SAM Tools version 0.1.18 loaded.
OpenMPI libraries (GNU) version 1.6.3 loaded.
GMP arithmetic library version 5.1.1 loaded.
MPFR version 3.1.1 loaded.
Mpc version 1.0.1 loaded.
gcc version 4.9.2 loaded.
R version 3.1.1 loaded
Boost version 1.52.0 loaded.
Sun/Oracle Java SE Development Kit version 1.7.0_51 loaded.
RAxML version 8.0.26 loaded.

RAxML can't, parse the alignment file as phylip file 
it will now try to parse it as FASTA file

IMPORTANT WARNING: Alignment column 447 contains only undetermined values which will be treated as missing data


IMPORTANT WARNING: Sequences Karenia-brevis-CCMP2229-CAMPEP_0188909504 and Karenia-brevis-SP1-CAMPEP_0189087650 are exactly identical


IMPORTANT WARNING: Sequences Karenia-brevis-SP3-CAMPEP_0189258408 and Karenia-brevis-Wilson-CAMPEP_0189424234 are exactly identical


IMPORTANT WARNING: Sequences Paramecium-caudatum-PCAUDG02994 and Paramecium-caudatum-PCAUDG10616 are exactly identical


IMPORTANT WARNING: Sequences Karenia-brevis-CCMP2229-CAMPEP_0188903032 and Karenia-brevis-SP1-CAMPEP_0189015932 are exactly identical


IMPORTANT WARNING: Sequences Karenia-brevis-CCMP2229-CAMPEP_0188903032 and Karenia-brevis-SP3-CAMPEP_0189192184 are exactly identical


IMPORTANT WARNING: Sequences Karenia-brevis-CCMP2229-CAMPEP_0188903032 and Karenia-brevis-Wilson-CAMPEP_0189324718 are exactly identical

IMPORTANT WARNING
Found 6 sequences that are exactly identical to other sequences in the alignment.
Normally they should be excluded from the analysis.


IMPORTANT WARNING
Found 1 column that contains only undetermined values which will be treated as missing data.
Normally these columns should be excluded from the analysis.

An alignment file with undetermined columns and sequence duplicates removed has already
been printed to file /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/H2A-variants/H2A-with-other-lineages-more-H2A.Z.muscle.fa.reduced

This is the RAxML Master Pthread

This is RAxML Worker Pthread Number: 1

This is RAxML Worker Pthread Number: 2

This is RAxML Worker Pthread Number: 3

This is RAxML Worker Pthread Number: 4

This is RAxML Worker Pthread Number: 5

This is RAxML Worker Pthread Number: 6

This is RAxML Worker Pthread Number: 7

This is RAxML Worker Pthread Number: 8

This is RAxML Worker Pthread Number: 9

This is RAxML Worker Pthread Number: 10

This is RAxML Worker Pthread Number: 11

This is RAxML Worker Pthread Number: 12

This is RAxML Worker Pthread Number: 13

This is RAxML Worker Pthread Number: 14

This is RAxML Worker Pthread Number: 15


This is RAxML version 8.1.3 released by Alexandros Stamatakis on August 13 2014.

With greatly appreciated code contributions by:
Andre Aberer      (HITS)
Simon Berger      (HITS)
Alexey Kozlov     (HITS)
Kassian Kobert    (HITS)
David Dao         (KIT and HITS)
Nick Pattengale   (Sandia)
Wayne Pfeiffer    (SDSC)
Akifumi S. Tanabe (NRIFS)

Alignment has 667 distinct alignment patterns

Proportion of gaps and completely undetermined characters in this alignment: 75.92%

RAxML rapid bootstrapping and subsequent ML search

Using 1 distinct models/data partitions with joint branch length optimization



Executing 100 rapid bootstrap inferences and thereafter a thorough ML search 

All free model parameters will be estimated by RAxML
GAMMA model of rate heteorgeneity, ML estimate of alpha-parameter

GAMMA Model parameters will be estimated up to an accuracy of 0.1000000000 Log Likelihood units

Partition: 0
Alignment Patterns: 667
Name: No Name Provided
DataType: AA
Substitution Matrix: LG
Using fixed base frequencies




RAxML was called as follows:

raxml -f a -s /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/H2A-variants/H2A-with-other-lineages-more-H2A.Z.muscle.fa -n RAxML-H2A-with-other-lineages-more-H2A.Z.muscle -m PROTGAMMALG -T 16 -p 12345 -N 100 -x 12345 



