Update README.md

README.md

@@ -107,9 +107,9 @@ Each file in a given directory can be submitted independently to the HPC environ
 # MetaCLADE2 results
 By default results are stored in the `[WORKING_DIR]/[DATASET_NAME]/results/` directory.
 Each (numbered) folder in this directory contains the results after each step of the pipeline. 
-After running each step, the final annotation is saved in the file
+After running each step, the final annotation is saved in the file named
 ```
-[WORKING_DIR]/[DATASET_NAME]/results/3_arch/
+[WORKING_DIR]/[DATASET_NAME]/results/3_arch/[DATASET_NAME].arch.txt
 ```
 It is a tab-separated values (TSV) file whose lines represent annotations.
 Each annotation has the following fields:
@@ -142,3 +142,15 @@ metaclade2 -i ./test/test.fa -N testDataSet -d PF00875,PF03441,PF03167,PF12546 -
 ```
 
 Results will be stored in the `[METACLADE2_DIR]/test/testDataSet/results` directory.
+The final annotation file should look as follows:
+```
+tr|V7B5W0|V7B5W0_PHAVU          285  476  682  PF03441  E4X2Z2_OIKDI_300-507      4  193  196  3.3e-71  226.4  0.97
+tr|V7B5W0|V7B5W0_PHAVU          7    173  682  PF00875  HMMer-3                   1  157  164  2.5e-44  138.9  0.93
+tr|V7B5W0|V7B5W0_PHAVU          505  645  682  PF12546  S8D414_9LAMI_84-208       1  138  139  2.9e-45  142.1  0.82
+tr|A0A072NB93|A0A072NB93_9DEIO  591  753  766  PF03167  A0A0G0AUB5_9BACT_52-217   1  162  163  5.6e-75  238.8  0.99
+tr|A0A072NB93|A0A072NB93_9DEIO  274  469  766  PF03441  HMMer-3                   1  199  202  6.9e-56  176.6  0.91
+tr|A0A072NB93|A0A072NB93_9DEIO  12   141  766  PF00875  A6FVP5_9RHOB_1-137        1  129  130  8.2e-36  111.3  0.97
+tr|F0RPZ8|F0RPZ8_DEIPM          586  748  757  PF03167  A0A0G0AUB5_9BACT_52-217   2  162  163  7.8e-72  228.5  0.98
+tr|F0RPZ8|F0RPZ8_DEIPM          267  461  757  PF03441  A0A0F3K8Y1_9NEIS_266-465  1  188  193  4e-64    203.4  0.97
+tr|F0RPZ8|F0RPZ8_DEIPM          5    127  757  PF00875  K8GNY4_9CYAN_4-128        1  119  122  1.7e-35  110.2  0.97
+```