genome.fa.s417.2.7.7.80.10.50.1000.5.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: VEPZ01000417.1 Hibiscus syriacus cultivar Beakdansim tig00000764_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2005044

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1058 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)
952298--952334	20	2.0	20	84	10	51	8	16	10	64	1.47
952444--952469	12	2.2	12	100	0	52	0	50	7	42	1.31
952993--953056	3	22.0	3	81	12	62	65	1	4	28	1.21
958541--958979	226	1.9	225	93	1	763	46	7	7	38	1.61
959203--959249	20	2.4	19	79	10	58	55	8	17	19	1.67
961544--961606	31	2.0	32	84	3	83	26	1	47	23	1.61
963965--964027	23	2.7	23	90	0	90	36	6	19	38	1.77
963965--964037	23	3.2	23	86	3	85	35	5	19	39	1.75
964394--964456	23	2.7	23	90	0	90	36	6	19	38	1.77
963869--965161	429	3.0	430	98	1	2514	39	8	13	38	1.75
964823--964885	23	2.7	23	90	0	90	36	6	19	38	1.77
964823--964895	23	3.2	23	86	3	85	35	5	19	39	1.75
970229--970275	20	2.3	20	96	0	85	34	21	19	25	1.96
970269--970335	20	3.3	20	93	0	107	44	25	11	17	1.83
970453--970505	24	2.2	24	100	0	106	22	0	33	43	1.54
970597--970777	66	2.7	66	88	8	251	25	2	17	54	1.55
970820--970861	20	2.1	20	100	0	84	42	19	23	14	1.87
970942--970991	20	2.5	20	93	0	82	16	20	24	40	1.91
971911--971947	18	2.1	18	89	0	56	51	10	5	32	1.60
974943--974967	3	8.3	3	100	0	50	0	36	0	64	0.94
975904--975945	21	2.0	21	85	0	57	28	28	26	16	1.97
976625--976678	23	2.3	23	90	6	83	20	24	25	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
983447--983508	23	2.7	23	80	5	72	22	25	24	27	2.00
984240--984273	12	2.8	12	90	0	50	14	0	29	55	1.40
985042--985151	19	5.7	19	88	4	141	30	11	20	36	1.89
985042--985151	38	2.8	39	89	5	161	30	11	20	36	1.89
985139--985265	20	6.3	20	78	7	141	18	14	23	43	1.87
985159--985322	40	4.1	40	82	10	203	21	15	21	41	1.90
985258--985322	20	3.2	20	97	0	121	23	15	21	40	1.91
985042--985322	80	3.5	80	79	9	242	24	13	21	40	1.90
988350--988409	29	2.1	29	100	0	120	30	26	3	40	1.72
989484--989813	166	2.0	167	96	0	608	29	14	24	30	1.95
989799--989864	3	22.0	3	100	0	132	33	0	66	0	0.92
995007--995052	23	2.0	23	86	0	65	28	10	6	54	1.60
997049--997142	39	2.4	39	89	5	138	48	0	6	44	1.28
997070--997150	39	2.1	38	97	2	153	44	0	7	48	1.31
998979--999101	31	4.0	31	88	2	176	19	17	21	41	1.90
1001168--1001253	23	3.7	23	73	14	86	30	26	23	19	1.98
1004901--1004967	23	2.9	23	93	0	107	29	20	22	26	1.99
1008740--1008794	18	3.1	18	78	0	56	25	29	18	27	1.98
1011496--1011597	52	2.0	52	96	0	186	22	23	10	43	1.85
1016090--1016192	52	2.0	52	96	0	188	22	22	13	41	1.88
1016939--1016977	19	2.0	19	85	5	51	28	10	23	38	1.87
1017827--1017898	32	2.2	33	92	7	130	44	11	8	36	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1017979--1018023	22	2.0	23	82	4	56	55	2	6	35	1.38
1019459--1019484	12	2.2	12	100	0	52	15	7	34	42	1.75
1022153--1022225	29	2.5	29	84	0	92	15	34	31	19	1.92
1022245--1022316	20	3.5	20	83	7	99	6	48	18	26	1.73
1022245--1022321	22	3.7	21	87	6	104	7	48	18	25	1.75
1022841--1022907	30	2.3	30	92	5	111	38	1	14	44	1.55
1022960--1022993	15	2.2	16	94	5	61	38	0	5	55	1.24
1024938--1025031	47	2.0	47	95	4	172	29	29	25	14	1.95
1025203--1025280	11	7.0	11	70	18	54	48	6	5	39	1.51
1025212--1025309	32	3.3	32	72	24	106	50	7	3	39	1.45
1025192--1025309	56	2.1	56	92	3	193	48	8	3	39	1.50
1025394--1025658	11	23.3	11	71	13	171	45	8	1	44	1.43
1025394--1025619	45	5.0	45	76	7	192	45	7	1	45	1.43
1025601--1025658	8	6.3	9	75	22	50	50	12	0	37	1.40
