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add Stockholm files for TBEV 3'UTR elements
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| # STOCKHOLM 1.0 | ||
| #=GF SS RNAalifold prediction | ||
| #=GF ID TBEV.3SL | ||
| KJ739731.1/10679-10780 CCUCAACAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGAGUGACUCGAA-AAAACACCCGCU | ||
| KF951037.1/10793-10894 CUUCAAUAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGUGUGACUCGGA-AAAACACCCGCU | ||
| MG599476.1/10660-10761 CCUCAAUGGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGUGUGACUCGGA-AAAACACCCGCU | ||
| KU761569.1/10817-10918 CCGCAAUAAGGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGUGUGACUCGGA-AAAACACCCGCU | ||
| GU183382.1/10774-10875 CCUCAAUAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGUGUGACUCGGA-AAAACACCCGCU | ||
| MH645616.1/10650-10751 CCUCAAGAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGUGUGACUCGGA-AAAACACCCGCU | ||
| FJ402885.1/10774-10875 CCUCAAUAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUCGUCUGACAAGGAGGUGAUGUGUGACUCGGA-AAAACACCCGCU | ||
| KM019546.1/10679-10780 CCUCAACAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGAGUGACUCGGA-AAAACACCCGCU | ||
| AB753012.1/10999-11100 CCUCAAUAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGAGUGACUCGGA-AAAACACCCGCU | ||
| AF069066.1/10826-10927 CCUCAACAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGACAGUCUGACAAGGAGGUGAUGUGUGACUCGGA-AAAACACCCGCU | ||
| MN615727.1/11003-11104 CCUCAACAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGACAGUCUGACAAGGAGGUGAUGCGUGACUCGGA-AAAACACCCGCU | ||
| JQ650523.1/10681-10782 CCUCAACAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGACGUGUGACUCGGA-AAAACACCCGCU | ||
| JQ650522.1/10681-10782 CCUCAACAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGGGGUGAUGUGUGACUCGGA-AAAACACCCGCU | ||
| MG210947.1/10893-10994 UCUCGGUAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGUGUGACUCGGA-AAAACACCCGCU | ||
| KJ922512.1/10676-10777 CCUCGGUAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGUGUGACUCGGA-AAAACACCCGCU | ||
| KJ922514.1/10893-10994 CCUCGGUAGAGGGGGGGCGGUUCUUGUUCUCCCUGGGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGUGUGACUCGGA-AAAACACCCGCU | ||
| KY069124.1/10724-10825 CCUCGGUAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGCGUGACUCGGA-AAAACACCCGCU | ||
| NC_001672.1/11040-11141 CCUCGGUAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGGUAGUCUGACAAGGAGGUGAUGUGUGACUCGGA-AAAACACCCGCU | ||
| MH094241.1/10772-10874 CCUCAACAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGUGUGACUCGGAAAAAACACCCGCU | ||
| HQ901367.1/10780-10881 CCUCAAUAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGAGUGACUCGGA-AACCCCCCCGCU | ||
