JWS-112 Bumping version of T-Coffee to version 11.00.8cbe486.

[jabaws.git] / binaries / src / tcoffee / example / sample_rnaseq2.cw_aln

diff --git a/binaries/src/tcoffee/example/sample_rnaseq2.cw_aln b/binaries/src/tcoffee/example/sample_rnaseq2.cw_aln
new file mode 100644 (file)
index 0000000..b015ec5
--- /dev/null
+++ b/binaries/src/tcoffee/example/sample_rnaseq2.cw_aln
@@ -0,0 +1,67 @@
+CLUSTAL W (1.82) multiple sequence alignment
+
+
+OTTHUMT00000006707      ------------------------------------------UACGGAAGCUUUAGG--G
+OTTHUMT00000007987      -----------------------------------------------------------G
+OTTHUMT00000043281      AUCCCAGCUACUCGGGAGGCUGAGGCAGGAGAAUCACUUGAACCCGGGAGGCAGAGGUUG
+                                                                                   *
+
+OTTHUMT00000006707      AGGUGCUCUGAGACC-CGAAACUAGACUCGACUUUAACAGACACAGACGACCCUGAAG--
+OTTHUMT00000007987      AGGUGCUCUGAGACC-CGAAACUAGACUCGACUUUAACAGACACAGACGACCCUGAAGGC
+OTTHUMT00000043281      CAGUGAGCCGAGAUCGCACCCCUGCACUCCAGCCUGGGUGACAGAG-CAAGACUCCAUCU
+                          ***  * **** * *    **  **** *   *    **** ** * *  **  *   
+
+OTTHUMT00000006707      --------------------------AUGGAAAUGUUUUCUUCCAAAUUGUGCUGCACGU
+OTTHUMT00000007987      GAGACUGUCUGCUGGUGGGAUGCUGGAUGGAAACGUUUUCUUCCAAAUUGUGCUGCACGU
+OTTHUMT00000043281      CAAAAAAAAUAAAGGAAAUAUGCGUCGUUGGA-UGCUGUAUGACAA-UCAAGCUACUUAU
+                                                   * * *  * * * *  *** *   *** *   *
+
+OTTHUMT00000006707      UUUUGGCGA----GAGCAUGGGGCUGUGCGGCGUCCCCUCCCUGGCGCCCACCUGUGCCC
+OTTHUMT00000007987      UUUUGGCGA----GAGCAUGGGGCUGUGCGGCGUCCCCUCCCUGGCGCCCACCUGUGCCC
+OTTHUMT00000043281      AACAAACAAAAUUGAGAAUGAAGGAUUAUGA--UCCAAACUCAGCUGGGCCUCCCCUCCC
+                              * *    *** ***  *   *  *   ***   * * *  *  *  *    ***
+
+OTTHUMT00000006707      UGCACACUGGCCUGCACUGUGGUGAUCUCGCU-UGGCCCCCACCUGAUUCCUGACAUACA
+OTTHUMT00000007987      UGCACACUGGCCUGCACUGUGGUGAUCUCGCU-UGGCCCCCACCUGAUUCCCGACAUACA
+OTTHUMT00000043281      UGC-CCCAGGAUUGUGGAGUGAGAACGUUGCAGCAGGAGAGAACAACGCAGCAAAGCACA
+                        *** * * **  **    ***   *  * **    *     * *         *   ***
+
+OTTHUMT00000006707      GCAGAGGAAGCUUAG--GCUCAGGUG--GAACAGCCUCAACUGAUUCAGUC-CCUGAACU
+OTTHUMT00000007987      GCAGAGGAACCUUAG--GCUCAGGUG--GAACAGCCUCAACUGAUUCUGUC-CCUGAACU
+OTTHUMT00000043281      GCAGGGGAACCGGAAAUGCUCACCUUUUGACAGGGUACUUUUAGUUCUGGGGCCUUAUCU
+                        **** **** *  *   *****  *   **   *   *   *  *** *   *** * **
+
+OTTHUMT00000006707      UCCGUACACAGCCCUGGAGUCGUCUUAGAGCCAUG-AUUUAUUUAACUGUUCUUUCAUUU
+OTTHUMT00000007987      UCCGUACACAGCCCUGGAGUCGUCUUAGAGCCAUG-AUUUAUUUAACUGUUCUUUCAUUU
+OTTHUMT00000043281      UAAGGAUAUUCCAACAUAUACAAAA-AGAUUCAUGCACAGAGAUAUGUACUUUAGUAUUA
+                        *  * * *   *     *  *     ***  **** *   *  **  *  * *   *** 
+
+OTTHUMT00000006707      UACAGAACAUAAAAUGUAUUGUUUCCAAC---UUUUUUCCUAUGGUAAAUAAUACUAAAG
+OTTHUMT00000007987      UACAGAACAUAAAAUGUAUUGUUUCCAAC---UUUUUUCCUAUGGUAAAUAAUACUAAAG
+OTTHUMT00000043281      UUUACCAUAGGAAAAAAGUUGGAAACAAUACAUUUUAUGUUCUGUAAAAUGAAAGAACAG
+                        *  *  * *  ***    ***    ***    **** *  * **  **** * *  * **
+
+OTTHUMT00000006707      U-AAAUAUCUC-UGUGCAUGAAUCUUUUUGUAUAUGUUGGAAUAUCCUUAAGAUAAGGCC
+OTTHUMT00000007987      U-AAAUAUCUC-UGUGCAUGAA--------------------------------------
+OTTHUMT00000043281      UUAAAUAAAUCAUGGCUCUAAGACGACUCCAGGGCUGUGUACGGAAGUUCAGGGACAGAA
+                        * *****  ** **    * *                                       
+
+OTTHUMT00000006707      CCAGAACUAAAAGUACCCUGUCAAAGGGUGAGCAUUUCCGGUUCCCCUGCUGUGCUUUGC
+OTTHUMT00000007987      ------------------------------------------------------------
+OTTHUMT00000043281      UCAG--UUGAGGCUGUUCCACCUGAGCCUAAGCUUCCUCUGCUGUAUGUCGGGAAUCAGG
+                                                                                    
+
+OTTHUMT00000006707      UGCG--UUGUUCUCCCCUGCUGCAACGUUC-UCACUCCACAAUCCUGGGGCAGGUAGGGG
+OTTHUMT00000007987      ------------------------------------------------------------
+OTTHUMT00000043281      UGGGGGCCAAGCGAGAUCACCACAGUGCAGGCCAGUGUGCAGGGCACAGGUGGGCACCAG
+                                                                                    
+
+OTTHUMT00000006707      AGGCCCAGCUGAGUUUGGAUC-AUAAUCCUGAAAGACACA--------------------
+OTTHUMT00000007987      ------------------------------------------------------------
+OTTHUMT00000043281      GGAGGGGACGCCGCACAGCCCCAUGCUCUCGCCAAAAACGUGCAGCACAAUUUGGAAGAA
+                                                                                    
+
+OTTHUMT00000006707      -----------------------------------------------
+OTTHUMT00000007987      -----------------------------------------------
+OTTHUMT00000043281      AACAUUUCCAUCUGUUAAUAAAGAGCAAGGGCCUCUGGUCAUAAGUG
+