genome.fa.s8737.2.7.7.80.10.50.1000.5.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: VEPZ01008737.1 Hibiscus syriacus cultivar Beakdansim tig00111812_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2791265

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

This is table  5  of  14  ( 1580 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)
931019--931159	33	4.4	32	74	11	85	52	6	4	36	1.49
932201--932278	2	39.5	2	97	2	149	50	0	50	0	1.00
933173--933250	3	25.7	3	84	7	104	62	0	3	33	1.13
935255--935530	20	13.6	20	76	8	218	38	24	18	18	1.93
935273--935530	61	4.2	62	76	11	232	37	24	18	18	1.93
935316--935527	41	5.2	41	89	1	320	37	25	18	19	1.94
935641--935708	20	3.4	20	93	4	111	36	20	19	23	1.95
935656--935716	20	3.0	20	85	4	79	36	18	21	24	1.95
936561--936620	24	2.5	24	83	0	84	25	18	18	38	1.93
940587--940611	2	12.5	2	100	0	50	52	0	0	48	1.00
952061--952116	18	2.7	21	71	23	55	57	0	0	42	0.99
952063--952109	18	2.8	17	90	6	69	55	0	0	44	0.99
960954--961131	90	2.0	90	89	2	277	48	6	9	35	1.61
964422--964462	20	2.0	20	100	0	82	51	4	14	29	1.63
964677--964711	16	2.2	16	94	0	61	34	0	5	60	1.21
964685--964723	18	2.3	16	86	8	51	38	0	2	58	1.12
965813--965854	20	2.0	21	82	13	52	21	2	4	71	1.16
968595--968670	26	2.9	26	78	0	89	48	2	6	42	1.43
975641--975671	2	16.0	2	93	6	55	51	0	0	48	1.00
976120--976249	60	2.2	60	81	2	154	38	16	11	33	1.84
979932--979970	18	2.2	18	95	0	69	48	0	30	20	1.50
985129--985167	18	2.2	18	95	0	69	43	0	35	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
986228--986279	20	2.6	20	87	0	77	28	0	3	67	1.08
990236--990265	14	2.2	14	94	5	53	33	3	26	36	1.73
990431--990489	23	2.8	20	76	7	64	22	16	28	32	1.96
991882--991917	14	2.5	14	90	4	54	66	5	0	27	1.13
991891--991955	33	1.9	34	87	9	98	66	4	3	26	1.26
992930--993171	21	11.6	21	80	8	246	31	21	22	23	1.98
992946--993192	62	4.0	62	82	8	338	32	20	21	24	1.98
992930--993171	126	1.9	126	92	1	405	31	21	22	23	1.98
993246--993335	6	15.5	6	89	1	87	32	46	21	0	1.51
993308--993338	5	6.0	5	92	7	53	22	58	19	0	1.40
993842--993890	6	8.5	6	93	2	75	2	16	51	30	1.56
993954--994341	177	2.2	177	86	0	526	30	18	17	32	1.94
994200--994798	223	2.7	223	91	0	934	30	19	18	32	1.95
995429--995511	22	3.8	22	95	3	141	38	14	10	36	1.81
995880--996203	54	6.0	54	89	0	461	26	24	13	35	1.93
996734--996871	42	3.3	42	70	9	120	26	20	18	34	1.95
998241--998331	7	12.4	7	75	17	71	4	14	0	81	0.84
998241--998335	10	9.5	10	76	15	65	4	14	0	81	0.85
998246--998330	21	4.0	20	79	11	80	4	14	0	81	0.85
998267--998333	12	5.4	12	77	18	50	4	13	0	82	0.82
998301--998337	18	2.1	18	89	0	56	0	21	0	78	0.75
998243--998335	23	3.8	24	74	19	77	4	15	0	80	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
999628--999671	20	2.1	21	95	4	81	4	18	34	43	1.70
1003134--1003182	26	1.9	25	84	12	64	65	4	8	22	1.37
1005462--1005528	3	22.7	3	81	3	82	61	1	0	37	1.05
1005462--1005540	9	8.9	9	77	2	79	58	1	0	40	1.06
1005462--1005541	18	4.5	18	90	3	117	58	1	0	40	1.06
1014535--1014570	17	2.1	17	94	0	63	41	5	16	36	1.72
1016415--1016445	15	2.1	15	100	0	62	48	12	12	25	1.77
1017548--1017631	21	3.9	21	76	14	89	14	25	4	55	1.58
1022589--1022622	9	3.6	9	85	14	50	11	0	11	76	1.02
1029293--1029336	12	3.8	12	87	3	63	13	18	2	65	1.36
1029780--1029819	18	2.5	15	88	12	53	17	7	0	75	1.03
1030351--1030397	23	2.0	23	100	0	94	29	23	21	25	1.99
1030353--1030404	23	2.3	23	93	0	86	30	23	19	26	1.98
1032725--1032770	16	3.0	16	84	9	60	17	8	2	71	1.21
1032732--1032797	5	12.8	5	76	12	62	21	4	3	71	1.18