Time for BS model parameter optimization 2.728764
Bootstrap[0]: Time 40.582466 seconds, bootstrap likelihood -26422.189724, best rearrangement setting 13
Bootstrap[1]: Time 33.966843 seconds, bootstrap likelihood -28730.801914, best rearrangement setting 13
Bootstrap[2]: Time 34.532774 seconds, bootstrap likelihood -24605.989952, best rearrangement setting 12
Bootstrap[3]: Time 32.745631 seconds, bootstrap likelihood -26704.138674, best rearrangement setting 15
Bootstrap[4]: Time 28.241585 seconds, bootstrap likelihood -26486.835965, best rearrangement setting 10
Bootstrap[5]: Time 35.535613 seconds, bootstrap likelihood -26067.039418, best rearrangement setting 10
Bootstrap[6]: Time 27.259079 seconds, bootstrap likelihood -23292.072005, best rearrangement setting 6
Bootstrap[7]: Time 29.627313 seconds, bootstrap likelihood -24666.805708, best rearrangement setting 14
Bootstrap[8]: Time 27.708433 seconds, bootstrap likelihood -24945.072369, best rearrangement setting 5
Bootstrap[9]: Time 30.522542 seconds, bootstrap likelihood -26954.706810, best rearrangement setting 7
Bootstrap[10]: Time 30.185064 seconds, bootstrap likelihood -26281.082709, best rearrangement setting 7
Bootstrap[11]: Time 24.918195 seconds, bootstrap likelihood -24518.421641, best rearrangement setting 5
Bootstrap[12]: Time 29.925768 seconds, bootstrap likelihood -27319.758462, best rearrangement setting 8
Bootstrap[13]: Time 30.327587 seconds, bootstrap likelihood -26088.120269, best rearrangement setting 7
Bootstrap[14]: Time 35.673567 seconds, bootstrap likelihood -25100.835192, best rearrangement setting 12
Bootstrap[15]: Time 34.808578 seconds, bootstrap likelihood -23714.140784, best rearrangement setting 15
Bootstrap[16]: Time 34.080045 seconds, bootstrap likelihood -26270.598524, best rearrangement setting 12
Bootstrap[17]: Time 36.083036 seconds, bootstrap likelihood -27469.464509, best rearrangement setting 12
Bootstrap[18]: Time 29.196419 seconds, bootstrap likelihood -26885.189714, best rearrangement setting 5
Bootstrap[19]: Time 29.345262 seconds, bootstrap likelihood -24479.040923, best rearrangement setting 8
Bootstrap[20]: Time 30.365696 seconds, bootstrap likelihood -28380.363851, best rearrangement setting 10
Bootstrap[21]: Time 31.021823 seconds, bootstrap likelihood -26577.924256, best rearrangement setting 6
Bootstrap[22]: Time 26.895591 seconds, bootstrap likelihood -26767.038556, best rearrangement setting 5
Bootstrap[23]: Time 33.563968 seconds, bootstrap likelihood -25844.065536, best rearrangement setting 7
Bootstrap[24]: Time 32.370865 seconds, bootstrap likelihood -26524.617885, best rearrangement setting 8
Bootstrap[25]: Time 29.623907 seconds, bootstrap likelihood -28542.914026, best rearrangement setting 6
Bootstrap[26]: Time 37.138434 seconds, bootstrap likelihood -25073.189861, best rearrangement setting 12
Bootstrap[27]: Time 35.166742 seconds, bootstrap likelihood -26113.889250, best rearrangement setting 10
Bootstrap[28]: Time 29.845971 seconds, bootstrap likelihood -27759.150092, best rearrangement setting 11
Bootstrap[29]: Time 34.533935 seconds, bootstrap likelihood -26018.030821, best rearrangement setting 12
Bootstrap[30]: Time 32.742528 seconds, bootstrap likelihood -27747.596987, best rearrangement setting 15
Bootstrap[31]: Time 36.013550 seconds, bootstrap likelihood -26075.435775, best rearrangement setting 15
Bootstrap[32]: Time 29.456726 seconds, bootstrap likelihood -24873.587020, best rearrangement setting 6
Bootstrap[33]: Time 34.665736 seconds, bootstrap likelihood -27017.897595, best rearrangement setting 15
Bootstrap[34]: Time 35.935259 seconds, bootstrap likelihood -25635.449157, best rearrangement setting 11
Bootstrap[35]: Time 33.723619 seconds, bootstrap likelihood -25829.738756, best rearrangement setting 8
Bootstrap[36]: Time 34.474683 seconds, bootstrap likelihood -25841.997002, best rearrangement setting 9
Bootstrap[37]: Time 35.895521 seconds, bootstrap likelihood -25278.152234, best rearrangement setting 11
Bootstrap[38]: Time 33.148745 seconds, bootstrap likelihood -26371.209435, best rearrangement setting 8
Bootstrap[39]: Time 30.566981 seconds, bootstrap likelihood -27127.884119, best rearrangement setting 13
Bootstrap[40]: Time 35.869380 seconds, bootstrap likelihood -24031.333016, best rearrangement setting 13
Bootstrap[41]: Time 31.651475 seconds, bootstrap likelihood -25342.307984, best rearrangement setting 10
Bootstrap[42]: Time 27.266491 seconds, bootstrap likelihood -26942.271004, best rearrangement setting 5
Bootstrap[43]: Time 31.379053 seconds, bootstrap likelihood -26485.843407, best rearrangement setting 14
Bootstrap[44]: Time 37.038720 seconds, bootstrap likelihood -26496.520396, best rearrangement setting 10
Bootstrap[45]: Time 38.930605 seconds, bootstrap likelihood -28155.063745, best rearrangement setting 15
Bootstrap[46]: Time 36.042214 seconds, bootstrap likelihood -28175.300779, best rearrangement setting 14
Bootstrap[47]: Time 31.471101 seconds, bootstrap likelihood -23523.743100, best rearrangement setting 8
Bootstrap[48]: Time 30.529365 seconds, bootstrap likelihood -25654.594067, best rearrangement setting 6
Bootstrap[49]: Time 27.911302 seconds, bootstrap likelihood -22437.188305, best rearrangement setting 7
