>MAZ|NM_001042539|3'UTR
   1 GGGGGACCCCCGCACCCACCAGGTACTGGTGAGGTTTGTCCAATGGCGGCGGCAGCGGCAGCGGCGGCAGCGGCAGCAGC
  81 GGCAGCAGTAGCAGCCCCTCCCACAGCTGTGGGCTCCCTCTCGGGGGCGGAGGGGGTGCCTGTGAGCTCTCAGCCACTTC
 161 CCTCCCAACCCTGGTGAGCTCCAAGTTGGTTGCGGGGGAGAGGGGAGAATGGAGTAGAGTCCCTTGGTACAAGCTCCTCT
 241 CCCCCCTCTTTTCCCACCAACTCCTATTTCCCTACCAACCAAGGAGCCTCCAGAAGGAAAGGAGGAAGAAATGTTTTCTT
 321 AGGGGAATTCGCTAGGTTTTAACGATTTGTTTCTCCTGCTCCTCTTCTATCAGACCTGACCCCACACAAACCTGTCCCCT
 401 CGGTTGTGTTGAAGTCCCCTGGACAGTGGGCAGGGGTGGCAGAGGACACGAGCAGCCACTGCCCGTACCCCCTCTCCTCT
 481 CTGTAAGCCCATGCCCTGTCTTCCCAGGGACTTGTGAGCCTCTTCCCTCGACGGTCCTCTTCTCTCCTTCCAGTCCTCTC
 561 CCCCTGCTGTCTGCAGCCCCTCCCCGGGGAGTTGGTGCTTTCTTTTCCTTTTTTTTTTTTTTCCAGGGGGAGGGAGGAGA
 641 GGAAGGAGGGGGATCAGAGCTGTCCCAAAGAGGGAAAGCGGTGAGGTTTGAGGAGGGGCAGAAGCAGGGCCGGCAAAGGT
 721 TGTACCTTCATAAGGTGGTATGGGGGGTTGGGGTCAGGCCCTGAACATCGTCCTACTTGAGAATCTGTCAGGGGAAAAAG
 801 TCAAGGGGAGCAGGAGGAAGAGCCAGGAGGGCCAGAGGCAGAGAAGAGATGGAGTCTTAGGGGCCAGGGTGAGCGAGGGG
 881 TCCAGGGCCTAGAGGTGCTTCCTGGGGGCGGGGGAATGCAGCCAGTGTCCCCCTCCCCTCTTCCACCCCAGCTCCAGCCC
 961 TGGTCTTGTCTTTTCATCCCTCTTCCCCACGACAGAAGAAGTTGTGGCCCTGGCCATGTCATCGTGTTCCTGTGTCCCCT
1041 GCATGTACCCCACCCTCCACCCCTTCCTTTTGCGCGGACCCCATTACAATAAATTTTAAATAAAATCCTGTTTCTGGCTC
1121 TGGATTGAAAAAAAAAA

ID	Duplex structure	Position	Score	MFE
1	miRNA 3' acGUCCGUCUUCC-CCACCACUCc 5' || || ||| ||||||| Target 5' cgCACCCACCAGGTACTGGTGAGg 3'	11 - 34	149.00	-19.00
2	miRNA 3' acgUCCGUCUUCCCCAC---CACUCc 5' :|||:||:|||||| ||||| Target 5' cggGGGCGGAGGGGGTGCCTGTGAGc 3'	122 - 147	140.00	-32.30
3	miRNA 3' acguccgucuuccccACCACUCc 5' ||||||| Target 5' cttccctcccaacccTGGTGAGc 3'	157 - 179	140.00	-8.70

Mutant ID	Mutant Position	Mutant Source
COSN26983870	158	COSMIC
COSN16132056	203	COSMIC
COSN26983867	236	COSMIC
COSN13664810	272	COSMIC
COSN26983869	275	COSMIC
COSN509338	293	COSMIC
COSN13664812	303	COSMIC
COSN31494403	316	COSMIC
COSM1629860	328	COSMIC
COSM8155619	330	COSMIC
COSM7861430	335	COSMIC
COSM1588370	360	COSMIC
COSM6708947	361	COSMIC
COSM435074	363	COSMIC
COSM6708954	364	COSMIC
COSM3765885	367	COSMIC
COSM5713274	367	COSMIC
COSM5220006	372	COSMIC
COSM6144181	372	COSMIC
COSM5178395	373	COSMIC
COSM6708956	375	COSMIC
COSM1377258	376	COSMIC
COSM4771538	376	COSMIC
COSM1377259	379	COSMIC
COSM3414579	379	COSMIC
COSM8171190	379	COSMIC
COSM7658401	382	COSMIC
COSM7284702	388	COSMIC
COSM7452843	391	COSMIC
COSM4448806	393	COSMIC
COSM6708955	394	COSMIC
COSM8306853	397	COSMIC
COSM4610825	401	COSMIC
COSM6144180	402	COSMIC
COSM7767504	402	COSMIC
COSM7767519	403	COSMIC
COSM9750815	410	COSMIC
COSM8500530	435	COSMIC
COSM3937024	438	COSMIC
COSM8223990	441	COSMIC
COSM4128949	444	COSMIC
COSM1478768	464	COSMIC
COSN30153067	491	COSMIC
COSN31490006	513	COSMIC
COSN31975186	536	COSMIC
COSN31975176	614	COSMIC
