genome.fa.s7799.2.7.7.80.10.50.1000.4.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: VEPZ01007799.1 Hibiscus syriacus cultivar Beakdansim tig00110109_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1433344

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 657 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)
838394--839390	342	2.9	342	86	2	1308	28	19	14	37	1.91
839802--839878	22	3.5	22	87	0	109	40	10	12	36	1.78
842371--842687	117	2.7	115	88	2	465	31	20	15	33	1.93
845274--845307	2	17.0	2	100	0	68	50	0	0	50	1.00
848266--848319	14	3.8	14	85	2	63	51	9	14	24	1.71
851517--851567	15	3.4	15	94	5	86	0	19	3	76	0.94
851520--851567	9	4.6	11	75	21	50	0	18	4	77	0.93
851511--851559	24	2.0	24	84	7	64	0	22	2	75	0.90
852022--852096	3	25.3	3	94	2	134	65	0	0	34	0.93
854189--854216	12	2.3	12	100	0	56	25	32	42	0	1.55
856620--856704	17	4.9	16	75	17	64	56	1	4	37	1.28
856620--856674	17	3.1	17	82	17	67	58	1	7	32	1.36
856679--856709	2	15.5	2	100	0	62	48	0	0	51	1.00
856728--856811	3	27.7	3	72	15	50	67	1	2	28	1.10
856780--856816	18	1.9	19	89	10	58	59	0	0	40	0.97
856773--856816	18	2.6	18	82	7	56	63	0	0	36	0.95
856724--856816	13	6.7	14	69	25	56	67	1	2	29	1.09
857265--857372	37	2.9	37	92	0	171	31	12	14	40	1.84
857859--858114	83	3.1	83	82	2	298	23	19	23	33	1.97
858179--858421	36	6.9	35	76	13	171	39	14	20	25	1.90
859287--859354	32	2.1	32	83	5	84	42	16	7	33	1.76
859423--859472	21	2.4	21	93	0	82	36	28	14	22	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
863500--863570	16	4.3	16	74	13	63	71	2	11	14	1.24
863637--863715	35	2.2	37	88	8	119	54	1	6	37	1.34
863691--863729	2	19.5	2	100	0	78	51	0	0	48	1.00
863751--863828	3	26.7	3	72	21	51	69	0	2	28	1.02
863750--863831	14	6.4	12	76	18	69	69	0	2	28	1.01
863769--863829	29	2.1	29	82	11	72	68	0	1	29	0.99
863774--863834	16	4.0	16	82	18	76	63	0	1	34	1.04
864036--864147	37	3.0	37	94	0	188	33	11	13	41	1.81
864320--864393	37	2.0	37	100	0	148	37	5	13	43	1.67
865959--865983	7	3.6	7	100	0	50	60	16	0	24	1.36
868419--868536	43	2.8	43	94	1	202	28	18	19	33	1.96
873568--873610	20	2.2	20	91	0	68	32	11	20	34	1.89
875332--875481	53	2.8	53	91	2	248	31	6	12	50	1.65
875451--875507	20	2.8	20	92	5	89	38	5	17	38	1.72
880058--880165	53	2.0	53	94	0	189	32	4	14	48	1.65
880074--880166	20	5.0	20	72	15	74	36	4	15	44	1.66
885477--885538	23	2.7	23	97	0	115	33	19	22	24	1.97
888915--889050	66	2.1	66	95	0	245	23	25	30	20	1.99
893624--893676	25	2.1	25	96	0	97	32	15	18	33	1.92
895238--895280	22	2.0	22	100	0	86	27	30	13	27	1.95
908096--908138	19	2.2	20	87	4	61	23	6	0	69	1.12
913708--913738	2	16.0	2	93	6	55	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
924185--924210	13	2.0	13	100	0	52	53	7	7	30	1.57
929148--929307	64	2.5	64	82	9	168	27	20	20	31	1.97
929277--929323	19	2.5	19	100	0	94	29	29	17	23	1.97
934224--934383	64	2.5	64	82	9	168	27	20	20	31	1.97
934353--934399	19	2.5	19	100	0	94	29	29	17	23	1.97
941026--941804	216	3.6	216	85	2	1007	33	15	25	26	1.95
945819--945855	20	1.9	19	89	10	58	45	10	24	18	1.81
946551--946579	13	2.2	13	100	0	58	6	13	37	41	1.72
951662--951744	40	2.1	39	86	8	116	46	16	9	26	1.78
958178--958217	21	1.9	21	94	0	71	30	15	17	37	1.90
960690--960716	14	1.9	14	100	0	54	48	0	22	29	1.51
976667--976725	31	1.9	31	92	0	100	44	6	6	42	1.57
976750--976792	22	2.0	22	100	0	86	51	13	0	34	1.42
976752--976800	22	2.2	22	88	3	71	55	14	0	30	1.40
