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 |
648,655 |
A→G |
36.9% |
T445T (ACA→ACG) |
pepN → |
aminopeptidase N |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 648,655 | 0 | A | G | 36.9%
| 23.5
/ 26.5
| 46 | T445T (ACA→ACG) | pepN | aminopeptidase N |
| Reads supporting (aligned to +/- strand): ref base A (5/24); new base G (10/7); total (15/31) |
| Fisher's exact test for biased strand distribution p-value = 7.86e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCCTGACCA > minE/648590‑648713
|
gCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCg > 1:3166668/1‑69 (MQ=255)
gAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATtgtg < 1:2445973/69‑1 (MQ=255)
aGATGCGTCGAATGTCGATCTCTCCCATTTCCGCTGTTGGTACAGCCAGTCCGGTACACCGATTGTGa < 1:343352/68‑1 (MQ=255)
aGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGa < 1:2622113/68‑1 (MQ=255)
aGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGa < 1:232628/68‑1 (MQ=255)
aGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGa < 1:2317664/68‑1 (MQ=255)
aGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGa < 1:3042759/68‑1 (MQ=255)
aGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGa < 1:2196633/68‑1 (MQ=255)
aGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGa < 1:3339753/68‑1 (MQ=255)
gATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGa < 1:197479/67‑1 (MQ=255)
cGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGa < 1:2850539/60‑1 (MQ=255)
ccATTTCCGCCGTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCgg > 1:3319778/1‑68 (MQ=255)
ccATTTCCGCCGTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGa > 1:396484/1‑69 (MQ=255)
ccATTTCCGCCGTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGa > 1:775401/1‑69 (MQ=255)
ccATTTCCGCCGTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGa > 1:2515633/1‑69 (MQ=255)
ccATTTCCGCCGTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGa > 1:2894755/1‑69 (MQ=255)
ccATTTCCGCCGTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGa > 1:1695358/1‑69 (MQ=255)
ccATTTCCGCCGTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGa > 1:1720884/1‑69 (MQ=255)
ccATTTCCGCCGTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGa > 1:1805311/1‑69 (MQ=255)
ccATTTCCGCCGTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGa > 1:729724/1‑69 (MQ=255)
ccATTTCCGCCGTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGa > 1:2102778/1‑69 (MQ=255)
cATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGaa > 1:2400515/1‑69 (MQ=255)
cATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGaa > 1:1662426/1‑69 (MQ=255)
cATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGaa > 1:2692537/1‑69 (MQ=255)
tCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCg > 1:3227722/1‑69 (MQ=255)
gccgTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGAAACTGAg < 1:288400/68‑1 (MQ=255)
gccgTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGAAACTGAg < 1:552993/68‑1 (MQ=255)
gccgTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGAAACTGAg < 1:1545525/68‑1 (MQ=255)
gccgTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGAAACTGAg < 1:142647/68‑1 (MQ=255)
gccgTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGAAACTGAg < 1:2251609/68‑1 (MQ=255)
gccgTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGAAACTGAg < 1:1822937/68‑1 (MQ=255)
cgTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAg < 1:3139501/69‑1 (MQ=255)
cgTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAg < 1:2001885/69‑1 (MQ=255)
cgTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAg < 1:454686/69‑1 (MQ=255)
cgTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAg < 1:217851/69‑1 (MQ=255)
cgTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAg < 1:2008610/69‑1 (MQ=255)
cgTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAg < 1:2106231/69‑1 (MQ=255)
gTTGGTACAGCCAGTCCGGCACGCCGGTTGTGACCGTCAAAGACGACTACAATCCGGAAACTGAg < 1:522255/65‑1 (MQ=255)
gTACAGCCAGTCCGGTACAGCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAg < 1:2475079/64‑1 (MQ=255)
cAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCCTGAcc < 1:2223693/69‑1 (MQ=255)
cAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCCTGAcc < 1:2496548/69‑1 (MQ=255)
aGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCCTGACCa < 1:3172020/69‑1 (MQ=255)
aGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCCTGACCa < 1:2233516/69‑1 (MQ=255)
aGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCCTGACCa < 1:3152137/69‑1 (MQ=255)
aGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCAGGAAACCGAGCAGTACACCCTGACCa < 1:2151700/69‑1 (MQ=255)
gTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCCTGACCa < 1:547169/68‑1 (MQ=255)
|
GCGATGGAAGATGCGTCGAATGTCGATCTCTCCCATTTCCGCCGTTGGTACAGCCAGTCCGGTACACCGATTGTGACCGTCAAAGACGACTACAATCCGGAAACCGAGCAGTACACCCTGACCA > minE/648590‑648713
|
| 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
