genome.fa.s2637.2.7.7.80.10.50.1000.5.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: VEPZ01002637.1 Hibiscus syriacus cultivar Beakdansim tig00005377_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3156206

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

This is table  5  of  14  ( 1653 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)
794683--794745	31	2.0	31	100	0	126	28	12	19	39	1.88
795231--795616	4	96.2	4	93	0	628	26	1	22	49	1.57
795924--796685	12	63.9	12	91	3	966	0	10	49	39	1.39
796693--804909	4	2060.8	4	92	1	13108	24	3	25	46	1.68
803234--803272	2	19.5	2	89	0	60	5	0	43	51	1.24
804589--804651	2	31.5	2	86	0	90	6	0	42	50	1.27
807060--807102	22	1.9	23	85	4	61	23	13	39	23	1.90
807091--807146	21	2.7	21	94	0	94	21	17	37	23	1.94
807226--807283	30	2.0	29	83	10	73	44	13	5	36	1.66
807226--807285	29	2.0	30	87	6	86	43	13	6	36	1.70
810514--810588	20	3.7	21	76	3	82	32	22	25	20	1.98
810506--810588	41	2.0	41	88	4	123	30	25	24	20	1.99
810623--810665	22	1.9	23	85	4	61	23	20	30	25	1.99
810766--810823	30	2.0	29	86	10	82	44	18	3	32	1.67
810766--810824	29	2.0	30	90	6	93	44	18	3	33	1.67
821953--821996	21	2.0	22	82	8	54	43	11	4	40	1.61
839141--839167	13	2.1	13	100	0	54	37	7	7	48	1.59
845901--846004	28	3.8	28	74	14	81	47	6	8	37	1.61
846085--846177	28	3.3	27	75	12	89	46	12	5	35	1.65
846164--846229	25	2.6	25	85	9	80	43	15	6	34	1.71
846133--846419	28	10.5	27	74	13	173	43	13	9	33	1.77
846133--846394	55	4.8	56	75	12	197	43	12	9	33	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
846241--846424	83	2.2	83	96	0	332	41	13	9	35	1.76
846324--846447	55	2.3	53	84	9	162	39	12	8	39	1.74
847050--847091	13	3.2	13	79	0	57	45	2	0	52	1.13
848956--848991	17	2.2	16	90	9	56	61	5	0	33	1.19
852879--852926	20	2.5	20	86	3	62	35	0	27	37	1.57
854339--854401	20	3.4	20	64	28	57	36	20	17	25	1.94
855987--856037	24	2.1	24	82	7	59	13	7	3	74	1.18
860443--860498	17	3.2	18	65	10	53	67	5	16	10	1.37
860441--860507	34	2.0	34	100	0	134	65	5	14	13	1.44
860452--860507	18	3.2	18	70	10	62	66	7	14	12	1.44
866127--866170	20	2.3	19	88	4	61	38	0	27	34	1.57
867537--867638	34	2.9	35	82	2	134	34	22	19	23	1.97
869765--869815	26	2.0	26	84	7	68	23	11	31	33	1.91
871620--871689	29	2.5	28	83	2	77	31	5	14	48	1.67
878198--878239	21	2.0	20	86	4	57	40	7	14	38	1.73
882847--882888	21	2.0	20	86	4	57	40	7	14	38	1.73
886200--886264	26	2.5	26	100	0	130	50	0	3	46	1.17
888604--888677	21	3.5	21	76	16	73	43	1	8	47	1.41
888625--888667	17	2.4	18	88	3	61	41	2	11	44	1.53
888702--888740	2	19.5	2	100	0	78	51	0	0	48	1.00
888731--888807	21	3.8	20	81	3	91	41	2	9	46	1.49
888905--888943	17	2.5	17	88	12	57	35	20	20	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
906020--906478	55	8.3	55	85	0	576	28	16	17	36	1.92
906820--906873	19	2.6	21	80	8	58	29	22	16	31	1.96
923591--923827	55	4.3	55	88	2	359	27	18	19	34	1.95
929228--929286	30	1.9	30	82	3	73	47	10	11	30	1.73
934455--934501	16	3.1	15	79	8	51	25	2	4	68	1.19
937459--937500	12	3.5	12	83	0	57	21	35	11	30	1.90
939558--939637	9	9.6	9	73	19	50	61	1	1	36	1.12
939564--939628	16	4.1	16	83	11	73	56	1	1	40	1.18
939577--939628	7	6.7	7	81	16	59	57	0	1	40	1.10
939577--939628	17	3.4	14	85	15	59	57	0	1	40	1.10
939590--939638	24	2.0	24	88	7	73	59	0	2	38	1.09
942447--942496	2	25.0	2	100	0	100	50	0	0	50	1.00
943888--943933	3	16.0	3	81	4	51	26	2	0	71	0.97
943881--943926	22	2.0	23	87	4	67	23	2	2	71	1.08
