# STOCKHOLM 1.0
#=GF ID VIS1
#=GF AC RF01992
#=GF DE Viral integration site 1
#=GF AU Eberhardt R; 0000-0001-6152-1369
#=GF GA 100.0
#=GF NC 42.6
#=GF TC 115.3
#=GF PI HIS-1
#=GF SE Predicted; ClustalW; Eberhardt R
#=GF SS Predicted; Pfold;
#=GF TP Gene; lncRNA;
#=GF BM cmbuild -F CM SEED
#=GF CB cmcalibrate --mpi CM
#=GF SM cmsearch --cpu 4 --verbose --nohmmonly -T 30.59 -Z 2958934 CM SEQDB
#=GF DR SO; 0001263; ncRNA_gene;
#=GF RN [1]
#=GF RM 9031624
#=GF RT Evolutionary conservation of putative functional domains in the human
#=GF RT homolog of the murine His-1 gene.
#=GF RA Li J, Rhodes JC, Askew DS
#=GF RL Gene. 1997;184:169-176.
#=GF WK VIS1
#=GF SQ 27

U10269.1/831-1031            -UGGCAAGGCUGACAUAGC--UUUUACUGAUC-UGUCUGUUU-AGUGAGUGGACAGGA-UGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACUACUAGACAUUUUAUUUAAAAU-CUGGCACUGGCUU-UGGAGAGGUGAGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACACAAACAGGC
AAHX01021520.1/88041-87840   -UGGCAGGGCCAACGUAGC--UUUUACUGAUU-UGCCUGUUU-AGCAAGUGGACAGGA-UGCCAGUCUGGCAGUUUGUGUUGACGAUAAAUCACAACUAGACAUUUUAUUUAAAAU-CUGGCACUGGCUU-GGGAGAGGUGAGGGAUUGUCGAUUUGUUUUUAUUUUGGAGGCCAGGCACAA-UCAUAACACAAACAGGC
ABDC01349465.1/5059-5260     -UGGCAAGGUUGACAUAGC--UUUUACUGAUU-UGUCUGCUU-AGUAGGUAAGCGGGGCUGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCUU-GGGGGAGGUAAGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACAUACACAGGC
ABRO01323638.1/1086-1287     -UGGCAAGGUUGACCUAGC--UUUCACUGAUU-UGUCUGCUU-AGUAGGUAAAUGGGGCUGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCUU-GGGGGAGGGGAGGGACUGUCAAUUUGUUUUUAUUUUG-AGGCCAAGCACAG-UCAUAACAUACACAGGC
ABRQ01083001.1/213-413       -GGGCAAAGUUGACAUAGU--UUUUACUGAUU-UGUCUGCUUAGU-AGGUAAUGGGA-CUGCAAGUCUGGCAGUUUGCGUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAU-UUGGCUCUGGCUUGGGGGA-GGUAAGGAAUUGUCAAUUUGCUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACACACAUGGGC
ABVD01000942.1/1332-1533     -GGGCAAGUUUGACCUAGC--UGUUACUGAUU-UGUCUGCUU-AGUAGGUAAAUGGGGUAGCCAAUCUGGUAGUUUGCAUUGGUAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCUU-GGGGGAGGUAAGAGAUUAUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACACACACAGGC
AAWR02006338.1/126668-126867 -GGGCAAGGUUGACAUAGU--UUUUACUGAUU-GGUCUGCUU-AGUAGGUAAAUGGGGCUGCCAGUCUGGCAGUUUGCACUGGCCAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCUU-GGGGGAGGUAAGGGAUCGUCAAUUUGCUUUUCUUUUG-AGGCCAGGCACAA-UCAUAACACAC--AGGC
ABRR01127926.1/4715-4916     -GGGCAACGUUGACAUCGC--UUUUACUGAAU-UGUCUGCUUAGG-AGGUGAAUGGGGCUGCCAGUCUGGCAGUUUCCACUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAG-UUGGCUCUGGCUUGAGGGA-GGUAAGGGAUUGUCAAUUUGCUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACACACACAGGC
AAFC03109165.1/81244-81044   -AGGCAAGGUUGACAUUGG--UUUUACUAAUU-UGUCUGCUU-AGUAGGUAAAUGGGGUUGCCAGUCUGGCAGUUUGCACUGGCAAUAAAUCACCACUAGACAUUUUAUUUUAAAA-UUGGCACUGGCUU-GAGGGAGGUAAAGGAUUGUCAAUUUGCUUUUAUUUGA--GGCCAGGCACAA-UCAUAACAAACAUAGGC
