genome.fa.s8772.2.7.7.80.10.50.1000.5.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: VEPZ01008772.1 Hibiscus syriacus cultivar Beakdansim tig00111877_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3098974

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  5  of  16  ( 1817 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)
858324--858410	33	2.7	33	92	1	140	12	16	20	50	1.77
858408--858453	20	2.3	20	81	7	58	17	17	26	39	1.91
858994--859041	18	2.7	18	86	0	78	14	10	45	29	1.78
860336--860392	20	2.8	20	81	0	60	43	19	17	19	1.88
860420--860470	19	2.7	19	100	0	102	9	21	23	45	1.82
860905--860957	20	2.7	20	90	0	79	22	20	26	30	1.98
860885--860958	20	3.7	20	81	5	78	22	18	24	33	1.97
860884--861039	20	7.7	20	70	10	59	23	19	23	33	1.97
861618--861673	2	28.5	2	96	3	105	51	0	0	48	1.00
874502--874554	17	3.4	17	66	28	53	41	0	33	24	1.55
874502--874561	30	2.0	30	100	0	120	40	0	36	23	1.55
878250--878611	180	2.0	181	99	0	717	32	8	27	31	1.87
881034--881099	30	2.2	30	83	0	78	39	4	25	30	1.76
881334--881379	23	2.0	23	91	0	74	17	26	26	30	1.97
882607--882655	4	12.8	4	82	8	66	75	4	0	20	0.96
882694--882942	36	6.3	36	74	20	130	42	6	3	47	1.45
882700--882922	36	5.7	37	77	17	202	43	6	3	46	1.45
882762--882789	9	3.1	9	100	0	56	42	0	0	57	0.99
882694--882944	81	3.1	81	81	15	284	43	6	3	47	1.45
882726--882823	43	2.2	45	92	7	164	42	5	2	50	1.36
882771--882944	39	4.5	39	79	12	173	43	6	2	47	1.41
883295--883504	65	3.2	64	81	9	230	29	25	19	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
883344--883504	65	2.5	65	89	7	231	29	24	19	26	1.99
884662--884735	21	3.6	21	75	17	66	47	0	0	52	1.00
884669--884728	15	3.9	15	74	10	50	43	0	0	56	0.99
884720--884794	22	3.5	22	71	14	66	50	2	1	45	1.24
884850--884907	14	4.1	14	78	14	57	55	0	5	39	1.22
884850--884906	28	2.0	29	83	10	73	56	0	5	38	1.22
885857--885908	2	26.0	2	100	0	104	50	0	0	50	1.00
888609--888641	15	2.2	15	100	0	66	51	6	21	21	1.69
890130--890416	43	6.6	43	91	1	439	17	24	24	34	1.96
890130--890416	87	3.3	86	92	1	457	17	24	24	34	1.96
904267--904325	30	2.0	30	86	6	84	35	25	28	10	1.89
907088--907444	6	59.5	6	99	0	705	17	33	0	49	1.46
911217--912125	127	7.1	127	90	3	1416	21	22	21	34	1.97
912528--912634	34	3.1	34	89	2	153	36	2	6	54	1.41
913139--913208	21	3.3	20	88	5	95	21	25	34	18	1.96
913186--913288	42	2.5	42	77	3	100	22	20	34	22	1.96
914985--915032	24	2.0	25	88	12	73	64	0	0	35	0.94
915008--915088	31	2.6	33	78	11	89	56	0	0	43	0.99
915302--915443	60	2.3	61	83	5	164	21	32	27	18	1.97
916344--916385	19	2.3	18	87	4	57	33	2	0	64	1.07
921999--922124	34	3.8	34	73	10	125	42	10	15	32	1.80
922481--922523	18	2.5	17	85	7	61	25	4	2	67	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
926002--926052	21	2.4	21	81	18	61	80	5	13	0	0.89
926026--926053	11	2.5	11	100	0	56	85	7	7	0	0.73
926049--926101	22	2.3	23	78	15	56	73	5	13	7	1.23
926735--926789	22	2.5	22	96	0	101	38	25	12	23	1.90
927193--927228	18	2.0	18	88	0	54	19	8	30	41	1.81
927708--927951	36	6.9	36	76	10	209	25	18	14	41	1.88
928663--929389	105	7.0	105	90	1	1086	33	25	17	23	1.96
929938--930063	34	3.8	34	75	10	134	42	10	16	30	1.82
930420--930462	18	2.5	17	85	7	61	25	4	2	67	1.22
931754--931841	29	3.1	28	71	16	74	28	5	2	63	1.29
937566--937631	20	3.3	20	87	4	71	30	31	15	22	1.95
937579--937639	20	3.0	20	97	0	113	24	39	14	21	1.91
938390--938438	18	2.7	18	93	3	80	36	0	30	32	1.58
939387--939435	21	2.3	22	82	10	57	22	14	28	34	1.93
