genome.fa.s9602.2.7.7.80.10.50.1000.5.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: VEPZ01009602.1 Hibiscus syriacus cultivar Beakdansim tig00116982_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1420948

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 718 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)
906798--906918	63	1.9	63	87	0	179	33	21	20	23	1.97
907325--907379	21	2.7	20	80	11	58	41	3	18	36	1.68
907483--907557	18	4.1	18	72	13	71	24	17	30	28	1.97
909549--909708	65	2.5	63	84	8	189	31	22	18	28	1.97
910736--910761	13	2.0	13	100	0	52	38	0	15	46	1.46
914750--914780	16	1.9	16	100	0	62	22	0	12	64	1.27
916655--916688	16	2.1	17	88	5	52	47	0	0	52	1.00
917035--917103	28	2.4	27	81	11	75	49	1	1	47	1.19
917213--917261	19	2.6	18	81	9	62	61	0	4	34	1.15
920497--921060	267	2.1	268	85	2	760	28	17	21	32	1.96
920497--921060	134	4.2	133	83	5	679	28	17	21	32	1.96
921637--921732	42	2.3	41	83	3	129	32	23	20	22	1.98
921363--922121	232	3.3	230	87	4	1029	34	17	16	32	1.92
921863--921964	42	2.5	41	80	3	123	32	21	23	22	1.98
922287--923401	233	4.8	233	87	2	1541	34	17	15	32	1.91
922143--923401	468	2.8	463	86	5	1648	35	16	15	32	1.90
925240--925265	3	8.7	3	100	0	52	65	0	0	34	0.93
930787--930813	2	13.5	2	100	0	54	48	0	0	51	1.00
931906--931955	24	2.1	24	88	7	75	26	2	14	58	1.47
936619--936668	24	2.1	24	88	7	75	26	2	14	58	1.47
940943--940979	14	2.4	16	82	13	51	29	21	0	48	1.50
945869--945901	17	1.9	17	93	0	57	18	45	21	15	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
945927--945982	29	1.9	29	85	7	78	37	0	16	46	1.47
946915--947082	42	4.0	42	89	4	257	19	23	24	32	1.97
954288--954454	42	4.0	41	92	3	253	20	23	23	31	1.98
954285--954454	84	2.0	84	91	2	279	21	23	23	31	1.98
967288--967322	15	2.2	16	90	5	54	34	14	0	51	1.42
969197--969269	30	2.4	30	93	0	128	36	24	20	17	1.94
982503--982542	19	2.1	19	100	0	80	27	15	5	52	1.63
983132--983165	15	2.3	15	89	0	50	32	2	5	58	1.37
989602--990410	298	2.7	300	86	3	1083	34	11	12	41	1.79
994075--994363	78	3.8	75	74	13	205	42	5	9	42	1.59
994300--994379	35	2.3	35	89	4	117	41	5	7	46	1.54
994400--994446	5	9.2	5	82	17	53	19	4	0	76	0.95
995615--995661	23	2.1	22	88	4	67	23	0	2	74	0.93
995619--995645	5	5.4	5	100	0	54	18	0	0	81	0.69
998803--998933	66	2.0	66	87	3	192	28	12	24	34	1.92
1000488--1000611	20	6.2	20	84	1	160	44	25	12	17	1.84
1001162--1001220	20	3.0	20	94	0	100	10	16	22	50	1.75
1001160--1001227	20	3.4	20	91	0	91	13	17	22	47	1.82
1001196--1001238	20	2.2	20	82	0	50	16	18	18	46	1.84
1002925--1003064	63	2.2	64	83	5	169	17	14	35	32	1.90
1002965--1003084	63	1.9	62	86	6	170	19	12	33	35	1.89
1003196--1003229	4	8.5	4	86	0	50	26	0	2	70	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1003379--1003476	21	4.7	21	82	5	108	23	35	17	23	1.95
1003401--1003515	42	2.8	42	85	4	135	23	37	17	21	1.94
1003421--1003512	21	4.4	20	75	8	85	23	36	17	21	1.94
1003377--1003512	63	2.2	62	79	10	143	23	34	18	23	1.96
1004816--1004974	65	2.5	64	92	2	255	30	2	16	50	1.59
1005389--1005424	18	2.0	18	94	0	63	16	2	25	55	1.55
1007696--1007766	24	3.0	24	93	0	124	33	18	22	25	1.96
1008505--1008542	16	2.5	15	84	12	51	65	0	5	28	1.14
1008724--1008828	19	5.4	19	87	7	124	31	8	21	38	1.84
1008719--1008828	38	2.8	38	86	9	150	30	8	22	39	1.83
1012729--1012785	25	2.3	25	96	0	105	26	24	19	29	1.98
1016843--1016886	24	1.9	24	86	9	65	40	9	0	50	1.34
1016843--1016891	22	2.2	21	82	13	55	42	8	0	48	1.32
1019534--1019739	43	4.8	43	86	5	229	22	17	25	33	1.96
