genome.fa.s1466.2.7.7.80.10.50.1000.4.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: VEPZ01001466.1 Hibiscus syriacus cultivar Beakdansim tig00002841_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1236886

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 558 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)
888255--888327	24	3.0	24	75	18	62	41	0	2	56	1.14
888306--888342	17	2.2	17	95	0	65	54	0	0	45	1.00
898264--898817	277	2.0	277	100	0	1108	39	19	14	25	1.90
901532--902004	182	2.6	181	92	1	768	42	12	16	28	1.85
902055--902154	42	2.4	42	89	5	157	19	16	14	51	1.77
902357--902437	31	2.6	32	81	15	89	45	2	0	51	1.14
902461--902524	28	2.2	28	83	8	76	50	1	1	46	1.20
902482--902534	20	2.7	19	73	18	54	49	0	1	49	1.12
902529--902573	23	2.0	23	86	0	63	53	2	2	42	1.25
902654--902752	49	2.0	50	80	9	114	49	1	2	47	1.19
902913--902956	14	3.0	15	73	6	54	31	18	6	43	1.76
902935--902976	21	2.0	21	100	0	84	28	23	4	42	1.74
903009--903445	182	2.4	182	93	1	745	43	12	14	29	1.82
905406--905881	198	2.4	197	81	6	552	38	14	15	31	1.88
905876--906038	87	1.9	87	93	0	281	30	14	13	41	1.85
905960--906004	23	2.0	23	90	0	72	40	17	8	33	1.81
909521--909627	23	4.7	23	85	0	124	30	24	25	19	1.98
909518--909627	46	2.4	46	84	0	148	32	23	24	19	1.97
914722--914840	23	5.3	23	84	2	98	33	24	22	19	1.97
914730--914836	23	4.7	23	86	0	124	30	26	25	17	1.97
914727--914836	46	2.4	46	84	0	139	32	25	24	17	1.96
915294--915321	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
919948--920054	23	4.7	23	89	0	151	31	26	24	17	1.97
920341--920383	2	21.5	2	100	0	86	48	0	0	51	1.00
920446--920512	2	33.5	2	100	0	134	49	0	0	50	1.00
920795--921246	226	2.0	226	98	0	868	30	19	4	45	1.71
930727--930847	42	2.9	42	92	0	197	26	52	7	14	1.67
936250--936317	35	1.9	36	87	3	102	39	5	13	41	1.68
938946--939061	21	5.6	21	71	7	67	32	28	18	20	1.96
939049--939241	20	9.6	20	84	5	246	34	27	19	18	1.95
939620--939690	33	2.2	33	94	0	124	11	23	16	47	1.79
939770--939876	21	5.6	20	73	17	102	46	18	21	13	1.83
939831--939887	14	3.7	14	75	20	60	43	22	24	8	1.81
939824--939903	33	2.4	33	95	0	142	47	22	21	8	1.78
939899--940026	19	7.1	19	71	19	87	10	25	18	45	1.82
939921--939977	14	3.7	14	75	20	60	8	24	22	43	1.81
939904--940026	33	3.5	33	88	10	165	10	24	18	46	1.81
939962--940026	21	3.1	21	82	4	96	10	26	15	47	1.78
941711--942026	93	3.4	93	98	0	605	22	13	18	45	1.84
942142--942198	14	3.7	14	72	20	51	43	24	22	8	1.81
942156--942247	19	5.4	18	72	24	65	46	28	17	7	1.75
942124--942247	33	3.7	33	91	1	185	45	27	17	8	1.78
942173--942231	14	3.9	14	76	20	64	47	28	16	6	1.72
942243--942415	19	9.6	19	76	12	159	10	20	23	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
942265--942321	14	3.7	14	75	20	51	10	22	22	43	1.84
942243--942415	33	4.8	38	80	8	168	10	20	23	45	1.81
942868--942934	21	3.2	21	68	6	64	26	35	17	19	1.94
944444--944531	19	4.8	19	82	14	123	47	15	22	13	1.81
944444--944550	53	2.0	53	98	1	207	45	16	24	13	1.83
944541--944834	72	4.2	69	77	13	271	13	22	18	45	1.84
944546--944815	105	2.6	109	91	7	425	13	22	17	46	1.83
944546--944815	53	5.1	52	89	8	406	13	22	17	46	1.83
945417--945645	20	11.4	20	85	1	235	19	17	25	37	1.94
945613--945710	21	4.8	20	75	10	81	21	19	21	37	1.94
945613--945711	42	2.4	43	77	11	100	21	19	22	37	1.94
950161--950207	21	2.2	21	100	0	94	38	10	10	40	1.75
950250--950276	13	2.1	13	100	0	54	25	22	22	29	1.99
950314--950366	20	2.7	20	78	0	70	15	13	11	60	1.59
