genome.fa.s9617.2.7.7.80.10.50.1000.6.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: VEPZ01009617.1 Hibiscus syriacus cultivar Beakdansim tig00117005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3386631

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  6  of  16  ( 1887 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)
1043261--1043316	20	2.8	21	86	5	71	25	23	16	35	1.94
1043513--1043546	12	2.9	12	86	4	52	17	41	5	35	1.74
1044100--1044153	24	2.2	24	90	0	81	22	16	20	40	1.91
1044328--1044352	12	2.1	12	100	0	50	72	0	28	0	0.86
1046644--1046774	19	7.7	19	66	23	94	42	19	22	14	1.88
1046644--1046770	33	3.8	33	88	4	202	42	19	22	14	1.88
1046645--1046777	66	2.0	66	97	0	248	41	19	22	16	1.90
1046770--1046844	19	4.2	19	75	16	70	16	21	21	41	1.90
1046801--1046845	19	2.4	19	96	0	81	13	20	20	46	1.83
1046952--1046988	14	2.6	14	91	0	65	45	24	0	29	1.53
1048344--1048410	21	3.2	21	68	4	55	19	20	35	23	1.95
1048344--1048466	42	2.9	41	79	7	113	22	18	36	21	1.95
1048684--1048868	91	2.0	90	90	6	291	47	19	11	21	1.81
1050579--1050677	33	3.0	33	94	4	164	42	23	23	11	1.86
1050561--1050718	19	8.8	17	73	18	94	44	21	21	12	1.84
1050714--1050758	19	2.4	19	88	0	63	11	15	24	48	1.77
1051314--1051447	20	6.7	20	86	5	153	24	18	25	31	1.98
1051314--1051468	81	1.9	81	82	2	195	23	20	24	32	1.98
1051518--1051558	21	2.0	21	85	0	55	34	29	17	19	1.94
1051979--1052011	16	2.0	17	94	5	59	54	0	0	45	0.99
1054816--1054872	30	1.9	30	88	0	87	47	8	10	33	1.69
1055188--1055313	64	2.0	64	90	3	200	46	11	11	30	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055518--1055543	3	8.7	3	100	0	52	0	0	30	69	0.89
1055555--1056050	198	2.5	197	82	5	547	30	15	15	38	1.89
1056292--1057627	182	7.3	182	92	1	2022	29	15	12	43	1.83
1059348--1059422	38	2.0	37	84	5	98	49	2	1	46	1.24
1064466--1064499	18	1.9	17	88	5	50	64	5	0	29	1.17
1072498--1072531	18	1.9	17	88	5	50	64	5	0	29	1.17
1076984--1077105	50	2.4	50	82	5	149	15	32	27	23	1.95
1081106--1081327	111	2.0	111	91	0	363	46	10	7	35	1.67
1081451--1081491	10	4.1	10	84	12	57	39	0	29	31	1.57
1088558--1088610	20	2.7	20	93	0	88	37	28	13	20	1.90
1088645--1088920	20	13.6	20	78	7	245	38	25	18	18	1.93
1088706--1088917	41	5.2	41	91	1	338	38	25	18	18	1.93
1089477--1089548	20	3.6	19	81	5	81	51	18	16	13	1.77
1089477--1089565	40	2.2	40	76	7	92	50	20	16	12	1.77
1089561--1089644	19	4.7	19	78	14	97	11	20	21	46	1.82
1089561--1089698	52	2.6	52	84	2	177	13	21	21	43	1.87
1089642--1089697	20	2.8	20	77	20	71	17	23	19	39	1.92
1089566--1089706	19	7.8	19	71	20	88	13	21	19	45	1.85
1090966--1091013	17	2.7	18	90	6	80	27	45	14	12	1.81
1091401--1091780	94	4.1	94	94	1	638	21	12	18	47	1.81
1091828--1091948	19	6.2	19	80	6	118	47	24	16	11	1.80
1091986--1092029	20	2.2	20	87	0	61	22	20	22	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1092509--1092616	21	5.1	21	71	4	83	21	35	19	24	1.96
1092510--1092618	42	2.6	42	75	8	114	21	35	19	23	1.96
1093975--1094011	14	2.5	15	91	4	58	32	0	21	45	1.52
1094133--1094242	34	3.3	34	94	1	195	43	18	23	14	1.87
1094146--1094247	20	5.8	19	67	25	80	45	17	22	14	1.85
1094251--1094332	33	2.5	33	85	2	101	14	23	21	40	1.90
1094304--1094392	20	4.4	20	88	2	135	17	22	24	34	1.96
1096808--1096861	24	2.2	24	93	0	90	40	20	18	20	1.91
1096808--1096875	24	2.8	24	84	0	64	38	20	17	23	1.93
1097723--1097773	20	2.5	20	90	0	84	25	19	15	39	1.91
1097860--1098092	20	11.6	20	77	7	222	20	18	24	36	1.95
1097881--1098092	41	5.2	41	90	1	311	20	18	24	37	1.94
1097859--1098149	20	14.4	20	74	14	188	19	18	24	37	1.94
