Table 5.
Comparison of repetitive elements
| T. c. marinkellei | T. c. cruzi Sylvio X10 | ||||
|---|---|---|---|---|---|
|
Element |
# bp a |
% Short reads b |
# bp a |
% Short reads b |
SE c |
|
VIPER |
574,697 (1.679 %) |
1.535 |
1,116,378 (2.892 %) |
1.811 |
Tcc X10 |
|
DIRE |
433,619 (1.267 %) |
1.156 |
655,064 (1.697 %) |
0.907 |
Tcm |
|
L1Tc |
432,474 (1.263 %) |
1.168 |
805,885 (2.088 %) |
2.158 |
Tcc X10 |
|
TcTREZO |
382,416 (1.117 %) |
1.024 |
481,685 (1.248 %) |
1.081 |
Tcc X10 |
|
E22 |
223,679 (0.653 %) |
0.630 |
281,491 (0.729 %) |
0.590 |
Tcc X10 |
|
SIRE |
176,724 (0.516 %) |
0.497 |
238,914 (0.619 %) |
0.527 |
Tcc X10 |
|
SZ23 |
94,765 (0.277 %) |
0.224 |
151,879 (0.393 %) |
0.275 |
Tcc X10 |
|
CZAR |
18,338 (0.054 %) |
0.104 |
102,810 (0.266 %) |
0.203 |
Tcc X10 |
|
NARTc |
4,705 (0.014 %) |
0.010 |
10,936 (0.028 %) |
0.020 |
Tcm |
|
C6 |
2,944 (0.009 %) |
0.006 |
167 (0.000 %) |
0.000 |
Tcm |
|
TCSAT1 |
621 (0.002 %) |
0.149 |
7,573 (0.020 %) |
0.628 |
Tcc X10 |
| Total | 2,344,982 (6.851%) | 6.503% | 3,852,782 (9.98%) | 8.200% | |
a The sum of masked base pairs in the assembly. The number inside parenthesis refers to the percentage of assembled bases.
b The percentage of short reads that was mapped on these features.
c SE=Significantly Enriched. Refers to if one genome contained significantly more of this gene family. The significance was determined from an empirical distribution of read depth differences from homologous regions of Tcm and Tcc X10, corrected for genome size. The empirical distribution was used to calculate a p-value.