| KM019545.1/10832-10933 CCUCAAUAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCUCCAUCACUCUGAAACAUAUUGAGAGACAAGGAGGUGAUAUAUGACUCGGA-AAAACACCCGCU | ||
| #=GC RF CCUCAAUAGAGGGGGGGCGGUUCUUGUUCUCCCUGAGCCACCAUCACCCAGACACAGAUAGUCUGACAAGGAGGUGAUGUGUGACUCGGA_AAAACACCCGCU | ||
| #=GC SS_cons ((((....))))...(((((....((((....(((((.(((((((((((((((.......))))).......))))))).))).)))))....)))).))))) | ||
| // |
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| # STOCKHOLM 1.0 | ||
| #=GF CC Generated by LocARNA 2.0.0RC8 | ||
| #=GF SQ 10 | ||
| #=GF ID TBEV.CSL1 | ||
|
|
||
| MG243699.1/10674-10693 CCCGGAAGCAGGCU-UCCGGG | ||
| KT321430.1/10648-10667 CCCGGAAGCAAGCU-UCCGGG | ||
| NC_001672.1/10957-10976 CCCGGAAGCACGCU-UCCGGG | ||
| MF774565.1/10918-10937 CCCGGAAGCAUGCU-UCCGGG | ||
| MK801807.1/10587-10606 CCCGGAAGUACGCU-UCCGGG | ||
| DQ153877.1/10739-10758 CCCGGAAGCUCGCU-UCCGGG | ||
| MN115820.1/10620-10639 CCCGGAAGCGUGCU-UCCGGG | ||
| KJ701416.1/10692-10711 CCCGGAAGCGAGCU-UCCGGG | ||
| MN542364.1/10954-10973 CCCGGAAGUAUUCU-UCCGGG | ||
| KU761569.1/10733-10753 CCCCCGACCAGUGUAUGGGAG | ||
| #=GC SS_cons ((((((((....)).)))))) | ||
| // |
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| # STOCKHOLM 1.0 | ||
| #=GF CC Generated by LocARNA 2.0.0RC8 | ||
| #=GF SQ 79 | ||
| #=GF ID TBEV.CSL2 | ||
|
|
||
| MH645613.1/10519-10583 CCCACCCGGCCAGUGGAGGGGG-AAGCUGGUCAGGGGU | ||
| LC017693.1/10722-10786 CCCCACCGGCCAGUAGAGGGGG-AAGCUGGUCGGGGGU | ||
| MF774565.1/10718-10782 CCCCUCCGGCCAGUGAAGGGGG-AGGCUGGUCGGGGGU | ||
| KT321430.1/10451-10512 CCCCCCCGGCCAGUGGAGGGGG-AAGCUGGUCAGGGGU | ||
| KM019545.1/10723-10787 CCCCCCCGGCCAGUAGAGGGGG-AAGCUGGUCAGGGGU | ||
| MN542364.1/10754-10818 CCCCCCCGGCCAGUAGAGGGGG-AAACUGGUCAGGGGU | ||
| JN003208.1/10691-10755 CCCCCCUGGCCGGUAGAGGGGG-AAGCUGGUCAGGGGU | ||
| MN114636.1/10720-10784 CCCCCCUGGCCAGUAGAGGGGG-AAGCUGGUCAGGGGU | ||
| MN115818.1/10452-10516 CCCCCCCGGCCAGUGGAGGGGG-AAGCUGGUCGGGGGU | ||
| EF469662.1/10425-10489 -CCCUCCGGCCGGUAGAGGGGG-AAGCCGGCCGGGGAA | ||
| HM859894.1/10715-10777 -CCCACCGACCAGUGGAGGGGA-AAGCUGGCCGGGGUA | ||
| FJ402885.1/10493-10555 -CCCCCCGGCCAGUGAAGGGGA-AAACUGGCCGGGGUA | ||
| DQ862460.1/10511-10574 -CCCCCCGGCCAGUGAAGGGGA-AAGCUGGCUGGGGUA | ||
| EU816451.1/10434-10496 -CCCCCCGGCCAGUGGAGGGGA-AAGCUGGUCGGGGUA | ||
| GQ228395.1/10715-10777 -CCCCCCGGCCAGUGGAGGGGA-AAGCUGGCCGGGGUA | ||
| MT246197.1/10702-10765 -CCCCCCGACCAGUGGAGGGGA-AAGCUGGUCGAGGUA | ||
| KP844724.1/10692-10755 -CCCCUCGACCAGUGGAGGGGA-AAGCUGGCCGGGGUA | ||
| KF880803.1/10696-10759 -CCCCCCGACCAGUGGAGGGGA-AAGCUGGCCGGGGUA | ||
| AB062064.1/10511-10574 -CCCCCCGACCAGUGGAGGGGA-AAGCUGGCCGGGGCA | ||
| MN615727.1/10721-10784 -CCCCCCGACCAGUGAAGGGGA-AAGCUGGCCGGGGUA | ||