ABRN01387294.1/22195-22395   -GGGCAAGGUUGACAUAGA--UUUUACUGAUU-UGUCUGCUU-AGUAGGUAAAUGGGGUUGCCAGUCUGGCAGUUUGCAGUGACAAUAAAUCACCGCUAGACAUUUUAUUUAAAAA-UUGACACUGGCUU-GCGGGAUGUAAGGGAUUGUCAAUUUGCUUUUAUUUGA--GGCCAGGCACAA-UCAUAACACACACAGGC
AAGV020005392.1/620-821      -GGGCAAGGUUGACAUAGU--UUUUUCUGUUU-UUUCUGUUU-AGUAGGUAAAUGGGGCUGCUAGUCUGGUAGCUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCUGUGGCUU-GGGGGAGGUAAGGAAUUGUCAAUUUGCUGUUAUUUUG-AGGCCAGGCACAA-UCAUAAUGCACACAGGC
AAKN02006300.1/15682-15492   ---------------UGGCAAUGCUACUGGUU-UGUCUGCCUACUUAGGUGAAUGGGGCUGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACCAGUAGACAUUUUAUUUAAAAA-UUGGCACUGAUUUGGGGGA-GGUAGGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCAUAG-UCAUAACACACACAGGC
AAQQ01584859.1/1510-1710     -UGGCAAG-UUAACAUAGC--UUUGACUGAUU-UGUCUGUUU-AGUAGGUAAAUGGGGCUGCCAGUCUGGCAGUUUGCAUUGGCAAUAUAUCACCACUAGACAUUUUAUCUAAAAA-UUGGCCAUAGUUU-GGGUGAGGUAAGGGUUUGUCAAUUUGUUUUUAUUUUG-AAGCCAGGCAUAA-UCAUAAUGCUCACAAGC
AAYZ01070532.1/7886-8085     -UGGCAAAAUGGAUCUAGC--UUUCCCUGAUU-UGUCUGCUU-UGUAGGUACACGGGGCUGCCAGUCUGACAGUUUGCGUUGGCAAUAAAUCACCAUCAGAUAUUUUAUUUCAAAA-UUGGCACUGACUU-GGUGAAGGUAAGGGAUUGUCAAUUCAUUUUUAUUUUG-AGGCCAGGC--GA-UGAUAACACACAAAAGU
AALT01491474.1/6681-6880     ------AGGUUGUUUCAGCAAACAAACUGAUU-UGUUUGCUUAGU-AGGUAACUGGG-CUGCCAGUCUGGCUCUCUGCAUUGGCAAUAAAUCACCACUAGAUGCUUUAUUUUAAAAAUUGGCACUGGCUUGAGGGGUGGUGAGGGAUUGUCAAUUUGCUCUUAUUUUG-AGGCCAGGUACAA-UUAUCAUGCACACAUGC
AAIY01439786.1/1398-1200     UGGGCAAAAAAAACAUAGCU-UUUUACUGCUU-UGUCCACUUAGG-AGGUAACAGGA-CUGCCAACCUGGCAGUGUGCAAUGACAACAAAUCACCACGAGACGUUUCAUUUAAAAA-UUGGCACUGCUUUUGGGGA-GGUAAGGGAUUGUCAAUUUGCAUUUAUUUUA-AGGCCAGGCACAA-UCAUAA----CACUCCC
AAFR03008508.1/39298-39497   ----UUAGGUUGAUGUGGC--UUUUCCUGAUGAUGCCUGCUU-GGUAGGUAAAUUAGGCUGCCAAUCUGGCAGUUUUCAUUGUCAAUAAAUCUAUUCUAGACACUUUAUUUAAAAG-UUGGCACUGGUGU-AGAGGAGGUAAGGGACUGUAAAUUUUCUUUUAUUUAG-AGGCCAGGAAUAA-UCAUAACAAACAUAGAC
U09772.1/881-1081            -UGGCAAGGCUGACAUAGC--UUUUACUGAUC-UGUCUGUUU-AGUGAGUGGACAGGA-UGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACUACUAGACAUUUUAUUUAAAAU-CUGGCACUGGCUU-UGGAGAGGUGAGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACACAAACAGGC
AF307319.1/293-433           -------------------------------U-UGUCUGCUU-A-UGAAUGGACAGGA-UGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAU-UUGGCACUGGCUU-GGAAGAG-UGANGGAUUGUCAAUUUGUUUUUAUUUUG-AAGCCAGGCAC--------------------
U56440.1/5840-6042           -UGGCAAGGUUGACAUAGC--UUUUACUGAUU-UGUCUGUUUUAGUAGGUAAAUGGGGCUGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCUU-GGCGGAGGUAAGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACAUACACAGGC
U56439.1/4333-4533           -UGGCAAGGCUGACAUAGC--UUUUACUGAUC-UGUCUGUUU-AGUGAGUGGACAGGA-UGCCAGUCUGGCAGUUUGCAUUGGCAAUAAAUCACUACUAGACAUUUUAUUUAAAAU-CUGGCACUGGCUU-UGGAGAGGUGAGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACAA-UCAUAACACAAACAGGC
AF307310.1/379-495           ------------------------------------------------------------GCCAGUCUGGCAGUUUGCACUGGCAAUAAAUCACCACUAGACAUUUUAUUUUAAAA-UUGGCACUGGCUUGAGGGA-GGUAAAGGAUUGUCAAUUUGCUUUUAUUUUG-AGGCCAGGCAC--------------------
