X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=examples%2FexampleFeatures.txt;h=83dc4b115d230c9d06ab5af5a7b81b47693ceef3;hb=77bebd0b42826a8ba2f54293b05ccc1dbfbd6ae7;hp=27e4d46158a845935222e82188b2c4c9307c7d1b;hpb=c19d2a91ca05e052e3408bf5852d88eb5d0608f1;p=jalview.git diff --git a/examples/exampleFeatures.txt b/examples/exampleFeatures.txt index 27e4d46..83dc4b1 100755 --- a/examples/exampleFeatures.txt +++ b/examples/exampleFeatures.txt @@ -1,23 +1,5 @@ -#------------------------------------------------------------------------------- -# Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b2) -# Copyright (C) 2015 The Jalview Authors -# -# This file is part of Jalview. -# -# Jalview is free software: you can redistribute it and/or -# modify it under the terms of the GNU General Public License -# as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version. -# -# Jalview is distributed in the hope that it will be useful, but -# WITHOUT ANY WARRANTY; without even the implied warranty -# of MERCHANTABILITY or FITNESS FOR A PARTICULAR -# PURPOSE. See the GNU General Public License for more details. -# -# You should have received a copy of the GNU General Public License along with Jalview. If not, see . -# The Jalview Authors are detailed in the 'AUTHORS' file. -#------------------------------------------------------------------------------- -ST-TURN-IIL 705b23 -GAMMA-TURN-CLASSIC 788763 +ST-TURN-IIL blue|255,0,255|absolute|20.0|95.0|below|66.0 +GAMMA-TURN-CLASSIC lightGray|0,255,255|20.0|95.0|below|66.0 BETA-TURN-IR 9a6a94 BETA-TURN-IL d6a6ca BETA-BULGE 1dc451 @@ -44,73 +26,74 @@ BETA-TURN-IIL 8b5b50 ST-MOTIF ac25a1 STARTGROUP uniprot +Pfam family FER_CAPAA -1 0 0 Pfam Iron-sulfur (2Fe-2S) FER_CAPAA -1 39 39 METAL Iron-sulfur (2Fe-2S) FER_CAPAA -1 44 44 METAL Iron-sulfur (2Fe-2S) FER_CAPAA -1 47 47 METAL Iron-sulfur (2Fe-2S) FER_CAPAA -1 77 77 METAL -Fer2 Status: True Positive Pfam 8_8 FER_CAPAA -1 8 83 Pfam +Fer2 Status: True Positive Pfam 8_8 FER_CAPAA -1 8 83 Pfam Ferredoxin_fold Status: True Positive FER_CAPAA -1 3 93 Cath Iron-sulfur (2Fe-2S) FER_CAPAN -1 86 86 METAL Iron-sulfur (2Fe-2S) FER_CAPAN -1 91 91 METAL Iron-sulfur (2Fe-2S) FER_CAPAN -1 94 94 METAL Iron-sulfur (2Fe-2S) FER_CAPAN -1 124 124 METAL -Fer2 Status: True Positive Pfam 55_13 FER_CAPAN -1 55 130 Pfam +Fer2 Status: True Positive Pfam 55_13 FER_CAPAN -1 55 130 Pfam Ferredoxin_fold Status: True Positive FER_CAPAN -1 45 140 Cath Iron-sulfur (2Fe-2S) FER1_SOLLC -1 86 86 METAL Iron-sulfur (2Fe-2S) FER1_SOLLC -1 91 91 METAL Iron-sulfur (2Fe-2S) FER1_SOLLC -1 94 94 METAL Iron-sulfur (2Fe-2S) FER1_SOLLC -1 124 124 METAL -Fer2 Status: True Positive Pfam 55_13 FER1_SOLLC -1 55 130 Pfam +Fer2 Status: True Positive Pfam 55_13 FER1_SOLLC -1 55 130 Pfam Ferredoxin_fold Status: True Positive FER1_SOLLC -1 45 140 Cath -Fer2 Status: True Positive Pfam 55_13 Q93XJ9_SOLTU -1 55 130 Pfam +Fer2 Status: True