genome.fa.s6607.2.7.7.80.10.50.1000.4.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: VEPZ01006607.1 Hibiscus syriacus cultivar Beakdansim tig00016212_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1995858

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 925 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)
629443--629607	55	2.9	56	83	5	188	47	4	15	32	1.66
629853--629892	6	6.7	6	88	0	62	80	0	2	17	0.83
633578--633630	21	2.6	19	80	16	54	26	13	22	37	1.91
633621--633675	21	2.6	21	94	0	92	45	20	7	27	1.77
635479--635690	99	2.1	99	97	0	397	16	25	10	47	1.78
642174--642213	16	2.5	16	100	0	80	22	15	27	35	1.94
648480--649728	85	14.6	85	77	8	1111	38	16	8	36	1.80
648480--649728	170	7.3	170	84	4	1501	38	16	8	36	1.80
649791--650123	18	18.6	18	72	4	188	24	5	23	46	1.72
649791--650123	36	9.3	35	74	8	215	24	5	23	46	1.72
649792--650077	72	4.0	72	79	6	258	24	4	24	46	1.71
650018--650101	35	2.4	35	79	0	87	21	5	26	46	1.74
650232--650525	84	3.5	84	77	10	251	40	17	7	35	1.77
661536--661663	60	2.1	61	82	1	159	26	18	26	28	1.98
668101--668165	33	2.0	33	84	0	85	44	26	12	16	1.83
673220--673271	23	2.1	25	86	10	72	76	0	5	17	0.97
673216--673274	29	2.0	30	83	9	77	76	0	6	16	1.00
673227--673274	12	3.9	12	78	10	53	77	0	4	18	0.93
673333--673429	11	8.1	11	69	24	63	46	9	0	44	1.35
673316--673590	37	7.6	37	81	13	331	45	7	1	45	1.38
673332--673592	140	1.8	142	92	4	447	45	7	0	46	1.36
673369--673519	26	5.8	26	70	18	102	44	8	0	46	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
673369--673578	103	2.0	102	91	2	341	44	7	0	46	1.38
681824--681897	34	2.1	36	78	9	82	37	1	22	37	1.63
692118--692495	39	10.2	37	78	14	288	45	6	1	46	1.40
692149--692271	62	2.0	62	93	0	210	45	7	1	45	1.41
692177--692239	25	2.5	25	94	2	108	46	9	0	44	1.36
692206--692490	77	3.7	75	85	10	373	44	7	1	46	1.40
692203--692490	39	7.5	38	86	7	338	44	6	1	46	1.40
693985--694026	3	14.0	3	100	0	84	66	0	0	33	0.92
719996--720039	5	8.8	5	90	9	72	59	0	0	40	0.98
720699--720770	35	2.1	34	87	5	101	41	1	16	40	1.57
721008--721059	24	2.2	24	100	0	104	51	3	28	15	1.60
724308--724399	30	3.0	30	93	1	157	29	11	9	48	1.72
724449--724514	22	3.0	21	78	10	62	54	0	4	40	1.21
724450--724494	22	2.0	22	87	8	65	46	0	4	48	1.22
724479--724522	22	2.0	22	95	0	79	65	0	4	29	1.12
724548--724613	24	2.7	25	83	6	73	31	1	4	62	1.25
724566--724618	26	2.0	26	89	7	81	37	0	3	58	1.16
724566--724618	25	2.0	27	89	7	83	37	0	3	58	1.16
726715--726756	3	13.7	3	85	14	59	66	0	0	33	0.92
726715--726760	15	3.0	15	93	3	74	65	0	0	34	0.93
726757--726786	2	15.5	2	93	6	53	50	0	0	50	1.00
729582--729641	14	4.6	14	80	16	83	16	11	15	56	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
729593--729639	24	2.0	24	100	0	94	19	8	12	59	1.58
730473--730535	23	2.6	24	78	19	60	50	1	0	47	1.10
730507--730553	22	2.1	23	84	11	62	46	2	0	51	1.13
730738--730782	23	2.0	23	81	0	54	51	4	2	42	1.34
730726--730791	35	1.9	34	81	9	80	50	6	1	42	1.36
733916--733955	8	4.9	8	84	3	53	80	5	0	15	0.88
733918--733987	17	4.2	16	72	18	54	75	11	0	12	1.04
735680--736635	136	7.0	135	85	3	1096	25	21	17	35	1.95
735687--736635	408	2.3	407	84	3	1228	25	21	17	34	1.95
739255--739327	36	2.0	36	100	0	146	8	32	6	52	1.58
739263--739342	36	2.1	36	88	6	115	11	31	6	51	1.62
740183--740222	21	1.9	21	85	10	55	40	10	12	37	1.77
740755--740931	90	2.0	89	93	1	300	37	9	7	45	1.65
764158--764190	2	16.5	2	93	0	57	54	45	0	0	0.99
