genome.fa.s186.2.7.7.80.10.50.1000.6.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: VEPZ01000186.1 Hibiscus syriacus cultivar Beakdansim tig00000329_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3152351

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  6  of  17  ( 1977 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)
1072136--1072649	247	2.1	243	86	3	642	25	16	25	32	1.96
1072863--1072985	43	2.9	43	85	2	185	20	17	30	32	1.95
1074139--1074339	95	2.1	95	89	0	303	33	16	15	34	1.90
1076677--1076718	3	14.0	3	100	0	84	33	0	0	66	0.92
1077857--1077892	2	18.0	2	100	0	72	50	0	0	50	1.00
1079818--1079865	22	2.2	22	82	14	55	20	4	10	64	1.41
1087821--1088273	137	3.3	137	89	1	696	34	26	14	23	1.93
1088213--1088354	43	3.4	43	74	9	166	35	28	12	22	1.91
1088173--1088311	40	3.4	40	73	9	145	35	28	12	23	1.91
1088168--1088361	83	2.3	83	97	0	361	36	28	12	22	1.91
1088024--1088492	220	2.1	219	86	4	676	35	26	14	23	1.94
1088251--1088697	137	3.3	136	87	3	603	33	26	15	24	1.95
1089814--1089865	17	3.0	17	73	13	52	28	1	1	67	1.12
1089986--1090015	2	15.0	2	100	0	60	50	0	0	50	1.00
1091049--1091098	15	3.3	15	81	13	57	68	2	2	28	1.12
1092512--1092571	3	20.0	3	86	6	86	61	0	1	36	1.06
1093066--1093189	62	2.0	62	83	9	155	33	25	15	26	1.95
1099729--1099801	38	1.9	38	85	0	101	42	21	5	30	1.76
1102507--1102555	22	2.3	22	82	10	57	38	18	14	28	1.90
1107712--1107744	6	5.5	6	100	0	66	15	15	69	0	1.19
1107813--1107873	2	31.0	2	96	3	115	50	0	0	49	1.00
1107810--1107878	8	9.9	7	92	7	74	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1107880--1107926	23	2.0	23	91	0	76	53	0	0	46	1.00
1108248--1108405	21	7.8	20	72	7	86	38	24	17	18	1.93
1108373--1108601	20	11.4	20	81	5	230	37	25	17	19	1.94
1109294--1109340	24	2.0	24	87	8	69	25	14	21	38	1.92
1109515--1109539	12	2.1	12	100	0	50	72	0	28	0	0.86
1111734--1111967	72	3.3	71	81	10	286	46	17	21	14	1.83
1111720--1111986	53	5.1	52	89	8	409	46	17	22	13	1.83
1111734--1111986	19	14.2	19	78	17	303	46	17	21	14	1.83
1111720--1111989	105	2.6	105	91	7	408	46	17	21	13	1.83
1111988--1112102	54	2.2	52	96	3	212	13	24	17	44	1.85
1112004--1112102	19	5.4	19	84	12	136	14	23	17	45	1.84
1112209--1112245	14	2.6	14	91	0	65	45	21	0	32	1.52
1114168--1114321	19	8.6	19	75	14	139	45	22	20	11	1.82
1114243--1114299	14	3.7	14	75	20	51	43	22	22	10	1.84
1114186--1114316	33	3.8	33	89	5	181	46	22	21	9	1.80
1114185--1114321	52	2.6	51	74	7	141	45	21	21	10	1.81
1114317--1114375	19	3.4	18	71	22	54	8	18	27	45	1.78
1114317--1114391	33	2.3	33	90	0	114	9	20	24	46	1.79
1114505--1114820	93	3.4	93	98	0	614	45	18	13	21	1.84
1116505--1116568	21	3.1	21	86	8	105	51	15	23	9	1.72
1116505--1116598	19	5.1	19	80	15	108	47	18	23	10	1.79
1116594--1116673	33	2.4	33	93	0	133	10	21	21	47	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116610--1116666	14	3.7	14	70	20	51	10	24	21	43	1.83
1116654--1116727	21	3.5	21	80	7	96	14	20	17	47	1.83
1116807--1116877	33	2.2	33	94	0	124	47	16	23	11	1.79
1117257--1117449	20	9.6	20	84	5	228	18	18	27	35	1.94
1119716--1119742	12	2.2	12	100	0	54	66	0	33	0	0.92
1123490--1123633	73	1.9	74	95	2	263	21	15	22	40	1.90
1128298--1128349	20	2.5	21	78	12	63	28	38	0	32	1.57
1128483--1128634	21	7.2	21	75	3	108	22	37	1	38	1.63
1128483--1128605	42	2.9	41	75	7	122	22	39	1	35	1.64
1130767--1130799	5	6.6	5	96	0	57	0	15	18	66	1.25
1138316--1138359	13	3.2	13	83	9	52	61	0	0	38	0.96
1138328--1138361	17	2.0	18	88	11	54	64	0	0	35	0.94
1140125--1140194	3	24.0	3	94	5	126	65	34	0	0	0.93