943891--943933	19	2.3	19	84	4	61	25	2	0	72	0.97
950437--950477	21	1.9	22	85	5	57	58	4	19	17	1.56
954695--954725	16	1.9	16	100	0	62	54	6	0	38	1.26
955186--955239	2	27.0	2	100	0	108	50	0	0	50	1.00
955315--955365	2	25.5	2	95	0	93	49	0	0	50	1.00
955496--955538	22	2.0	22	90	0	68	55	20	4	18	1.60
957755--957985	90	2.5	90	90	2	354	35	20	18	25	1.95
958005--958278	43	6.3	43	78	8	286	31	28	12	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
958376--958416	15	2.7	15	92	0	64	31	17	34	17	1.93
958408--958493	36	2.4	35	84	7	102	39	12	23	24	1.89
958484--958696	40	5.3	40	93	2	340	42	12	15	30	1.83
971620--971675	27	2.0	27	83	13	69	55	0	25	19	1.43
976247--976279	4	8.8	4	87	12	52	75	0	0	24	0.80
977915--977953	15	2.7	15	84	4	53	69	2	5	23	1.21
978366--978434	34	2.0	34	94	0	120	31	14	11	42	1.82
978974--979439	132	3.6	131	78	10	449	34	21	15	28	1.95
980691--981218	59	9.0	59	91	1	828	36	19	10	32	1.87
981629--981665	20	1.9	19	89	10	58	24	27	16	32	1.96
981762--981833	20	3.6	20	96	0	126	19	29	16	34	1.94
983776--983808	2	16.5	2	100	0	66	51	0	0	48	1.00
990514--990558	22	2.0	21	87	8	63	31	0	0	68	0.89
990600--990655	18	2.9	20	70	20	55	33	7	0	58	1.25
993861--994027	50	3.3	50	76	5	149	41	19	20	18	1.90
1012312--1012342	11	2.8	11	95	0	53	22	0	0	77	0.77
1019013--1019037	2	12.5	2	100	0	50	52	0	0	48	1.00
1019057--1019214	85	1.9	85	85	2	219	30	20	20	28	1.98
1019194--1019232	13	3.0	13	80	0	51	33	23	20	23	1.97
1037539--1037580	15	2.6	16	82	17	52	61	0	4	33	1.17
1038761--1038825	3	21.7	3	90	6	105	32	0	0	67	0.91
1040543--1040581	18	2.1	18	85	4	51	23	7	0	69	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1042913--1042957	20	2.2	20	92	0	72	17	11	8	62	1.53
1042993--1043024	16	2.0	16	93	0	55	18	15	6	59	1.57
1045304--1045338	12	3.0	11	88	12	52	88	0	11	0	0.51
1045312--1045341	9	3.2	9	95	4	51	86	0	13	0	0.57
1045304--1045341	10	3.8	10	83	13	51	86	0	13	0	0.56
1045306--1045343	12	3.1	12	85	14	51	84	0	15	0	0.63
1047791--1048002	108	2.0	108	84	1	282	38	13	20	27	1.90
1047790--1048004	54	4.0	54	80	4	227	39	13	20	27	1.89
1049064--1049189	45	2.8	45	86	2	164	25	22	21	30	1.98
1049131--1049341	76	2.8	76	91	1	325	24	19	20	35	1.96
1049207--1049584	121	3.1	121	90	1	569	25	20	20	33	1.97
1049283--1049386	45	2.3	45	86	0	136	28	19	19	32	1.96
1049089--1049462	197	1.9	197	96	0	685	24	21	20	33	1.97
1049405--1049507	45	2.3	45	81	0	116	28	22	18	31	1.97
1049449--1049658	77	2.8	77	84	5	266	27	19	20	33	1.96
1049614--1049816	45	4.5	45	85	1	246	23	23	21	32	1.98
1049610--1049816	90	2.3	91	85	5	278	24	23	21	31	1.98
1049963--1049993	3	10.7	3	93	6	55	32	0	0	67	0.91
1051097--1051122	5	5.2	5	100	0	52	23	0	0	76	0.78
1051478--1051513	2	18.0	2	94	0	63	52	0	0	47	1.00
1051777--1051801	2	12.5	2	100	0	50	48	0	0	52	1.00
1051529--1051934	157	2.5	154	78	11	340	38	6	7	46	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1051526--1051934	166	2.5	153	79	12	394	38	6	7	46	1.60
1053179--1053866	82	8.4	82	88	1	941	23	18	20	37	1.94
1053818--1053921	55	1.9	55	95	0	190	29	20	20	29	1.97
1053748--1054133	136	2.8	136	87	2	560	26	18	20	34	1.96
1054173--1054417	89	2.7	90	87	3	361	30	21	19	28	1.97
1056370--1056418	23	2.1	23	85	7	64	59	12	2	26	1.44
1062228--1062269	15	2.6	16	82	17	52	61	0	4	33	1.17
1064106--1064160	3	18.0	3	96	3	101	67	0	0	32	0.91
1069203--1069232	2	15.5	2	93	6	53	53	0	0	46	1.00
1071507--1071940	221	1.9	227	85	11	605	65	7	8	18	1.42

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