genome.fa.s482.2.7.7.80.10.50.1000.6.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: VEPZ01000482.1 Hibiscus syriacus cultivar Beakdansim tig00000916_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2886609

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

This is table  6  of  16  ( 1801 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)
938092--938162	2	35.5	2	100	0	142	49	0	0	50	1.00
938851--938886	6	6.0	6	96	0	63	19	47	16	16	1.83
940047--940077	2	15.5	2	93	0	53	48	0	0	51	1.00
949535--949568	17	2.1	17	94	5	61	55	17	14	11	1.68
949860--949892	12	2.8	12	100	0	66	54	0	0	45	0.99
950481--950537	29	2.0	29	96	0	105	29	15	3	50	1.61
956057--956163	31	3.4	32	80	11	123	29	18	17	33	1.94
956057--956148	32	2.9	32	79	10	109	32	18	17	31	1.94
957482--957529	14	3.3	13	81	18	51	75	8	16	0	1.04
961886--961928	22	2.0	22	90	0	68	20	16	16	46	1.84
961918--961971	19	2.9	19	91	2	83	37	11	9	42	1.73
962196--962369	36	5.2	35	68	23	131	25	15	16	41	1.88
962241--962348	30	3.4	30	74	18	119	27	16	14	40	1.88
962193--962784	66	8.9	66	85	3	699	29	17	13	39	1.88
962932--963290	139	2.6	139	84	3	463	29	28	16	25	1.97
964092--964141	19	2.6	19	87	6	66	32	16	30	22	1.95
975487--975689	63	3.2	63	78	11	170	30	18	19	32	1.95
975488--975706	31	7.0	31	78	6	201	30	18	20	31	1.96
975488--975705	94	2.3	94	84	1	276	30	18	20	30	1.96
979535--979588	19	2.9	18	81	10	65	7	3	3	85	0.83
983692--983738	18	2.5	19	82	6	60	46	6	4	42	1.48
984012--984069	20	2.9	20	81	0	71	24	24	22	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
987006--987052	22	2.1	22	96	0	85	21	17	19	42	1.89
988255--988305	20	2.5	20	77	0	57	29	25	21	23	1.99
988607--988689	2	41.5	2	100	0	166	49	0	0	50	1.00
990513--990563	17	3.0	17	74	8	50	43	11	7	37	1.71
991070--991120	20	2.6	20	84	9	61	39	17	21	21	1.93
991726--991979	137	1.8	138	85	5	354	26	14	18	40	1.89
992453--992481	3	10.0	3	92	7	51	34	0	0	65	0.93
992613--992866	139	1.8	139	85	1	357	29	29	18	22	1.97
993419--993474	29	1.9	29	92	0	94	30	14	3	51	1.59
993476--993722	135	1.8	134	91	2	397	21	16	14	46	1.83
993819--993877	16	3.7	16	82	6	75	33	30	3	32	1.74
994045--994079	16	2.2	16	90	5	54	25	14	5	54	1.62
997740--997782	15	2.8	15	80	16	52	48	2	6	41	1.43
997752--997800	21	2.3	21	82	0	62	53	4	4	38	1.39
1000273--1000397	31	4.0	31	85	4	162	38	11	11	39	1.77
1000273--1000395	63	2.0	62	85	4	167	39	10	11	39	1.76
1008482--1008748	133	2.0	133	86	5	371	48	7	5	38	1.55
1008759--1008785	8	3.4	8	100	0	54	85	0	0	14	0.61
1008514--1008784	133	2.0	132	80	6	298	51	6	5	36	1.50
1008826--1008884	23	2.5	22	79	20	66	64	5	3	27	1.30
1010120--1010206	3	29.0	3	79	4	86	59	1	0	39	1.05
1010431--1010788	139	2.6	137	83	2	432	26	17	15	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010689--1011259	113	4.9	118	84	9	640	26	17	15	40	1.90
1011643--1011718	22	3.5	22	85	5	109	38	13	14	34	1.85
1012997--1013244	75	3.4	72	78	7	202	29	21	16	33	1.95
1016201--1016284	1	84.0	1	78	0	87	0	10	0	89	0.49
1016201--1016287	8	11.1	8	85	9	110	0	11	0	88	0.51
1016201--1016284	9	9.6	9	91	8	122	0	10	0	89	0.49
1016201--1016287	24	3.7	24	88	10	135	0	11	0	88	0.51
1019029--1019067	20	2.0	20	84	0	51	64	7	10	17	1.48
1021304--1021367	31	2.0	30	85	8	83	59	0	7	32	1.26
1021311--1021392	31	2.7	31	78	16	84	56	0	9	34	1.32
1021867--1021898	2	16.0	2	100	0	64	50	0	0	50	1.00
1022118--1022208	35	2.6	36	75	18	100	58	0	3	38	1.15
1022255--1022307	22	2.3	22	81	18	63	64	7	0	28	1.21
1023556--1023615	3	20.0	3	81	6	59	63	0	0	36	0.95
