genome.fa.s6710.2.7.7.80.10.50.1000.5.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01006710.1 Hibiscus syriacus cultivar Beakdansim tig00016725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2941931

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  5  of  11  ( 1236 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1020843--1020989	68	2.1	72	82	6	176	44	2	8	44	1.48
1020897--1020935	16	2.4	16	95	0	69	43	0	12	43	1.42
1024900--1024953	21	2.6	21	96	0	99	20	20	25	33	1.97
1030020--1030096	32	2.4	32	84	0	100	28	15	22	33	1.94
1030548--1030736	94	2.0	94	96	0	351	31	4	14	50	1.62
1033476--1033559	3	27.7	3	80	7	89	30	4	1	63	1.23
1033570--1033667	44	2.2	45	89	3	146	46	38	6	8	1.58
1046968--1047001	13	2.6	13	85	0	50	82	0	17	0	0.67
1048027--1048735	135	5.3	134	85	5	853	36	14	20	29	1.92
1048027--1048735	264	2.6	264	84	4	859	36	14	20	29	1.92
1048850--1048875	3	8.7	3	100	0	52	34	0	0	65	0.93
1048885--1048970	34	2.6	34	84	1	111	45	44	2	8	1.46
1048885--1048992	11	9.4	11	71	16	67	48	41	1	8	1.44
1048977--1049031	24	2.2	24	87	3	74	41	41	14	1	1.56
1051641--1051684	19	2.4	19	84	3	54	45	11	4	38	1.61
1051650--1051693	19	2.3	19	96	0	79	29	18	6	45	1.75
1054654--1054710	26	2.2	26	87	3	80	57	0	1	40	1.09
1068938--1068963	2	13.0	2	100	0	52	50	0	0	50	1.00
1069663--1069948	93	3.0	93	79	6	299	45	17	25	12	1.83
1072869--1072917	11	4.5	11	86	0	71	38	20	6	34	1.77
1076227--1076273	21	2.2	21	88	7	69	74	10	10	4	1.20
1076409--1076446	11	3.5	11	88	0	58	36	21	7	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076409--1076450	22	2.0	21	90	4	66	38	21	7	33	1.81
1087214--1087402	101	1.9	101	83	5	249	24	17	16	41	1.90
1089388--1089444	29	1.9	30	82	3	71	19	17	7	56	1.64
1089905--1089952	20	2.4	21	80	16	57	18	14	10	56	1.66
1089905--1089956	14	3.9	13	75	12	52	19	15	11	53	1.71
1089935--1090012	28	2.8	28	94	0	138	24	17	12	44	1.84
1092354--1092689	102	3.3	102	78	8	321	32	19	11	36	1.88
1093155--1093828	139	4.8	139	84	2	807	35	17	21	26	1.95
1093155--1093825	277	2.4	278	84	1	860	35	17	21	26	1.95
1104613--1104778	90	1.9	89	93	1	287	34	13	6	45	1.69
1113457--1113526	36	1.9	36	94	0	122	14	10	32	42	1.78
1120283--1120321	21	1.9	21	84	5	53	28	12	17	41	1.87
1124597--1124759	81	2.0	81	87	0	236	32	28	16	22	1.96
1131711--1131778	27	2.5	28	75	18	70	69	0	8	22	1.16
1132354--1132557	70	2.8	73	82	10	233	59	11	0	27	1.38
1132435--1132482	25	2.0	24	87	4	69	62	14	0	22	1.32
1132462--1132523	32	1.9	32	84	12	83	61	11	1	25	1.39
1132354--1132578	76	3.1	72	80	9	224	58	11	1	28	1.41
1133367--1133467	25	4.0	25	85	8	125	28	13	12	44	1.81
1137329--1137372	17	2.5	18	92	3	72	68	0	6	25	1.14
1137952--1138141	77	2.6	74	86	8	246	56	13	0	29	1.41
1138595--1138665	30	2.4	30	90	0	106	35	21	21	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1142478--1142524	19	2.5	19	85	0	58	31	14	2	51	1.55
1145295--1145326	2	16.0	2	100	0	64	50	0	0	50	1.00
1147654--1147700	20	2.3	20	88	0	67	27	34	6	31	1.82
1148383--1148437	21	2.6	21	91	0	83	30	20	21	27	1.98
1148383--1148475	21	4.5	20	75	16	73	27	22	20	29	1.98
1149653--1149686	15	2.3	15	100	0	68	55	11	0	32	1.36
1151387--1151428	15	2.5	17	77	18	52	69	0	2	28	1.01
1151468--1151578	39	2.8	39	75	15	120	46	0	16	36	1.47
1151619--1151643	2	12.5	2	100	0	50	52	0	0	48	1.00
1152918--1152978	28	2.2	28	81	0	68	42	9	3	44	1.54
1158325--1158487	64	2.5	62	83	7	204	28	15	25	30	1.96
1158498--1158537	21	1.9	21	94	0	71	22	15	30	32	1.94
1161073--1161149	21	3.6	21	87	7	102	24	24	27	23	2.00
