genome.fa.s8214.2.7.7.80.10.50.1000.5.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: VEPZ01008214.1 Hibiscus syriacus cultivar Beakdansim tig00110840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2117680

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  5  of  11  ( 1291 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)
850268--850634	131	2.8	131	86	0	466	40	14	11	32	1.83
851811--851913	36	2.9	36	95	0	179	41	16	16	25	1.89
853959--854018	29	2.0	30	83	3	77	35	18	5	41	1.72
859332--859470	36	3.9	36	93	0	233	41	15	17	25	1.89
863823--863868	2	23.5	2	85	12	60	43	2	2	52	1.25
864528--864564	15	2.3	17	81	9	51	32	5	8	54	1.53
865714--865749	18	1.9	19	88	5	56	19	5	16	58	1.58
866736--866781	23	2.0	22	83	4	56	21	8	6	63	1.46
868569--868602	2	17.0	2	100	0	68	50	0	0	50	1.00
876640--876728	33	2.7	33	91	0	133	29	13	32	24	1.93
879029--879068	19	2.1	19	86	9	55	47	0	0	52	1.00
879328--879415	29	3.0	29	78	8	106	37	10	7	44	1.68
879344--879437	30	3.2	30	78	1	100	39	9	8	42	1.68
881765--881797	15	2.3	15	89	5	50	6	21	6	66	1.35
881815--881866	19	2.8	19	73	23	56	15	26	0	57	1.38
886435--886467	15	2.3	15	89	5	50	6	21	6	66	1.35
886486--886537	19	2.8	19	73	23	56	15	26	0	57	1.38
890830--890870	20	2.1	19	86	4	55	17	21	0	60	1.35
893400--893502	45	2.3	45	86	6	138	36	20	15	27	1.93
893445--893582	64	2.2	64	84	2	170	32	21	19	26	1.97
893893--893928	12	3.0	12	91	0	63	33	5	25	36	1.79
893893--893961	24	2.8	26	83	12	85	37	5	24	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
896346--896394	23	2.1	23	85	7	64	28	2	12	57	1.46
897851--897882	7	4.6	7	100	0	64	75	12	0	12	1.06
899575--899621	13	3.5	13	82	8	58	82	0	6	10	0.82
899575--899619	17	2.8	16	80	6	54	82	0	6	11	0.84
906181--906223	14	3.1	14	93	0	77	48	27	9	13	1.73
907537--907561	12	2.1	12	100	0	50	40	28	0	32	1.57
908680--908801	28	4.4	28	89	2	192	15	7	32	44	1.74
909380--909426	18	2.7	18	93	3	78	27	31	8	31	1.87
920426--920469	14	3.1	14	93	0	79	20	6	9	63	1.46
920627--920664	14	2.7	14	91	0	58	5	15	18	60	1.53
924312--924380	30	2.3	29	80	14	77	53	10	1	34	1.44
926076--926113	20	1.9	19	89	5	58	44	2	15	36	1.61
925917--929420	200	17.8	198	86	6	4670	43	13	14	28	1.83
925925--929420	780	4.5	790	87	5	4814	43	13	14	28	1.83
925917--929362	399	8.8	385	85	7	3874	43	13	14	28	1.83
928433--928471	20	2.0	19	85	5	51	43	5	15	35	1.69
928202--929420	401	3.1	397	86	5	1719	43	12	13	29	1.81
926245--929420	579	5.4	579	84	8	3449	43	13	14	28	1.82
925917--929420	980	3.6	981	89	5	5047	43	13	14	28	1.83
929213--929251	20	2.0	19	85	5	51	43	5	15	35	1.69
929872--929916	23	2.0	23	90	0	72	37	17	8	35	1.81
929789--930000	86	2.5	86	91	2	336	33	15	10	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
929949--930023	23	3.3	23	90	0	114	32	21	8	38	1.82
932520--932770	87	2.8	87	89	5	351	20	20	9	49	1.76
944719--944763	19	2.4	19	96	0	81	33	8	15	42	1.78
944896--944939	22	2.0	22	86	0	61	34	29	27	9	1.87
945153--945192	21	1.9	21	85	10	55	25	12	2	60	1.45
948208--948359	60	2.5	60	74	4	144	32	23	5	38	1.79
951155--951189	11	3.5	10	92	7	54	60	20	2	17	1.49
956401--956452	21	2.4	22	87	6	79	11	28	25	34	1.91
957149--957193	19	2.4	19	96	0	81	33	8	15	42	1.78
957584--957623	21	1.9	21	85	10	55	25	12	2	60	1.45
960642--960793	60	2.5	60	74	4	144	32	23	5	38	1.79
963599--963633	11	3.5	10	92	7	54	60	20	2	17	1.49
964731--964771	10	4.0	10	81	6	55	58	26	2	12	1.46
966716--966771	10	5.4	11	83	10	73	58	21	1	17	1.47