Bootstrap[50]: Time 30.298249 seconds, bootstrap likelihood -25598.448047, best rearrangement setting 7
Bootstrap[51]: Time 32.661134 seconds, bootstrap likelihood -26553.089872, best rearrangement setting 11
Bootstrap[52]: Time 33.491945 seconds, bootstrap likelihood -27500.311275, best rearrangement setting 12
Bootstrap[53]: Time 30.787583 seconds, bootstrap likelihood -27172.747310, best rearrangement setting 8
Bootstrap[54]: Time 33.757103 seconds, bootstrap likelihood -29534.394210, best rearrangement setting 9
Bootstrap[55]: Time 34.319326 seconds, bootstrap likelihood -26812.079206, best rearrangement setting 11
Bootstrap[56]: Time 30.941387 seconds, bootstrap likelihood -24341.589216, best rearrangement setting 5
Bootstrap[57]: Time 30.669224 seconds, bootstrap likelihood -24132.527242, best rearrangement setting 7
Bootstrap[58]: Time 36.553033 seconds, bootstrap likelihood -27936.732880, best rearrangement setting 10
Bootstrap[59]: Time 28.157106 seconds, bootstrap likelihood -26822.662733, best rearrangement setting 9
Bootstrap[60]: Time 31.115487 seconds, bootstrap likelihood -25295.527585, best rearrangement setting 7
Bootstrap[61]: Time 26.400206 seconds, bootstrap likelihood -25227.097329, best rearrangement setting 5
Bootstrap[62]: Time 34.850353 seconds, bootstrap likelihood -25674.336923, best rearrangement setting 11
Bootstrap[63]: Time 27.222790 seconds, bootstrap likelihood -25564.479770, best rearrangement setting 12
Bootstrap[64]: Time 28.176508 seconds, bootstrap likelihood -27318.441680, best rearrangement setting 7
Bootstrap[65]: Time 28.858320 seconds, bootstrap likelihood -25405.845603, best rearrangement setting 5
Bootstrap[66]: Time 27.474774 seconds, bootstrap likelihood -24992.372709, best rearrangement setting 5
Bootstrap[67]: Time 36.977671 seconds, bootstrap likelihood -26030.858187, best rearrangement setting 15
Bootstrap[68]: Time 33.282312 seconds, bootstrap likelihood -27655.954013, best rearrangement setting 11
Bootstrap[69]: Time 28.064216 seconds, bootstrap likelihood -28882.170301, best rearrangement setting 5
Bootstrap[70]: Time 28.828126 seconds, bootstrap likelihood -24779.875699, best rearrangement setting 8
Bootstrap[71]: Time 31.937135 seconds, bootstrap likelihood -25879.640757, best rearrangement setting 10
Bootstrap[72]: Time 34.756224 seconds, bootstrap likelihood -26961.163644, best rearrangement setting 11
Bootstrap[73]: Time 29.273632 seconds, bootstrap likelihood -25660.381948, best rearrangement setting 9
Bootstrap[74]: Time 24.910480 seconds, bootstrap likelihood -26607.230981, best rearrangement setting 5
Bootstrap[75]: Time 29.726717 seconds, bootstrap likelihood -24349.822984, best rearrangement setting 8
Bootstrap[76]: Time 30.636180 seconds, bootstrap likelihood -25774.436334, best rearrangement setting 9
Bootstrap[77]: Time 29.096271 seconds, bootstrap likelihood -26795.187748, best rearrangement setting 11
Bootstrap[78]: Time 33.937966 seconds, bootstrap likelihood -25373.647577, best rearrangement setting 15
Bootstrap[79]: Time 30.350062 seconds, bootstrap likelihood -25637.693482, best rearrangement setting 9
Bootstrap[80]: Time 38.514278 seconds, bootstrap likelihood -27908.852789, best rearrangement setting 15
Bootstrap[81]: Time 31.859245 seconds, bootstrap likelihood -24050.193071, best rearrangement setting 7
Bootstrap[82]: Time 33.361323 seconds, bootstrap likelihood -28683.240865, best rearrangement setting 6
Bootstrap[83]: Time 35.612749 seconds, bootstrap likelihood -27603.206675, best rearrangement setting 10
Bootstrap[84]: Time 36.680506 seconds, bootstrap likelihood -24533.616900, best rearrangement setting 11
Bootstrap[85]: Time 33.529445 seconds, bootstrap likelihood -26568.798510, best rearrangement setting 8
Bootstrap[86]: Time 30.668091 seconds, bootstrap likelihood -25823.242450, best rearrangement setting 7
Bootstrap[87]: Time 31.374455 seconds, bootstrap likelihood -25045.326485, best rearrangement setting 7
Bootstrap[88]: Time 35.311874 seconds, bootstrap likelihood -25992.867352, best rearrangement setting 12
Bootstrap[89]: Time 30.720753 seconds, bootstrap likelihood -27095.074988, best rearrangement setting 10
Bootstrap[90]: Time 32.040700 seconds, bootstrap likelihood -27769.816962, best rearrangement setting 8
Bootstrap[91]: Time 38.981842 seconds, bootstrap likelihood -26805.720935, best rearrangement setting 12
Bootstrap[92]: Time 37.555441 seconds, bootstrap likelihood -24822.736128, best rearrangement setting 13
Bootstrap[93]: Time 40.963370 seconds, bootstrap likelihood -26339.346788, best rearrangement setting 15
Bootstrap[94]: Time 28.939327 seconds, bootstrap likelihood -28043.612735, best rearrangement setting 5
Bootstrap[95]: Time 31.034673 seconds, bootstrap likelihood -24945.536174, best rearrangement setting 5
Bootstrap[96]: Time 32.006496 seconds, bootstrap likelihood -25243.300265, best rearrangement setting 13
Bootstrap[97]: Time 29.707402 seconds, bootstrap likelihood -25242.973993, best rearrangement setting 11
Bootstrap[98]: Time 29.738090 seconds, bootstrap likelihood -26569.657261, best rearrangement setting 6
Bootstrap[99]: Time 37.302023 seconds, bootstrap likelihood -25539.469201, best rearrangement setting 14