940275--940330	11	6.0	9	75	21	53	71	3	3	21	1.17
940287--940331	19	2.5	18	85	7	65	75	4	0	20	0.97
940287--940343	14	4.0	14	75	9	53	71	3	1	22	1.10
941812--942044	81	2.9	79	85	3	295	26	18	23	31	1.97
941806--942082	81	3.4	81	83	4	274	26	18	23	31	1.97
942217--942540	36	8.9	36	75	14	301	41	13	19	25	1.88
942280--942400	42	3.0	42	84	9	139	41	13	20	24	1.88
942473--942548	36	2.1	36	92	2	125	39	14	18	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
943758--943953	95	2.1	94	82	3	241	32	16	16	33	1.92
947747--947771	13	1.9	13	100	0	50	56	0	8	36	1.29
948010--948084	9	7.7	9	73	14	60	72	4	6	17	1.23
948020--948084	26	2.5	26	78	11	80	72	3	7	16	1.21
948010--948084	20	3.8	19	75	15	71	72	4	6	17	1.23
948020--948098	41	2.0	39	80	14	90	70	5	6	17	1.26
948074--948106	14	2.5	13	90	9	57	69	9	0	21	1.15
948079--948114	8	4.8	8	86	13	58	66	11	0	22	1.22
948069--948128	22	2.7	23	81	5	77	68	6	1	23	1.22
953831--953876	22	2.0	23	87	4	67	54	0	4	41	1.20
954898--954957	4	14.8	4	73	16	52	71	0	3	25	1.01
954891--954926	18	1.9	19	88	5	56	72	0	8	19	1.10
954869--954964	30	3.2	29	81	11	88	69	1	6	22	1.17
954869--954938	32	2.3	32	85	7	92	71	0	7	21	1.09
954898--954954	15	3.9	14	77	11	60	70	0	3	26	1.03
955763--955814	16	3.2	16	75	17	54	1	5	21	71	1.17
956434--956496	9	6.8	9	82	10	74	74	0	3	22	0.96
956437--956496	5	12.4	5	77	12	63	73	0	3	23	0.98
956443--956498	28	2.0	28	89	6	87	73	0	1	25	0.93
956513--956830	67	4.6	69	76	15	275	43	5	3	46	1.45
956570--956931	144	2.4	148	82	11	386	43	6	4	45	1.49
956834--956887	22	2.6	21	85	5	74	46	7	1	44	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
956960--957008	2	25.0	2	82	12	57	53	2	2	42	1.24
961225--961272	19	2.5	20	86	3	62	31	10	6	52	1.60
961942--962016	20	3.8	20	96	0	141	34	13	16	36	1.87
962847--962885	21	1.9	20	89	5	60	30	28	15	25	1.96
962870--962916	20	2.5	19	83	10	53	27	19	21	31	1.97
966053--966121	20	3.4	20	82	9	70	31	11	26	30	1.91
966053--966102	21	2.5	20	87	9	66	30	12	24	34	1.91
966956--967068	24	4.8	24	78	8	90	21	24	23	30	1.98
968627--968755	57	2.3	54	83	9	145	47	12	6	33	1.68
968685--968831	58	2.5	60	81	9	151	40	13	6	38	1.71
972382--972424	21	2.1	21	82	4	52	51	0	27	20	1.48
975055--975206	79	1.9	80	83	5	200	34	12	18	34	1.88
977213--978119	46	19.8	46	95	0	1559	34	18	22	24	1.97
978772--978849	22	3.5	22	74	8	77	37	12	15	34	1.86
990398--990428	3	10.3	3	100	0	62	64	0	0	35	0.94
992035--992091	30	1.9	30	85	7	80	22	21	19	36	1.95
992894--992919	5	5.2	5	100	0	52	0	19	57	23	1.40
1000429--1000462	17	2.0	17	88	11	52	44	11	0	44	1.40
1002196--1002226	15	2.1	15	100	0	62	67	12	19	0	1.22
1005173--1005278	45	2.3	47	90	6	162	29	8	20	41	1.82
1015956--1016446	55	8.9	55	88	4	679	30	15	25	29	1.95
1015956--1016462	219	2.3	220	88	4	740	30	14	25	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1017358--1017388	15	2.1	15	93	0	53	67	9	22	0	1.19
1020425--1020454	2	15.0	2	100	0	60	50	0	0	50	1.00
1024216--1024260	12	3.8	12	81	0	63	44	17	15	22	1.86
1025349--1025758	205	2.0	205	100	0	820	30	24	17	28	1.97
1028333--1028390	15	3.6	16	77	15	57	32	3	0	63	1.11
1032990--1033034	21	2.1	21	87	0	63	31	28	24	15	1.96
1034494--1034621	31	4.1	31	80	9	152	26	18	21	33	1.96
1037458--1037502	21	2.1	21	87	0	63	31	28	24	15	1.96
1038959--1039086	31	4.1	31	80	9	152	26	18	21	33	1.96
1039045--1039141	30	3.2	30	88	1	113	22	20	24	31	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16