Positive Pfam 55_13 Q93XJ9_SOLTU -1 55 130 Pfam Ferredoxin_fold Status: True Positive Q93XJ9_SOLTU -1 45 140 Cath Iron-sulfur (2Fe-2S) FER1_PEA -1 91 91 METAL Iron-sulfur (2Fe-2S) FER1_PEA -1 96 96 METAL Iron-sulfur (2Fe-2S) FER1_PEA -1 99 99 METAL Iron-sulfur (2Fe-2S) FER1_PEA -1 129 129 METAL -Fer2 Status: True Positive Pfam 60_13 FER1_PEA -1 60 135 Pfam +Fer2 Status: True Positive Pfam 60_13 FER1_PEA -1 60 135 Pfam Ferredoxin_fold Status: True Positive FER1_PEA -1 50 145 Cath -Fer2 Status: True Positive Pfam 63_13 Q7XA98_TRIPR -1 63 138 Pfam +Fer2 Status: True Positive Pfam 63_13 Q7XA98_TRIPR -1 63 138 Pfam Ferredoxin_fold Status: True Positive Q7XA98_TRIPR -1 53 148 Cath Iron-sulfur (2Fe-2S) FER1_MESCR -1 90 90 METAL Iron-sulfur (2Fe-2S) FER1_MESCR -1 95 95 METAL Iron-sulfur (2Fe-2S) FER1_MESCR -1 98 98 METAL Iron-sulfur (2Fe-2S) FER1_MESCR -1 128 128 METAL -Fer2 Status: True Positive Pfam 59_13 FER1_MESCR -1 59 134 Pfam +Fer2 Status: True Positive Pfam 59_13 FER1_MESCR -1 59 134 Pfam Ferredoxin_fold Status: True Positive FER1_MESCR -1 49 144 Cath Iron-sulfur (2Fe-2S) FER1_SPIOL -1 89 89 METAL Iron-sulfur (2Fe-2S) FER1_SPIOL -1 94 94 METAL Iron-sulfur (2Fe-2S) FER1_SPIOL -1 97 97 METAL Iron-sulfur (2Fe-2S) FER1_SPIOL -1 127 127 METAL -Fer2 Status: True Positive Pfam 58_13 FER1_SPIOL -1 58 133 Pfam +Fer2 Status: True Positive Pfam 58_13 FER1_SPIOL -1 58 133 Pfam Ferredoxin_fold Status: True Positive FER1_SPIOL -1 48 143 Cath Iron-sulfur (2Fe-2S) FER3_RAPSA -1 39 39 METAL Iron-sulfur (2Fe-2S) FER3_RAPSA -1 44 44 METAL Iron-sulfur (2Fe-2S) FER3_RAPSA -1 47 47 METAL Iron-sulfur (2Fe-2S) FER3_RAPSA -1 77 77 METAL -Fer2 Status: True Positive Pfam 8_8 FER3_RAPSA -1 8 83 Pfam +Fer2 Status: True Positive Pfam 8_8 FER3_RAPSA -1 8 83 Pfam Ferredoxin_fold Status: True Positive FER3_RAPSA -1 3 93 Cath Iron-sulfur (2Fe-2S) FER_BRANA -1 39 39 METAL Iron-sulfur (2Fe-2S) FER_BRANA -1 44 44 METAL Iron-sulfur (2Fe-2S) FER_BRANA -1 47 47 METAL Iron-sulfur (2Fe-2S) FER_BRANA -1 77 77 METAL -Fer2 Status: True Positive Pfam 8_8 FER_BRANA -1 8 83 Pfam +Fer2 Status: True Positive Pfam 8_8 FER_BRANA -1 8 83 Pfam Ferredoxin_fold Status: True Positive FER_BRANA -1 2 96 Cath -Iron-sulfur (2Fe-2S) FER2_ARATH -1 91 91 METAL -Iron-sulfur (2Fe-2S) FER2_ARATH -1 96 96 METAL -Iron-sulfur (2Fe-2S) FER2_ARATH -1 99 99 METAL -Iron-sulfur (2Fe-2S) FER2_ARATH -1 129 129 METAL -Fer2 Status: True Positive Pfam 60_13 FER2_ARATH -1 60 135 Pfam -Ferredoxin_fold Status: True Positive FER2_ARATH -1 50 145 Cath -Fer2 Status: True Positive Pfam 60_11 Q93Z60_ARATH -1 60 118 Pfam +Iron-sulfur (2Fe-2S) FER1_ARATH -1 91 91 METAL +Iron-sulfur (2Fe-2S) FER1_ARATH -1 96 96 METAL +Iron-sulfur (2Fe-2S) FER1_ARATH -1 99 99 METAL +Iron-sulfur (2Fe-2S) FER1_ARATH -1 129 129 METAL +Fer2 Status: True Positive Pfam 60_13 FER1_ARATH -1 60 135 Pfam +Ferredoxin_fold Status: True Positive FER1_ARATH -1 50 145 Cath +Fer2 Status: