genome.fa.s9461.2.7.7.80.10.50.1000.5.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: VEPZ01009461.1 Hibiscus syriacus cultivar Beakdansim tig00113724_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2346588

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

This is table  5  of  12  ( 1395 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)
815909--815951	11	3.8	11	84	3	50	44	9	2	44	1.49
816017--816076	21	2.9	21	97	0	111	21	38	25	15	1.92
816423--816492	34	2.1	32	84	5	86	32	11	31	24	1.91
817405--817454	15	3.4	14	80	8	55	64	2	32	2	1.16
818823--818859	16	2.2	18	85	9	51	27	5	13	54	1.61
819075--819131	21	3.0	20	78	12	66	31	7	10	50	1.63
819357--819400	20	2.2	20	87	0	61	36	11	13	38	1.81
819530--819569	21	1.9	21	85	10	55	30	20	27	22	1.98
833590--833627	10	3.8	10	92	0	58	15	18	44	21	1.86
835143--835605	112	4.1	112	93	0	766	45	14	15	25	1.83
835479--835931	182	2.5	182	91	0	728	43	13	16	26	1.85
836206--836253	23	2.1	23	88	0	69	37	16	8	37	1.79
838264--838301	15	2.5	15	95	0	67	28	23	10	36	1.88
839499--839612	20	5.7	20	82	2	147	38	21	20	20	1.94
839438--839624	81	2.3	79	76	10	198	32	23	19	25	1.98
839599--839645	20	2.3	20	92	0	76	31	27	19	21	1.97
839499--839625	40	3.2	40	84	5	175	37	22	19	20	1.94
840485--840562	24	3.2	24	96	0	138	20	20	20	38	1.94
842993--843082	20	4.5	19	84	15	119	35	25	22	16	1.95
842993--843091	41	2.4	41	90	5	148	36	24	23	16	1.94
843054--843149	33	2.8	33	88	3	129	41	19	23	14	1.89
843159--843228	33	2.1	33	89	0	104	14	22	18	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
843347--843381	14	2.5	14	85	0	52	48	20	0	31	1.50
845348--845503	20	8.4	20	71	18	88	42	22	18	16	1.88
845368--845448	33	2.4	34	83	2	92	45	23	19	11	1.82
845528--845631	40	2.7	37	88	8	115	19	21	20	39	1.93
845548--845631	20	4.2	20	96	0	150	21	20	20	38	1.94
845510--845631	60	2.2	53	82	10	136	19	21	19	39	1.93
847577--847631	20	2.8	20	91	0	83	49	23	16	10	1.77
847579--847648	20	3.5	20	88	0	77	42	25	15	15	1.87
848025--848081	22	2.6	22	80	0	69	22	14	38	24	1.91
848280--848351	20	3.5	20	79	3	90	20	22	20	36	1.96
858219--859247	512	2.0	515	97	0	1929	33	12	14	38	1.85
871934--872020	30	2.9	30	82	5	104	49	12	11	26	1.75
871969--872341	174	2.1	174	99	0	737	53	8	10	27	1.65
874485--874600	57	2.0	57	100	0	232	31	6	26	35	1.83
875736--875777	15	2.8	16	82	7	52	64	2	0	33	1.07
884563--884649	35	2.5	34	77	18	90	55	8	8	28	1.58
884644--884727	34	2.5	33	83	9	98	63	13	2	21	1.41
884640--884716	34	2.2	34	86	6	102	62	15	1	20	1.40
886821--886880	31	1.9	32	83	16	81	61	1	0	36	1.06
886987--887028	17	2.4	19	80	15	54	64	2	0	33	1.07
886982--887052	24	3.1	23	71	25	62	63	1	0	35	1.03
887474--887508	13	2.6	13	95	4	61	34	0	5	60	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
887512--887557	20	2.3	20	84	0	56	54	0	2	43	1.12
892328--892368	18	2.3	18	100	0	82	21	21	46	9	1.80
893227--893261	18	2.1	17	89	10	54	22	22	17	37	1.94
897097--897146	16	3.1	17	77	11	50	66	4	2	28	1.21
897767--897807	13	3.1	13	93	6	73	14	14	56	14	1.69
897767--897807	14	3.0	14	96	3	75	14	14	56	14	1.69
902269--902322	13	4.1	13	90	4	81	14	12	53	18	1.72
902269--902310	14	3.1	14	96	3	77	14	14	57	14	1.66
902269--902322	27	2.0	27	92	0	90	14	12	53	18	1.72
904428--904698	125	2.2	124	91	3	440	49	7	12	31	1.68
924485--924522	19	2.0	19	100	0	76	26	10	15	47	1.78
931440--931473	17	1.9	18	88	5	52	38	0	0	61	0.96
934818--934846	6	4.8	6	100	0	58	65	0	34	0	0.93
939480--939566	31	2.8	31	84	6	122	49	11	4	34	1.60