1023548--1023608	14	4.5	13	76	17	61	59	0	1	39	1.08
1023548--1023617	28	2.6	28	80	12	76	62	0	1	35	1.04
1023577--1023614	20	1.9	20	100	0	76	68	0	0	31	0.90
1025000--1025026	2	13.5	2	100	0	54	51	0	0	48	1.00
1026585--1026638	27	2.0	27	96	0	99	53	5	11	29	1.59
1044027--1044067	19	2.1	20	90	4	66	60	4	4	29	1.38
1043945--1045159	605	2.0	603	96	0	2261	33	17	16	32	1.93
1047017--1047079	19	3.1	20	76	15	58	22	3	3	71	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055506--1055748	76	3.2	74	83	6	310	44	2	6	46	1.43
1055506--1055748	38	6.5	37	82	7	276	44	2	6	46	1.43
1055761--1055790	5	6.0	5	92	0	51	20	3	0	76	0.92
1055743--1055816	29	2.6	28	80	4	76	29	4	2	63	1.26
1055761--1055820	15	4.1	15	77	14	54	25	3	1	70	1.12
1056957--1056986	8	3.8	8	95	0	51	13	0	6	80	0.91
1058484--1058514	3	10.3	3	92	0	53	70	29	0	0	0.87
1061581--1061843	95	2.7	95	84	3	321	33	16	16	33	1.92
1062942--1063978	84	12.5	82	78	6	937	31	24	18	25	1.98
1062942--1063974	248	4.1	246	82	4	1038	31	24	18	25	1.98
1063062--1063926	332	2.6	332	87	0	1210	30	24	18	26	1.98
1064565--1064760	38	5.6	36	75	16	153	44	3	5	46	1.40
1064524--1064721	102	1.9	104	81	8	242	42	4	7	45	1.51
1064603--1064658	27	2.0	27	86	6	76	42	3	5	48	1.43
1064550--1064695	64	2.2	65	85	3	195	42	4	6	46	1.49
1064616--1064759	75	1.9	76	84	11	197	43	2	5	47	1.41
1064755--1064820	10	6.9	10	75	14	50	28	4	1	65	1.21
1064770--1064820	14	3.6	14	77	15	59	27	3	1	66	1.20
1064746--1064801	19	2.9	19	86	0	67	32	3	0	64	1.11
1067167--1067383	46	4.8	46	94	1	359	39	6	22	31	1.81
1069037--1069116	31	2.6	31	91	0	124	31	35	2	31	1.71
1072278--1072357	31	2.6	31	91	0	124	31	35	2	31	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1077918--1077964	20	2.2	21	78	17	53	44	6	12	36	1.68
1080433--1080512	31	2.6	31	91	0	124	31	35	2	31	1.71
1085000--1085053	25	2.4	23	77	19	60	20	3	0	75	0.95
1092828--1092900	18	3.9	18	82	7	101	28	31	20	19	1.97
1093472--1093611	64	2.2	64	82	5	158	27	16	20	35	1.94
1093513--1093634	64	1.9	63	83	9	158	27	16	18	37	1.92
1101395--1101464	23	3.0	23	82	2	86	24	25	22	27	2.00
1101678--1101702	3	8.3	3	100	0	50	32	0	0	68	0.90
1102648--1102809	63	2.5	64	82	4	177	28	18	20	32	1.96
1102670--1102809	64	2.2	64	82	6	178	28	17	19	34	1.95
1104497--1104589	26	3.6	26	85	1	89	40	30	2	26	1.68
1107641--1107726	16	5.4	16	98	0	154	31	20	44	3	1.69
1107640--1107723	8	10.5	8	80	0	96	32	21	42	3	1.70
1108234--1108273	21	1.9	21	94	0	71	37	2	5	55	1.35
1108737--1108873	55	2.4	55	82	8	157	12	11	18	57	1.64
1114517--1114541	13	1.9	13	100	0	50	64	0	0	36	0.94
1114723--1115402	137	4.9	137	85	1	833	26	17	27	28	1.97
1115414--1115530	36	3.4	35	64	9	87	38	15	17	29	1.90
1115414--1115606	68	2.9	66	83	3	242	39	16	16	27	1.90
1115564--1115781	103	2.1	102	80	9	239	34	15	18	31	1.92
1115933--1116015	34	2.4	34	76	11	89	34	10	22	31	1.89
1132464--1132549	31	2.8	30	89	5	120	47	2	3	46	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141811--1142321	8	59.1	8	67	18	101	19	6	0	73	1.09
1141837--1142095	4	63.8	4	73	17	182	22	4	0	72	1.06
1141838--1142295	19	23.8	19	68	20	162	20	6	0	72	1.08
1141928--1142297	6	62.0	6	71	18	104	18	8	0	72	1.10
1141878--1142321	246	1.8	247	80	11	543	19	7	0	73	1.08
1141878--1142230	23	15.3	23	70	20	156	20	6	0	73	1.07
1142263--1142345	32	2.5	32	80	5	94	12	13	0	74	1.07
1153352--1153394	2	21.5	2	100	0	86	48	0	0	51	1.00
1154483--1154876	11	36.0	11	68	21	149	19	5	0	74	1.05
1154484--1154551	23	2.9	23	78	14	68	19	4	0	76	0.95

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