaTATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTc > 1:804064/1‑60 (MQ=255)
aaTATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGa > 1:2227304/1‑71 (MQ=255)
aaTATTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGa > 1:4387792/1‑71 (MQ=255)
tatTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAatttat > 1:915130/1‑54 (MQ=255)
tatTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAatttat > 1:1071080/1‑54 (MQ=255)
tatTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTAtttt > 1:5009292/1‑57 (MQ=255)
atTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAatttatt > 1:3640593/1‑54 (MQ=255)
atTTCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACtt > 1:2198743/1‑71 (MQ=255)
tttCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACttt < 1:1857936/71‑1 (MQ=255)
tttCTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACttt > 1:5041190/1‑71 (MQ=255)
cTGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTtgt < 1:812121/70‑1 (MQ=255)
tGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTc < 1:3867220/52‑1 (MQ=255)
tGGCATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTtgtg > 1:544916/1‑70 (MQ=255)
|
GTCCAAAATGACATTGCAATCTATTATTTGTTTCGTCAGATGAGTTTGTGCATATTAATATTTCTGGTATTGGTGAATAAAGTTAGTGAAAACACAAAACAGCGCAATTTATTTTCCAAAAAAATGACTTTGTG > W3110S.gb/1093619‑1093752
|
| 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