976772--977033	32	9.4	32	68	28	154	51	11	0	37	1.41
976755--976904	80	1.9	80	97	0	282	52	14	0	32	1.47
976835--977003	54	3.1	54	95	1	304	52	11	0	36	1.38
976884--976926	22	2.0	22	100	0	86	51	13	0	34	1.42
976886--976934	22	2.2	22	88	3	71	55	14	0	30	1.40
976938--976980	22	2.0	22	95	0	77	51	11	0	37	1.39
976940--976988	22	2.2	22	85	3	62	55	12	0	32	1.37
976983--977048	15	4.5	15	94	1	116	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
976957--977048	30	3.0	30	87	7	123	51	3	0	45	1.17
977434--977466	17	1.9	17	88	11	50	39	6	3	51	1.42
978006--978030	2	12.5	2	100	0	50	48	0	0	52	1.00
979536--979587	17	3.2	17	75	10	54	50	13	3	32	1.60
981682--981749	30	2.3	30	84	0	91	33	20	5	39	1.77
981743--981800	12	4.8	12	84	0	71	32	20	10	36	1.87
981743--981800	24	2.4	24	82	0	80	32	20	10	36	1.87
981891--981989	38	2.7	37	81	9	114	28	23	21	27	1.99
984879--984937	16	3.2	18	83	11	59	33	0	8	57	1.29
985185--985321	59	2.3	59	81	8	154	35	18	3	42	1.68
992195--992253	24	2.5	24	78	8	59	54	6	3	35	1.44
996561--996612	19	2.7	19	100	0	104	30	17	30	21	1.96
997951--997989	20	1.9	21	89	5	62	71	0	10	17	1.12
999422--999502	20	4.1	20	79	6	101	41	22	17	18	1.90
999422--999502	40	2.0	40	87	0	117	41	22	17	18	1.90
999630--999680	22	2.3	22	93	0	84	23	41	13	21	1.89
999894--999925	13	2.5	13	94	0	55	3	6	12	78	1.06
999937--999982	20	2.3	20	85	3	58	52	23	13	10	1.71
1002147--1002259	21	5.4	21	69	8	77	21	35	21	22	1.96
1003665--1003704	14	2.9	14	80	0	53	30	0	17	52	1.45
1003615--1003754	66	2.2	60	83	7	163	31	1	16	50	1.54
1003813--1003870	20	2.9	20	86	0	89	41	20	18	18	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1003911--1003949	20	2.0	20	94	0	69	20	20	17	41	1.91
1004129--1004212	39	2.2	39	91	0	132	17	13	19	50	1.78
1004526--1004562	18	2.1	18	89	0	56	51	10	5	32	1.60
1004949--1004998	25	2.0	25	92	0	82	42	22	10	26	1.84
1005059--1005096	20	1.9	20	94	0	67	39	18	23	18	1.92
1005178--1005227	25	2.0	25	96	0	91	44	22	8	26	1.80
1005288--1005325	20	1.9	20	100	0	76	39	21	23	15	1.92
1004917--1005375	229	2.0	229	98	0	882	36	16	16	30	1.91
1005384--1005425	20	2.1	20	90	0	66	23	19	21	35	1.96
1005439--1005484	20	2.3	20	92	0	74	15	17	26	41	1.88
1005770--1005805	18	2.0	18	94	0	63	19	2	22	55	1.56
1007868--1007941	6	12.8	6	85	8	82	10	20	0	68	1.18
1007874--1007935	9	7.2	9	76	10	67	11	20	0	67	1.21
1007867--1007941	15	4.8	15	87	9	105	10	21	0	68	1.20
1008117--1008170	24	2.2	24	93	0	90	40	20	18	20	1.91
1008296--1008329	12	2.8	12	90	0	50	14	0	29	55	1.40
1008881--1008911	16	1.9	16	93	0	53	67	0	3	29	1.06
1009073--1009242	19	8.6	20	69	11	100	27	12	25	34	1.93
1011284--1011331	24	2.0	26	84	12	66	45	4	0	50	1.21
1011284--1011331	25	2.0	25	88	12	73	45	4	0	50	1.21
1032802--1032864	13	4.7	13	74	5	54	74	3	9	12	1.17
1034426--1034560	66	2.0	66	98	0	261	48	9	1	40	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1040711--1040752	19	2.2	19	100	0	84	30	11	26	30	1.92
1042534--1042588	27	2.0	27	82	0	65	27	7	16	49	1.72
1042821--1042888	32	2.1	33	88	2	102	42	4	8	44	1.55
1043821--1043900	2	40.0	2	100	0	160	50	0	0	50	1.00
1045235--1045292	23	2.5	23	80	0	71	48	5	6	39	1.52
1048315--1048356	21	2.0	21	86	13	61	59	4	4	30	1.39
1060872--1060928	23	2.5	22	83	8	69	38	1	8	50	1.44
1061012--1061072	14	4.4	14	72	15	54	44	13	1	40	1.53
1070225--1070268	24	1.9	23	86	9	63	52	2	2	43	1.26
1074262--1074304	14	3.1	14	93	0	68	13	13	16	55	1.69

Tables:   1   2   3   4   5   6