genome.fa.s6691.2.7.7.80.10.50.1000.4.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: VEPZ01006691.1 Hibiscus syriacus cultivar Beakdansim tig00016637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1195339

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 578 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)
797501--797552	18	2.9	18	88	0	77	21	21	32	25	1.98
801790--801833	18	2.4	18	92	0	70	18	20	31	29	1.96
802799--802828	15	2.0	15	100	0	60	20	33	0	46	1.51
804401--804435	17	2.1	17	94	0	61	31	14	22	31	1.94
808756--808851	44	2.3	42	81	16	112	43	1	2	53	1.19
809371--809431	22	2.7	21	74	18	52	40	3	1	54	1.27
809599--809659	22	2.7	21	74	18	52	40	3	1	54	1.27
809265--809725	228	2.0	229	98	0	888	35	7	5	51	1.53
809748--809777	16	1.9	15	93	6	51	63	0	0	36	0.95
824311--824362	21	2.5	21	84	9	63	38	5	7	48	1.56
828981--829033	22	2.4	22	96	0	97	39	3	11	45	1.58
833392--833468	22	3.5	22	75	12	86	25	25	23	24	2.00
833393--833487	44	2.2	42	85	10	122	25	22	25	27	2.00
833393--833487	21	4.4	21	75	13	79	25	22	25	27	2.00
837299--837338	21	1.9	21	85	10	55	35	7	2	55	1.42
840035--840083	24	2.0	24	96	0	89	32	12	10	44	1.75
840841--840892	21	2.5	21	85	14	65	38	3	7	50	1.50
845499--845562	24	2.7	24	77	0	65	25	14	18	42	1.88
845620--845848	57	4.0	57	87	0	323	14	19	29	36	1.91
850278--850504	57	4.0	57	85	0	276	14	18	29	37	1.90
851390--851477	39	2.3	39	80	4	97	39	23	19	17	1.92
851897--851929	3	11.0	3	100	0	66	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
856064--856119	23	2.5	22	83	8	69	25	25	25	25	2.00
856074--856119	23	2.0	23	91	0	74	28	21	26	23	1.99
856074--856133	23	2.7	21	77	12	57	26	20	31	21	1.98
858752--858798	24	2.0	24	95	0	85	38	10	21	29	1.87
858771--858846	36	2.1	36	92	0	125	31	13	38	17	1.88
858938--859012	34	2.2	34	83	9	91	52	0	0	48	1.00
859155--859182	6	4.7	6	100	0	56	14	14	71	0	1.15
860540--860761	117	1.9	117	82	5	279	28	13	9	48	1.73
888442--888615	66	2.6	66	82	6	192	33	9	18	37	1.84
888525--888880	104	3.5	101	85	3	444	37	12	16	34	1.85
889601--889663	5	12.8	5	72	21	53	20	50	22	6	1.70
889599--889663	18	3.9	18	78	19	86	21	49	21	7	1.74
889599--889661	31	2.0	31	96	0	117	22	47	22	7	1.76
889606--889643	13	2.9	13	100	0	76	23	47	23	5	1.72
889712--889818	55	1.9	55	88	0	160	34	7	17	40	1.78
889683--889850	84	2.0	85	88	3	250	32	7	19	41	1.78
889678--889847	29	6.0	29	76	4	130	31	7	20	41	1.80
890613--890645	15	2.2	15	89	10	50	24	18	9	48	1.76
892079--892127	13	3.8	13	91	0	80	18	46	18	16	1.84
892105--892145	18	2.3	18	95	0	73	19	48	21	9	1.77
892078--892151	13	5.3	13	78	15	76	17	45	20	16	1.85
892092--892151	31	1.9	31	93	0	102	18	46	20	15	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
894466--894556	24	3.8	24	85	2	121	25	17	19	37	1.94
894466--894556	47	1.9	48	88	2	139	25	17	19	37	1.94
897391--897460	23	3.0	23	87	4	95	28	14	20	37	1.91
897391--897464	24	3.1	24	84	9	98	28	14	20	36	1.92
898986--899119	29	4.7	29	70	8	96	44	20	5	29	1.75
898976--899142	85	2.0	85	86	2	237	44	18	5	31	1.72
899162--899194	13	2.5	13	95	0	57	9	24	45	21	1.80
905659--905776	24	4.9	24	87	5	157	40	20	14	24	1.90
908285--908314	13	2.3	13	100	0	60	13	23	46	16	1.82
909146--909240	36	2.6	36	86	0	127	40	15	17	26	1.90
909114--909306	102	1.9	102	86	0	278	40	15	17	27	1.89
916134--916188	29	2.0	28	83	13	71	38	25	0	36	1.56
916573--916738	75	2.3	73	82	8	189	38	5	12	43	1.66
918655--919576	200	4.6	200	88	2	1238	29	15	14	39	1.88