950279--950852	112	5.1	112	90	1	855	25	14	13	46	1.81
951730--951769	20	2.0	21	85	5	55	52	0	5	42	1.23
961633--962139	125	4.0	125	96	0	924	35	20	13	30	1.91
968980--969019	16	2.5	16	83	0	53	20	5	7	67	1.34
972082--972125	21	2.1	21	91	0	70	29	0	15	54	1.42
972102--972155	28	1.9	28	96	0	99	29	0	12	57	1.36
974427--974471	23	2.0	23	81	0	54	26	24	26	22	2.00
979257--979342	41	2.0	42	95	4	156	29	22	13	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
982069--982106	20	1.9	20	88	0	58	10	31	34	23	1.89
984206--985032	60	14.2	59	75	14	623	40	1	12	45	1.51
984261--984729	109	4.2	107	83	10	577	40	0	12	46	1.43
984365--984491	21	5.0	27	64	31	84	41	0	11	46	1.40
984594--984680	10	8.7	10	71	13	54	40	0	14	44	1.46
984680--984749	25	3.1	22	79	16	63	38	0	11	50	1.39
984701--984748	14	3.6	14	81	16	66	35	0	16	47	1.47
984701--984749	25	2.0	25	95	0	89	36	0	16	46	1.47
984833--984920	11	7.6	11	71	17	54	39	0	14	45	1.45
984245--985133	299	3.0	299	89	6	1293	40	2	12	44	1.56
984833--984921	21	4.4	20	64	17	58	40	0	14	44	1.45
984833--984979	10	14.7	10	68	15	54	40	0	14	45	1.45
984979--985048	25	3.1	22	79	16	63	38	0	11	50	1.39
985000--985047	14	3.6	14	81	16	66	35	0	16	47	1.47
985000--985048	25	2.0	25	95	0	89	36	0	16	46	1.47
987356--987425	30	2.3	30	92	4	115	50	11	1	37	1.48
987634--987673	21	1.9	21	100	0	80	57	15	0	27	1.38
987701--987755	18	3.4	18	65	31	52	52	9	0	38	1.33
987775--987845	37	2.0	37	84	15	96	49	9	0	40	1.36
987870--987934	28	2.3	29	82	10	82	46	15	1	36	1.55
988016--988053	9	4.2	9	83	10	51	65	2	0	31	1.06
988223--988258	11	3.2	11	84	7	54	36	19	22	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
988355--988416	29	2.1	29	94	5	108	16	27	30	25	1.96
988370--988425	29	1.9	29	85	7	78	19	28	28	23	1.98
996268--996294	3	9.0	3	100	0	54	33	0	33	33	1.58
1005007--1005045	2	19.5	2	100	0	78	51	0	0	48	1.00
1015995--1016021	6	4.5	6	100	0	54	0	14	0	85	0.61
1027350--1027506	20	7.8	20	73	6	93	38	25	17	19	1.93
1027350--1027506	41	3.9	41	70	11	126	38	25	17	19	1.93
1027473--1027682	20	10.5	20	79	6	192	37	24	18	19	1.94
1028365--1028411	24	2.0	24	87	8	69	25	14	21	38	1.92
1028586--1028610	12	2.1	12	100	0	50	72	0	28	0	0.86
1030894--1031058	19	9.4	19	76	19	180	46	18	21	13	1.83
1030894--1031058	52	3.2	52	94	2	278	46	18	21	13	1.83
1030894--1031080	33	5.5	33	83	13	179	45	18	21	13	1.84
1031018--1031072	14	3.6	14	73	21	56	45	20	23	10	1.82
1031087--1031202	53	2.2	53	98	1	225	13	24	18	43	1.86
1031105--1031202	19	5.4	19	84	13	143	14	22	17	45	1.84
1031309--1031345	14	2.6	14	91	0	65	45	21	0	32	1.52
1033329--1033385	14	3.7	14	77	20	60	45	22	21	10	1.82
1033310--1033402	33	2.8	33	95	0	168	47	21	20	10	1.80
1033273--1033407	19	7.6	19	76	16	128	45	23	19	11	1.82
1033403--1033512	19	6.3	18	71	20	83	9	17	28	45	1.78
1033403--1033494	33	2.8	33	93	3	150	7	18	28	45	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1033556--1033934	93	4.1	93	96	1	717	45	18	12	22	1.83
1033556--1033934	184	2.0	185	97	1	715	45	18	12	22	1.83
1035641--1035730	14	5.7	14	74	23	81	42	23	25	8	1.83
1035633--1035747	33	3.5	33	95	0	212	45	20	24	9	1.81
1035640--1035752	19	6.8	18	72	23	88	43	22	24	9	1.83
1035748--1035792	19	2.4	19	92	0	72	8	17	26	46	1.78
1035790--1035867	41	1.9	41	94	0	138	11	26	16	44	1.82
1035791--1035866	21	3.7	21	82	3	100	10	26	17	46	1.80
1035946--1036016	33	2.2	33	89	0	106	47	16	23	11	1.79
1036198--1036252	22	2.5	22	81	0	74	20	16	40	23	1.91

Tables:   1   2   3   4   5