| KU761568.1/10451-10513 -CCCCCCGACCAGUGAAGGGGA-AAACUGGCCGGGGUA | ||
| LC440460.1/10719-10782 -CCCCCCGACCGGUGAAGGGGA-AAACUGGCCGGGGUA | ||
| KU761575.1/10539-10602 -CCCCCCGACCAGUGGAGGGAA-AAGCUGGCCGAAGUA | ||
| KU884607.1/10681-10747 CCUUCCUGACCGGCAAAGGGGGCAAACCGGUCGGGGGU | ||
| HM120875.1/10498-10564 CUCCCCUGACCGGCAAAGGGGGCAAACCGGUCGGGGGU | ||
| KJ922515.1/10577-10643 CCCCCCUGACCGGCAAAGGGGGCAGACCGGUCGGGGGU | ||
| MK801804.1/10631-10697 CCCCCCUGGCCAGCAAAGGGGGCAAACUGGUCAGGGGU | ||
| JQ654701.1/10713-10779 CCCCCCUGACCAGCAAAAGGGGCAAACCGGUCAGGGGU | ||
| HM535611.1/10710-10776 CCCCCCUGGCCAGCAAAUGGGGCAAACCGGUCAGGGGU | ||
| KC835596.1/10605-10671 CCCCCCUGACCAGCAAAGGGGGCAAACCGGUCAGGGGU | ||
| MK922615.1/10689-10755 CCCCCCUGACCAGCAGAGGGGGCAAACCGGUCAGGGGU | ||
| KX268728.1/10710-10776 CCCCUCUGGCCAGCAAAGGGGGCAAACCGGUCAGGGGU | ||
| MK922617.1/10689-10755 CCCCCCUGGCCAGCAAAGGGGGUAAACCGGUCAGGGGU | ||
| MG210947.1/10607-10673 CCCCCCUGGCCAGCAAAGGGGGCAAACCGGUCAGGGGA | ||
| MG589938.1/10685-10751 CCCCCCUGGCCAGUAAAGGGGGCAACCCGGUCAGGGGU | ||
| MK801809.1/10665-10731 CCCCCCUGACCAGUAAAGGGGGCAAACCGGUCAGGGGU | ||
| GQ266392.1/10710-10776 CCCCCCUGGCCAGUAAAGGGGGCAAACCGGUCAGGGGU | ||
| KJ922513.1/10577-10643 CCCCCCUGACCAGCAAAGGGGGCAGACCGGUCGGGGGU | ||
| AM600965.1/10498-10564 CCCCCCUGACCAGCAAAGGGGGCAUACCGGUCGGGGGU | ||
| GU183380.1/10710-10776 CCCCCCUGACCAGCAAAGGGGGCAAAACGGUCAGGGGU | ||
| KJ922514.1/10607-10673 CCCCCCUGGCCAGCAAAGGGGGCAAACCGGUCACGGGU | ||
| LC171402.1/10506-10571 CCCCCCUGGCCA-UAGAAGGGGCAAAUUGGCCAGGGGC | ||
| KJ922513.1/10718-10799 CCCCCUGCAUCAUGACAAGGCCGAACAUGGUGCAUGAA | ||
| FJ572210.1/10832-10913 CCCCCUGCAUCAUGACAAGGCCGCACAUGGUGCAUGAA | ||
| LC171402.1/10646-10727 CCCCCUGCACCAUGUCAAGGCCGAACAUGGUGCAUGAA | ||
| KF991106.1/10847-10928 CCCCCUGCAUCAUGAUAAGGCCGAACAUGGUGCAUAAA | ||
| KF991107.1/10558-10639 CCCCCUGCAUCAUGAUAAGGCCGAACAUGAUGCAUAAA | ||
| HM535611.1/10851-10932 CCCCCUGCAUCAUGAUAAGGCCGAACAUGGUGCAUUAA | ||
| JQ654701.1/10854-10935 CCCCCUGCAUCAUGAUAAGGCCGAACAUGGUGCAUGAA | ||
| KX268728.1/10851-10932 CCCCCUGCAUCAUGAUAAGGCCGAACAUGGUGCGUGAA | ||
| MG210947.1/10748-10829 CCCCCUGCACCAUGAUAAGGCCGAACAUGGUGCAUGAA | ||
| MK922617.1/10830-10911 CCCCCUGCAUCAUGGUAAGGCCGAACAUGGUGCAUGAA | ||
| MG599476.1/10515-10596 CCCCCCGCACCAUGAUAAGGCCGAACAUGGUGCAUAAA | ||
| MG243699.1/10613-10693 CCCCCCGCACCAUGACAAGGCCGAACAUGGUGCAUCAA | ||
| MH645616.1/10506-10586 CCCCCUGCAUCAUGAAAAGGCCUAACAUGAUGCAUGAG | ||
| MH645614.1/10584-10664 CCCCCUGCAUCAUGACAAGGCCUAACAUGACGCACGAA | ||
| MN542364.1/10893-10973 CCCCCUGCAUCAUGACAAGGCCUAACAUGAUGCAUAAA | ||
| JN003207.1/10639-10719 CCCCCUGCAUCAUGACAAGGCCUAGCAUGAUGCACAAA | ||
| MN115819.1/10625-10705 CCCCCUGCAUCAUGACAAGGCCUAGCAUGAUGCACGAA | ||
| MN114635.1/10862-10942 CCCCCUGCAUCAUGAUAAGGCCUAACAUGAUGCACGAA | ||