COSN26676758	743	COSMIC
COSN20046498	762	COSMIC
COSN28866055	777	COSMIC
COSN26647764	800	COSMIC
COSN24305734	804	COSMIC
COSN30561252	825	COSMIC
COSN26505787	842	COSMIC
COSN31591524	898	COSMIC
COSN27214146	935	COSMIC
COSN20873715	1036	COSMIC
COSN14998895	1094	COSMIC
COSN15380881	1251	COSMIC

Mutant ID	Mutant Position	Mutant Source
rs1425437290	1	dbSNP
rs759560918	6	dbSNP
rs1367902197	7	dbSNP
rs745871236	8	dbSNP
rs1322795411	11	dbSNP
rs528647449	12	dbSNP
rs767355862	12	dbSNP
rs1379449526	13	dbSNP
rs757888792	16	dbSNP
rs1434780242	17	dbSNP
rs974606989	18	dbSNP
rs779586971	21	dbSNP
rs1476775605	24	dbSNP
rs1187859847	26	dbSNP
rs1229348692	30	dbSNP
rs1312814638	36	dbSNP
rs1320528954	37	dbSNP
rs987108614	42	dbSNP
rs1482928044	43	dbSNP
rs752569552	43	dbSNP
rs1329670616	49	dbSNP
rs911570738	50	dbSNP
rs1219412229	55	dbSNP
rs1458544361	55	dbSNP
rs964624454	56	dbSNP
rs975068231	60	dbSNP
rs546902943	61	dbSNP
rs925806142	67	dbSNP
rs571590965	68	dbSNP
rs935865702	70	dbSNP
rs1054200457	73	dbSNP
rs893934784	74	dbSNP
rs950151234	76	dbSNP
rs1045675853	79	dbSNP
rs905863997	87	dbSNP
rs1354800411	88	dbSNP
rs190003392	89	dbSNP
rs945447399	92	dbSNP
rs1368833063	93	dbSNP
rs937607663	96	dbSNP
rs1274884453	97	dbSNP
rs1322105204	98	dbSNP
rs1042401495	101	dbSNP
rs550957792	103	dbSNP
rs12929524	105	dbSNP
rs906490080	111	dbSNP
rs1488673644	116	dbSNP
rs1214556654	118	dbSNP
rs368565899	119	dbSNP
rs1033959646	122	dbSNP
rs1358843091	123	dbSNP
rs760225176	133	dbSNP
rs765736478	134	dbSNP
rs1279515953	142	dbSNP
rs1475206036	143	dbSNP
rs994766227	144	dbSNP
rs537152646	146	dbSNP
rs1407026284	148	dbSNP
rs1391166210	149	dbSNP
rs540323579	153	dbSNP
rs771332085	154	dbSNP
rs1173137477	156	dbSNP
rs1027817256	158	dbSNP
rs1008657059	162	dbSNP
rs1420405236	166	dbSNP
rs1191650295	167	dbSNP
rs1018582388	170	dbSNP
rs1268458655	172	dbSNP
rs1209670939	178	dbSNP
rs1333175810	180	dbSNP
rs964771400	181	dbSNP
rs1424783093	185	dbSNP
rs1218867313	189	dbSNP
rs1316683501	195	dbSNP
rs950504577	197	dbSNP
rs1438514911	200	dbSNP
rs1331646625	203	dbSNP
rs1322620653	205	dbSNP
rs1033366878	207	dbSNP
rs974679396	207	dbSNP
rs182392729	208	dbSNP
rs988575316	210	dbSNP
rs1166271401	211	dbSNP
rs1455394973	215	dbSNP
rs1378669369	216	dbSNP
rs573796724	217	dbSNP
rs534795432	218	dbSNP
rs1018630388	220	dbSNP
rs1240425761	221	dbSNP
rs1198865931	228	dbSNP
rs72798129	233	dbSNP
rs186431278	236	dbSNP
rs974368473	246	dbSNP
rs921876597	248	dbSNP
rs1232011286	253	dbSNP
rs937369181	257	dbSNP
rs545462192	258	dbSNP
rs1223030324	259	dbSNP
rs557337334	262	dbSNP
rs1354216908	264	dbSNP
rs575499777	270	dbSNP
rs1304374371	271	dbSNP
rs1403006127	271	dbSNP
rs62056368	273	dbSNP
rs1172444556	274	dbSNP
rs543126643	279	dbSNP
rs1453177037	283	dbSNP
rs561189671	284	dbSNP
rs746633277	286	dbSNP
rs376283545	287	dbSNP