1020153--1020196	21	2.1	21	83	8	54	0	36	18	45	1.49
1020183--1020241	21	2.8	21	71	5	57	1	37	18	42	1.61
1021785--1021817	4	8.2	4	93	0	57	72	0	3	24	0.98
1029515--1029848	41	8.1	41	71	14	152	35	19	15	29	1.93
1029475--1029775	82	3.7	82	84	5	365	36	18	13	30	1.91
1030605--1030641	18	2.1	18	94	0	65	29	5	29	35	1.80
1031974--1032080	3	35.7	3	98	0	205	65	0	0	33	0.99
1044103--1044131	15	1.9	15	100	0	58	20	13	17	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1047208--1047258	20	2.5	20	93	0	93	39	11	27	21	1.88
1048461--1048577	45	2.6	45	83	0	162	38	9	23	29	1.86
1048461--1048573	23	5.0	23	65	12	72	38	8	23	29	1.85
1054772--1054819	20	2.5	20	86	3	71	37	10	31	20	1.87
1055321--1055532	45	4.7	45	86	2	255	38	9	22	29	1.85
1055362--1055478	23	5.2	23	65	15	82	36	10	22	30	1.87
1055320--1055523	90	2.2	92	87	4	297	38	9	22	30	1.85
1056539--1056588	13	3.8	13	78	5	55	40	16	0	44	1.47
1059217--1059289	36	2.0	36	86	0	101	16	34	17	31	1.93
1059149--1060006	305	2.8	307	92	1	1382	19	30	17	32	1.95
1059815--1059898	36	2.3	36	79	0	87	16	34	20	28	1.94
1065898--1065932	3	12.0	3	87	6	54	0	34	0	65	0.93
1066333--1066825	252	2.0	251	98	1	952	28	17	13	40	1.88
1070581--1070622	22	1.9	22	95	0	75	16	21	23	38	1.93
1074517--1075021	54	9.4	54	85	3	520	25	18	21	34	1.96
1075547--1075601	20	2.8	20	94	2	94	30	21	10	36	1.88
1077646--1077778	54	2.5	54	82	4	153	27	15	21	34	1.94
1077690--1078134	54	8.3	54	82	3	441	27	16	20	35	1.94
1084937--1084995	30	2.0	30	86	6	84	23	30	16	28	1.97
1086148--1086191	21	2.1	21	83	8	54	45	6	9	38	1.63
1086414--1086453	19	2.1	19	95	0	71	27	25	20	27	1.99
1090249--1090306	29	2.0	29	89	0	89	36	6	0	56	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1090347--1090410	30	2.1	30	88	0	92	42	3	0	54	1.16
1090406--1090457	25	2.1	25	81	0	59	25	9	3	61	1.44
1090374--1090480	57	1.9	54	85	9	144	31	7	3	57	1.44
1090546--1090579	2	17.0	2	100	0	68	50	0	0	50	1.00
1090595--1090648	27	2.0	28	92	3	92	61	0	7	31	1.24
1090654--1090761	29	3.7	29	77	10	114	55	2	4	37	1.35
1095690--1096018	166	2.0	166	97	0	622	34	16	17	31	1.92
1096240--1096287	8	5.8	8	77	18	53	31	0	0	68	0.90
1096247--1096284	15	2.4	16	86	4	51	34	0	0	65	0.93
1097412--1097443	2	16.0	2	100	0	64	50	0	0	50	1.00
1100764--1100803	21	1.9	21	89	0	62	27	27	17	27	1.98
1100947--1101018	22	3.7	20	74	25	73	25	18	30	26	1.98
1101243--1101299	18	3.0	18	80	12	69	50	10	10	28	1.69
1103925--1103992	34	2.0	33	82	2	82	25	27	16	30	1.96
1107479--1107534	28	2.0	28	92	0	94	32	16	12	39	1.85
1112262--1112796	268	2.0	264	96	3	986	47	10	14	28	1.76
1113658--1113698	21	2.0	21	90	0	64	29	9	9	51	1.67
1114345--1114414	33	2.1	33	84	10	90	34	14	30	21	1.93
1116767--1116843	20	3.7	20	78	14	75	31	19	18	31	1.96
1117834--1117862	15	1.9	15	100	0	58	34	6	31	27	1.83
1120598--1120636	18	2.2	18	86	9	53	61	2	0	35	1.10
1120664--1120719	24	2.3	24	87	0	85	48	7	25	19	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1124517--1124585	32	2.2	30	84	5	84	31	21	15	30	1.95
1124891--1124929	16	2.4	16	95	0	69	28	25	12	33	1.93
1129723--1129783	31	2.0	31	87	6	88	29	16	16	37	1.91
1130286--1130319	17	2.0	17	88	0	50	41	0	11	47	1.40
1133688--1133721	15	2.3	15	89	0	59	76	0	8	14	1.01
1135222--1135410	56	3.4	57	91	1	283	37	11	17	33	1.86
1135491--1135645	45	3.4	45	97	0	283	43	11	23	21	1.85
1137651--1137686	9	4.0	9	86	13	56	11	0	0	88	0.50
1137651--1137692	18	2.2	20	91	8	70	14	0	0	85	0.59
1140873--1141024	45	3.4	45	87	0	223	44	13	21	21	1.86

Tables:   1   2   3   4   5   6