True Positive Pfam 60_11 Q93Z60_ARATH -1 60 118 Pfam Ferredoxin_fold Status: True Positive Q93Z60_ARATH -1 52 118 Cath Iron-sulfur (2Fe-2S) FER1_MAIZE -1 91 91 METAL Iron-sulfur (2Fe-2S) FER1_MAIZE -1 96 96 METAL Iron-sulfur (2Fe-2S) FER1_MAIZE -1 99 99 METAL Iron-sulfur (2Fe-2S) FER1_MAIZE -1 129 129 METAL -Fer2 Status: True Positive Pfam 60_13 FER1_MAIZE -1 60 135 Pfam +Fer2 Status: True Positive Pfam 60_13 FER1_MAIZE -1 60 135 Pfam Ferredoxin_fold Status: True Positive FER1_MAIZE -1 50 145 Cath -Fer2 Status: True Positive Pfam 52_12 O80429_MAIZE -1 52 127 Pfam +Fer2 Status: True Positive Pfam 52_12 O80429_MAIZE -1 52 127 Pfam Ferredoxin_fold Status: True Positive O80429_MAIZE -1 42 137 Cath ENDGROUP uniprot @@ -144,13 +127,13 @@ STARTGROUP netphos High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 112_11 FER1_SPIOL -1 112 112 PHOSPHORYLATION (S) High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (T) 139_13 FER1_SPIOL -1 139 139 PHOSPHORYLATION (T) High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (Y) 73_7 FER1_SPIOL -1 73 73 PHOSPHORYLATION (Y) -High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 19_1 FER1_ARATH -1 19 19 PHOSPHORYLATION (S) -High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 24_2 FER1_ARATH -1 24 24 PHOSPHORYLATION (S) -High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 90_9 FER1_ARATH -1 90 90 PHOSPHORYLATION (S) -High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 107_10 FER1_ARATH -1 107 107 PHOSPHORYLATION (S) -High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 114_11 FER1_ARATH -1 114 114 PHOSPHORYLATION (S) -High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (T) 141_14 FER1_ARATH -1 141 141 PHOSPHORYLATION (T) -High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (Y) 75_7 FER1_ARATH -1 75 75 PHOSPHORYLATION (Y) +High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 19_1 FER2_ARATH -1 19 19 PHOSPHORYLATION (S) +High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 24_2 FER2_ARATH -1 24 24 PHOSPHORYLATION (S) +High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 90_9 FER2_ARATH -1 90 90 PHOSPHORYLATION (S) +High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 107_10 FER2_ARATH -1 107 107 PHOSPHORYLATION (S) +High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 114_11 FER2_ARATH -1 114 114 PHOSPHORYLATION (S) +High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (T) 141_14 FER2_ARATH -1 141 141 PHOSPHORYLATION (T) +High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (Y) 75_7 FER2_ARATH -1 75 75 PHOSPHORYLATION (Y) High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 38_3 FER_BRANA -1 38 38 PHOSPHORYLATION (S) High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (S) 62_6 FER_BRANA -1 62 62 PHOSPHORYLATION (S) High confidence server. Only hits with scores over 0.8 are reported. PHOSPHORYLATION (T) 89_8 FER_BRANA -1 89 89 PHOSPHORYLATION (T)