rs930222352	289	dbSNP
rs776161723	290	dbSNP
rs749602122	293	dbSNP
rs114187022	294	dbSNP
rs774988277	297	dbSNP
rs760172433	298	dbSNP
rs767677100	301	dbSNP
rs775675641	303	dbSNP
rs760856908	305	dbSNP
rs1324826819	306	dbSNP
rs764316091	307	dbSNP
rs757372201	311	dbSNP
rs1277933676	312	dbSNP
rs1377892815	313	dbSNP
rs1450480598	314	dbSNP
rs754009031	315	dbSNP
rs757068152	316	dbSNP
rs1329474255	322	dbSNP
rs1227325898	323	dbSNP
rs764997424	324	dbSNP
rs750337656	325	dbSNP
rs1363055330	327	dbSNP
rs779989772	328	dbSNP
rs746465612	329	dbSNP
rs1419414283	330	dbSNP
rs1482344440	336	dbSNP
rs1434429811	338	dbSNP
rs1184464182	339	dbSNP
rs754452531	342	dbSNP
rs780895243	344	dbSNP
rs189662522	348	dbSNP
rs1180212794	353	dbSNP
rs540404753	354	dbSNP
rs771307171	356	dbSNP
rs1215813000	357	dbSNP
rs750443159	357	dbSNP
rs779249242	357	dbSNP
rs780528070	357	dbSNP
rs1291830445	358	dbSNP
rs530039776	358	dbSNP
rs748595015	358	dbSNP
rs769299247	358	dbSNP
rs772983529	358	dbSNP
rs774900228	360	dbSNP
rs1405571648	361	dbSNP
rs370462022	361	dbSNP
rs565282629	361	dbSNP
rs759507460	361	dbSNP
rs767513620	361	dbSNP
rs746270470	363	dbSNP
rs532656391	364	dbSNP
rs750704529	364	dbSNP
rs760562143	364	dbSNP
rs765375529	364	dbSNP
rs1192838105	365	dbSNP
rs201662748	367	dbSNP
rs751657896	367	dbSNP
rs780065474	367	dbSNP
rs368894015	368	dbSNP
rs1432128240	369	dbSNP
rs756557743	370	dbSNP
rs772653230	370	dbSNP
rs1491100286	372	dbSNP
rs374878500	373	dbSNP
rs748884875	373	dbSNP
rs75194070	373	dbSNP
rs773951708	373	dbSNP
rs1309321339	374	dbSNP
rs776150016	375	dbSNP
rs199924629	376	dbSNP
rs760377330	376	dbSNP
rs767330698	376	dbSNP
rs775568236	376	dbSNP
rs1408905850	377	dbSNP
rs760738918	378	dbSNP
rs776438719	378	dbSNP
rs370548510	379	dbSNP
rs753879391	379	dbSNP
rs755151761	379	dbSNP
rs763109290	379	dbSNP
rs768682223	380	dbSNP
rs372208027	382	dbSNP
rs368361570	383	dbSNP
rs1004648374	384	dbSNP
rs1020884273	385	dbSNP
rs1220330648	385	dbSNP
rs753188781	385	dbSNP
rs767895242	385	dbSNP
rs769828163	385	dbSNP
rs1019139343	386	dbSNP
rs756584785	387	dbSNP
rs775555489	387	dbSNP
rs372438870	388	dbSNP
rs778245134	388	dbSNP
rs376973791	390	dbSNP
rs370120877	391	dbSNP
rs766238922	392	dbSNP
rs756947585	393	dbSNP
rs778752334	393	dbSNP
rs957294195	393	dbSNP
rs1440104073	394	dbSNP
rs745370728	394	dbSNP
rs751565808	394	dbSNP
rs771673066	396	dbSNP
rs1479666096	397	dbSNP
rs774879174	397	dbSNP
rs1210321496	398	dbSNP
rs1191013795	399	dbSNP
rs746921314	400	dbSNP
rs754499405	400	dbSNP
rs780618980	402	dbSNP
rs549096750	403	dbSNP
rs768497936	403	dbSNP
rs567229805	404	dbSNP
rs777594577	409	dbSNP
rs1370712370	410	dbSNP
rs746173841	411	dbSNP
rs967643384	414	dbSNP
rs1305763010	415	dbSNP
rs772566942	416	dbSNP
rs1351276649	419	dbSNP
rs1436697766	420	dbSNP
rs373402143	421	dbSNP
rs1368438982	426	dbSNP
