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 |
2,679,525 |
G→T |
100% |
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 | 100.0%
| 71.1
/ ‑6.7
| 27 | A1074D (GCT→GAT) | yphG | DUF4380 domain‑containing TPR repeat protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base T (11/15); minor base C (0/1); total (11/16) |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCAGGT > NC_000913_3_hsa_tpiA/2679390‑2679668
|
ttaACAACGGCTTATTCTTATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTTGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGc < 1:224380/149‑1 (MQ=255)
ttaACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGAGCGAGCCGCTCAAATATAACACTGAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGc > 1:589748/1‑149 (MQ=255)
acaacGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGTCGCTCAAATATTACAGTTAATAGGGTTTAGTGAAGGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGt < 1:499059/149‑1 (MQ=255)
aacGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCCCTTTCGGCCAATACGGGATAATCGCCGTCa > 2:392284/1‑149 (MQ=255)
gctttattatgTTGTTGTGAGCGTCATGGCGTGCCGCCCAAATATTACAGTTAATAGGGCTTAGTGTTCGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAgcgc < 2:525649/144‑1 (MQ=255)
cTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGa > 2:119122/1‑149 (MQ=255)
gtgATGAGCGGCCGCGCTTGCCGTGCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCata < 1:278071/149‑1 (MQ=255)
gtgATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCata < 1:145052/149‑1 (MQ=255)
gtgATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCata < 1:119122/149‑1 (MQ=255)
ggaGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTgc < 1:560974/148‑1 (MQ=255)
cGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCaa > 1:543574/1‑149 (MQ=255)
gggcgTGCGGCGTATATATTATAGTGTATAGAGTTTAGTTACAGGGGTTAAAAATAAAAGGCATCACGGTGGTGAATATTGCCGCTTGCGGCCAATCCGGATTAATCGCAGTAAATTCGGCGCGAGCAGCCTCTTATTGCGCAACCTcc < 2:85669/147‑1 (MQ=255)
gcgcGTGCCGTTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTcc < 2:381074/149‑1 (MQ=255)
gcgTGCCGCTCAAATATTACAGTTAATACGGTTTCCCAGACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTcccc < 1:285478/149‑1 (MQ=255)
gatCAATTATTGTAGTCAATAGGGTTTAGTGAAAGCGGTTAAAAATAAAAGGCATCATGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTccc < 2:68973/147‑1 (MQ=255)
tCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTCAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGAATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCcgc > 1:652624/1‑149 (MQ=255)
ttAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATc > 2:447453/1‑149 (MQ=255)
gcgGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCAttttt > 2:636633/1‑149 (MQ=255)
aaaaGGCATCACGGTGGTGAATAATGCCGCTTCAGGCCAATCCGGATTAATCTCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATgctgct < 2:571820/149‑1 (MQ=255)
tCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCACCATCGCCACCATCAGGCATTTTTCTTTATGCTTCTTTGGTaaa > 2:306405/1‑149 (MQ=255)
aCGGTGGTGAATAATTCCGCTTTCGGCCAACCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATc < 2:507249/149‑1 (MQ=255)
tggtgAAGAAGGCCGCTGTCGGCCAATGCGGGTGAATCGCCTGTAATTCATCGCGAGCACACTCATTTTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCa < 2:35823/149‑1 (MQ=255)
cttcatGCCGCTTTCGGCCAATCCGGATTAATCGCCATCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGCCGCCAGCATCGCCACCCTCAGGCATTTTTCTTTATGCTGCCGTTTTAAATCGCCATACAg > 2:588429/5‑149 (MQ=255)
agaatGCGTCTTTCGGCCAATCGTTATGTAGCGCCGGCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCTTAGTCTCGCGGACGCCAGCATCGCCGCCATCATGCATTTTTCTTTTTGCTGCTGTTGTAAATCGCCATACAGc < 2:247940/147‑1 (MQ=255)
gcggCTTTCGGCCAATCCGTATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCTCGAGTCCCTTGGACGCCAGCATCGCCACCGTCAGGCCTTCATGGTTATGCTACTGTTGTAAATCGCCATACAGCGacaa < 2:276639/146‑1 (MQ=255)
ccGCCTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTAATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGacacc > 2:448339/1‑147 (MQ=255)
gCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCCGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCACCATACAGCGACAACAATTCAgat > 2:226182/1‑147 (MQ=255)
|
TTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAAGTCAGGT > NC_000913_3_hsa_tpiA/2679390‑2679668
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