776238--776270	2	16.5	2	100	0	66	51	0	0	48	1.00
779125--779163	19	2.1	19	90	4	62	35	0	0	64	0.94
782614--782657	15	3.0	15	86	6	63	47	0	0	52	1.00
782968--783010	21	2.0	21	95	0	77	39	11	0	48	1.40
785701--786069	184	2.0	184	100	0	738	39	11	17	31	1.85
785983--787682	459	3.7	462	86	4	2301	36	13	15	34	1.86
791093--791163	35	2.0	34	89	10	108	19	19	19	40	1.91
794031--795460	468	3.1	466	88	3	2020	36	12	15	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
800268--800306	18	2.2	18	90	4	62	25	0	7	66	1.18
800730--800767	10	3.8	10	80	13	51	36	10	18	34	1.85
820766--820797	14	2.2	15	94	5	57	28	53	0	18	1.45
822628--822824	95	2.1	95	81	4	227	34	17	18	28	1.94
822664--822849	95	2.0	95	83	8	236	34	17	19	27	1.94
823260--823595	45	7.5	44	84	3	377	38	9	22	30	1.85
823287--823612	133	2.4	136	86	4	455	39	9	20	30	1.84
823297--823597	90	3.4	89	87	3	435	38	9	20	30	1.84
829942--830330	90	4.3	90	85	4	487	36	10	22	30	1.88
829942--830345	184	2.2	180	85	4	526	37	9	22	30	1.86
829942--830345	45	8.9	45	83	5	440	37	9	22	30	1.86
831729--831972	120	2.0	120	100	0	488	31	18	29	20	1.96
837029--837415	45	8.6	44	86	6	483	37	10	21	30	1.87
856758--856815	22	2.8	20	80	10	62	25	15	29	29	1.96
856688--856866	95	1.9	95	81	8	211	32	16	21	29	1.95
857191--857228	14	2.5	15	87	8	51	42	0	5	52	1.24
857361--857664	45	6.8	45	85	1	367	42	9	17	31	1.81
859476--859548	21	3.5	21	80	10	96	31	16	21	30	1.95
859496--859571	20	3.8	20	76	10	91	30	19	22	27	1.98
859476--859568	41	2.3	41	96	0	168	30	17	23	29	1.97
859625--859683	22	2.8	20	82	12	73	30	13	28	27	1.94
859558--859731	95	1.8	95	87	7	264	33	14	23	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
859558--859754	95	2.1	95	84	9	251	34	14	22	27	1.94
860079--860392	135	2.3	135	88	1	459	42	10	17	28	1.83
860089--860409	45	7.1	45	84	1	383	42	9	17	30	1.82
860355--860608	126	2.0	126	98	0	490	43	8	18	29	1.79
866967--866991	12	2.1	12	100	0	50	40	32	12	16	1.84
867048--867125	3	26.7	3	79	10	72	60	0	0	39	0.97
867396--867973	116	5.1	112	83	7	758	28	19	14	37	1.92
867410--867973	227	2.5	228	97	1	1062	28	20	14	37	1.91
868687--869064	83	4.6	83	94	0	666	38	23	12	25	1.90
870212--870263	11	4.9	11	80	4	54	0	15	1	82	0.75
870214--870261	19	2.5	20	80	16	57	0	16	2	81	0.79
870218--870266	25	2.0	25	84	15	66	0	16	2	81	0.78
870212--870263	10	5.4	9	80	15	52	0	15	1	82	0.75
881319--881365	13	3.5	13	77	13	51	55	2	2	40	1.24
882711--882791	3	27.7	3	78	9	87	61	0	0	38	0.96
884329--884385	22	2.8	20	79	10	69	31	14	26	28	1.94
884252--884430	95	1.9	94	86	8	254	33	16	23	26	1.95
884927--885248	45	7.1	45	84	2	403	41	9	18	31	1.81
884890--885229	135	2.5	135	85	2	432	40	10	19	30	1.84
895504--895579	30	2.7	29	82	11	86	42	3	18	35	1.69
898552--898654	45	2.3	46	84	1	136	29	15	19	35	1.93
901187--901266	24	3.5	23	73	14	85	27	22	26	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
901165--901286	44	2.8	42	71	15	104	25	20	27	27	1.99
907013--907061	19	2.7	17	84	9	53	26	18	30	24	1.98
907012--907222	64	3.3	62	78	5	183	28	16	25	30	1.96
907141--907189	19	2.7	18	84	9	64	24	16	34	24	1.95
907203--907242	21	1.9	21	94	0	71	22	15	30	32	1.94
907800--907908	24	4.5	24	88	2	139	22	17	17	43	1.88
907823--907899	12	6.4	12	74	14	70	22	18	16	42	1.89
930378--930439	23	2.8	22	77	13	65	25	32	20	20	1.98
945300--945326	2	13.5	2	100	0	54	51	0	0	48	1.00
946647--946844	2	101.0	2	95	4	359	0	0	49	50	1.04

Tables:   1   2   3   4   5   6   7   8