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 |
|
A8 F29 I0 R1
|
32 |
37.4 |
1321382 |
89.2% |
1178672 |
148.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913_3_hsa_tpiA |
2,976,638 |
T→G |
69.2% |
S14A (TCA→GCA) |
galR → |
galactose‑inducible d‑galactose regulon transcriptional repressor; autorepressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913_3_hsa_tpiA | 2,976,638 | 0 | T | G | 69.2%
| 28.9
/ 18.2
| 33 | S14A (TCA→GCA) | galR | galactose‑inducible d‑galactose regulon transcriptional repressor; autorepressor |
| Reads supporting (aligned to +/- strand): ref base T (4/6); new base G (6/17); total (10/23) |
| Fisher's exact test for biased strand distribution p-value = 4.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.00e-01 |
TTGCGTTTGGCTCACATTCCCACGATGAAAACACGCCACCCCTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTATCACCCGAACGCCAACGCCCGTGCGCTGGCGCAGCAGACCACTGAAACG > NC_000913_3_hsa_tpiA/2976492‑2976781
|
tcgCGTTTGGCTCACAGTCCCGCGATGAAAACACGCCACCCCGTGCACCAACGGGCGATTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGATCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCa < 1:626270/147‑1 (MQ=255)
cTCACATTCCCACGATGAAAACACGCCACCCCTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCGGGCGCCAccc > 2:91459/1‑148 (MQ=255)
tCACGTGCCCGCGGTGAAACCACGTCACCCGTGGAACTAGCCGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCGCTGAGGTATTTTCATGGCGACCATAAAGGATGTAGTCCGACTGGCAGGCGTTTCAGTCGGCACCGt < 2:382524/149‑1 (MQ=255)
cACCCCTTGAACCACCGGGCGGTTGCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCAccc < 2:61943/149‑1 (MQ=255)
cACCCCTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCatac > 2:462919/1‑146 (MQ=255)
aCCCCTTGAACCAACGGGCGTTTTCCGTAACACTGCAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCCTCTCAGTCGCCACCGTTTCCCGCGTCCTTAATCATTCCCCCa > 2:107226/1‑149 (MQ=255)
cccTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCaaa < 1:553173/149‑1 (MQ=255)
cTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGc < 2:369976/149‑1 (MQ=255)
ttGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGCTGTAGAAGGGTATGCAGGCGTTGCCGTCGCCACCGTTTCCCGCGTGATTAATAATTTACGCAAAGcg > 1:152053/1‑148 (MQ=255)
tGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACGAAGGTATTTTCATGGCGACTATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAACGCCa < 2:427852/149‑1 (MQ=255)
acccAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGc < 2:158952/147‑1 (MQ=255)
cagcGGGCGTTTTCCGTAACACTGATAGCACGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCATCGaa < 2:511528/146‑1 (MQ=255)
attCCGGAAACCTGAAAGAAGGTAAGCGTTTACCCACTAAGGTATTTGCATGGCGACCACAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCggc < 2:279764/148‑1 (MQ=255)
cGTAACACGTAAAGAATGTAAGCGTTGACGCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCATCGAAGCTTCCCggctggc < 1:508949/149‑1 (MQ=255)
tAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGgctggctg > 1:192242/1‑149 (MQ=255)
aaCCCTGAAAGATTGTAAGCGTTTGCGCACTGTGGTATTTGCAGTGGGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCtgt < 2:69883/149‑1 (MQ=255)
cTGAAAGAATGCAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCAt < 1:42673/149‑1 (MQ=255)
tGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAACCAGCGAAGCTTCCCGGCTGGCTGTGCATa < 2:98388/149‑1 (MQ=255)
tGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGTTGTAGCCCGACTGGCAGGCGTTGGAGGCACCGCTTTTTCCCGCGTCATTAATAAGTCACCCAGAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATg < 1:255295/149‑1 (MQ=255)
tatgCGTTTACCCACTAGGGTATTTTCAGGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGGTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGa < 2:66967/146‑1 (MQ=255)
aGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGt < 1:602240/149‑1 (MQ=255)
aGCGTTTACCACCTAAGGTATTTGCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTTCCGGCTGGCTGTGCATAGTGCAATGGAGt < 1:171373/149‑1 (MQ=255)
gCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGtc < 1:462251/149‑1 (MQ=255)
ccACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCt > 2:619103/1‑149 (MQ=255)
gcggctgtAAAGGATGTAGCCCGACTGACAGGCTTTGCAGGCTCCACCGTTTCCCGCGTCATTAATAATTCACCCAATGCCAGCGAATCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTATCACCCGaacgccaacgc < 2:190751/142‑1 (MQ=255)
gACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCATCGAAGCTTCCCGACTCGCTGTGCAGCGTGCAACGGGGTCCCTTAGCTATCACCCGcgcgccaacgcac > 1:313464/1‑147 (MQ=255)
aCCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCATCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCCTACCTAGCACCCGAACGCCAACGCCCg > 1:51437/1‑149 (MQ=255)
aTAAAGGATGTAGCCCGACTGGCAGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTATCACCCGAACGCCAACGCCCGTgc < 1:605263/149‑1 (MQ=255)
tAGCGCGACTGGCAGGCGTTGCATTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTATCACCCGAACGCCAACGCCCGTGCGCTGGCgcag < 1:268360/149‑1 (MQ=255)
ggccGGCTTGCAGGTGGTGCAGGCGCCGCCGTTACGCGCGGAATTAATAAGTCAGCAAGAGCCAGCGCGGCTGCGCGGCTGGCTGTGCAGAGGGCAATGGAGTGTGTTAGCTATCGCCCGAACGCCAACGCCCGTGCGCTGGCgcagca < 2:568075/147‑1 (MQ=255)
aGGCGTTGCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTATCACCCGAACGCCAACGCCCGTGCGCTGGCGCAGCAGACACCTGaaa > 2:225526/1‑149 (MQ=255)
gtcggttCAGTCGCCACCGTTGCCCGCGTCATTAAGAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGTCTGTGCATAGGTCAATGGAGTCTCTTAGCTATCACCCGAACGCCCACGCCCGTGCGCTGGCGCAGCAGACCACTGAAAc < 2:359788/144‑1 (MQ=255)
ggCGTTGCTCTCTCCACCCTTTCCCGCGTCATTAATAATTCCCCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTATCACCCGAACGCCAACGCCCGTGCGCTGGCGCAGCAGACCACTGAAAc < 2:265484/149‑1 (MQ=255)
gCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCATCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTATCACCCGAACGCCAACGCCCGTGCGCTGGCGCAGCAGACCACTGAAAcg > 2:267549/1‑149 (MQ=255)
|
TTGCGTTTGGCTCACATTCCCACGATGAAAACACGCCACCCCTTGAACCAACGGGCGTTTTCCGTAACACTGAAAGAATGTAAGCGTTTACCCACTAAGGTATTTTCATGGCGACCATAAAGGATGTAGCCCGACTGGCAGGCGTTTCAGTCGCCACCGTTTCCCGCGTCATTAATAATTCACCCAAAGCCAGCGAAGCTTCCCGGCTGGCTGTGCATAGTGCAATGGAGTCTCTTAGCTATCACCCGAACGCCAACGCCCGTGCGCTGGCGCAGCAGACCACTGAAACG > NC_000913_3_hsa_tpiA/2976492‑2976781
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