966713--966771	21	2.8	20	85	7	82	59	22	1	16	1.46
966713--966781	31	2.3	31	82	12	81	56	23	2	17	1.54
969386--969432	2	23.5	2	100	0	94	51	0	0	48	1.00
972927--972951	5	5.0	5	100	0	50	60	0	40	0	0.97
977407--977446	16	2.7	15	84	7	55	40	7	5	47	1.54
980014--980060	20	2.3	20	92	0	76	29	12	25	31	1.93
980053--980173	20	6.1	20	98	0	224	33	15	11	39	1.84
980210--980387	20	9.1	20	74	14	138	28	12	18	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980210--980387	40	4.5	40	70	17	156	28	12	18	40	1.87
980210--980426	117	1.8	117	93	1	353	28	13	18	39	1.89
980113--980369	97	2.6	97	92	1	417	29	14	17	38	1.89
980444--980496	20	2.7	20	87	0	70	13	16	26	43	1.85
980657--980714	29	1.9	31	83	13	77	29	24	0	46	1.53
983589--983641	10	5.8	10	78	17	53	50	0	0	49	1.00
983589--983630	14	3.2	14	80	19	63	52	0	0	47	1.00
983589--983640	25	2.1	24	92	3	86	50	0	0	50	1.00
985630--985675	21	2.2	21	96	0	83	36	0	0	63	0.95
988226--988276	20	2.5	20	96	0	93	41	21	19	17	1.91
989838--989910	30	2.4	30	86	4	94	31	16	9	42	1.80
990594--990655	2	31.0	2	100	0	124	50	0	0	50	1.00
991217--991274	21	2.8	21	81	0	62	29	31	18	20	1.97
992963--993031	30	2.2	30	85	15	95	34	5	17	42	1.73
992972--993031	30	2.0	30	93	6	104	33	6	16	43	1.74
993121--993165	22	2.0	22	91	0	72	20	40	26	13	1.89
993199--993240	20	2.1	20	100	0	84	14	42	28	14	1.84
993277--993318	21	2.0	21	95	0	75	23	21	28	26	1.99
993347--993386	20	1.9	22	90	10	66	37	40	10	12	1.77
993602--993671	34	2.1	32	86	5	95	31	15	30	22	1.95
994678--994737	29	2.0	31	93	6	106	43	16	6	33	1.74
994896--994942	22	2.1	22	96	0	85	34	2	8	55	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
997119--997165	23	2.1	23	92	4	78	57	8	2	31	1.41
997320--997378	28	2.0	29	87	9	84	33	8	16	40	1.79
997774--997843	34	2.1	32	86	5	95	31	15	30	22	1.95
1001485--1001530	21	2.2	21	88	0	65	15	13	6	65	1.46
1003121--1003154	2	17.0	2	100	0	68	50	0	0	50	1.00
1005059--1005115	28	2.0	28	89	0	87	57	7	8	26	1.54
1007483--1007531	21	2.3	21	89	0	71	42	14	16	26	1.86
1012114--1012155	21	2.0	21	100	0	84	42	14	19	23	1.87
1014953--1014977	12	2.1	12	100	0	50	24	0	8	68	1.16
1015910--1016265	183	2.0	178	89	2	541	42	3	8	45	1.52
1020308--1020351	21	2.1	21	82	0	52	34	25	15	25	1.95
1020524--1020571	19	2.5	19	86	10	62	45	0	0	54	0.99
1020613--1020731	27	4.2	27	71	21	66	54	0	5	39	1.28
1021385--1021445	31	2.0	31	93	0	104	57	11	8	22	1.60
1022395--1022432	15	2.5	15	95	0	67	34	26	23	15	1.95
1023157--1023201	21	2.1	21	91	0	72	33	28	22	15	1.95
1024768--1024827	23	2.6	23	91	0	93	21	26	28	23	1.99
1027143--1027184	17	2.6	16	85	7	57	35	0	21	42	1.53
1028076--1028120	21	2.1	21	91	0	72	33	28	22	15	1.95
1029693--1029752	23	2.6	23	94	0	102	20	28	28	23	1.99
1033148--1033181	3	11.7	3	87	6	52	64	0	35	0	0.94
1034049--1034091	21	2.0	21	95	0	77	53	9	2	34	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1035112--1035194	42	2.0	42	95	0	148	32	2	15	49	1.58
1037111--1037193	42	2.0	42	100	0	166	40	14	9	34	1.79
1038889--1038920	16	2.0	16	93	0	55	65	0	0	34	0.93
1042295--1042343	3	15.7	3	80	16	55	67	0	0	32	0.91
1042293--1042341	21	2.4	20	86	3	71	67	0	0	32	0.91
1042295--1042343	16	3.1	16	85	11	66	67	0	0	32	0.91
1042416--1042464	22	2.1	23	82	14	57	30	0	10	59	1.31
1049628--1049778	31	4.9	31	88	8	211	24	18	21	35	1.95
1049628--1049785	61	2.5	62	88	9	241	25	17	20	36	1.95
1050397--1050443	21	2.2	21	96	0	85	23	17	31	27	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11