941605--941676	3	24.0	3	83	10	85	62	0	0	37	0.95
942023--942788	113	6.7	113	86	4	982	26	19	15	39	1.91
942019--942765	348	2.2	349	86	3	1052	26	19	14	38	1.91
943948--943996	16	2.8	17	81	12	64	51	6	6	36	1.52
944349--944407	10	5.7	10	78	13	66	0	20	0	79	0.73
944350--944409	12	5.5	12	79	16	60	0	18	0	81	0.69
947213--947246	17	1.9	18	94	5	61	44	23	14	17	1.86
951738--951769	15	2.1	15	94	0	55	46	9	18	25	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
955022--955088	32	2.1	33	83	8	84	62	4	5	26	1.38
955061--955112	27	2.0	26	84	3	68	59	1	5	32	1.32
955066--955138	27	2.7	27	78	2	65	58	1	6	32	1.33
957190--957249	18	3.4	17	84	11	68	61	0	0	38	0.96
957203--957249	3	16.0	3	91	4	78	65	0	0	34	0.93
957694--957740	24	2.0	24	86	0	67	46	19	10	23	1.80
967906--967931	7	3.7	7	100	0	52	88	0	11	0	0.52
978276--978319	18	2.4	19	76	7	54	47	4	6	40	1.50
979459--979608	72	2.1	72	100	0	300	55	8	12	24	1.64
979604--979646	17	2.4	18	76	3	52	62	4	4	27	1.35
990163--990198	16	2.2	17	90	5	56	83	0	0	16	0.65
990470--991515	519	2.0	525	97	1	1980	35	18	14	31	1.91
995818--995889	18	3.9	18	85	3	63	19	19	29	31	1.96
995832--995889	18	3.2	18	90	4	89	20	17	29	32	1.95
1000387--1000424	17	2.3	17	86	4	51	23	0	5	71	1.07
1004044--1004092	21	2.3	21	92	0	80	38	28	12	20	1.89
1011652--1011693	18	2.3	19	87	4	59	28	4	21	45	1.72
1012307--1012421	42	2.8	41	93	2	187	18	10	24	46	1.80
1012720--1012969	85	2.9	85	81	5	299	32	18	22	26	1.97
1012740--1012969	43	5.4	43	84	4	270	32	17	22	27	1.97
1016588--1016719	41	3.2	40	83	6	122	35	16	20	27	1.94
1016612--1016747	42	3.3	42	86	3	177	35	17	21	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1018105--1018153	20	2.5	19	81	12	55	55	6	0	38	1.25
1018686--1018904	106	2.1	103	84	4	278	41	11	10	36	1.77
1018707--1018931	106	2.1	105	80	4	256	42	12	12	33	1.79
1022892--1022947	23	2.4	25	78	21	68	39	5	23	32	1.77
1023145--1023240	18	4.9	19	80	11	106	21	20	29	28	1.98
1023145--1023234	38	2.3	40	88	3	139	18	21	30	30	1.97
1039174--1039227	2	26.5	2	96	3	99	48	1	0	50	1.11
1047941--1048472	270	2.0	258	94	4	920	26	12	27	32	1.93
1048879--1049004	20	6.3	19	75	10	103	40	19	21	19	1.92
1048896--1048971	21	3.7	21	80	3	100	40	18	25	15	1.90
1048879--1048971	41	2.3	41	100	0	186	39	18	24	17	1.91
1048879--1048993	41	2.8	40	92	5	160	39	19	22	19	1.93
1048961--1049069	20	5.7	20	79	10	102	32	25	16	25	1.96
1049258--1049306	22	2.3	21	93	6	82	22	40	12	24	1.88
1049562--1049620	20	3.0	20	87	0	73	16	18	22	42	1.89
1050936--1050981	18	2.6	18	89	0	74	28	43	15	13	1.83
1051463--1051508	20	2.3	20	84	0	56	36	23	19	19	1.95
1051518--1051575	14	3.9	14	77	16	62	50	24	15	10	1.75
1051502--1051592	32	2.8	33	93	3	157	48	21	17	12	1.80
1051603--1051708	19	5.9	18	74	14	94	11	22	23	42	1.86
1051603--1051725	20	6.7	19	76	10	96	12	21	24	42	1.87
1053566--1053601	14	2.6	14	90	0	54	30	0	22	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1053718--1053766	19	2.6	19	100	0	98	48	16	20	14	1.80
1053802--1053839	20	1.9	20	94	0	67	15	21	23	39	1.92
1054891--1054944	24	2.2	24	90	0	81	24	16	20	38	1.92
1057422--1057548	33	3.8	33	85	4	184	42	19	22	14	1.88
1057426--1057555	66	2.0	66	95	0	233	42	19	22	16	1.89
1057548--1057590	20	2.2	20	87	4	61	16	18	23	41	1.89
1057576--1057609	14	2.4	14	85	0	50	8	23	20	47	1.78
1057731--1057767	14	2.6	14	91	0	65	45	24	0	29	1.53
1059119--1059185	21	3.2	21	65	4	55	19	19	35	25	1.95
1061285--1061321	14	2.6	14	95	0	65	40	24	24	10	1.87

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