rs780700096	427	dbSNP
rs1477284061	432	dbSNP
rs776384645	435	dbSNP
rs995948460	435	dbSNP
rs11559001	436	dbSNP
rs761982940	438	dbSNP
rs769946168	440	dbSNP
rs773428203	441	dbSNP
rs766218374	442	dbSNP
rs892845397	443	dbSNP
rs751490326	445	dbSNP
rs534860404	446	dbSNP
rs1466529001	447	dbSNP
rs767517958	448	dbSNP
rs1189828169	449	dbSNP
rs752095106	450	dbSNP
rs375977133	451	dbSNP
rs1165680570	452	dbSNP
rs753614733	453	dbSNP
rs1405605780	455	dbSNP
rs758824918	459	dbSNP
rs1392105660	463	dbSNP
rs1436968886	466	dbSNP
rs1321193669	468	dbSNP
rs553191934	473	dbSNP
rs1219433476	474	dbSNP
rs747521777	475	dbSNP
rs1286044407	479	dbSNP
rs1357127424	482	dbSNP
rs1055136588	483	dbSNP
rs769004925	484	dbSNP
rs1271477973	486	dbSNP
rs1020188455	489	dbSNP
rs781733910	491	dbSNP
rs748109676	496	dbSNP
rs775395310	498	dbSNP
rs1353027526	499	dbSNP
rs761632809	500	dbSNP
rs1034198691	502	dbSNP
rs1238757887	503	dbSNP
rs1451866850	505	dbSNP
rs571424053	506	dbSNP
rs1165960511	507	dbSNP
rs749558904	507	dbSNP
rs770678682	508	dbSNP
rs773974748	509	dbSNP
rs766582798	510	dbSNP
rs1159638388	511	dbSNP
rs759393681	512	dbSNP
rs1255506677	513	dbSNP
rs974185960	514	dbSNP
rs1398939574	518	dbSNP
rs767295661	520	dbSNP
rs775506722	523	dbSNP
rs1447365482	524	dbSNP
rs1261445121	525	dbSNP
rs760260462	526	dbSNP
rs1352599766	529	dbSNP
rs372944944	532	dbSNP
rs1267903101	533	dbSNP
rs753520716	534	dbSNP
rs757012577	535	dbSNP
rs751939187	536	dbSNP
rs757752682	543	dbSNP
rs764973702	545	dbSNP
rs781720902	546	dbSNP
rs912841120	547	dbSNP
rs538935150	549	dbSNP
rs1040243716	551	dbSNP
rs1316159423	552	dbSNP
rs556951388	552	dbSNP
rs1206888470	553	dbSNP
rs774614496	553	dbSNP
rs755374540	554	dbSNP
rs746296561	555	dbSNP
rs781545846	556	dbSNP
rs748746338	557	dbSNP
rs555439055	558	dbSNP
rs542642543	559	dbSNP
rs555074923	560	dbSNP
rs1041384519	564	dbSNP
rs572999070	566	dbSNP
rs1011463811	567	dbSNP
rs1334394720	568	dbSNP
rs560118092	569	dbSNP
rs1275760170	571	dbSNP
rs1344961993	572	dbSNP
rs967316888	574	dbSNP
rs1034555690	576	dbSNP
rs1466888762	577	dbSNP
rs759688540	577	dbSNP
rs981714014	583	dbSNP
rs1035493156	584	dbSNP
rs180957182	585	dbSNP
rs1205479519	587	dbSNP
rs1268275170	593	dbSNP
rs990879786	595	dbSNP
rs916596834	596	dbSNP
rs1371441800	597	dbSNP
rs1302489447	599	dbSNP
rs763668867	601	dbSNP
rs951341715	602	dbSNP
rs1416892675	603	dbSNP
rs1392498689	606	dbSNP
rs1200779397	609	dbSNP
rs776242295	610	dbSNP
rs1453734125	614	dbSNP
rs761430632	617	dbSNP
rs878904177	618	dbSNP
rs1193454057	621	dbSNP
rs1333246765	623	dbSNP
rs1452988281	625	dbSNP
rs984791748	626	dbSNP
rs965580330	628	dbSNP
rs764739057	631	dbSNP
rs1309925633	634	dbSNP
rs940945408	636	dbSNP
rs565146645	639	dbSNP
rs1324621071	641	dbSNP
rs921426429	643	dbSNP
rs1232827739	645	dbSNP
rs1040953126	649	dbSNP
rs1231757491	649	dbSNP
