genome.fa.s8185.2.7.7.80.10.50.1000.4.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: VEPZ01008185.1 Hibiscus syriacus cultivar Beakdansim tig00110788_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3563405

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

This is table  4  of  16  ( 1911 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)
591626--591670	23	2.0	23	86	0	63	20	26	26	26	1.99
592629--592670	22	1.9	22	90	9	68	14	11	4	69	1.34
599175--599216	22	1.9	22	90	9	68	14	11	4	69	1.34
604559--604717	65	2.5	65	86	5	207	26	18	23	30	1.98
604559--604758	65	3.1	63	77	13	192	26	19	23	31	1.98
607705--607842	72	1.9	72	85	5	190	44	26	15	13	1.84
611220--611286	25	2.7	24	74	23	59	56	1	4	37	1.29
611238--611319	11	7.3	11	70	20	53	59	2	3	34	1.28
611792--611861	36	1.9	37	88	8	108	25	15	17	41	1.89
612322--612951	109	5.9	107	79	7	506	22	19	24	32	1.97
612480--612951	109	4.4	109	83	4	512	22	19	25	33	1.97
613563--613750	36	5.4	36	69	16	135	37	12	20	28	1.90
613664--613750	37	2.4	36	88	5	122	40	13	20	25	1.89
613563--613755	102	1.9	101	93	1	332	36	12	20	30	1.90
613701--613801	50	2.0	50	84	3	132	39	13	19	26	1.90
613805--613932	31	3.9	31	70	17	73	34	12	20	32	1.90
613751--613899	67	2.2	67	90	0	226	37	13	20	28	1.90
613856--613968	33	3.4	33	89	6	158	32	11	18	37	1.87
614009--614365	36	10.4	36	71	17	185	39	12	18	29	1.87
614137--614195	30	2.0	30	86	6	84	32	10	16	40	1.82
614150--614454	102	3.0	102	94	1	504	37	13	19	30	1.89
614900--614935	18	2.0	18	88	0	54	41	30	8	19	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615350--615400	22	2.3	22	96	0	93	25	11	27	35	1.91
616008--616069	20	3.0	21	79	9	65	1	16	6	75	1.08
616026--616078	23	2.4	22	84	6	72	0	15	5	79	0.91
619609--619689	11	7.3	11	70	18	51	59	2	3	34	1.29
620169--620238	36	1.9	37	88	8	108	25	15	17	41	1.89
620741--620826	24	3.9	22	76	17	81	36	13	15	34	1.87
620741--620825	23	3.8	23	76	17	74	36	14	15	34	1.87
629358--629383	2	13.0	2	100	0	52	50	0	0	50	1.00
633004--633159	78	2.0	78	94	0	276	31	23	14	30	1.95
636959--637144	91	2.0	91	95	0	336	33	8	13	44	1.73
644300--644342	16	2.4	19	77	22	65	41	13	0	44	1.44
644308--644348	16	2.6	16	100	0	82	34	19	0	46	1.50
645083--645121	4	9.8	4	82	0	51	51	25	0	23	1.49
645087--645126	20	2.0	20	95	0	71	50	22	0	27	1.50
645093--645123	16	1.9	16	100	0	62	51	22	0	25	1.48
648729--648892	64	2.6	65	82	5	183	26	20	20	32	1.97
655314--655343	2	15.0	2	100	0	60	0	0	50	50	1.00
656224--656563	41	8.3	40	75	13	248	27	18	19	34	1.95
656183--656563	41	9.3	42	78	8	245	28	18	19	33	1.95
659837--659894	21	2.8	21	81	2	64	18	5	20	55	1.62
660087--660270	43	4.3	43	84	0	134	28	20	22	28	1.98
660101--660270	86	2.0	86	82	0	205	31	20	21	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
666210--666243	15	2.3	15	90	10	52	52	0	2	44	1.16
672827--672875	21	2.3	21	79	6	55	46	0	2	51	1.12
695507--695587	32	2.6	31	82	3	101	44	3	3	48	1.38
711542--711611	32	2.3	30	76	14	70	35	20	7	37	1.80
719856--720066	105	2.0	105	80	0	233	27	17	21	32	1.96
724817--724871	25	2.2	25	96	0	101	45	25	3	25	1.70
727450--727493	2	22.0	2	100	0	88	50	0	0	50	1.00
729801--729845	14	3.4	13	82	14	56	80	0	8	11	0.92
733676--733829	64	2.4	64	83	4	177	33	20	18	27	1.96
734137--734170	12	2.8	12	90	0	59	32	5	23	38	1.79
734317--734349	15	2.2	15	100	0	66	21	12	33	33	1.90
738143--738287	64	2.3	64	83	4	168	33	20	17	28	1.95
738595--738630	12	3.0	12	91	0	63	33	5	25	36	1.79