| JN003209.1/10837-10917 CCCCCUGCAUCAUGACAAGGCCUAACAUGAUGCAUGAA | ||
| LC017692.1/10861-10941 CCCCCUGCAUCAUGACAAGGCCUAACAUGAUGCACGAA | ||
| GU183382.1/10630-10710 CCCCCUGCAUCAUGGCAAGGCCUAACAUGAUGCACGAA | ||
| DQ862460.1/10649-10729 CCCCCGGCACCAUGAGAAGGCCGAGCAUGGUGCAAGAA | ||
| JQ825155.1/10533-10613 CCCCCGGCACCAUGAGAAGGCCGAGCAUGGUGCAAAAA | ||
| JQ825148.1/10638-10718 CCCCCGGCACCAUGAUAAGGCCGAGCAUGGUGCAAAAA | ||
| JQ825150.1/10643-10723 CCCCCGGCACCAUGAUAAGGCCGAACAUGGUGCAAAAA | ||
| KP844727.1/10831-10911 CCCCCGGCACCAUGACAAGGCCGAACAUGGUGUGAGAA | ||
| FJ906622.1/10631-10711 CCCCCGGCACCAUGACAAGGCCGAACAUGGUGCAAGAA | ||
| KJ744034.1/10604-10683 CCCCCGGCACCAUGACAAGGCCGAACAUGGUGUAAGAA | ||
| HQ201303.1/10637-10717 CCCCCGGCACCAUGACAAGGCCGAACGUGGUGCAAGAA | ||
| EF469662.1/10564-10644 CCCCCGGCACCAUGACAAGGCCGAGCAUGGUGCAAGAA | ||
| KF880803.1/10834-10914 CCCCCGGCACCAUGAUAAGGCCGAACAUGGUGCAAGAA | ||
| GU121642.1/10858-10938 CCCCCGGCAUCAUGAUAAGGCCGAACAUGGUGCAAGAA | ||
| EF469661.1/10538-10618 CCCCCAGCACCAUGACAAGGCCGAACAUGGUGCAAGAA | ||
| KJ914682.1/10535-10615 CCCCCGGCACCAUGAUAAGGCCGAACAUGGUGCACCAA | ||
| JQ825145.1/10634-10714 CCCCCGGCACCAUGAUAAGGCCGAACAUGGUGCAACAA | ||
| KT001073.1/10836-10916 CCCCCGGCACCAUGAUAAGGCCAAACAUGGUGCAAGCA | ||
| MF774565.1/10857-10937 CCCCCUGCAUCAUGACAAGGCCUAACCUGAUGCGUAAA | ||
| #=GC SS_cons ..((.(((((((((...........))))))))))).. | ||
| // |
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| # STOCKHOLM 1.0 | ||
| #=GF CC Generated by LocARNA 2.0.0RC8 | ||
| #=GF SQ 59 | ||
| #=GF ID TBEV.CSL3 | ||
|
|
||
| MN114635.1/10494-10656 GGCUGAGCA-AAGGUCCUGAAUGACCAGACCGUUCUUACUGCGGGCUGGGGAGGGGG--GCCGGAAUGCGAGGCC | ||
| MH645618.1/10494-10656 GGCUGAGCA-AAGGUCCUGAAUGACCAGACCGUUCUUACCGCGGGCUGGGAAGGGGG--GCCAGAAUGCGAGGCC | ||
| MH645619.1/10494-10656 GGCUGAGCA-AAGGUCCUGAAUGACCAGACCGGUCUUACCGCGGGCUGGGAAGGGGG--GCCAGAAUGCGAGGCC | ||
| JN003209.1/10469-10631 GGCUGAGCA-AAGGUCCUGAAUGACCAGACCAUCCACACUGCGGGCUGGG-AUUGGG--GCCAGAAGGCGAGGCC | ||
| JN003208.1/10463-10624 GGCUGAGCA-AAGGUCCUGAAUGACCAGACCAUCCGCACUGCGGGCUGGG-AUUGGG--GCCAGAAGGCGAGGCC | ||
| LC017692.1/10494-10655 GGCUGAGCA-AAGGUCCUGAAUGACCAGACCGUUCGCACUGCGGGCUGGG-ACGGGG--GCCAGAAGGCGAGGCC | ||
| LC017693.1/10494-10655 GGCUGAGCA-AAGGUCCUGAAUGACCAGACCGUUCGCACUGCGGGCUGGG-AUGGGG--GCCAGAAGGCGAGGCC | ||
| MN114637.1/10494-10655 GGCUGAGCA-AAGGUCCUGAAUGACCAGACCGUUCAUACUGCGGGCUGGG-AUGGGG--GCCAGAAGGCGAGGCC | ||
| MN542364.1/10526-10687 GGCUAAGCA-AAGGUCCUGAAUGACCAGACCGUUCGCACUGCGGGCUGGG-AUGGGG--GCCGGAAGGCGAGGCC | ||
| MG589939.1/10480-10641 GGCUGAGCA-AAGGUCCUAAAUGACCAGACCGUUCGCACUGCGGGCUGGG-AUGGGG--GCCAGAAGGCGAGGCC | ||
| KP345889.1/10475-10632 GGCUGAGCA-AAGGUCCUAAAUGACCAGACCAUCCGCACUGCGGGCUGGG-AUGGGG--GCCAGAAAGCGAGGCC | ||