rs1378848125	654	dbSNP
rs755283700	656	dbSNP
rs936885966	657	dbSNP
rs1250229686	666	dbSNP
rs768840220	667	dbSNP
rs767972392	668	dbSNP
rs945811630	669	dbSNP
rs1281937517	671	dbSNP
rs1326979748	671	dbSNP
rs1267861617	672	dbSNP
rs1467862312	673	dbSNP
rs532539344	674	dbSNP
rs1158769851	675	dbSNP
rs906877565	675	dbSNP
rs1449948805	677	dbSNP
rs1169867296	680	dbSNP
rs1239337300	681	dbSNP
rs2516825	682	dbSNP
rs1459694397	686	dbSNP
rs185172960	687	dbSNP
rs530554798	688	dbSNP
rs749304106	689	dbSNP
rs1322913573	691	dbSNP
rs757358362	693	dbSNP
rs761585819	694	dbSNP
rs1294254484	695	dbSNP
rs1350295879	696	dbSNP
rs1305239733	697	dbSNP
rs779002750	698	dbSNP
rs1265630354	699	dbSNP
rs1333951285	703	dbSNP
rs1211611570	705	dbSNP
rs1172254947	708	dbSNP
rs11559000	709	dbSNP
rs573562358	710	dbSNP
rs1185799414	711	dbSNP
rs1259824057	714	dbSNP
rs1425600158	715	dbSNP
rs779941779	721	dbSNP
rs1417443868	722	dbSNP
rs767565120	723	dbSNP
rs1161833929	724	dbSNP
rs746832741	727	dbSNP
rs1331885126	729	dbSNP
rs1453753849	731	dbSNP
rs1475218783	734	dbSNP
rs1287623965	738	dbSNP
rs903105023	738	dbSNP
rs768666235	739	dbSNP
rs1185706859	743	dbSNP
rs1489254488	744	dbSNP
rs549133607	748	dbSNP
rs1026837821	749	dbSNP
rs528201798	751	dbSNP
rs1354459438	752	dbSNP
rs1304968420	754	dbSNP
rs1231004379	755	dbSNP
rs546668737	758	dbSNP
rs760467318	762	dbSNP
rs1035950201	763	dbSNP
rs1258873117	769	dbSNP
rs1019625002	770	dbSNP
rs1290003580	772	dbSNP
rs34646740	774	dbSNP
rs1182553486	775	dbSNP
rs761345010	776	dbSNP
rs1343820406	777	dbSNP
rs776723157	778	dbSNP
rs958498339	779	dbSNP
rs1184602894	780	dbSNP
rs991306903	781	dbSNP
rs1418826306	782	dbSNP
rs1474270510	783	dbSNP
rs865866085	783	dbSNP
rs571491685	785	dbSNP
rs1361426043	786	dbSNP
rs1466967174	789	dbSNP
rs1312961122	792	dbSNP
rs1374261627	794	dbSNP
rs958552004	795	dbSNP
rs1211840920	796	dbSNP
rs754944046	797	dbSNP
rs867586858	799	dbSNP
rs1289800512	801	dbSNP
rs769403121	802	dbSNP
rs1214564057	803	dbSNP
rs11144	806	dbSNP
rs1304551460	807	dbSNP
rs1313888930	809	dbSNP
rs1210661783	811	dbSNP
rs1279781319	812	dbSNP
rs1433876788	816	dbSNP
rs1393218208	821	dbSNP
rs1484731612	824	dbSNP
rs1323515779	825	dbSNP
rs762705656	828	dbSNP
rs1252779347	832	dbSNP
rs1480400861	833	dbSNP
rs945759315	834	dbSNP
rs907837149	835	dbSNP
rs1427617638	836	dbSNP
rs1434267710	837	dbSNP
rs1173546880	838	dbSNP
rs765975427	840	dbSNP
rs550888984	842	dbSNP
rs928293818	843	dbSNP
rs1309267107	844	dbSNP
rs1354785963	845	dbSNP
rs940944269	846	dbSNP
rs1296257783	849	dbSNP
rs1056099675	850	dbSNP
rs1369453900	852	dbSNP
rs544593057	853	dbSNP
rs931236001	854	dbSNP
rs1345876015	856	dbSNP
rs1230727473	857	dbSNP
rs753357322	860	dbSNP
rs1048219563	861	dbSNP
rs1202623457	862	dbSNP
rs1248877216	863	dbSNP
rs923457051	864	dbSNP
rs932182974	866	dbSNP