922040--922081	19	2.2	19	91	0	66	52	9	4	33	1.55
923067--923113	23	2.0	23	100	0	94	51	17	0	31	1.46
923616--923653	20	1.9	20	84	10	51	39	15	7	36	1.77
923619--924747	200	5.7	200	90	1	1718	32	15	14	36	1.88
926397--926456	30	2.0	31	93	6	106	33	6	16	43	1.74
926546--926577	13	2.5	13	94	0	55	15	40	21	21	1.91
926567--926604	20	1.9	20	94	0	67	23	31	23	21	1.98
926536--926603	33	2.0	34	88	2	102	22	35	22	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
927946--927983	18	2.1	18	90	0	58	10	34	0	55	1.34
930632--931658	182	5.6	182	92	1	1619	27	17	13	41	1.87
937240--937812	112	5.1	112	90	1	810	45	13	14	26	1.82
937240--937812	223	2.6	224	89	0	860	45	13	14	26	1.82
937685--939412	182	9.5	182	93	0	2877	42	12	16	28	1.85
939798--939845	23	2.1	23	88	0	69	39	18	6	35	1.76
940667--940846	7	25.4	7	70	11	73	41	34	0	23	1.55
942130--942319	94	2.0	94	95	0	344	27	13	28	30	1.94
942397--942428	11	2.9	11	100	0	64	28	18	25	28	1.98
942397--942441	22	2.0	22	86	0	63	31	15	24	28	1.96
942489--942608	31	3.7	29	75	17	105	22	11	23	42	1.86
942881--943108	42	5.3	42	77	13	203	27	15	6	50	1.67
942837--943108	85	3.1	88	80	6	252	26	14	5	52	1.64
946808--946886	32	2.5	32	85	0	95	20	25	27	26	1.99
946809--946929	32	3.8	31	77	6	82	22	25	26	25	2.00
947304--947457	65	2.4	64	83	5	186	32	24	18	25	1.97
947316--947457	64	2.2	65	83	6	182	31	25	19	23	1.98
949382--949421	21	1.9	21	89	0	62	55	7	7	30	1.56
953265--953311	23	2.0	23	87	0	67	23	29	21	25	1.99
953672--953712	21	1.9	22	95	5	75	58	2	7	31	1.38
953680--953722	21	2.2	20	84	12	54	60	2	9	27	1.40
953721--953745	13	1.9	13	100	0	50	24	0	8	68	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
955462--955603	64	2.2	65	83	6	173	30	23	19	25	1.98
958048--958088	13	3.2	13	86	13	50	17	4	0	78	0.93
960097--960143	21	2.1	23	84	7	62	63	0	25	10	1.26
967578--967620	20	2.2	20	86	0	59	34	23	13	27	1.93
971662--971695	17	2.0	17	88	0	50	38	8	11	41	1.73
971700--971780	19	4.2	20	74	12	64	34	16	28	20	1.94
975564--975654	32	2.8	32	85	6	121	19	18	31	29	1.96
983139--983178	20	2.0	20	100	0	80	45	20	15	20	1.86
992394--992439	23	2.0	23	100	0	92	60	21	17	0	1.35
996057--996152	18	5.1	19	80	9	106	29	29	17	23	1.97
996069--996152	38	2.2	38	97	0	159	29	29	17	22	1.97
996254--996308	21	2.7	20	80	11	58	36	18	3	41	1.68
996716--996835	63	1.9	63	89	0	186	23	20	20	35	1.96
1002912--1003043	18	6.9	20	78	9	141	30	29	18	21	1.97
1002912--1003045	38	3.5	38	92	0	223	30	29	18	21	1.97
1003147--1003201	21	2.7	20	83	11	58	34	18	5	41	1.73
1003608--1003727	63	1.9	63	91	0	195	24	20	20	35	1.96
1006886--1006946	15	4.3	15	70	19	58	42	0	3	54	1.17
1006885--1006953	19	3.3	21	64	20	54	42	0	5	52	1.25
1015294--1015333	21	1.9	21	94	0	71	30	20	22	27	1.98
1016382--1016407	10	2.6	10	100	0	52	11	19	19	50	1.77
1016425--1016475	27	1.9	26	88	4	75	64	19	5	9	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1016427--1016481	13	4.1	14	76	6	60	65	21	5	7	1.38
1016736--1016779	14	3.1	14	83	0	52	52	15	13	18	1.75
1020051--1020096	23	2.0	23	83	8	58	52	13	2	32	1.52
1026301--1026343	3	14.3	3	100	0	86	32	0	0	67	0.91
1028788--1028858	29	2.4	30	80	2	72	12	11	5	70	1.32
1028819--1028862	10	4.4	10	83	11	63	18	2	2	77	0.98
1038336--1038374	20	2.0	20	94	0	69	84	5	10	0	0.76
1039077--1039255	88	2.0	88	93	0	304	34	24	18	22	1.97
1039165--1039361	109	1.8	109	92	0	331	32	25	20	21	1.98
1039055--1039533	197	2.5	187	82	8	533	33	25	20	20	1.97

Tables:   1   2   3   4   5