| MF774565.1/10495-10651 GGCUGAGCA-ACGGCUCCAAAUGACCAGACCGUCUACACCACGG-CUGGG-AUUGGG--GCCAGGAGGCGAAGCC | ||
| MN615727.1/10493-10654 GGCUGAGCAAAAGGUCCCAAUGUACCAGAACGCUUACACAGCG-ACUGGGGUG-AGG--GCCAGAAAGCGAGGCC | ||
| JX968560.1/10371-10532 GGCUGAGCAAAAGGUCCCAAUGUACCAGAACGCUUGCACAGCG-ACUGGGGUG-AGG--GCCAGGAAGCGAGGCC | ||
| JX534167.1/10493-10654 GGCUGAGCAAAAGGUCCCAAUGCACCAGAACGCUUGCAUAGCG-ACUGGGGUG-AGG--GCCAGGAAGUGAGGCC | ||
| GU121642.1/10493-10654 GGCUGAGCAAAAGGUCCCAAUGUACCAGAACGCUUGCAUAGCG-ACUGGGGUG-AGG--GCCAGGAAGCGAGGCC | ||
| MN615726.1/10485-10646 GGCUGAGCAAAAGGUCCCAAUGUGCCAGAACGCUUGCAUAGCG-ACUGGGGUG-AGG--GCCAGGAAGCGAGGCC | ||
| KT001073.1/10470-10631 GGCUGAGCAAAAGGUCCCAGUGUACCAGAACGCUCAUAUAGCG-ACUGGGGUG-AGG--GCCAGGAAGCGAGGCC | ||
| LC440460.1/10494-10652 GGCUGGGCAAAAGGUCCCAAUGUACCAGAACGCUUGCAUAGCG-ACUGGGGUG-AGG--GCCAGGAAGCGAGGCC | ||
| AB753012.1/10493-10651 GGCUGAGCAAAAGGUCCCAACGUGCCAGAACGCUUACACUGCG-ACUGGGAUG-AGG--GCCAUGAGGCGAGGCC | ||
| JQ825157.1/10490-10648 GGCUGAGCAAAAGGUCCCAAUGUGCCAGAACGCUUACACUGCG-ACUGGGAUG-AGG--GCCACGAGGCGAGGCC | ||
| EU816453.1/10493-10651 GGCUAAGCAAAAGGUCCCAAUGAGCCAGAACGCUUACACCGCG-ACUGGGAUG-AGG--GCCACGAGGCGAGGCC | ||
| KF880803.1/10471-10629 GGCUGAGCACAAGGUCCCGAUGUACCGGAACGCUUACACUGCG-ACUGGGGUG-GGG--GCCAUGAGGCGAGGCC | ||
| MT246197.1/10477-10635 GGCUGAGCAAAAGGUCCUAAUGUACCAGAGCGCUAACAUUGCG-ACUGGGGUG-AGG--GCCAGGAGGCGAGGCC | ||
| KP844724.1/10470-10625 GGCUGAGCAAAAGGCCCCAAUGCACCAGGACGC---CACUGCG-ACUGGGGUG-AGG--GCCGGGAAGCGAGGCC | ||
| KT001070.1/10470-10625 GGCUGAGCAAAAGGUCCCAAUGUACCAGGACGC---CACUGCG-ACUGGGGCG-AGG--GCCAGGAAGCGAGGCC | ||
| KF880805.1/10470-10625 GGCUGAGCAAAAGGUCCCAAUGUACCAGGACGC---CACUGCG-ACUGGGGUG-AGG--GCCAGGAAGCGAGGCC | ||
| KU761569.1/10493-10648 GGCUGAGCAAAGGGUCCCAAUGUGCCAGGACGC---CACUGCG-ACUGGGGUG-AGG--GCCAGGAAGCGAGGCC | ||
| MT311860.1/10436-10586 GGCUGAGCUAAAAGUCCCCACU--ACGGGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAAGAGGCGAAGCC | ||
| MK801803.1/10448-10598 GGCUGAGCUAAAAGUUCCCACU--ACGGGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAAGAGGCGAAGCC | ||
| DQ401140.3/10493-10643 GGCUGAGCUGAAAGUUCCCACU--ACGGGACUGCUUCAUAGCAGUUUGUGG--GGGGAGGCUAGGAGGCGAAGCC | ||
| MK801806.1/10448-10598 GGCUGAGCUAAAAGUUCCCACU--ACGAGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAGGAGGCGAAGCC | ||
| KX268728.1/10493-10643 GGCUGAGCCAAAAGUUCCCACU--ACGGGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAGGAGGCGAAGCC | ||
| U27495.1/10536-10686 GGCUGAGCUAAAAGUUCCCACU--ACGGGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAGGAGGCGAAGCC | ||
| KF151173.1/10493-10643 GGCUGAGCUAAAAGUUCCCACU--ACGGGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAGGAAGCGAAGCC | ||
| MG589937.1/10457-10607 GGCUGAGCUAAAAGUUCCCACC--ACGGGACUGCUUCAUAGCGGUUUGUGA--GGGGAGGCUAGGAGGCGAAGCC | ||
| KC835597.1/10493-10643 GGCUGAGCUAAAAGUUUCCACC--ACGGGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAGGAGGCGAGGCC | ||
| KF991106.1/10489-10639 GGCUGAGCUAAAAGUUACCACU--ACGGGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAGGAGGCGAAGCC | ||
| HM535611.1/10493-10643 GGCUGAGCUAAAAGUACCCACU--ACGGGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAGGAGGCGAAGCC | ||
| MK922616.1/10472-10622 GGCUGAGCUAAAAGUACCCACU--ACGGGACUGCUUCAUAGCGGCUUGUGG--GGGGAGGCUAGGAGGCGAAGCC | ||
| MK922617.1/10472-10622 GGCUGAGCUAAAAGUACCCACU--ACGGGACUGCUUCAUAGCGGCUUGUGG--GGGGAGGCUAGGAGGCGAGGCC | ||
| FJ572210.1/10473-10623 GGCUGAGCUAAAAGCACCCACU--ACGGGACUGUUUCAUAGCGGUUUGUGG--GGGGAGGCUAGGAGGCGAAGCC | ||
| GQ266392.1/10493-10643 GGCUGAGCUAAAGGUUCCCACU--ACGGGACUGCUUCAUAGCAGUUUGUGG--GGGGAGGCUAAGAGGUGAAGCC | ||
| GU183380.1/10493-10643 GGCUGAGCUGAAAGUACCCACU--ACGGGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAGGAGGCGAAGCC | ||
| KU884607.1/10464-10614 GGCUGAGCUGAAAGUACCCACU--ACGGGACUGCUUUAUAGCGGUUUGUGG--GGGGAGGCUAGGAGGCGAAGCC | ||
| U27491.1/10536-10686 GGCUGAGCUAAAAGUACCCACU--ACGGGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAGGUGGCAAAGCC | ||
| KJ922514.1/10444-10540 GGCUGAGCUAAAAGUUCCCACC--UCGGGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAGGAGGCGAAGCC | ||
| JQ654701.1/10494-10646 GGCUGAGCUAAAAGUUCCCACU--ACGGGACUGCUUUAUAGCGGUUUGUGGGAGGGGAGGCUAAGAGGCGAAGCC | ||
| MG210947.1/10449-10540 GGCUGAGCUGAAAGCACCCACU--ACGGGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAGGAGGCGAAGCC | ||
| KC835596.1/10447-10538 GGCUGAGCUAAAAGUUUCCACU--ACGGGACUGCUUCAUAGCGGUUUGUGG--GGGGAGGCUAGGAGGCGAGGCC | ||
| KJ922513.1/10431-10510 GGCUGAGCUAAAAGUUCCCACU--ACGGGACUGCUUCACAGCGGUUUGUGG--GGGGAGGCUAGGAGGCGAAGCC | ||
| #=GC SS_cons ((((..((....((((((......((((..(((.......)))..)))).....)))..))).....))..)))) | ||
| // |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,45 @@ | ||
| # STOCKHOLM 1.0 | ||
| #=GF CC Generated by LocARNA 2.0.0RC8 | ||
| #=GF SQ 38 | ||
| #=GF ID TBEV.CSL4 | ||
|
|
||
| LC171402.1/10381-10407 CCGGAGGGCUCGUAAAAA--AU-------------------------------------------UGUCCGG | ||
| KJ922515.1/10402-10428 CCGGAGGGCUCGCAAAAA--AU-------------------------------------------UGUCCGG | ||
| MN128700.1/10402-10428 CCGGAGGGCUCGUAAAAG--AU-------------------------------------------UGUCCGG | ||
| AM600965.1/10379-10405 CCGGAGGGCUCGUGAAAG--AU-------------------------------------------UGUCCGG | ||
| NC_001672.1/10402-10428 CCGGAAGGCUCGUAAAAG--AU-------------------------------------------UGUCCGG | ||
| MF043955.1/10401-10427 CUGGAAGGCUCGUAAAAU--AU-------------------------------------------UGUCCAG | ||