1025593--1025649	16	3.3	17	73	22	64	50	10	0	38	1.37
1025863--1026112	48	5.4	48	90	7	374	44	13	0	41	1.44
1026025--1026096	22	3.3	22	75	21	87	45	8	0	45	1.33
1025863--1026155	48	6.2	47	84	12	276	45	12	0	42	1.41
1026091--1026176	11	7.3	11	72	17	57	45	10	1	43	1.46
1026989--1027052	31	2.0	32	96	3	121	56	21	9	12	1.64
1029735--1029797	28	2.2	30	91	5	103	57	11	0	31	1.34
1029774--1029822	21	2.3	21	85	3	71	53	18	0	28	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1030108--1030333	114	2.0	114	94	0	398	30	19	28	21	1.97
1030868--1030912	23	2.0	23	82	8	56	51	2	0	46	1.13
1030932--1031002	32	2.2	33	85	11	96	45	1	1	52	1.18
1030948--1031015	29	2.3	29	83	14	79	50	0	1	48	1.10
1031274--1031357	20	3.8	22	73	17	75	51	0	2	46	1.14
1031456--1031485	15	2.0	15	93	0	51	33	10	13	43	1.77
1034601--1034658	3	19.0	3	76	16	57	62	0	3	34	1.12
1034601--1034647	13	3.7	13	81	13	53	61	0	4	34	1.15
1034599--1034658	26	2.5	23	86	8	75	61	0	3	35	1.12
1034604--1034658	23	2.4	23	87	6	76	61	0	3	34	1.13
1038335--1038697	36	10.1	36	87	2	424	21	19	26	32	1.97
1040583--1040610	2	14.0	2	100	0	56	50	0	0	50	1.00
1040751--1040787	19	1.9	19	88	0	56	32	27	16	24	1.96
1040894--1041027	20	6.7	20	68	14	96	29	28	17	23	1.97
1040955--1041169	41	5.1	41	70	12	152	36	22	17	24	1.95
1040772--1041040	142	1.9	142	82	4	337	30	24	17	26	1.97
1041100--1041171	21	3.4	21	88	3	110	43	22	15	19	1.88
1041595--1041703	19	5.4	19	79	13	101	31	27	5	35	1.80
1042758--1042799	21	2.0	21	81	9	50	52	0	0	47	1.00
1050506--1050532	2	13.5	2	100	0	54	48	0	0	51	1.00
1051919--1051954	15	2.4	15	100	0	72	22	16	25	36	1.94
1052352--1052404	22	2.4	22	81	6	63	41	16	20	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1058853--1059067	119	1.8	119	84	6	301	33	19	12	35	1.89
1075888--1075926	3	13.0	3	88	0	60	33	0	2	64	1.08
1078928--1078988	30	2.0	31	87	3	88	50	8	8	32	1.62
1079721--1079781	31	2.0	31	93	0	104	29	24	21	24	1.99
1082198--1082512	153	2.1	153	92	3	526	35	16	11	36	1.84
1083385--1083500	56	2.1	56	95	0	205	50	6	5	37	1.51
1083679--1083730	23	2.2	24	86	3	70	44	1	3	50	1.31
1083738--1083800	25	2.5	25	78	0	72	44	3	4	47	1.40
1083697--1083767	36	1.9	37	85	2	99	39	2	5	52	1.40
1083678--1083833	61	2.6	60	87	6	217	42	3	5	48	1.43
1083763--1083900	38	3.7	36	79	9	134	43	5	7	44	1.54
1083897--1083934	20	1.9	19	89	5	58	28	0	2	68	1.03
1088511--1088665	64	2.4	63	76	9	163	27	18	18	36	1.94
1090756--1090816	18	3.2	17	71	24	50	22	14	32	29	1.94
1090738--1090816	40	2.0	40	89	0	122	24	16	29	30	1.96
1091326--1091360	11	3.2	11	87	0	52	28	11	28	31	1.92
1092485--1092519	17	2.0	17	88	5	52	45	0	0	54	0.99
1092927--1092972	12	3.6	12	81	16	56	45	17	19	17	1.85
1092933--1092973	12	3.1	13	80	19	57	46	14	17	21	1.84
1095265--1095304	21	1.9	21	94	0	71	30	15	7	47	1.72
1095299--1095397	33	3.0	33	94	1	164	32	7	15	45	1.73
1095383--1095437	13	4.2	13	75	13	58	34	3	12	49	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1095633--1095689	21	2.7	21	94	0	96	19	24	26	29	1.98
1095854--1095907	15	3.5	15	78	9	63	33	11	11	44	1.75
1095873--1095906	18	1.9	18	94	5	61	38	11	11	38	1.79
1096001--1096032	16	2.0	17	88	11	50	43	21	21	12	1.86
1096428--1096468	2	20.5	2	100	0	82	51	0	0	48	1.00
1098233--1098267	13	2.8	13	91	4	54	57	0	0	42	0.99
1101369--1101971	126	4.8	126	98	0	1165	22	26	19	32	1.97
1102359--1102458	33	3.0	34	83	2	139	39	3	4	54	1.35
1102977--1103069	21	4.5	21	86	10	120	20	26	34	18	1.96
1103073--1103120	21	2.3	21	85	0	60	22	12	39	25	1.89

Tables:   1   2   3   4   5   6   7   8   9