genome.fa.s8798.2.7.7.80.10.50.1000.5.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: VEPZ01008798.1 Hibiscus syriacus cultivar Beakdansim tig00111947_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1825372

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1068 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)
892415--892539	62	2.0	62	100	0	250	35	11	6	47	1.65
892526--892551	2	13.0	2	100	0	52	50	0	0	50	1.00
920351--920389	2	19.5	2	100	0	78	51	0	0	48	1.00
928772--928829	29	2.0	28	86	3	80	55	6	3	34	1.44
932604--932629	2	13.0	2	100	0	52	0	50	0	50	1.00
938243--938336	32	2.9	32	79	4	100	27	26	27	18	1.98
938674--938740	20	3.3	20	100	0	134	56	0	10	32	1.33
944232--944283	26	2.0	26	84	0	68	34	17	1	46	1.59
945477--946155	273	2.5	274	86	3	904	36	12	17	33	1.87
949575--949618	22	2.0	22	82	8	54	34	0	0	65	0.93
951387--951423	18	2.2	18	86	13	53	43	0	16	40	1.48
951734--951794	22	2.8	22	85	5	79	34	16	24	24	1.95
952670--952718	21	2.4	21	86	6	66	20	16	14	48	1.80
953064--953104	3	13.7	3	100	0	82	68	0	0	31	0.90
954149--954223	24	3.0	26	75	16	77	40	2	4	53	1.34
954160--954223	24	2.6	26	78	14	82	39	3	4	53	1.38
954214--954284	27	2.6	27	86	0	97	42	1	1	54	1.17
954484--954550	24	2.6	26	79	11	75	38	7	0	53	1.29
954611--954665	27	2.0	28	85	3	76	60	1	1	36	1.18
961907--961965	20	2.9	21	80	7	77	11	25	33	28	1.91
972937--972971	18	1.9	18	88	0	52	51	8	2	37	1.47
973975--973999	6	4.2	6	100	0	50	52	32	16	0	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
974063--974089	5	5.4	5	100	0	54	0	18	37	44	1.50
975099--975154	14	4.3	14	78	17	75	8	14	25	51	1.70
975100--975174	24	3.1	24	92	0	114	12	12	21	54	1.69
976231--976307	16	4.8	16	93	0	127	7	14	24	53	1.67
981150--981233	9	9.1	9	73	21	68	34	0	0	65	0.93
981145--981239	13	7.6	13	77	11	92	34	1	0	64	1.01
981142--981228	22	4.2	22	70	26	73	34	0	0	65	0.93
981163--981217	16	3.4	16	74	16	51	36	0	0	63	0.95
981828--981865	20	1.9	21	84	10	53	52	5	5	36	1.47
981818--981875	16	3.2	16	73	21	53	53	3	3	39	1.35
982534--982982	229	2.0	227	95	0	799	45	8	7	39	1.62
983215--983261	20	2.4	19	82	10	67	53	10	17	19	1.72
983224--983266	20	2.3	19	88	11	63	51	11	16	20	1.75
985496--985560	21	3.1	21	80	6	69	40	15	29	15	1.88
985594--985659	33	2.0	33	87	0	96	27	0	48	24	1.51
987455--987502	19	2.6	19	93	3	80	31	2	10	56	1.45
987621--988988	199	6.9	198	97	0	2594	36	15	16	31	1.90
990452--990504	12	4.4	12	92	0	70	35	7	33	22	1.83
990464--990517	3	18.0	3	84	0	72	37	3	33	25	1.74
990449--990517	18	4.0	18	79	11	72	37	5	33	23	1.79
990460--990517	12	4.8	12	93	0	80	36	5	32	25	1.78
991941--992832	183	4.9	183	96	0	1595	36	14	15	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
993077--993152	23	3.5	22	78	15	68	39	5	19	35	1.75
993089--993152	23	2.8	24	85	7	87	37	4	20	37	1.74
993089--993161	23	3.2	23	82	7	85	35	4	20	39	1.72
993348--993398	25	2.0	25	92	0	84	33	7	19	39	1.81
993787--993823	18	2.1	18	89	0	56	32	5	10	51	1.60
993779--993825	24	2.0	24	86	0	67	34	4	14	46	1.64
994082--994168	39	2.2	39	95	0	156	48	20	13	17	1.81
994574--994646	23	3.2	23	88	0	101	34	4	21	39	1.73
996101--996184	19	4.5	19	74	14	68	34	4	2	58	1.32
996164--996200	13	2.7	14	84	15	51	37	2	0	59	1.12
996777--996853	23	3.4	22	91	7	102	40	27	7	24	1.82
997788--997938	74	2.0	75	96	2	277	37	23	15	22	1.93
999141--999356	31	6.8	30	71	18	116	48	2	4	44	1.36
999179--999225	24	1.9	25	82	4	60	55	4	2	38	1.31
999243--999303	14	4.3	14	74	12	52	45	3	6	44	1.46
