genome.fa.s8694.2.7.7.80.10.50.1000.5.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: VEPZ01008694.1 Hibiscus syriacus cultivar Beakdansim tig00111723_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1352611

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 663 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)
859083--859139	28	2.1	28	84	12	75	15	3	3	77	1.05
866054--866150	17	5.6	17	70	16	65	41	10	8	40	1.69
866107--866155	17	2.8	17	78	9	55	46	10	8	34	1.67
884894--884918	13	1.9	13	100	0	50	48	8	28	16	1.74
889137--889277	48	2.9	48	88	0	201	37	26	9	26	1.87
903360--903397	16	2.4	16	86	4	51	65	5	0	28	1.14
903804--903971	48	3.5	48	90	0	264	34	27	13	25	1.93
908158--908194	20	1.9	20	88	5	58	43	13	24	18	1.86
908631--909062	54	8.0	54	84	1	535	34	14	19	32	1.92
908634--909123	108	4.5	109	80	6	264	34	14	19	32	1.92
908632--909131	270	1.9	270	81	5	609	33	14	20	31	1.92
927342--927380	2	19.5	2	100	0	78	48	0	0	51	1.00
933184--933238	3	19.0	3	82	14	71	67	0	0	32	0.91
933184--933242	28	2.1	28	90	6	93	67	0	0	32	0.91
933184--933238	14	4.0	14	86	11	78	67	0	0	32	0.91
936392--936450	21	2.8	21	86	0	73	50	22	5	22	1.68
946041--946283	129	1.9	129	84	8	334	28	16	21	33	1.95
947372--947873	45	11.2	45	80	5	437	41	17	16	24	1.90
947372--947873	90	5.6	90	79	3	528	41	17	16	24	1.90
947372--947873	135	3.7	135	78	3	508	41	17	16	24	1.90
957802--957856	8	6.6	8	78	14	58	0	16	1	81	0.77
957802--957856	16	3.3	18	78	17	64	0	16	1	81	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
957802--957855	27	2.0	26	82	10	65	0	14	1	83	0.73
957802--957852	18	2.8	18	82	17	61	0	15	1	82	0.76
957817--957865	16	3.0	16	81	3	53	0	16	2	81	0.78
957809--957877	32	2.0	33	81	10	77	0	21	2	75	0.93
974487--974530	20	2.2	20	100	0	88	52	11	13	22	1.72
980028--980077	23	2.1	24	92	3	84	44	0	6	50	1.26
983631--983749	12	9.6	12	71	13	80	8	8	41	42	1.65
983626--983684	28	2.1	29	90	3	93	5	8	45	40	1.56
983639--983723	6	14.5	6	70	4	57	7	5	42	44	1.55
984481--984544	23	2.7	24	80	9	78	50	1	0	48	1.10
984481--984713	44	5.1	43	75	17	154	47	1	4	46	1.31
984512--984741	44	5.3	43	74	18	156	48	1	4	45	1.34
984635--984684	18	2.9	16	80	19	57	48	0	6	46	1.27
984553--984766	84	2.6	85	78	13	207	47	1	6	43	1.40
984481--984765	151	1.9	150	80	11	341	48	1	4	45	1.34
984653--984772	31	3.8	30	77	14	116	48	2	5	43	1.40
984519--984772	137	1.9	136	79	10	286	48	1	5	44	1.37
984651--984807	66	2.4	65	81	7	165	47	3	5	43	1.43
984757--984796	22	1.9	21	90	10	64	50	7	5	37	1.53
984937--984993	24	2.4	23	79	5	60	42	5	8	43	1.58
985190--985242	18	2.8	20	80	11	74	39	5	5	49	1.50
985292--985453	18	8.9	17	71	21	80	41	3	5	48	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
985322--985386	2	32.0	2	90	3	103	46	1	1	50	1.20
985292--985386	42	2.1	47	72	14	67	45	3	3	48	1.34
985463--985499	19	1.9	19	94	0	65	35	5	8	51	1.55
987915--987954	21	1.9	21	89	0	62	55	7	7	30	1.56
991764--991843	23	3.5	23	70	17	69	21	23	22	32	1.98
995540--995573	15	2.1	16	89	10	52	44	5	5	44	1.52
995484--995658	87	2.0	87	86	3	246	42	7	4	45	1.50
995642--995730	13	6.4	13	71	17	63	41	5	6	46	1.54
995633--995708	28	2.8	26	80	9	80	39	7	7	44	1.63
995691--995749	18	3.3	18	81	11	68	47	3	5	44	1.42
997965--998470	278	1.8	278	86	3	741	26	21	15	37	1.92
997836--998599	139	5.6	139	79	5	659	26	21	15	36	1.93
999468--999655	54	3.5	55	76	12	192	39	14	7	37	1.76
999867--1000038	2	86.0	2	97	0	326	0	0	49	49	1.09
1000096--1000125	12	2.5	12	100	0	60	20	0	43	36	1.52