1166910--1167089	64	2.8	62	80	8	186	27	16	27	29	1.97
1167100--1167139	21	1.9	21	94	0	71	22	15	30	32	1.94
1173623--1173652	13	2.4	13	94	5	53	43	0	30	26	1.55
1176465--1176683	96	2.3	95	93	0	366	37	15	19	27	1.91
1177268--1177310	21	2.0	21	86	0	59	37	30	18	13	1.90
1181691--1181754	32	2.0	32	96	0	119	42	7	31	18	1.79
1185323--1185370	23	2.1	23	84	0	60	35	10	18	35	1.85
1185800--1185858	23	2.6	23	88	0	82	40	16	5	37	1.71
1185437--1186504	434	2.5	434	97	0	2038	38	12	7	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1186230--1186292	23	2.7	23	92	0	99	38	20	4	36	1.74
1186715--1186800	39	2.2	39	93	0	145	18	13	18	48	1.80
1187057--1187093	18	2.1	18	89	0	56	51	10	5	32	1.60
1190958--1191023	33	2.0	33	87	0	96	22	46	1	28	1.61
1191057--1191121	21	3.1	21	80	6	69	15	29	15	40	1.88
1193347--1193389	20	2.3	18	85	14	61	20	16	11	51	1.75
1193352--1193398	20	2.4	19	82	10	67	19	17	10	53	1.72
1193520--1193565	20	2.3	20	89	10	76	17	17	10	54	1.70
1195243--1195308	13	4.9	13	77	15	55	68	0	0	31	0.90
1195248--1195308	18	3.3	18	76	13	54	68	0	0	31	0.89
1195261--1195332	26	2.8	27	80	13	73	62	2	1	33	1.18
1195244--1195327	24	3.5	23	80	15	75	66	1	1	30	1.07
1195342--1195402	25	2.6	22	82	7	77	39	8	4	47	1.55
1195314--1195428	61	1.9	61	87	7	171	43	8	4	43	1.55
1195475--1195559	38	2.2	37	86	10	118	40	11	8	40	1.72
1208464--1208527	34	1.9	32	87	6	92	25	12	3	59	1.48
1208651--1208713	19	3.3	19	69	30	62	55	6	6	31	1.50
1208641--1208717	38	2.0	38	100	0	154	51	5	7	35	1.53
1208653--1208712	18	3.2	18	68	32	54	55	6	6	31	1.52
1209613--1209720	54	2.0	54	96	0	198	27	14	17	39	1.89
1209955--1210047	37	2.4	37	78	8	98	44	1	3	51	1.24
1211930--1211963	17	1.9	18	94	5	61	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211935--1211977	17	2.6	17	81	3	52	62	0	0	37	0.95
1214053--1214084	16	2.0	16	100	0	64	18	6	37	37	1.76
1214694--1215517	417	2.0	412	87	3	1172	38	8	8	44	1.65
1215817--1215850	17	1.9	18	88	5	52	61	0	5	32	1.20
1219134--1219190	23	2.6	22	78	8	71	50	7	3	38	1.46
1219038--1219352	99	3.2	98	67	12	246	46	9	3	40	1.55
1218942--1219352	199	2.1	198	86	2	556	47	9	4	38	1.55
1219318--1219378	32	2.0	30	84	12	79	54	8	4	32	1.52
1222036--1222092	19	2.9	19	75	14	62	66	1	8	22	1.29
1222191--1222267	22	3.3	22	80	14	75	66	0	3	29	1.10
1222177--1222267	22	4.1	21	76	18	69	67	0	4	28	1.10
1222976--1223060	37	2.3	37	83	0	98	32	10	14	42	1.79
1228643--1229099	59	7.7	59	91	1	729	30	22	12	34	1.91
1229430--1229481	22	2.5	21	84	6	61	30	25	13	30	1.94
1229587--1229663	34	2.3	34	97	0	145	31	16	19	32	1.94
1242711--1242744	15	2.3	15	90	10	52	29	11	11	47	1.76
1243458--1243561	6	16.7	6	74	16	79	1	18	0	78	0.89
1243473--1243559	7	12.1	7	73	17	72	1	17	0	81	0.75
1243458--1243556	37	2.6	38	85	9	121	2	17	1	79	0.88
1247065--1247121	23	2.5	23	73	0	60	66	0	14	19	1.25
1255835--1255897	29	2.1	31	85	5	85	46	6	15	31	1.71
1263688--1263761	3	25.0	3	77	13	73	64	0	2	32	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263688--1263763	21	3.8	19	78	18	84	65	0	2	31	1.06
1264123--1264317	105	1.9	105	93	1	338	29	18	12	40	1.87
1264016--1264317	109	2.8	107	84	5	373	27	18	12	41	1.87
1264416--1264614	97	2.0	98	88	2	294	32	18	13	36	1.89
1264513--1265277	398	1.9	399	98	0	1469	31	16	14	38	1.88
1266222--1266256	18	1.9	18	100	0	70	57	5	5	31	1.46
1266603--1266672	10	6.8	9	74	20	50	5	14	0	80	0.89
1266632--1266664	5	6.8	5	86	6	50	0	12	0	87	0.53
1266631--1266672	19	2.1	20	91	8	68	0	14	0	85	0.59
1277041--1277108	28	2.5	28	83	9	79	60	1	4	33	1.26

Tables:   1   2   3   4   5   6   7   8   9   10   11