999262--999350	15	5.6	15	69	19	56	49	2	3	44	1.31
999215--999420	21	9.5	21	67	20	77	47	3	5	43	1.44
999546--999987	41	10.8	42	76	8	376	30	15	21	32	1.94
999586--999987	82	4.9	81	82	4	434	30	15	20	33	1.94
999602--999976	164	2.3	165	87	2	522	30	15	20	33	1.94
1002130--1002189	21	2.8	21	79	2	66	18	5	20	56	1.59
1002317--1002516	86	2.3	87	88	6	293	32	22	19	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1002359--1002518	43	3.7	43	84	0	221	33	23	18	24	1.96
1002674--1002718	14	3.3	14	84	3	56	40	4	8	46	1.55
1002703--1002766	22	3.0	21	78	13	67	45	6	7	40	1.58
1002761--1002800	20	2.0	20	85	0	53	40	12	5	42	1.64
1002693--1002828	57	2.4	57	87	4	188	41	8	8	41	1.66
1002781--1002859	37	2.2	35	86	4	104	39	12	8	39	1.75
1002786--1002858	35	2.1	35	82	10	87	39	12	9	38	1.76
1004056--1004418	75	5.0	69	82	12	331	45	6	2	44	1.44
1004036--1004446	37	11.1	35	82	10	380	45	6	3	45	1.46
1004048--1004446	74	5.4	71	84	9	428	45	6	3	44	1.46
1005077--1005420	84	4.1	84	82	3	385	24	21	25	28	1.99
1005422--1005833	84	5.0	83	81	3	452	25	20	23	30	1.98
1005423--1005833	164	2.5	167	85	2	533	26	20	23	30	1.98
1005077--1005808	388	1.9	388	88	1	1119	24	21	24	29	1.99
1010857--1010885	12	2.3	13	94	5	51	68	0	0	31	0.89
1011695--1011769	35	2.1	35	82	4	89	57	5	0	37	1.22
1011719--1012008	37	7.9	35	83	8	298	45	5	2	46	1.39
1011731--1012016	74	3.9	72	85	7	348	46	5	2	45	1.39
1011719--1012016	109	2.7	107	83	7	350	45	6	2	45	1.39
1011956--1012082	64	2.0	64	87	3	184	48	6	3	42	1.44
1011993--1012053	25	2.3	27	80	5	72	49	6	1	42	1.38
1012015--1012085	37	1.9	36	88	2	106	45	5	4	45	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011914--1012098	101	1.8	102	83	8	243	45	7	4	42	1.54
1012236--1012564	2	165.0	2	67	19	127	43	3	3	49	1.36
1012229--1012421	75	2.6	75	89	4	286	44	3	3	49	1.35
1012394--1012568	13	12.6	13	73	18	99	42	4	4	49	1.42
1012658--1012707	16	3.2	16	75	11	50	26	10	2	62	1.38
1021560--1021651	22	4.4	22	85	10	129	16	26	30	27	1.97
1021594--1021652	18	3.0	19	81	16	75	18	28	28	23	1.98
1021573--1021652	40	2.0	40	92	0	133	17	26	30	26	1.97
1028303--1028455	22	7.6	21	83	10	155	16	24	29	29	1.96
1028303--1028456	44	3.9	40	84	8	192	16	24	29	29	1.97
1028303--1028456	62	2.5	57	83	9	182	16	24	29	29	1.97
1042641--1042667	13	2.1	13	100	0	54	22	25	14	37	1.93
1043960--1044009	23	2.2	23	88	0	73	28	26	10	36	1.88
1043967--1044015	23	2.1	23	88	0	71	24	22	6	46	1.74
1045005--1045195	20	9.4	20	79	1	193	38	23	19	18	1.93
1045005--1045195	40	4.7	40	88	0	274	38	23	19	18	1.93
1046029--1046082	24	2.2	24	93	0	90	20	18	20	40	1.91
1048481--1048535	20	2.8	20	88	0	65	30	23	23	21	1.99
1048540--1048698	19	8.8	19	80	14	194	45	18	20	15	1.85
1048559--1048692	34	3.9	33	83	12	171	44	18	21	14	1.86
1048507--1048671	86	1.9	86	91	0	267	44	19	21	14	1.86
1048702--1048788	20	4.7	19	78	16	94	13	22	18	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1050273--1050339	21	3.2	21	68	4	55	19	19	35	25	1.95
1052438--1052490	19	2.8	19	91	0	79	9	16	22	50	1.74
1052454--1052545	40	2.3	41	79	7	109	11	16	19	52	1.74
1052449--1052545	20	4.8	20	80	8	99	11	16	19	52	1.73
1053108--1053300	20	9.5	20	79	7	192	18	17	24	38	1.92
1053105--1053300	41	4.8	39	81	9	189	18	17	24	39	1.92
1053420--1053463	19	2.3	19	96	0	79	18	13	13	54	1.71
1057711--1057936	120	1.9	119	80	5	267	45	9	14	30	1.77
1060545--1060573	15	2.0	15	93	6	51	65	0	0	34	0.93
1061548--1061731	75	2.5	75	85	0	242	50	17	5	26	1.68

Tables:   1   2   3   4   5   6   7   8   9