Overall Time for 100 Rapid Bootstraps 3224.136998 seconds
Average Time per Rapid Bootstrap 32.241370 seconds

Starting ML Search ...

Fast ML optimization finished

Fast ML search Time: 3869.184573 seconds

Slow ML Search 0 Likelihood: -26332.814658
Slow ML Search 1 Likelihood: -26333.365076
Slow ML Search 2 Likelihood: -26334.190047
Slow ML Search 3 Likelihood: -26336.621557
Slow ML Search 4 Likelihood: -26337.292388
Slow ML Search 5 Likelihood: -26336.830687
Slow ML Search 6 Likelihood: -26335.741081
Slow ML Search 7 Likelihood: -26343.343724
Slow ML Search 8 Likelihood: -26336.411918
Slow ML Search 9 Likelihood: -26342.468298
Slow ML optimization finished

Slow ML search Time: 2550.689219 seconds
Thorough ML search Time: 124.201302 seconds

Final ML Optimization Likelihood: -26332.815923

Model Information:

Model Parameters of Partition 0, Name: No Name Provided, Type of Data: AA
alpha: 0.669328
Tree-Length: 119.910916
rate A <-> R: 0.399182
rate A <-> N: 0.259945
rate A <-> D: 0.371058
rate A <-> C: 2.337364
rate A <-> Q: 0.910775
rate A <-> E: 0.975241
rate A <-> G: 1.940106
rate A <-> H: 0.336984
rate A <-> I: 0.140697
rate A <-> L: 0.371240
rate A <-> K: 0.503815
rate A <-> M: 1.055520
rate A <-> F: 0.238237
rate A <-> P: 1.105868
rate A <-> S: 4.439041
rate A <-> T: 2.009090
rate A <-> W: 0.169702
rate A <-> Y: 0.205613
rate A <-> V: 2.392567
rate R <-> N: 0.706048
rate R <-> D: 0.116398
rate R <-> C: 0.501968
rate R <-> Q: 2.636754
rate R <-> E: 0.341785
rate R <-> G: 0.366408
rate R <-> H: 2.278690
rate R <-> I: 0.119250
rate R <-> L: 0.283449
rate R <-> K: 5.940467
rate R <-> M: 0.454623
rate R <-> F: 0.049508
rate R <-> P: 0.312264
rate R <-> S: 0.805843
rate R <-> T: 0.543695
rate R <-> W: 0.557424
rate R <-> Y: 0.295274
rate R <-> V: 0.160471
rate N <-> D: 4.766737
rate N <-> C: 0.496537
rate N <-> Q: 1.592389
rate N <-> E: 0.508692
rate N <-> G: 1.350015
rate N <-> H: 4.234381
rate N <-> I: 0.179830
rate N <-> L: 0.064256
rate N <-> K: 2.014327
rate N <-> M: 0.348390
rate N <-> F: 0.084068
rate N <-> P: 0.151925
rate N <-> S: 3.764032
rate N <-> T: 1.878729
rate N <-> W: 0.042610
rate N <-> Y: 0.574720
rate N <-> V: 0.078587
rate D <-> C: 0.058743
rate D <-> Q: 0.491483
rate D <-> E: 4.924234
rate D <-> G: 0.793424
rate D <-> H: 0.870603
rate D <-> I: 0.010038
rate D <-> L: 0.014157
rate D <-> K: 0.265711
rate D <-> M: 0.023991
rate D <-> F: 0.016354
rate D <-> P: 0.370412
rate D <-> S: 1.164675
rate D <-> T: 0.399902
rate D <-> W: 0.028068
rate D <-> Y: 0.126872
rate D <-> V: 0.035653
rate C <-> Q: 0.079639
rate C <-> E: 0.003286
rate C <-> G: 0.534566
rate C <-> H: 0.601499
rate C <-> I: 0.301083
