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 |
|
A23 F10 I1 R1
|
17 |
30.2 |
1100966 |
93.3% |
1027201 |
143.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913_3_pae_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_pae_tpiA | 2,679,525 | 0 | G | T | 95.5%
| 54.4
/ NA
| 22 | A1074D (GCT→GAT) | yphG | DUF4380 domain‑containing TPR repeat protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base T (7/14); minor base A (1/0); total (8/14) |
| Fisher's exact test for biased strand distribution p-value = 3.64e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAA > NC_000913_3_pae_tpiA/2679383‑2679661
|
gTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTAAGGGTAATAGGGGTTAGTGAACGCGGTTAAAAAGAAACGGCATCACGGTGGTGACTAATGCGGCTTTCGGCCAATcccggt > 2:28328/1‑145 (MQ=255)
tttATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCTGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTACTGAACGCGGTTAAAAATAAACGGGATCAGGGTGGTGAATAATGCCGCTTTAGGCCAATCCGGCTTaa > 2:476227/1‑149 (MQ=255)
attaGCAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGTGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCg < 1:445039/149‑1 (MQ=255)
ggCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCACACCGCATTTTAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAAtt < 1:406315/149‑1 (MQ=255)
ttCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAgcgc < 1:298809/149‑1 (MQ=255)
ttCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCACCGTCAATTCAgcgc > 1:42238/1‑149 (MQ=255)
cTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGa < 1:155326/149‑1 (MQ=255)
ttattTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAg > 2:145899/1‑149 (MQ=255)
tattTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGa < 1:129167/149‑1 (MQ=255)
tgtgATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCat < 1:178946/149‑1 (MQ=255)
gcgcGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTTCGCGCGAGCAGACTCATATTGCGCAGCCTcc > 2:505320/1‑149 (MQ=255)
gcgTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTcccc > 1:517912/1‑149 (MQ=255)
gTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGa < 1:145899/149‑1 (MQ=255)
tAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAACCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCACCCCTAGTCCCGCGGACGCCAGCCACGcca > 2:237779/1‑149 (MQ=255)
ttggggAAGGCGGTTAAAAATAAAGGGCGTCACGGTGGTGAATGATGGCGTTTTCGGCCAATCCGGATTAATCGCTGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGTCGCCAGCATCGCCACCATCa < 2:487421/144‑1 (MQ=255)
ttAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCa < 1:290699/149‑1 (MQ=255)
ggTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCt < 2:502198/149‑1 (MQ=255)
ggTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCACTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCt < 1:148722/149‑1 (MQ=255)
tAAAAAGAGAAGGCATGACGGTGGTGAATGATGCCGCTTTCGGGCAATTCGGATTAATCGCCGTCATTTCAGAGCGATCCGACTCATATTGCGCAACGTCCCCGGGTCCCGTGTACGCCAGCATCGCCACCATCAGGCATTTTTCTTTa < 2:324271/149‑1 (MQ=255)
ttaatTCCGCTCTCGACCACTCGGGAGTAATCGCCCTCCAATCATTGCGAGCAGACTAACACTGCGTAACCTCCCCGAGTCCCGCGGGCGCCAGCATCGCCACCATCAGGCATTTTTCTTTATTCTGTTGTTGTAAATCGCCATACAGc < 2:164620/148‑1 (MQ=255)
cGCTTTCGGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCCTCAGGCATTTTTCTTTATGCTGCTGTTGTAATTCGCCATACAGCGacaaca > 1:203573/1‑149 (MQ=255)
gCTTTCCGCCAATCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTCTAAATCGCCCTACAGCGAcaacaa < 1:476227/149‑1 (MQ=255)
|
GTTTTTATTAACAACGGCTTATTCTAATTATTTTGTGATGAGCGGCAGCGCGTGCCGCTCAAATATTACAGTTAATAGGGTTTAGTGAACGCGGTTAAAAATAAAAGGCATCACGGTGGTGAATAATGCCGCTTTCGGCCAAGCCGGATTAATCGCCGTCAATTCAGCGCGAGCAGACTCATATTGCGCAACCTCCCCGAGTCCCGCGGACGCCAGCATCGCCACCATCAGGCATTTTTCTTTATGCTGCTGTTGTAAATCGCCATACAGCGACAACAA > NC_000913_3_pae_tpiA/2679383‑2679661
|
| 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