1140497--1140572	3	25.3	3	100	0	152	67	32	0	0	0.91
1140571--1140596	3	8.7	3	100	0	52	69	0	0	30	0.89
1140880--1145504	4	1183.8	4	92	5	7694	48	25	0	24	1.55
1148649--1148690	2	21.0	2	100	0	84	50	0	0	50	1.00
1148976--1149726	54	14.0	54	88	0	1031	23	25	19	31	1.98
1150082--1150291	37	5.7	37	85	1	134	24	18	22	35	1.96
1150108--1150447	74	4.5	74	76	5	349	23	18	22	35	1.96
1150113--1150447	37	8.9	37	78	4	294	24	18	22	34	1.96
1150166--1150444	153	1.8	152	87	0	414	24	18	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1151713--1151750	7	5.6	7	90	6	60	2	23	0	73	0.95
1151695--1151768	15	5.0	14	76	16	62	4	21	0	74	0.98
1161150--1161179	2	15.0	2	100	0	60	50	0	0	50	1.00
1167506--1167569	27	2.4	27	94	0	110	23	15	35	25	1.94
1170002--1170051	20	2.6	20	84	6	59	70	0	2	28	0.99
1174205--1174266	29	2.2	28	81	16	76	62	3	4	29	1.31
1175663--1175720	3	21.3	3	78	16	56	67	0	0	32	0.91
1175670--1175719	19	2.6	19	90	0	82	66	0	0	34	0.92
1175663--1175727	16	4.1	16	73	15	53	69	0	0	30	0.89
1175684--1175737	23	2.4	23	81	9	58	70	0	1	27	0.98
1175970--1176492	113	4.6	113	87	2	766	28	20	14	36	1.92
1175970--1176492	223	2.3	224	94	1	895	28	20	14	36	1.92
1176928--1176982	22	2.5	22	87	0	83	34	14	14	36	1.87
1177350--1177505	54	2.9	54	83	0	204	25	23	14	36	1.93
1179640--1179861	114	1.9	114	90	0	354	30	19	16	33	1.94
1182049--1182138	7	12.3	7	70	19	60	3	15	3	77	1.03
1182049--1182114	16	4.5	15	75	16	50	3	18	0	78	0.87
1182049--1182105	16	3.8	16	75	15	52	3	17	0	78	0.88
1182049--1182112	17	3.6	18	72	10	51	3	17	0	79	0.85
1184914--1184959	12	3.7	12	80	11	56	56	8	10	23	1.61
1184913--1184975	26	2.4	26	81	5	74	58	9	9	22	1.58
1187342--1187373	17	1.9	17	93	6	57	75	6	3	15	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187408--1187469	29	2.2	28	81	16	76	62	3	4	29	1.31
1187486--1187547	29	2.2	29	80	13	67	61	1	6	30	1.31
1188862--1188918	3	21.0	3	77	16	54	66	0	0	33	0.92
1188868--1188917	19	2.6	19	90	0	82	66	0	0	34	0.92
1188863--1188918	22	2.7	22	81	13	75	67	0	0	32	0.91
1197260--1197296	18	2.1	18	90	10	58	24	8	0	67	1.17
1200974--1201029	17	3.2	17	72	16	51	42	3	1	51	1.29
1201017--1201116	30	3.2	29	73	24	78	47	0	0	53	1.00
1201066--1201130	26	2.7	23	74	21	62	50	0	0	49	1.00
1201024--1201094	36	2.0	36	88	5	108	43	0	0	56	0.99
1201057--1201115	27	2.1	30	87	9	88	49	0	0	50	1.00
1201080--1201147	14	4.9	14	70	12	50	48	1	1	48	1.19
1201110--1201166	15	4.1	14	77	18	50	49	1	1	47	1.22
1204398--1204500	41	2.5	41	78	12	106	30	19	17	33	1.95
1207635--1207686	21	2.5	21	93	0	86	48	13	38	0	1.43
1207627--1207685	12	5.5	11	76	17	54	50	11	37	0	1.39
1214390--1214561	53	3.2	53	92	1	283	19	25	23	31	1.98
1214590--1214689	42	2.4	41	86	1	128	28	22	26	24	1.99
1214571--1214822	135	1.9	134	84	2	335	28	21	20	28	1.98
1214739--1214832	42	2.2	42	83	3	127	35	19	20	25	1.96
1221076--1221105	6	5.0	6	91	0	51	50	13	16	20	1.78
1224951--1224999	21	2.4	21	86	3	64	26	16	30	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226208--1226273	18	3.6	18	71	15	62	36	1	10	51	1.46
1226750--1226797	23	2.1	23	88	0	69	35	12	18	33	1.89
1227274--1227346	23	3.2	23	88	0	101	38	20	5	35	1.76
1227725--1227787	23	2.7	23	92	0	99	38	20	4	36	1.74
1227108--1227977	441	2.0	430	95	2	1569	39	12	7	40	1.71
1228261--1229434	199	5.9	199	96	0	2143	31	16	14	37	1.90
1228261--1229434	400	2.9	398	96	0	2161	31	16	14	37	1.90
1229553--1229601	19	2.6	19	93	0	80	57	10	2	30	1.43
1231393--1231458	33	2.0	33	87	0	96	22	46	0	30	1.52
1231492--1231535	21	2.1	21	86	0	61	15	29	11	43	1.82

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17