AAPE02013820.1/33832-33630   -GGGCAAGGUUGACCUAGC--UUUUACUGAUU-UGUCUGUUU-AGUAGGUAAAUGGGGCUGCCAGUCUGGCAGUUUGCACUGGCAAUAAAUCACCACGAGACAUUUUAUUUAAAAA-UUGGCACUGGCUUUGGGGGAGGUGAGGGAUUGUCAAUUUGCUUUUAUUUUG-UGGCCAGGCACAA-UCAUAACACACACAGGC
AAGW02004834.1/58037-57836   -UGGCAAGGUUCACCUAGC--UUUCACUGAUU-UGUCUGGUU-AGUAGGUAAAUGGGGCUGCCAGUCUGGCAAUUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACCGGCUU-GGAGGAGGUAAGGGAUUGUCAACUCGCUUUUGUUUUG-AGGCCAGACACAG-UCAUAACACACAAAAGC
AAGU03011001.1/29250-29050   -GGGCAAGGUUGACAUAGC--UUUUACUGAUU-UGUCUGCUUAGU-AGGUAACGGGA-CUGCCAGUCUGGCAGUUUGUGUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCCUGGGGGA-GGUAAGGAAUUGUCAAUUUGCUUUUAUUUUG-AGGCCAGGCCCAA-UCAUAACACACACAGGC
AACN010165493.1/494-294      -GGGCAAGGUUGACAUAGC--UUUUACUGAUU-UGUCUGCUU-AGUAGGUAAAUGGGGCUGCCAGUCUGGCAGUUUGCACUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGGCUC-GGGGGAGGU-AGGGGUUGUCAAUUUGCUUUUAUGUUG-AGGCCAGGCACAA-UCAUAACACACACAAGC
AAQR03097656.1/86881-87080   -UGGCAAGGUGGACAC-GC--UUCUGCUGAUU-UGUCUGCUU-AGUAGGUAAGUGGG-CUGCCAGGCUGGCAGUUUGCAUUGGCAAUAAAUCACCACUAGACAUUUUAUUUAAAAA-UUGGCACUGACCA-GGGGGAGGUAAGGGAUUGUCAAUUUGUUUUUAUUUUG-AGGCCAGGCACA-AUCAUAACAUACACAGGC
#=GC SS_cons                 .::::::::::::::::::..:::::::::::.:::::::::.:::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::.:::::::::::::.:::::::::::::::::::::::::::::::::::::.:::::::::::::.:::::::::::::::::
#=GC RF                      .gGGCaAGGuuGAcaUaGc..UuuuaCUGaUu.UGUCUGcUU.aGUAGGUaaaugGGGcUGCCAGUCUGGCAGUuUGCauUGGCAAUAAAUCACcaCuAGACAUUUUAUUUaAAAa.UUGGCaCUGGcuU.gGgGGaGGUaAGGGAUUGUCAAUUUGcUUUUAUUUuG.AGGCCAGGCACAA.UCAUAAcacACAcagGC

U10269.1/831-1031            CACCUGGAAAC
AAHX01021520.1/88041-87840   CACCUGGAAAC
ABDC01349465.1/5059-5260     CACCUGGAAAC
ABRO01323638.1/1086-1287     CACCUGGAAAC
ABRQ01083001.1/213-413       CACCUGGAAAC
ABVD01000942.1/1332-1533     CACCUGGAAAC
AAWR02006338.1/126668-126867 CGCCUGGAAAC
ABRR01127926.1/4715-4916     CACCUGGAAAC
AAFC03109165.1/81244-81044   CACCUGGAAAC
ABRN01387294.1/22195-22395   CACCUGGAAAC
AAGV020005392.1/620-821      CACCUGGAAAC
AAKN02006300.1/15682-15492   CACCUGGAAAC
AAQQ01584859.1/1510-1710     CACUUGGAAAC
AAYZ01070532.1/7886-8085     CACCUGGAAAC
AALT01491474.1/6681-6880     CACCUGGAAAC
AAIY01439786.1/1398-1200     CACCUGGGCAC
AAFR03008508.1/39298-39497   CACCUGGAAGC
U09772.1/881-1081            CACCUGGAAAC
AF307319.1/293-433           -----------
U56440.1/5840-6042           CACCUGGAAAC
U56439.1/4333-4533           CACCUGGAAAC
AF307310.1/379-495           -----------
AAPE02013820.1/33832-33630   CACCUGGAAAC
AAGW02004834.1/58037-57836   CACCUGGAAAC
AAGU03011001.1/29250-29050   CACCUGGAAAC
AACN010165493.1/494-294      CACCUGGAAAC
AAQR03097656.1/86881-87080   CACCUGGAAAC
#=GC SS_cons                 :::::::::::
#=GC RF                      CACCUGGAAAC
//