738595--738663	24	2.8	26	83	12	85	37	5	24	31	1.79
738775--738807	15	2.2	15	94	0	57	15	15	33	36	1.88
740134--740158	7	3.6	7	100	0	50	88	0	0	12	0.53
749711--749750	21	2.0	21	85	5	55	35	5	2	57	1.34
754419--754493	36	2.1	36	85	7	98	28	9	2	60	1.42
766959--766984	3	8.7	3	100	0	52	65	0	0	34	0.93
768817--768868	23	2.5	20	74	20	52	40	3	3	51	1.38
769734--769779	2	23.5	2	95	4	85	47	0	0	52	1.00
770487--770553	32	2.1	32	86	8	93	29	10	16	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
782897--782969	31	2.3	30	77	11	74	30	12	21	35	1.90
782951--783028	41	1.9	41	84	10	106	34	10	21	33	1.87
784365--784625	135	1.9	135	83	6	339	35	21	14	28	1.92
784576--784805	124	1.9	124	87	1	345	32	22	19	26	1.97
784857--785378	137	3.8	137	91	0	828	34	24	16	24	1.95
788863--788912	24	2.1	24	96	0	91	36	10	18	36	1.84
790986--791038	27	2.0	26	82	10	63	45	1	3	49	1.31
791040--791158	19	6.6	18	70	18	61	35	4	1	58	1.27
791067--791104	14	2.8	13	88	11	51	36	2	2	57	1.26
791071--791109	14	2.7	14	88	11	53	35	2	5	56	1.35
791031--791174	71	2.0	70	89	9	222	36	3	2	57	1.27
791138--791174	13	2.7	14	84	15	51	37	2	0	59	1.12
793807--793853	6	8.3	6	77	13	55	51	2	0	46	1.13
793779--793835	12	4.8	12	75	16	55	54	0	0	45	0.99
793802--793848	18	2.8	16	84	12	58	48	2	0	48	1.13
793868--794013	31	4.6	30	82	13	177	51	0	5	42	1.30
794030--794082	21	2.5	21	81	0	70	47	3	7	41	1.50
794135--794186	24	2.2	24	82	6	61	44	5	9	40	1.61
794256--794361	51	2.1	51	87	3	151	45	5	4	44	1.48
794269--794443	18	10.1	18	65	16	84	42	8	6	43	1.59
794316--794470	33	4.5	33	79	10	168	41	9	7	41	1.64
794272--794375	51	2.0	51	94	0	181	42	6	5	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
794273--794470	51	3.9	50	72	10	175	42	8	6	42	1.60
794520--794632	7	16.9	7	73	15	71	49	2	5	42	1.39
794521--794642	27	4.7	27	79	8	110	48	2	6	42	1.42
794520--794631	2	53.5	2	70	18	68	49	2	5	42	1.39
794665--794766	18	5.7	18	70	19	70	43	8	7	40	1.65
794713--794782	33	2.2	32	92	2	113	51	4	5	38	1.45
794733--794837	20	4.9	20	72	16	86	53	0	6	39	1.34
794733--794793	23	2.7	23	79	16	74	54	1	6	37	1.37
794746--794795	13	3.8	13	77	17	59	54	2	6	38	1.37
794762--794830	29	2.4	29	80	11	79	53	0	7	39	1.29
794855--794987	26	5.3	24	71	20	96	48	3	1	46	1.26
794941--795168	20	11.2	20	67	15	85	42	5	5	46	1.51
794914--795012	42	2.3	42	80	1	99	43	4	5	47	1.44
794870--794988	11	10.6	11	68	13	73	48	2	1	47	1.25
795056--795169	2	56.5	2	71	14	65	44	5	2	47	1.39
795056--795168	11	10.7	11	68	13	51	45	5	2	46	1.39
795193--796018	209	3.9	210	86	7	1128	30	12	7	49	1.68
798436--798544	20	5.3	20	77	11	114	41	24	13	20	1.89
798375--798563	40	4.7	40	80	8	188	37	25	13	23	1.92
798528--798602	19	3.9	19	79	6	80	36	20	10	33	1.87
798448--798602	60	2.6	58	81	5	141	38	21	12	26	1.90
798759--798796	16	2.5	15	84	12	51	28	5	0	65	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
799390--799423	12	2.8	12	90	0	50	55	29	0	14	1.40
799543--799589	24	2.0	24	91	0	76	27	21	14	36	1.93
801864--801899	18	2.0	18	94	0	63	55	25	2	16	1.55
802216--802254	14	2.9	14	80	3	53	41	28	20	10	1.85
802275--802391	20	5.8	20	86	0	153	17	19	19	43	1.88
802275--802400	60	2.1	61	88	4	184	17	20	19	42	1.89
802446--802591	66	2.2	66	92	2	242	50	16	1	31	1.53
803935--804033	21	4.7	21	72	8	85	23	21	32	23	1.98
803977--804040	21	3.0	21	73	13	60	21	20	31	26	1.98
804318--804437	63	1.9	63	81	3	143	34	31	13	20	1.91

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