rate C <-> L: 0.557800
rate C <-> K: 0.012457
rate C <-> M: 0.839207
rate C <-> F: 1.037881
rate C <-> P: 0.070787
rate C <-> S: 2.614753
rate C <-> T: 1.073780
rate C <-> W: 0.629281
rate C <-> Y: 1.094488
rate C <-> V: 1.839864
rate Q <-> E: 3.876936
rate Q <-> G: 0.251626
rate Q <-> H: 4.520102
rate Q <-> I: 0.068413
rate Q <-> L: 0.546954
rate Q <-> K: 3.037150
rate Q <-> M: 1.570619
rate Q <-> F: 0.033669
rate Q <-> P: 0.586241
rate Q <-> S: 1.149231
rate Q <-> T: 1.014297
rate Q <-> W: 0.221802
rate Q <-> Y: 0.241650
rate Q <-> V: 0.197511
rate E <-> G: 0.327583
rate E <-> H: 0.398044
rate E <-> I: 0.041567
rate E <-> L: 0.065426
rate E <-> K: 1.697022
rate E <-> M: 0.163145
rate E <-> F: 0.017664
rate E <-> P: 0.393844
rate E <-> S: 0.574671
rate E <-> T: 0.567695
rate E <-> W: 0.073107
rate E <-> Y: 0.112720
rate E <-> V: 0.230098
rate G <-> H: 0.292498
rate G <-> I: 0.008174
rate G <-> L: 0.041563
rate G <-> K: 0.278555
rate G <-> M: 0.131033
rate G <-> F: 0.084125
rate G <-> P: 0.184955
rate G <-> S: 1.633930
rate G <-> T: 0.121922
rate G <-> W: 0.252125
rate G <-> Y: 0.051346
rate G <-> V: 0.072026
rate H <-> I: 0.102245
rate H <-> L: 0.343988
rate H <-> K: 0.654763
rate H <-> M: 0.415502
rate H <-> F: 0.640560
rate H <-> P: 0.477834
rate H <-> S: 0.929667
rate H <-> T: 0.548649
rate H <-> W: 0.560661
rate H <-> Y: 4.983361
rate H <-> V: 0.111759
rate I <-> L: 3.892408
rate I <-> K: 0.149373
rate I <-> M: 4.013113
rate I <-> F: 1.044902
rate I <-> P: 0.073509
rate I <-> S: 0.060198
rate I <-> T: 0.970728
rate I <-> W: 0.104854
rate I <-> Y: 0.218350
rate I <-> V: 10.000000
rate L <-> K: 0.129119
rate L <-> M: 5.927594
rate L <-> F: 2.434657
rate L <-> P: 0.233879
rate L <-> S: 0.171176
rate L <-> T: 0.284471
rate L <-> W: 0.581863
rate L <-> Y: 0.281383
rate L <-> V: 1.598956
rate K <-> M: 0.616581
rate K <-> F: 0.022460
rate K <-> P: 0.366530
rate K <-> S: 0.703048
rate K <-> T: 1.067567
rate K <-> W: 0.046864
rate K <-> Y: 0.123890
rate K <-> V: 0.173913
rate M <-> F: 1.689205
rate M <-> P: 0.093763
rate M <-> S: 0.325811
rate M <-> T: 1.897216
rate M <-> W: 0.653740
rate M <-> Y: 0.451968
rate M <-> V: 1.782983
rate F <-> P: 0.088706
rate F <-> S: 0.339765
rate F <-> T: 0.154944
rate F <-> W: 2.307349
rate F <-> Y: 7.328222
rate F <-> V: 0.614777
rate P <-> S: 1.256567
rate P <-> T: 0.536635
rate P <-> W: 0.089332
rate P <-> Y: 0.084151
rate P <-> V: 0.278428
rate S <-> T: 6.077767
rate S <-> W: 0.233693
rate S <-> Y: 0.376132
rate S <-> V: 0.092373
rate T <-> W: 0.132241
rate T <-> Y: 0.230856
rate T <-> V: 2.054781
rate W <-> Y: 2.959699
rate W <-> V: 0.177959
rate Y <-> V: 0.234116