| JX968560.1/10391-10417 CUGGAGGGCUCACAAAAC--AU-------------------------------------------UGUCCAG | ||
| MN114635.1/10402-10428 CUGGAGGGCUCGCAAAAC--AU-------------------------------------------UGUCCAG | ||
| KT224352.1/10501-10527 CUGGAGGGCUCAUUAAAC--AU-------------------------------------------UGUCCAG | ||
| MN114637.1/10514-10540 CUGGAGGGCUCAUUAAAC--AC-------------------------------------------UGUCCAG | ||
| MN542364.1/10546-10572 CUGGAGGGCUCAUCAAAC--AU-------------------------------------------UGUCCAG | ||
| EU816453.1/10513-10539 CUGGAGGGCGCAUUAAAC--AU-------------------------------------------UGUCCAG | ||
| MG589939.1/10500-10526 CUGGAGGGCUCAUUAAAU--AU-------------------------------------------UGUCCAG | ||
| KJ626343.1/10402-10428 CUGGAGGGCUCGUUAAAU--AU-------------------------------------------UGUCCAG | ||
| KT224352.1/10389-10415 CUGGAGGGCUCGUAAAAC--AU-------------------------------------------UGUCCAG | ||
| KJ701416.1/10402-10428 CUGGAGGGCUCGUUAAAC--AU-------------------------------------------UGUCCAG | ||
| KT321430.1/10402-10428 CUGGAGGGCUCGUGAAAU--AU-------------------------------------------UGUCCAG | ||
| MN542364.1/10434-10460 CUGGAGGGCUCGUGAAAC--AU-------------------------------------------UGUCCAG | ||
| MH645618.1/10402-10428 CUGGAGGGCUCGUAAAAU--AU-------------------------------------------UGUCCAG | ||
| JQ825145.1/10398-10424 CUGGAGUGCUCAUUAAAC--AU-------------------------------------------UGUCCAG | ||
| JQ825148.1/10398-10424 CUGGAGUGCUCGUUAAAC--AU-------------------------------------------UGUCCAG | ||
| MF774565.1/10402-10428 CUGGAGUGCUCGUAAAAC--AU-------------------------------------------UGUCCAG | ||
| EF469662.1/10295-10321 CUGGAGUGCUCGUUAAAU--AU-------------------------------------------UGUCCAG | ||
| EU816451.1/10398-10424 CUGGAGUGCUCGUUAAAC--GU-------------------------------------------UGUCCAG | ||
| EF469661.1/10295-10321 CUGGGGUGCUCGUUAAAA--AU-------------------------------------------UGCCCAG | ||
| MN661145.1/10370-10396 CCGGNGGGCUCGUAAAAA--AU-------------------------------------------UGUCCGG | ||
| KX966398.1/10504-10530 CUGGAGAGCUCAUUAAAC--AU-------------------------------------------AGUCCAG | ||
| KF151173.1/10513-10539 CUGGAGAGCUCAUCAAAC--AU-------------------------------------------AGUCCAG | ||
| MH021184.1/10495-10521 CUGGAGAGCUCAUUAAAU--AU-------------------------------------------AGUCCAG | ||
| NC_001672.1/10556-10582 CUGGAGAGCUCAUUAAAU--AC-------------------------------------------AGUCCAG | ||
| MH645618.1/10472-10500 CUGGAGAGCUCUUAAAACAAAA-------------------------------------------AAGCCAG | ||
| JN003209.1/10447-10475 CUGGAGAGCUCUUUAAACAAAA-------------------------------------------AUGCCAG | ||