rs1050549472	868	dbSNP
rs1019741734	869	dbSNP
rs759302895	871	dbSNP
rs1297139351	872	dbSNP
rs1451840079	873	dbSNP
rs370477486	877	dbSNP
rs1419537141	879	dbSNP
rs1409072760	880	dbSNP
rs191275763	883	dbSNP
rs1295259007	887	dbSNP
rs1041777380	891	dbSNP
rs112725079	892	dbSNP
rs1393107373	893	dbSNP
rs1441330794	894	dbSNP
rs902824870	895	dbSNP
rs1421149737	896	dbSNP
rs1251310510	898	dbSNP
rs1011114388	899	dbSNP
rs1482133473	901	dbSNP
rs1009543588	903	dbSNP
rs1260144052	910	dbSNP
rs1437102712	911	dbSNP
rs561443477	914	dbSNP
rs1338810669	915	dbSNP
rs1471579465	920	dbSNP
rs966881867	920	dbSNP
rs1313397389	921	dbSNP
rs1317195671	921	dbSNP
rs1389132840	921	dbSNP
rs1414165397	921	dbSNP
rs71650270	921	dbSNP
rs779312440	921	dbSNP
rs1373361928	925	dbSNP
rs977126788	929	dbSNP
rs1454143804	933	dbSNP
rs1158664715	935	dbSNP
rs1160090742	935	dbSNP
rs1380325078	936	dbSNP
rs11558997	937	dbSNP
rs1189258693	940	dbSNP
rs1022324699	944	dbSNP
rs1254481601	947	dbSNP
rs1312774764	947	dbSNP
rs968352260	948	dbSNP
rs1398145925	949	dbSNP
rs1335359004	951	dbSNP
rs1335555772	953	dbSNP
rs1440224415	956	dbSNP
rs928426456	963	dbSNP
rs1354449302	964	dbSNP
rs960078084	965	dbSNP
rs1232581448	969	dbSNP
rs1353437354	977	dbSNP
rs1003215218	978	dbSNP
rs1382512222	980	dbSNP
rs1057099164	992	dbSNP
rs894378576	994	dbSNP
rs1455904492	1004	dbSNP
rs1396744293	1007	dbSNP
rs915565115	1008	dbSNP
rs1367193326	1010	dbSNP
rs1195957359	1011	dbSNP
rs1012796363	1012	dbSNP
rs1347108310	1015	dbSNP
rs2516826	1017	dbSNP
rs1261555313	1020	dbSNP
rs1206406210	1023	dbSNP
rs1026812342	1024	dbSNP
rs536699471	1025	dbSNP
rs952117313	1026	dbSNP
rs1200815758	1030	dbSNP
rs1249474094	1035	dbSNP
rs554657364	1039	dbSNP
rs1048377702	1040	dbSNP
rs1252944852	1044	dbSNP
rs1015358651	1048	dbSNP
rs962044563	1049	dbSNP
rs572861238	1050	dbSNP
rs1208789712	1054	dbSNP
rs1293220775	1055	dbSNP
rs976478602	1057	dbSNP
rs1326863400	1060	dbSNP
rs1460924181	1062	dbSNP
rs1453245375	1065	dbSNP
rs1170145886	1067	dbSNP
rs901230898	1072	dbSNP
rs1462982197	1079	dbSNP
rs373923095	1082	dbSNP
rs1376426973	1083	dbSNP
rs531989184	1085	dbSNP
rs1455882116	1097	dbSNP
rs1253173579	1098	dbSNP
rs1173690668	1102	dbSNP
rs1449361280	1106	dbSNP
rs1049707735	1107	dbSNP
rs183032385	1107	dbSNP
rs558591934	1114	dbSNP
rs953620249	1118	dbSNP
rs1272419559	1120	dbSNP
rs1445064231	1121	dbSNP
rs1348326971	1123	dbSNP
rs368413691	1123	dbSNP
rs796911804	1123	dbSNP
rs1436115259	1124	dbSNP
rs1377985782	1127	dbSNP
rs1440243071	1128	dbSNP
rs986269437	1129	dbSNP
rs145590189	1133	dbSNP
rs914701960	1135	dbSNP
rs1043917	1136	dbSNP
rs1332910838	1137	dbSNP
rs1172619066	1138	dbSNP
rs1043920	1140	dbSNP
rs947142270	1142	dbSNP
rs1041436862	1143	dbSNP
rs544455831	1144	dbSNP
rs1250713585	1147	dbSNP
rs1234090514	1148	dbSNP
rs1181835780	1150	dbSNP
