genome.fa.s7847.2.7.7.80.10.50.1000.4.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: VEPZ01007847.1 Hibiscus syriacus cultivar Beakdansim tig00110204_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1444154

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 668 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)
773484--773611	60	2.2	58	83	7	150	32	15	17	34	1.91
775518--775575	10	5.6	10	84	8	71	41	5	1	51	1.34
775517--775609	21	4.3	22	89	6	113	41	5	3	49	1.41
775518--775597	10	7.6	10	76	15	63	42	5	2	50	1.37
786932--787004	30	2.4	30	93	0	119	30	23	20	26	1.99
786987--787115	63	2.1	61	85	7	179	33	20	19	27	1.96
786990--787117	31	4.1	31	79	9	143	34	21	17	26	1.96
788494--788539	21	2.2	21	88	0	65	13	23	30	32	1.93
789841--789884	21	2.1	21	86	0	61	56	0	2	40	1.11
791936--792000	23	2.7	25	72	13	64	56	4	3	35	1.35
792886--792938	22	2.4	22	100	0	106	45	3	22	28	1.70
796193--796229	18	2.1	18	85	14	51	43	10	13	32	1.79
797817--797913	24	4.0	24	71	2	70	24	11	15	48	1.78
799109--799143	2	17.5	2	100	0	70	48	0	0	51	1.00
820651--820676	3	8.7	3	100	0	52	65	0	0	34	0.93
820903--820961	24	2.4	25	86	8	77	25	25	27	22	2.00
821148--821218	31	2.3	31	85	2	90	35	21	2	40	1.68
825825--825851	12	2.2	12	100	0	54	14	40	0	44	1.46
828241--828293	25	2.1	25	86	6	72	26	22	26	24	2.00
828252--828324	25	3.0	25	80	11	71	26	24	26	23	2.00
828282--828331	24	2.0	25	92	3	84	32	26	22	20	1.98
828523--828593	31	2.3	31	90	2	108	33	25	2	38	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
833936--834010	33	2.4	31	86	8	98	40	9	8	42	1.66
833936--834010	31	2.3	33	86	8	102	40	9	8	42	1.66
834014--834178	38	4.4	37	78	6	120	48	6	4	40	1.49
833918--834112	35	5.6	36	74	11	140	43	6	6	44	1.54
834083--834179	38	2.5	39	86	1	133	51	8	3	37	1.48
834242--834272	2	16.0	2	93	6	55	51	0	0	48	1.00
834812--835755	165	5.7	164	80	5	916	24	20	25	29	1.99
834838--835755	84	11.1	82	78	6	845	24	20	25	29	1.99
834882--835755	249	3.5	249	91	1	1385	24	20	25	29	1.99
839624--839667	16	2.8	16	100	0	88	29	40	6	22	1.80
842276--842537	33	7.3	37	75	10	122	45	6	4	42	1.52
842276--842471	33	5.6	36	76	9	149	43	6	6	44	1.54
842442--842538	38	2.5	39	86	1	133	51	8	3	37	1.48
842601--842629	2	15.0	2	92	7	51	51	0	0	48	1.00
842722--842770	19	2.7	17	84	9	53	26	20	28	24	1.99
842716--842901	65	2.9	64	80	7	216	26	19	23	30	1.98
842742--842951	65	3.2	64	78	12	223	25	19	24	30	1.98
849633--849681	19	2.7	17	84	9	53	26	20	28	24	1.99
860146--860258	12	9.4	11	69	17	57	38	0	1	59	1.08
860177--860254	26	3.0	27	80	12	85	46	0	1	52	1.08
860155--860312	64	2.5	64	93	4	268	41	0	1	56	1.10
860207--860295	38	2.3	37	81	12	101	43	0	1	55	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
860307--860368	19	3.3	19	78	15	58	37	1	0	61	1.06
860606--860653	21	2.3	20	80	16	53	62	2	2	33	1.18
860826--860886	31	2.0	31	86	0	86	47	6	4	40	1.51
870864--870920	29	2.0	29	96	0	105	45	14	8	31	1.75
870798--870986	95	2.0	95	96	0	351	40	12	8	38	1.75
876371--876409	14	2.7	15	88	4	62	23	23	30	23	1.99
880425--880462	2	19.5	2	94	5	69	47	0	0	52	1.00
882964--882997	7	4.9	7	92	0	59	17	0	38	44	1.49
883940--884328	139	2.8	138	82	4	480	42	11	13	31	1.80
884227--884459	119	1.9	121	83	3	301	45	13	11	30	1.78
884333--884725	139	2.8	137	84	3	520	45	12	10	31	1.77
884088--884589	258	1.9	259	83	2	652	44	13	11	31	1.78
885153--885196	14	3.1	14	81	12	54	68	4	2	25	1.20
889687--889729	19	2.3	20	84	15	65	41	0	2	55	1.12