| LC017692.1/10472-10500 CUGGAGAGCUCUUUAAACAAAA-------------------------------------------AGGCCAG | ||
| AB753012.1/10471-10499 CUGGAAAGCUCUUUAAACAAAA-------------------------------------------AUGCCAG | ||
| MK801809.1/10426-10454 CUGGAGAGUUCUUUGAACAAAA-------------------------------------------AAGCCAG | ||
| MN735989.1/10402-10427 CCGGAGGGCUCGUAAAAGA----------------------------------------------UGGGCCG | ||
| NC_001672.1/10471-10542 CUGGAGAGCUCUUUAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGCCAG | ||
| KC835595.1/10471-10542 CUGGAGAGCUCUUUAAACAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAGCCAG | ||
| #=GC SS_cons (((((..............................................................))))) | ||
| // |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,28 @@ | ||
| # STOCKHOLM 1.0 | ||
| #=GF CC Generated by LocARNA 2.0.0RC8 | ||
| #=GF SQ 21 | ||
| #=GF ID TBEV.Y1 | ||
|
|
||
| MG599476.1/10575-10659 AGGAGGGAAGAGGGAAAUUGGCAACCCUCUUCAGGAUUUUUCCUCCUCCU | ||
| LC171402.1/10706-10790 AGGAGGGAAGAGAGAAAUUGGCAACUCUCUUCAGGAUUUUUCCUCCUCCU | ||
| JF316707.1/10596-10680 AGGAGGGAAGAGAGAAAUUGGCAACUCUCUUCAGGAUUCUUCCUCCUCCU | ||
| KU761574.1/10538-10622 AGGAGGGAAGAGAGAAAUUGGCAACUCUCUUCGGGAUUUUUCCUCCUCCU | ||
| GU121642.1/10917-11001 AGGAGGGAAGAGAGAAAUUGGCAACUUUCUUCGGGAUUUUUCCUCCUCCU | ||
| KT069219.1/10607-10691 AGGAGGGAAGAGAGAAAUUGGCAACUCUCUUCGGGACUUUUCCUCCUCCU | ||
| DQ862460.1/10708-10792 AGGAGGGAAGAGAGAAAUUGGCAUCUCUCUUCGGGAUUUUUCCUCCUCCU | ||
| EF469662.1/10623-10707 AGGAGGGAAGAGAGACAUUGGCAACUCUCUUCAGGAUUUUUCCUCCUCCU | ||
| DQ486861.1/10671-10755 AGGAGGGAAGGGAGAUAUUGGCAACUCCCUUCAGGAUUUUUCCUCCUCCU | ||
| HM535611.1/10911-10995 AGGAGGGAAGAGAGAAAUUGGCAGCUCUCUUCAGGAUAUUUCCUCCUCCU | ||
| MT581212.1/10911-10995 AGGAGGGAAGAGAGAAAUUGGCAGCUCUCUUCAGGGUUUUUCCUCCUCCU | ||
| KJ701416.1/10690-10774 AGGAGGGAAGGGAGAAAUUGGCAGCUCCUUUCAGGAUUUUUCCUCCUCCU | ||
| MN114637.1/10920-11004 AGGAGGGAAGGGAGAAAUUGGCAGCUCCCUUCAGGAUUUUUCCUCCUCCU | ||
| NC_001672.1/10955-11039 AGGAGGGAAGAGAGAAAUUGGCAGCUCUCUUCAGGAUUUUUCCUCCUCCU | ||
| MN115819.1/10684-10768 AGGAGGGGAGGGAGAAAUUGGCAGCUCCCUUCAGGAUUUUUCCUCCUCCU | ||
| JN003208.1/10889-10973 AGGAGGGAAGGGAGAAAUUGGCAGCUCCCUUCAGGAUCUUUCCUCCUCCU | ||
| MN542364.1/10952-11036 AGGAGGGAAGGGAGAGAUUGGCAGCUCCCUUCAGGAUUUUUCCUCCUCCU | ||
| MF774565.1/10916-11000 AGGAGGGAAGGGAGAAAUUGGCAGCUCUCUUCAGGAGUUUUCCUCCUCCU | ||
| FJ968751.1/10742-10826 AGGAGGGAAGGGAGAAAUUGGCAGCUCCCUUCAGGAAUUUUCCUCCUCCU | ||
| L40361.3/10741-10825 AGGAGGGAAGGGUGAAAUUGGCAGCUCCCUUCAGGAUUUUUCCUCCUCCU | ||
| MN115817.1/10537-10621 AGGAGGGAAGAGAGAAAUUGGCAACUCCUCUCGGGAUUUUUCCUCCUCCU | ||
| #=GC SS_cons ((((((((((((((..........))))))))((((....)))))))))) | ||
| // |
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