1100946--1101072	64	2.0	64	95	0	227	41	11	14	32	1.81
1106408--1106494	21	4.1	21	95	2	149	14	35	10	39	1.81
1106576--1106622	15	3.1	15	93	0	85	14	61	4	19	1.49
1109261--1109311	18	2.9	18	80	19	63	70	0	3	25	1.04
1109259--1109316	18	3.2	19	71	28	54	70	0	6	22	1.10
1109289--1109682	204	2.0	189	87	8	569	57	4	7	30	1.46
1109539--1109576	8	5.0	8	87	9	53	52	7	0	39	1.31
1111004--1111045	20	2.1	20	100	0	84	38	16	19	26	1.92
1111125--1111630	105	4.8	105	97	0	942	22	19	25	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111823--1111849	1	27.0	1	100	0	54	0	0	0	100	0.00
1112379--1112493	60	1.9	60	85	0	158	13	20	12	54	1.69
1123192--1123252	21	3.1	21	73	20	69	70	0	6	22	1.10
1123479--1123516	8	5.0	8	87	9	53	52	7	0	39	1.31
1123225--1123627	205	2.0	194	91	5	653	57	3	7	30	1.45
1124698--1124742	12	3.7	12	82	11	56	57	0	0	42	0.98
1124921--1124971	20	2.5	20	96	0	93	21	13	13	50	1.76
1128708--1129216	131	3.9	131	95	0	878	49	7	4	38	1.50
1128637--1129216	262	2.3	254	90	2	883	50	6	4	38	1.49
1133314--1133416	50	2.1	50	96	0	188	54	16	2	26	1.56
1133572--1133669	33	3.0	33	92	0	160	17	37	21	23	1.94
1134008--1134097	43	2.1	44	81	6	103	54	1	2	42	1.20
1135811--1135913	50	2.1	50	94	0	179	55	16	1	26	1.52
1136069--1136166	33	3.0	33	92	0	160	17	37	21	23	1.94
1136505--1136594	43	2.1	44	81	6	103	54	1	2	42	1.20
1139399--1139484	9	9.3	9	81	5	91	17	25	27	29	1.97
1139399--1139484	19	4.7	18	78	5	91	17	25	27	29	1.97
1139488--1139532	22	2.0	22	91	0	72	20	46	24	8	1.78
1139526--1139552	7	3.9	7	100	0	54	14	25	29	29	1.95
1142613--1142647	2	17.5	2	100	0	70	48	0	0	51	1.00
1144091--1144122	2	16.5	2	93	6	57	50	0	0	50	1.00
1145351--1145388	19	2.0	19	85	10	51	52	5	0	42	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145395--1145436	19	2.3	18	84	11	59	61	0	4	33	1.17
1151845--1151939	45	2.1	45	98	0	181	34	6	17	41	1.75
1151845--1151966	45	2.7	44	87	7	131	33	5	19	40	1.75
1155227--1155275	21	2.4	21	89	3	73	20	18	38	22	1.93
1155771--1155816	24	1.9	24	95	0	83	50	8	39	2	1.46
1164783--1164843	23	2.8	22	75	7	70	19	37	11	31	1.87
1172938--1173005	35	1.9	35	82	11	86	47	17	13	22	1.82
1181078--1181121	2	23.5	2	82	13	58	52	0	0	47	1.00
1186243--1186352	24	4.6	24	76	10	102	47	17	15	20	1.83
1186247--1186338	12	7.8	12	71	16	66	47	18	15	18	1.82
1186245--1186335	47	1.9	48	84	10	125	48	17	15	18	1.82
1188770--1188799	13	2.3	13	100	0	60	13	23	46	16	1.82
1191544--1191637	42	2.3	40	90	5	145	19	11	21	47	1.80
1203715--1203780	3	22.0	3	75	6	53	36	34	25	3	1.72
1203715--1203779	12	5.7	12	73	10	64	36	35	24	3	1.71
1205182--1205225	2	22.0	2	100	0	88	50	0	0	50	1.00
1209687--1209723	2	18.5	2	100	0	74	48	0	0	51	1.00
1217057--1217159	33	3.2	33	65	15	97	25	36	14	23	1.93
1217045--1217173	64	2.0	64	100	0	258	23	37	15	24	1.93
1219444--1219477	2	17.0	2	100	0	68	50	0	0	50	1.00
1219878--1219937	26	2.3	24	76	15	57	58	1	5	35	1.30
1220616--1220698	43	1.9	43	82	0	103	32	16	16	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1220920--1220981	21	3.0	21	80	0	70	51	12	6	29	1.65
1221681--1221914	116	2.0	116	100	0	468	35	23	17	23	1.95
1225132--1225243	40	2.8	40	79	2	116	34	17	17	29	1.94
1225341--1225451	36	2.9	38	78	12	120	37	18	15	28	1.91
1225345--1225468	41	3.2	38	73	15	101	35	16	16	31	1.91
1229734--1229809	2	39.0	2	84	5	102	48	3	0	47	1.20
1229734--1229802	31	2.2	31	92	0	111	50	2	0	46	1.16
1229928--1229994	16	4.2	16	88	3	91	47	29	16	5	1.70
1230577--1230637	30	2.0	31	83	6	79	34	24	14	26	1.94
1231401--1231430	15	2.1	15	93	6	53	66	0	0	33	0.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16