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 |
|
A4 F60 I1 R1
|
17 |
33.8 |
1212966 |
98.8% |
1198410 |
132.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,599,160 |
C→T |
L94L (CTG→CTA) |
opgB ← |
phosphoglycerol transferase I |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,599,160 | 0 | C | T | 96.7%
| 94.0
/ NA
| 30 | L94L (CTG→CTA) | opgB | phosphoglycerol transferase I |
| Reads supporting (aligned to +/- strand): ref base C (0/1); new base T (13/16); total (13/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGATTTCACCAGTTCCGTTATCTGACGAAATGCCGGGCTGGCGTCCACCGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAG > NC_000913/4599031‑4599287
|
ggATTTCACCAGTTCCGTTATCTGACGAAATGCCGGGCTGGCGTCCACCGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATccagcctagc > 1:84988/1‑133 (MQ=255)
ggATTTCACCAGTTCCGTTATCTGACGAAATGCCGGGCTGGCGTCCACCGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATccagcctagc < 1:364260/133‑1 (MQ=255)
gTTCCGTTATCTGACGAAATGCCGGGCTGGCGTCCACCGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAacac > 1:21173/1‑133 (MQ=255)
ttCCGTTATCTGACGAAATGCCGGGCTGGCGTCCACCGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACAcc > 2:114343/1‑133 (MQ=255)
tATCTGACTAAATGCAGGGCTGGCGTCCGCAGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTc < 1:273144/133‑1 (MQ=255)
tATCTGACGAAATGCCGGGCTGGCGTCCACCGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTc < 1:386394/133‑1 (MQ=255)
cTGACGAAATGCCGGGCTGGCGTCCACCGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGc > 2:460129/1‑133 (MQ=255)
tGACGAAATGCCGGGCTGGCGTCCACCGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACCGCGCAGGAGCCGACCTGGCGCACCGAACACTGCTGTCAGcc > 2:195955/1‑133 (MQ=255)
gACGAAATGCCGGGCTGGCGTCCACCGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGccc < 2:84988/133‑1 (MQ=255)
tGCCGGGCTGGCGTCCACCGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTGGCGGACCAAACACCGCAGTCAACCCCAGcaca > 2:202953/1‑133 (MQ=255)
cACCGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGc < 1:114343/133‑1 (MQ=255)
ccGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCaa < 2:21173/133‑1 (MQ=255)
aaCCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAAt > 1:29226/1‑133 (MQ=255)
cAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTAt < 2:14031/133‑1 (MQ=255)
aGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCaa < 1:347362/125‑1 (MQ=255)
aGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCaa > 2:347362/1‑125 (MQ=255)
ccAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCt < 2:29226/133‑1 (MQ=255)
agCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGGTACCCGGAAAAATGTATTTGCTGACGCCAg > 1:290984/1‑133 (MQ=255)
ccAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCAcc < 1:116598/133‑1 (MQ=255)
cTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAGTGTATTTGCTGGCGGCAGCACAGGTCAGGc > 1:172824/1‑133 (MQ=255)
gTAACCAAAATGGTGGGGGTGAGGGCGACGGCGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTg < 1:202953/133‑1 (MQ=255)
gTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTg < 2:122350/133‑1 (MQ=255)
ccAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGCACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGACAAAATGTATTTGGTGGCGCCAGCAGCGGTTAGGCTGTTgg > 2:164660/1‑133 (MQ=255)
ccAAAATGGTGCGGACGATGGCCACGACGGGGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTgg < 1:195955/133‑1 (MQ=255)
cAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGt < 1:507107/133‑1 (MQ=255)
aaaaTGGTGCGGATGCTGGCGAAGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGtt < 1:229719/133‑1 (MQ=255)
aaaaTGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGtt < 2:469292/133‑1 (MQ=255)
aaaTGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTa > 2:566750/1‑133 (MQ=255)
aaaTGGTGCGGATGAGGGCGACGACGGCTCAGTATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTa < 2:242164/133‑1 (MQ=255)
gTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGta > 1:298969/1‑133 (MQ=255)
tGCGGATGATGGCGACGACGGCGCAGGATCCAGCCTAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGtat > 1:87172/1‑133 (MQ=255)
gCGACGACAGCGCAGCATGCAGTCTAGCGCTCCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGTATAGAGAACcgcg < 1:154589/133‑1 (MQ=255)
cagcctagcGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAg < 2:87172/133‑1 (MQ=255)
|
GGATTTCACCAGTTCCGTTATCTGACGAAATGCCGGGCTGGCGTCCACCGAACCCAGCGCCAGTAAGAGCGCCAGCAGGCTGTAACCAAAATGGTGCGGATGATGGCGACGACGGCGCAGGATCCAGCCCAGCGCACCGAACACCGCTGTCAGCCCCAGCACAATGCCGATACCCGGCAAAATGTATTTGCTGACGCCAGCACCGGTCAGGCTGTTGGTTAAGGTATAGAGAACCGCGTCGTTAATACCATCGCCAG > NC_000913/4599031‑4599287
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