rs1043927	1156	dbSNP
rs1043929	1159	dbSNP
rs563240749	1162	dbSNP
rs938383635	1164	dbSNP
rs1200359298	1166	dbSNP
rs1258291468	1170	dbSNP
rs966831022	1174	dbSNP
rs1056816288	1175	dbSNP
rs1188730779	1176	dbSNP
rs749983586	1179	dbSNP
rs894431151	1180	dbSNP
rs575020721	1182	dbSNP
rs542465986	1188	dbSNP
rs1048261962	1192	dbSNP
rs1191370326	1193	dbSNP
rs1281523451	1200	dbSNP
rs1043958	1205	dbSNP
rs1006731596	1213	dbSNP
rs1239781047	1214	dbSNP
rs1349968546	1215	dbSNP
rs1213099790	1216	dbSNP
rs1306707636	1218	dbSNP
rs1015040741	1219	dbSNP
rs1292265983	1221	dbSNP
rs1035610825	1222	dbSNP
rs1335663442	1222	dbSNP
rs959782336	1223	dbSNP
rs1271590184	1225	dbSNP
rs116687647	1226	dbSNP
rs1218931088	1227	dbSNP
rs991687867	1229	dbSNP
rs1189940560	1232	dbSNP
rs915571251	1240	dbSNP
rs756596520	1241	dbSNP
rs1256746394	1242	dbSNP
rs1242266733	1243	dbSNP
rs1474779294	1244	dbSNP
rs952386560	1246	dbSNP
rs962421983	1248	dbSNP
rs1461599536	1249	dbSNP
rs1163948943	1251	dbSNP
rs754413025	1253	dbSNP
rs560867162	1254	dbSNP
rs1030252361	1256	dbSNP
rs908436991	1260	dbSNP
rs1209321418	1261	dbSNP
rs1318883966	1262	dbSNP
rs528061657	1263	dbSNP
rs546735865	1264	dbSNP
rs939935903	1265	dbSNP
rs1456438291	1267	dbSNP
rs1385781904	1269	dbSNP
rs953631651	1270	dbSNP
rs986320405	1271	dbSNP
rs750581979	1272	dbSNP
rs1166408827	1275	dbSNP
rs1475267067	1276	dbSNP
rs1232842162	1278	dbSNP
rs188467095	1280	dbSNP
rs1331659880	1281	dbSNP
rs1242559172	1283	dbSNP
rs532367221	1283	dbSNP
rs764746927	1285	dbSNP
rs1284161149	1287	dbSNP
rs1266490248	1288	dbSNP
rs922429052	1289	dbSNP
rs550500316	1290	dbSNP
rs531758080	1291	dbSNP
rs1213068903	1292	dbSNP
rs1050302089	1293	dbSNP
rs1258919191	1295	dbSNP
rs1475336842	1297	dbSNP
rs1186763750	1298	dbSNP
rs1434858438	1299	dbSNP
rs968941262	1300	dbSNP
rs1473432146	1301	dbSNP
rs1158880848	1303	dbSNP
rs1327508228	1306	dbSNP
rs1384204551	1306	dbSNP
rs893792025	1310	dbSNP
rs1044086	1311	dbSNP
rs1376128667	1312	dbSNP
rs1414464896	1313	dbSNP
rs569174270	1314	dbSNP
rs1352763084	1318	dbSNP
rs752039044	1321	dbSNP
rs1279300638	1322	dbSNP
rs924423932	1323	dbSNP
rs1221381847	1325	dbSNP
rs902744487	1326	dbSNP
rs757647079	1327	dbSNP
rs374571060	1329	dbSNP
rs1291276971	1330	dbSNP
rs1035192971	1334	dbSNP
rs1209760626	1341	dbSNP
rs781262586	1343	dbSNP
rs536165720	1349	dbSNP
rs769154222	1350	dbSNP
rs1340499874	1352	dbSNP
rs1305162237	1357	dbSNP
rs895338004	1361	dbSNP
rs1362949267	1362	dbSNP
rs1056826491	1363	dbSNP
rs1291338531	1364	dbSNP
rs772737092	1365	dbSNP
rs543837739	1366	dbSNP
rs948636872	1367	dbSNP
rs1311085465	1368	dbSNP
rs1372679926	1369	dbSNP
rs770556854	1370	dbSNP
rs748267127	1371	dbSNP
rs755732205	1373	dbSNP
rs752858264	1376	dbSNP
rs1328622043	1380	dbSNP
rs866965556	1383	dbSNP
rs1048315210	1385	dbSNP
rs888350880	1386	dbSNP