892695--892720	13	2.0	13	100	0	52	69	0	0	30	0.89
892670--892709	21	1.9	21	90	10	64	60	0	2	37	1.11
893170--893442	138	2.0	138	93	1	467	25	19	20	35	1.96
900944--901503	275	2.0	280	97	1	1076	47	19	9	23	1.78
918845--918869	12	2.1	12	100	0	50	36	16	8	40	1.77
928634--928678	2	22.5	2	100	0	90	51	0	0	48	1.00
929001--929425	55	7.7	56	88	4	518	28	22	14	33	1.94
929394--930455	54	19.6	54	87	3	1429	24	24	16	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
932237--932467	124	1.9	124	81	3	286	23	27	16	32	1.96
933728--933805	17	4.6	18	76	17	69	5	20	0	74	1.01
933761--933796	5	6.8	5	87	12	54	0	16	0	83	0.65
933766--933791	12	2.2	12	100	0	52	0	15	0	84	0.62
933761--933805	22	2.0	22	87	8	65	0	20	0	80	0.72
936334--936388	21	2.6	21	91	5	85	14	20	18	47	1.83
940791--940829	20	1.9	20	84	5	51	61	5	0	33	1.18
943047--943080	11	3.0	11	91	4	50	58	20	2	17	1.51
950708--951114	203	2.0	204	99	0	807	29	19	13	37	1.91
965920--966148	64	3.6	62	80	7	253	33	19	19	28	1.96
966770--966876	15	7.1	15	97	0	205	14	18	32	33	1.92
966860--966915	22	2.8	19	75	17	60	26	17	28	26	1.98
971572--971624	15	3.5	15	94	0	97	16	16	33	32	1.92
971607--971663	22	2.9	19	76	16	62	28	17	28	26	1.98
971572--971643	30	2.3	30	85	7	90	19	18	33	29	1.95
972919--972952	15	2.2	16	89	5	52	35	0	2	61	1.11
973088--973122	14	2.5	14	85	0	52	11	8	17	62	1.52
973100--973147	24	2.0	24	91	0	78	16	8	12	62	1.53
974370--974505	61	2.2	60	77	8	134	38	16	9	35	1.81
976742--976858	59	2.0	58	82	12	141	41	17	11	30	1.84
978030--978099	12	5.8	12	76	6	70	51	18	14	15	1.77
978028--978119	48	1.9	48	88	0	139	48	17	14	19	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
978028--978134	48	2.2	48	85	3	135	47	17	14	19	1.82
978028--978136	24	4.5	25	76	6	100	47	17	15	19	1.82
979262--979297	18	2.0	18	88	0	54	30	16	0	52	1.44
980601--980674	13	5.3	13	78	15	76	16	20	45	17	1.85
980607--980647	18	2.3	18	95	0	73	9	21	48	19	1.77
980601--980660	31	1.9	31	93	0	102	15	20	46	18	1.84
983303--983342	20	2.0	20	85	9	55	12	0	12	75	1.06
991139--991206	34	2.0	34	82	5	84	25	4	23	47	1.70
994386--994441	18	3.1	18	84	5	69	12	67	0	19	1.22
994401--994431	15	2.1	15	93	0	53	16	67	0	16	1.23
994500--994543	21	2.1	21	82	0	52	15	61	2	20	1.45
994547--994594	12	4.0	12	80	0	60	25	43	14	16	1.86
994608--994642	15	2.3	15	90	0	52	20	68	5	5	1.31
995609--995646	20	2.0	20	94	5	69	52	5	2	39	1.38
996514--996570	30	1.9	30	85	7	80	52	5	5	36	1.47
997660--997718	27	2.2	27	90	0	91	30	0	3	66	1.08
998690--998719	2	15.5	2	93	6	53	50	0	0	50	1.00
1000432--1000494	16	3.7	16	77	12	54	49	0	0	50	1.00
1003063--1003280	103	2.1	103	95	0	391	26	13	22	36	1.92
1003296--1003359	23	2.8	23	92	0	101	18	25	26	29	1.98
1010290--1010321	14	2.3	14	100	0	64	12	6	37	43	1.68
1019904--1019973	34	2.1	33	86	5	97	44	1	5	48	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019991--1020024	16	2.1	16	88	0	50	38	0	0	61	0.96
1020759--1021012	22	11.5	22	91	0	400	40	0	10	48	1.41
1021037--1021095	31	1.9	31	92	0	100	44	8	5	42	1.57
1025595--1025640	23	2.0	23	91	0	74	34	19	8	36	1.83
1028275--1028321	22	2.2	22	84	3	60	48	0	2	48	1.13
1031346--1031374	2	14.5	2	100	0	58	51	0	0	48	1.00
1031437--1031486	21	2.4	21	93	0	82	32	0	34	34	1.58
1032639--1032764	23	5.5	23	82	4	130	20	26	1	51	1.56
1032751--1032844	49	1.9	49	82	4	118	39	14	12	32	1.85
1038581--1038608	11	2.5	11	100	0	56	46	0	21	32	1.52

Tables:   1   2   3   4   5   6