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 |
|
A6 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,484,894 |
T→C |
8.9% |
M316V (ATG→GTG) |
menF ← |
isochorismate synthase 2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,484,894 | 0 | T | C | 8.9%
| 186.3
/ 9.2
| 67 | M316V (ATG→GTG) | menF | isochorismate synthase 2 |
| Reads supporting (aligned to +/- strand): ref base T (24/37); new base C (4/2); total (28/39) |
| Fisher's exact test for biased strand distribution p-value = 2.27e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.74e-01 |
AACTGATGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGTATCGGCCTGTAATCGTTGA > minE/1484824‑1484961
|
aaCTGATGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCAt < 1:672867/71‑1 (MQ=255)
aaCTGATGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCAt < 1:1895515/71‑1 (MQ=255)
aCTGATGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCAtt > 1:897544/1‑71 (MQ=255)
aCTGATGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCAt < 1:3581774/70‑1 (MQ=255)
cTGATGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCAttt < 1:808499/71‑1 (MQ=255)
aTGTAAACAGATCACATCATCCTCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCAtttt < 1:1462030/69‑1 (MQ=255)
aTGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCAtttt < 1:2757203/69‑1 (MQ=255)
aTGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCAtttt < 1:1448201/69‑1 (MQ=255)
aTGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTac > 1:764038/1‑71 (MQ=255)
aTGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTac > 1:733399/1‑71 (MQ=255)
aTGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTac > 1:2979491/1‑71 (MQ=255)
aTGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTa < 1:3665677/70‑1 (MQ=255)
aTGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGAGGCGAAGATGCTGCAtttt < 1:3080508/69‑1 (MQ=255)
tGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTacg < 1:785080/71‑1 (MQ=255)
gTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTacg > 1:1679906/1‑70 (MQ=255)
gTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTacg > 1:263157/1‑70 (MQ=255)
aaCAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCAttt < 1:3051751/63‑1 (MQ=255)
aaCAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTacgcaga > 1:1226270/1‑71 (MQ=255)
cAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTacgcagacg < 1:695789/71‑1 (MQ=255)
cAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTac > 1:3469751/1‑64 (MQ=255)
cAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTac > 1:821182/1‑64 (MQ=255)
cAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTac > 1:2745422/1‑64 (MQ=255)
cAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTac > 1:2499814/1‑64 (MQ=255)
tCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGt < 1:1803752/71‑1 (MQ=255)
tCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCACTTTacgcagacgcag < 1:1919014/70‑1 (MQ=255)
cacaTCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGCCGCAGTa > 1:458836/1‑71 (MQ=255)
atcatcCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCt < 1:1143469/71‑1 (MQ=255)
atcatcCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCt < 1:1308160/71‑1 (MQ=255)
tcCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTgcgg < 1:2505282/71‑1 (MQ=255)
tcCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTgcgg < 1:1871909/71‑1 (MQ=255)
tcCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTgcgg < 1:3046337/71‑1 (MQ=255)
gttgAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTaaa < 1:1640190/70‑1 (MQ=255)
ttgAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTaaaa < 1:2440728/70‑1 (MQ=255)
ttgAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTaaaa < 1:2496865/70‑1 (MQ=255)
ttgAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTaaaa < 1:40118/70‑1 (MQ=255)
ttgAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAAc < 1:1619856/71‑1 (MQ=255)
ttgAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAAc < 1:623734/71‑1 (MQ=255)
ttgAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAAc < 1:3535883/71‑1 (MQ=255)
ttgAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAAc < 1:2843561/71‑1 (MQ=255)
tgAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACa > 1:3136979/1‑71 (MQ=255)
tgAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCACTTTACGCAGACGCAGTACCTGCGGCGGTAAAACa > 1:524159/1‑71 (MQ=255)
gAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTa > 1:3490981/1‑40 (MQ=255)
gAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTgc < 1:1875674/58‑1 (MQ=255)
gAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCACTTTacgcagacgcag < 1:2867992/51‑1 (MQ=255)
aGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACAt < 1:210053/70‑1 (MQ=255)
aGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACAt < 1:2818457/70‑1 (MQ=255)
tGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCa < 1:1649358/71‑1 (MQ=255)
gAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTgcgg > 1:436384/1‑56 (MQ=255)
gAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTgcgg > 1:1742661/1‑56 (MQ=255)
gAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAg > 1:2099186/1‑71 (MQ=255)
aaGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTaa < 1:2072095/61‑1 (MQ=255)
aaGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAg < 1:2673456/70‑1 (MQ=255)
aaGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAg < 1:103333/70‑1 (MQ=255)
tCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTc < 1:3362574/71‑1 (MQ=255)
ccAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCt > 1:3633208/1‑71 (MQ=255)
cAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCt < 1:3565508/70‑1 (MQ=255)
cAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCt < 1:814115/70‑1 (MQ=255)
aTACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTggg > 1:1780123/1‑70 (MQ=255)
aTACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTggg > 1:1311442/1‑70 (MQ=255)
aTACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGt < 1:3439938/71‑1 (MQ=255)
aCAGCGGCGAAGCTGCTGCATTTTACGAAGCCGCAGTACCTgc > 1:943043/1‑43 (MQ=37)
aCAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTggg > 1:1274529/1‑68 (MQ=255)
aGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGTATCg > 1:1390266/1‑71 (MQ=255)
gcgAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGTATCGGcc < 1:2570148/70‑1 (MQ=255)
gcgAAGATGCTGCATTTTACGCAGACGCAGTACCAgcgg < 1:998742/39‑1 (MQ=255)
gAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGTATCGGCCTg < 1:2802601/70‑1 (MQ=255)
gAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGTATCGGCCTGt < 1:658150/71‑1 (MQ=255)
gAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGTATCGGCCTGt < 1:2646405/71‑1 (MQ=255)
aGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGTATCGGCCTGTaa > 1:1249313/1‑71 (MQ=255)
aGATGCTGCACTTTACGCAGACGCAGTACCTGCGGCGGTaa > 1:711608/1‑41 (MQ=255)
aGATGCTGCACTTTACGCAGACGCAGTACCTGCGGCGGTaa > 1:715942/1‑41 (MQ=255)
aGATGCTGCACTTTACGCAGACGCAGTACCTGCGGCGGTa > 1:76419/1‑40 (MQ=255)
tgctgcATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGTATCGGCCTGTAATCg < 1:2454933/71‑1 (MQ=255)
tgctgcATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGTATCGGCCTGTAATCg < 1:1726280/71‑1 (MQ=255)
ctgcATTTTACGCAGACGCAGTACCTGCGGCGGTaaa > 1:2280043/1‑37 (MQ=255)
ctgcATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGTATCGGCCTGTAATCGtt < 1:2683127/71‑1 (MQ=255)
tgcATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGTATCGGCCTg < 1:227048/62‑1 (MQ=255)
ttttACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGTATCGGCCTGTAATCGTTGa > 1:196974/1‑68 (MQ=255)
|
AACTGATGTAAACAGATCACATCATCCGCTTTGTTGAGTGAAGTCCAGATACAGCGGCGAAGATGCTGCATTTTACGCAGACGCAGTACCTGCGGCGGTAAAACATCCAGCGTCTGGGTATCGGCCTGTAATCGTTGA > minE/1484824‑1484961
|
| 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
