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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,737,305 |
G→A |
47.4% |
L231L (CTG→TTG) |
lepB ← |
leader peptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,737,305 | 0 | G | A | 47.4%
| 5.5
/ 66.9
| 78 | L231L (CTG→TTG) | lepB | leader peptidase |
| Reads supporting (aligned to +/- strand): ref base G (17/24); new base A (21/16); total (38/40) |
| Fisher's exact test for biased strand distribution p-value = 2.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.12e-01 |
ATACATCCCCACCTGATCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCGG > minE/1737243‑1737359
|
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:2495385/1‑69 (MQ=255)
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:385233/1‑69 (MQ=255)
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:1782817/1‑69 (MQ=255)
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:3120121/1‑69 (MQ=255)
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:3024292/1‑69 (MQ=255)
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:1637313/1‑69 (MQ=255)
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:1616610/1‑69 (MQ=255)
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:735801/1‑69 (MQ=255)
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:1573570/1‑69 (MQ=255)
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:2815860/1‑69 (MQ=255)
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:445390/1‑69 (MQ=255)
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:615513/1‑69 (MQ=255)
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:250913/1‑69 (MQ=255)
aTACATCCCCACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGtctc > 1:1104774/1‑69 (MQ=255)
aTACATCCCCACCTGATCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAGTGtctc > 1:347521/1‑69 (MQ=255)
aTACATCCCCACCTGATCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAGTGtctc > 1:1983900/1‑69 (MQ=255)
aTACATCCCCACCTGATCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAGTGtctc > 1:3184844/1‑69 (MQ=255)
aTACATCCCCACCTGATCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAGTGtctc > 1:290297/1‑69 (MQ=255)
ccccACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTAc > 1:379492/1‑68 (MQ=255)
ccccACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACg > 1:1668875/1‑69 (MQ=255)
ccccACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACg > 1:924429/1‑69 (MQ=255)
ccccACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACg > 1:346798/1‑69 (MQ=255)
ccccACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACg > 1:1248670/1‑69 (MQ=255)
ccccACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACg > 1:2378971/1‑69 (MQ=255)
ccccACCTGGTCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACg > 1:329260/1‑69 (MQ=255)
cccACCTGATCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGc > 1:3196787/1‑69 (MQ=255)
cccACCTGATCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGc > 1:3201205/1‑69 (MQ=255)
aCTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGTATTCCATTTTCt < 1:2547566/69‑1 (MQ=255)
aCTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:513543/69‑1 (MQ=255)
aCTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:2747011/69‑1 (MQ=255)
aCTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:2540080/69‑1 (MQ=255)
aCTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:2175400/69‑1 (MQ=255)
aCTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:2089700/69‑1 (MQ=255)
aCTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:2005511/69‑1 (MQ=255)
aCTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:965582/69‑1 (MQ=255)
aCTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:1839792/69‑1 (MQ=255)
aCTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:928739/69‑1 (MQ=255)
aCTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:1237861/69‑1 (MQ=255)
aCTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:1378203/69‑1 (MQ=255)
aCTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:773844/69‑1 (MQ=255)
cTGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:2901284/68‑1 (MQ=255)
tGTCAGAATGCGGTGCGTCACATCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:457109/67‑1 (MQ=255)
gTCAGAATGCGGTGCGTCACATCACCCAGTGTctct > 1:1830205/1‑36 (MQ=255)
gTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACg < 1:1814366/53‑1 (MQ=255)
gTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACg < 1:998610/53‑1 (MQ=255)
gTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACg < 1:3246826/53‑1 (MQ=255)
gTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACg < 1:3338765/53‑1 (MQ=255)
gTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACg > 1:1674789/1‑53 (MQ=255)
gTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACg < 1:665622/53‑1 (MQ=255)
gTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACg > 1:658257/1‑53 (MQ=255)
gTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACg < 1:3114887/53‑1 (MQ=255)
gTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACg < 1:1015941/53‑1 (MQ=255)
gTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACg > 1:256803/1‑53 (MQ=255)
gTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTg > 1:1869485/1‑69 (MQ=255)
aGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCAttt > 1:2905233/1‑60 (MQ=255)
aGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGtt > 1:2845490/1‑69 (MQ=255)
aGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGtt > 1:2433344/1‑69 (MQ=255)
aGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGtt > 1:207883/1‑69 (MQ=255)
aTGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCg > 1:1209910/1‑69 (MQ=255)
aTGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCg > 1:1800668/1‑69 (MQ=255)
tGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTc < 1:1750367/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:1035541/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:1204423/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:873417/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:853050/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:750575/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:1609132/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:534930/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:2264610/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:513431/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:2668275/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:3115260/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:3128340/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:3149242/69‑1 (MQ=255)
cGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:3156750/69‑1 (MQ=255)
aTCACCCAATGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCt < 1:1543014/46‑1 (MQ=255)
cACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:3173782/61‑1 (MQ=255)
aCCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCgg < 1:1526124/60‑1 (MQ=255)
|
ATACATCCCCACCTGATCCTGCGCAATCGGCACTGTCAGAATGCGGTGCGTCACATCACCCAGTGTCTCTTTACGCTCGGAAAGACGAATTCCATTTTCTTTGGTTTCGTTTTTCGG > minE/1737243‑1737359
|
| 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