rs1481661557	1388	dbSNP
rs1304767442	1389	dbSNP
rs563214572	1392	dbSNP
rs1232968639	1393	dbSNP
rs1482278553	1394	dbSNP
rs1282966635	1395	dbSNP
rs1037262520	1396	dbSNP
rs1234546477	1398	dbSNP
rs761019513	1400	dbSNP
rs1341053875	1402	dbSNP
rs1298778159	1408	dbSNP
rs1196003437	1409	dbSNP
rs1249636654	1413	dbSNP
rs897915020	1414	dbSNP
rs1195473318	1415	dbSNP
rs1373440054	1416	dbSNP
rs1307322208	1417	dbSNP
rs997516105	1419	dbSNP
rs1453687287	1421	dbSNP

- mBio, 2013

UNLABELLED: The question of how HIV-1 interfaces with cellular microRNA (miRNA) biogenesis and effector mechanisms has been highly controversial. Here, we first used deep sequencing of small RNAs present in two different infected cell lines (TZM-bl and C8166) and two types of primary human cells (CD4(+) peripheral blood mononuclear cells [PBMCs] and macrophages) to unequivocally demonstrate that HIV-1 does not encode any viral miRNAs. Perhaps surprisingly, we also observed that infection of T cells by HIV-1 has only a modest effect on the expression of cellular miRNAs at early times after infection. Comprehensive analysis of miRNA binding to the HIV-1 genome using the photoactivatable ribonucleoside-induced cross-linking and immunoprecipitation (PAR-CLIP) technique revealed several binding sites for cellular miRNAs, a subset of which were shown to be capable of mediating miRNA-mediated repression of gene expression. However, the main finding from this analysis is that HIV-1 transcripts are largely refractory to miRNA binding, most probably due to extensive viral RNA secondary structure. Together, these data demonstrate that HIV-1 neither encodes viral miRNAs nor strongly influences cellular miRNA expression, at least early after infection, and imply that HIV-1 transcripts have evolved to avoid inhibition by preexisting cellular miRNAs by adopting extensive RNA secondary structures that occlude most potential miRNA binding sites. IMPORTANCE: MicroRNAs (miRNAs) are a ubiquitous class of small regulatory RNAs that serve as posttranscriptional regulators of gene expression. Previous work has suggested that HIV-1 might subvert the function of the cellular miRNA machinery by expressing viral miRNAs or by dramatically altering the level of cellular miRNA expression. Using very sensitive approaches, we now demonstrate that neither of these ideas is in fact correct. Moreover, HIV-1 transcripts appear to largely avoid regulation by cellular miRNAs by adopting an extensive RNA secondary structure that occludes the ability of cellular miRNAs to interact with viral mRNAs. Together, these data suggest that HIV-1, rather than seeking to control miRNA function in infected cells, has instead evolved a mechanism to become largely invisible to cellular miRNA effector mechanisms.