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 F6 I1 R1
|
18 |
29.1 |
1014672 |
94.7% |
960894 |
141.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913_3_hsa_tpiA |
2,679,525 |
G→T |
A1074D (GCT→GAT) |
yphG ← |
DUF4380 domain‑containing TPR repeat protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913_3_hsa_tpiA | 2,679,525 | 0 | G | T | 93.3%
| 65.7
/ ‑4.5
| 31 | A1074D (GCT→GAT) | yphG | DUF4380 domain‑containing TPR repeat protein |
| Reads supporting (aligned to +/- strand): ref base G (0/2); new base T (14/14); total (14/17) |
| Fisher's exact test for biased strand distribution p-value = 4.85e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.81e-01 |
GCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCAGG > NC_000913_3_hsa_tpiA/2679399‑2679667
|
gCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATACACGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGGTTCATGCCCGTGAAtta > 1:164684/1‑148 (MQ=255)
ttttCTAATTTTTTTTTGATGGGCGGCAGCGCGTGCCGCTCAAATATTATAGTTAATAGGGTTGAGTGAACGCGGTTAAAAATACAAGGCATCAAGATGGTGAACAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAgc < 2:339048/147‑1 (MQ=255)
tAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGTTATGCCTGATTAATCGCCGTCAATTCAGCGCGAg < 1:252762/149‑1 (MQ=255)
attattTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATGAATCGCCGTCAATTAAGCGCGAGCa > 1:126606/1‑149 (MQ=255)
aGCGGCAGCGCGTGCCGCTGAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTACAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTgcgc < 1:480679/149‑1 (MQ=255)
gCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCa < 2:408928/149‑1 (MQ=255)
ggCATCGCGGGCCGCTCAAATATTACAGTAAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCCTCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAAc < 1:382445/149‑1 (MQ=255)
ggCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATGCGGATTAATCGCCGTCAATTCAACGCGAGCAGACTCATATTGCGCaaa > 2:185970/1‑148 (MQ=255)
cAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCt > 2:291144/1‑149 (MQ=255)
gcgcGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTcc > 2:419420/1‑149 (MQ=255)
cGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGCAAAAAATGCCAGGTACCTCGTGGGGGAATATTGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTTCGCAAGCTCCCCGAGTcc > 2:58684/1‑149 (MQ=255)
caaaaatttATAGTTAATAGGTCTGAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCCCCGTCAATTCAGCTCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCcgc < 2:164684/142‑1 (MQ=255)
cAAAGATGACAGTTAATAGGGTTTAGGGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCcgcg < 1:315649/149‑1 (MQ=255)
atTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATAACGGTGTTGAATAATTCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCACCCTCCCCTAGTCCCCCggcccc > 2:464248/1‑145 (MQ=255)
ttAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAATCTCCCCGAGTCCCGCGGACGCCAGAATc < 2:277487/149‑1 (MQ=255)
ggTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGGGTCCCGCGGACGCCAGCATCGccacca > 1:250608/1‑149 (MQ=255)
gTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCtt > 2:169353/1‑149 (MQ=255)
aaaTAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAACCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTAtgc < 1:63012/149‑1 (MQ=255)
aaGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGa < 1:445556/96‑1 (MQ=255)
aaGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGa > 2:445556/1‑96 (MQ=255)
gcctCACGGTGGTCAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCtgttgt < 1:468419/146‑1 (MQ=255)
gCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCtgttgt < 1:169353/149‑1 (MQ=255)
gCATCACGGTGGTGAATAATACCGCTTCCGGCCAATCCGAAAACACCACCAGCAATTCAGCGCCGGCACACTCAGAGTGCACAACCTCCCCGAGTCCCGCGGACGCCAGCATCACCACCATCCGCCATTTTTCTTTAAGCTGCagttgt > 2:237833/1‑149 (MQ=255)
ggtgAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCAt > 2:171274/1‑149 (MQ=255)
atgAATAATGCCGCTTTCGGCCATTACGTATTAATCGCTGTCATTGCTGCGCGAGCAGACTCATATTTCTCAACCTCCCCGAGTCCCGCGGACGCCGGCATCGCCACCATCAGGCATTTCTCTTTATGCTGCTGTTGTACATTCCCATa > 2:46945/2‑149 (MQ=255)
gAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATc > 2:227753/1‑100 (MQ=255)
gAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATc < 1:227753/100‑1 (MQ=255)
ataatGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGc < 1:171274/149‑1 (MQ=255)
gCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGTGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCACACAGCGacaa < 1:494061/149‑1 (MQ=255)
cGGCCAATCCGGATTAATCGCCGGCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCAg < 1:464248/149‑1 (MQ=255)
ggCAAATCCGGTTTCATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCAgg < 1:320927/149‑1 (MQ=255)
|
GCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCAGG > NC_000913_3_hsa_tpiA/2679399‑2679667
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