1034468--1034623	65	2.4	64	81	8	181	26	1	15	55	1.50
1035261--1035300	16	2.6	15	88	4	53	35	2	0	62	1.09
1035265--1035304	19	2.1	19	86	9	55	32	2	0	65	1.06
1036055--1036124	16	4.5	15	82	5	77	35	20	5	38	1.76
1036055--1036124	31	2.3	31	84	0	86	35	20	5	38	1.76
1039159--1039185	7	3.9	7	100	0	54	29	40	0	29	1.57
1040269--1040572	89	3.4	91	82	3	312	26	22	7	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040320--1040564	134	1.8	136	85	3	352	25	22	7	44	1.78
1040260--1040572	45	6.9	45	84	3	310	26	22	7	43	1.79
1040687--1041149	68	6.8	68	86	1	624	30	25	12	31	1.93
1041873--1041985	10	11.8	9	75	12	73	15	26	29	29	1.96
1041894--1041991	19	5.2	18	82	15	117	13	28	30	27	1.94
1041873--1041947	29	2.5	30	89	8	118	17	26	26	29	1.97
1041874--1041985	29	3.9	27	83	9	107	14	26	29	29	1.95
1041874--1041991	38	3.1	37	84	11	141	14	27	28	28	1.95
1042005--1042045	5	7.8	5	84	10	55	19	53	21	4	1.63
1041988--1042052	22	3.0	22	97	0	121	18	47	23	10	1.79
1042042--1042086	7	6.4	7	100	0	90	15	28	28	26	1.96
1042956--1043079	63	2.0	63	82	6	153	16	28	29	25	1.97
1049258--1049374	10	12.3	9	77	13	101	14	27	29	29	1.95
1049278--1049374	19	5.2	18	81	16	108	13	27	30	27	1.94
1049257--1049331	29	2.5	30	89	8	118	17	26	26	29	1.97
1049258--1049365	29	3.7	27	84	8	99	14	26	28	29	1.95
1049371--1049434	21	3.0	22	93	4	112	18	46	23	10	1.80
1049424--1049468	7	6.4	7	94	0	81	13	28	31	26	1.94
1050338--1050460	62	2.0	62	82	6	151	17	28	29	25	1.97
1050338--1050413	31	2.5	31	80	4	91	14	27	31	26	1.95
1050374--1050460	31	2.8	31	74	10	79	18	28	29	22	1.97
1051305--1051475	57	3.0	57	83	5	229	35	19	11	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1051809--1051862	19	2.7	19	85	8	72	31	18	16	33	1.93
1055143--1055194	22	2.5	20	81	9	61	32	17	23	26	1.96
1055982--1056041	21	2.7	23	80	17	65	21	20	25	33	1.97
1056004--1056056	23	2.3	23	90	0	79	22	18	26	32	1.97
1064250--1064321	22	3.2	22	67	18	58	26	19	6	47	1.74
1064243--1064431	45	4.2	45	93	0	297	27	20	5	46	1.74
1064198--1064402	90	2.3	90	83	1	241	28	20	6	43	1.76
1064244--1064459	90	2.4	90	86	3	274	27	20	6	45	1.74
1064486--1064641	82	1.9	83	92	2	262	28	22	13	35	1.92
1064575--1064993	68	6.2	68	87	0	570	30	26	13	29	1.94
1064575--1065196	136	4.4	135	81	8	679	30	25	13	30	1.94
1064965--1065004	19	2.1	19	100	0	80	35	32	15	17	1.91
1064965--1065012	19	2.5	19	93	0	69	35	31	18	14	1.91
1064830--1065147	154	2.1	154	89	1	476	31	26	13	27	1.94
1064983--1065194	68	3.1	68	88	2	295	29	25	13	30	1.94
1065416--1065579	57	2.9	57	84	0	202	35	18	9	36	1.84
1068996--1069064	16	4.4	16	90	3	106	59	17	11	11	1.61
1069228--1069259	16	2.0	16	93	0	55	46	25	15	12	1.81
1070208--1070239	14	2.3	14	100	0	64	50	28	15	6	1.68
1077180--1077404	105	2.2	104	83	2	281	36	12	12	39	1.79
1081474--1081503	2	15.0	2	100	0	60	50	0	0	50	1.00
1082683--1082733	18	2.8	18	81	0	66	31	11	5	50	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1082912--1082956	17	2.6	17	96	0	81	22	22	8	46	1.79
1082929--1083564	140	4.6	139	90	1	997	24	21	17	36	1.95
1086694--1086822	7	17.9	7	70	18	61	6	12	2	78	1.04
1086699--1086724	12	2.2	12	100	0	52	0	15	0	84	0.62
1086694--1086870	10	18.3	9	68	16	65	6	14	1	76	1.06
1086780--1086885	23	4.9	23	75	17	77	6	16	0	76	1.04
1086763--1086838	39	2.0	39	85	12	104	7	14	0	77	0.98
1086790--1086824	17	2.0	18	94	5	63	5	17	0	77	0.96
1086812--1086891	23	3.3	24	81	10	92	6	20	1	72	1.13
1100012--1100068	2	29.0	2	92	3	98	47	0	0	52	1.00

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