freq pi(A): 0.079060
freq pi(R): 0.055940
freq pi(N): 0.041980
freq pi(D): 0.053050
freq pi(C): 0.012940
freq pi(Q): 0.040770
freq pi(E): 0.071580
freq pi(G): 0.057340
freq pi(H): 0.022350
freq pi(I): 0.062160
freq pi(L): 0.099080
freq pi(K): 0.064600
freq pi(M): 0.022950
freq pi(F): 0.042300
freq pi(P): 0.044040
freq pi(S): 0.061200
freq pi(T): 0.053290
freq pi(W): 0.012070
freq pi(Y): 0.034150
freq pi(V): 0.069150


ML search took 6544.170751 secs or 1.817825 hours

Combined Bootstrap and ML search took 9768.308614 secs or 2.713419 hours

Drawing Bootstrap Support Values on best-scoring ML tree ...



Found 1 tree in File /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML/RAxML_bestTree.RAxML-H2A-with-other-lineages-more-H2A.Z.muscle



Found 1 tree in File /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML/RAxML_bestTree.RAxML-H2A-with-other-lineages-more-H2A.Z.muscle

Program execution info written to /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML/RAxML_info.RAxML-H2A-with-other-lineages-more-H2A.Z.muscle
All 100 bootstrapped trees written to: /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML/RAxML_bootstrap.RAxML-H2A-with-other-lineages-more-H2A.Z.muscle

Best-scoring ML tree written to: /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML/RAxML_bestTree.RAxML-H2A-with-other-lineages-more-H2A.Z.muscle

Best-scoring ML tree with support values written to: /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML/RAxML_bipartitions.RAxML-H2A-with-other-lineages-more-H2A.Z.muscle

Best-scoring ML tree with support values as branch labels written to: /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML/RAxML_bipartitionsBranchLabels.RAxML-H2A-with-other-lineages-more-H2A.Z.muscle

Overall execution time for full ML analysis: 9768.388603 secs or 2.713441 hours or 0.113060 days