1000238--1000324	2	43.5	2	100	0	174	0	0	49	50	1.00
1003111--1003179	20	3.3	20	73	15	59	40	4	5	49	1.47
1007178--1007950	121	6.4	120	84	2	947	28	26	17	26	1.98
1007191--1007950	242	3.1	242	85	0	1045	28	26	18	26	1.98
1009740--1009775	18	2.0	18	100	0	72	38	27	27	5	1.79
1017824--1017869	22	2.0	23	83	4	58	43	0	6	50	1.28
1018801--1018834	5	6.8	5	86	0	50	79	2	2	14	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1018796--1018834	15	2.6	15	87	0	51	79	2	5	12	1.00
1025434--1025470	19	1.9	19	88	0	56	24	35	27	13	1.93
1030072--1030139	3	22.7	3	88	11	104	66	1	0	32	1.01
1030328--1030928	134	4.5	134	83	7	638	24	17	31	26	1.97
1030455--1030922	133	3.5	132	81	4	435	23	18	32	25	1.97
1030455--1030952	264	1.9	264	84	3	680	23	17	32	26	1.97
1031091--1031311	67	3.5	62	77	11	232	42	13	14	29	1.84
1032534--1032588	24	2.3	24	93	6	94	0	18	7	74	1.04
1032562--1032601	20	2.0	20	85	0	53	5	15	12	67	1.38
1037302--1037417	60	1.9	60	82	5	144	27	17	7	47	1.75
1037560--1037980	74	5.8	74	72	11	217	33	18	9	38	1.83
1037714--1037997	37	7.8	37	67	12	122	34	19	8	38	1.82
1038431--1038717	103	2.8	101	79	7	269	32	17	18	31	1.95
1041829--1041934	50	2.1	50	84	3	133	46	10	16	26	1.80
1042154--1042328	90	2.0	89	93	1	296	45	6	10	37	1.65
1048893--1049069	89	2.0	90	93	1	302	44	5	11	38	1.64
1049126--1049201	33	2.3	33	95	0	134	32	17	18	31	1.94
1053130--1053171	21	2.0	21	95	0	75	30	14	7	47	1.71
1053160--1053236	33	2.4	32	89	4	127	31	9	15	44	1.78
1057183--1057232	23	2.3	23	86	6	68	30	6	6	58	1.46
1059754--1059828	38	2.0	37	84	5	98	48	4	1	46	1.29
1065118--1065187	21	3.2	21	80	15	72	27	8	0	64	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1065227--1065283	24	2.4	22	73	23	53	24	3	5	66	1.28
1067436--1067781	139	2.5	136	84	6	417	28	13	15	43	1.83
1072847--1073066	114	1.9	115	83	6	286	23	20	15	41	1.89
1074682--1074798	46	2.6	46	82	4	121	23	21	9	45	1.81
1074714--1074800	46	1.9	45	88	2	129	24	18	8	49	1.74
1075345--1075517	20	7.7	20	66	23	78	19	25	10	43	1.83
1075333--1075826	46	10.8	46	83	4	438	23	22	10	42	1.85
1075334--1075826	93	5.4	92	83	3	468	23	22	10	42	1.85
1075333--1075634	139	2.2	139	86	2	410	21	23	10	44	1.82
1075336--1075847	45	11.2	45	82	4	371	23	22	10	42	1.85
1076581--1076763	79	2.3	79	83	6	228	36	12	22	28	1.91
1076763--1076968	60	3.5	60	89	1	306	38	10	20	30	1.86
1081386--1081540	81	1.9	81	89	4	240	25	26	10	37	1.89
1081891--1082037	20	6.7	20	72	18	123	19	25	12	42	1.86
1081911--1082063	46	3.3	46	88	3	236	19	24	12	43	1.85
1082024--1082087	26	2.5	26	92	0	101	18	21	12	46	1.82
1081984--1082134	72	2.1	73	83	11	188	22	20	11	45	1.84
1082060--1082254	45	4.4	45	86	3	261	27	19	10	42	1.84
1082078--1082254	89	2.0	90	91	3	286	28	20	9	41	1.84
1082680--1082856	95	1.9	94	83	8	234	25	23	13	36	1.92
1085283--1085653	137	2.7	135	83	6	446	29	11	13	45	1.79
1088060--1088090	16	1.9	16	100	0	62	29	6	19	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091511--1091568	27	2.2	26	84	12	73	31	13	8	46	1.74
1095319--1095364	22	2.1	22	84	8	58	50	0	4	45	1.21
1096115--1096151	14	2.6	14	91	4	56	29	5	2	62	1.31
1099846--1099878	5	6.6	5	89	10	50	75	0	0	24	0.80
1099846--1099878	9	3.3	10	91	8	50	75	0	0	24	0.80
1102161--1102533	130	2.9	131	81	5	436	31	16	20	30	1.95
1103840--1103896	23	2.3	25	82	11	73	12	10	0	77	1.00
1113236--1113285	26	1.9	26	84	8	66	62	10	8	20	1.52
1114346--1114390	19	2.3	20	88	11	67	26	8	48	15	1.74
1116544--1116586	20	2.2	20	87	4	61	34	9	6	48	1.62

Tables:   1   2   3   4   5   6