genome.fa.s8280.2.7.7.80.10.50.1000.3.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: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3557051

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  3  of  17  ( 1944 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)
519226--520106	448	2.0	445	93	3	1500	35	13	15	35	1.86
520188--520235	18	2.8	18	90	6	73	29	29	6	35	1.82
528693--528788	30	3.2	30	90	0	147	31	11	13	43	1.79
528764--528910	61	2.5	58	86	6	188	33	18	11	36	1.87
528764--528926	59	2.8	57	87	5	209	31	18	11	38	1.87
531517--531546	6	5.0	6	100	0	60	50	33	16	0	1.46
541800--541858	28	2.1	29	96	3	111	47	13	13	25	1.79
553266--553422	20	7.8	20	73	6	93	38	25	17	19	1.93
553266--553422	41	3.9	41	70	11	126	38	25	17	19	1.93
553389--553598	20	10.5	20	77	6	174	37	25	18	19	1.94
554281--554327	24	2.0	24	87	8	69	25	14	21	38	1.92
554502--554526	12	2.1	12	100	0	50	72	0	28	0	0.86
556801--556931	19	7.4	19	78	16	156	48	19	19	13	1.81
556801--556953	33	4.5	33	83	9	191	47	18	20	13	1.83
556801--556953	71	2.2	66	91	5	243	47	18	20	13	1.83
556957--557072	53	2.2	53	96	1	216	12	24	18	43	1.85
556975--557072	19	5.4	19	84	13	143	14	22	17	45	1.84
557179--557215	14	2.6	14	91	0	65	45	21	0	32	1.52
559190--559246	14	3.7	14	77	20	60	45	22	21	10	1.82
559171--559263	33	2.8	33	95	0	168	47	21	20	10	1.80
559134--559268	19	7.6	19	75	16	119	45	23	20	11	1.83
559264--559391	19	7.3	19	73	19	116	8	17	28	45	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559264--559355	33	2.8	33	93	3	150	7	18	28	45	1.76
559439--559812	92	4.1	93	98	1	718	45	19	12	21	1.83
559439--559812	185	2.0	185	97	1	716	45	19	12	21	1.83
561513--561569	14	3.7	14	75	20	60	42	24	24	8	1.83
561505--561588	33	2.5	33	96	0	159	45	21	23	9	1.81
561527--561610	19	4.7	19	81	14	106	44	22	22	10	1.84
561622--561678	14	3.7	14	75	20	60	10	24	21	43	1.83
561619--561683	33	2.0	33	96	0	121	10	24	20	44	1.83
561662--561739	41	1.9	41	97	0	147	12	25	16	44	1.83
561663--561738	21	3.7	21	83	3	109	11	25	17	46	1.82
561818--561888	33	2.2	33	94	0	124	47	16	23	11	1.79
562070--562124	22	2.5	22	81	0	74	20	16	40	23	1.91
562272--562465	20	9.6	20	79	5	203	19	20	24	35	1.95
562271--562486	40	5.3	40	80	3	209	19	19	24	35	1.95
562272--562465	60	3.2	60	83	0	244	19	20	24	35	1.95
562431--562487	20	2.8	21	91	2	89	15	19	22	42	1.89
562432--562487	21	2.8	20	91	2	85	16	19	23	41	1.90
575409--575436	14	2.0	14	100	0	56	14	21	14	50	1.78
577199--577299	51	2.0	51	96	0	184	31	21	11	34	1.90
578081--578181	51	2.0	51	96	0	184	31	21	11	34	1.90
580405--580432	14	2.0	14	100	0	56	14	21	14	50	1.78
588114--588407	150	2.0	150	90	0	462	24	25	10	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589837--589866	15	2.0	15	100	0	60	20	13	20	46	1.83
590301--590354	19	2.8	20	75	21	60	55	0	1	42	1.10
590310--590344	17	2.1	17	89	5	54	54	0	0	45	0.99
590455--590503	23	2.1	23	100	0	98	42	6	16	34	1.73
595919--595944	13	2.0	13	100	0	52	15	7	7	69	1.35
600967--601033	17	3.8	17	72	14	55	43	1	1	53	1.19
602520--602549	2	15.0	2	92	0	51	0	3	50	46	1.18
602753--602786	16	2.1	16	88	0	50	26	0	14	58	1.36
605221--605262	19	2.3	19	79	4	50	26	11	7	54	1.62
605730--606706	494	2.0	492	95	3	1800	36	17	18	27	1.93
618046--618142	31	3.1	31	93	0	158	22	18	13	45	1.84
618882--619044	64	2.5	63	87	4	211	27	22	17	32	1.96
622778--622816	14	2.8	14	92	0	60	35	2	7	53	1.43
622910--623072	64	2.5	65	82	4	206	30	20	15	33	1.94
623961--624034	22	3.6	20	85	8	89	31	31	22	14	1.94
628442--628516	35	2.1	35	87	0	105	37	1	18	42	1.59
633002--633031	3	10.0	3	100	0	60	66	0	0	33	0.92
633503--633590	27	3.5	25	68	23	60	38	10	25	26	1.87
639586--639733	78	1.9	78	85	2	208	29	32	15	22	1.95
645629--646393	260	2.9	260	94	0	1316	16	19	14	49	1.80
647354--647421	23	3.0	23	86	4	93	33	19	20	26	1.96
647369--647412	12	3.8	12	78	6	54	36	20	20	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651498--651596	21	4.8	20	75	6	81	37	23	18	21	1.94
651563--651756	20	9.6	20	81	5	221	35	25	19	19	1.95
651563--651756	60	3.2	60	83	0	253	35	25	19	19	1.95
652138--652208	33	2.2	33	87	5	99	11	22	16	49	1.78
652288--652393	21	5.6	20	70	16	91	45	18	25	10	1.81
652286--652364	21	3.8	21	79	12	92	45	16	26	11	1.81
652281--652397	41	3.1	38	79	14	136	46	17	26	10	1.80
652351--652404	14	3.5	14	73	22	54	42	24	25	7	1.80
652340--652409	33	2.1	33	97	0	131	47	20	25	7	1.75
652346--652420	33	2.3	33	92	0	123	46	24	22	6	1.75
652416--652513	19	5.7	19	70	22	81	11	23	22	42	1.85
652438--652527	14	5.7	14	72	23	72	10	24	23	42	1.84
652421--652535	33	3.5	33	95	0	212	10	23	20	45	1.82
654233--654799	93	6.1	93	99	0	1107	22	12	19	46	1.83
654843--654971	19	7.3	19	75	17	125	45	28	17	8	1.77
654879--654971	33	2.8	32	91	4	150	46	27	18	7	1.76
654843--654971	52	2.5	52	74	14	140	45	28	17	8	1.77
654967--655101	19	7.6	19	75	16	128	11	19	23	45	1.82
654989--655045	14	3.7	14	77	20	60	10	21	22	45	1.82
654972--655064	33	2.8	33	95	0	168	10	20	21	47	1.80
657026--657061	14	2.6	14	95	0	63	33	0	22	44	1.53
657168--657265	19	5.4	19	82	13	134	46	17	21	14	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
657168--657284	53	2.2	53	96	1	218	45	17	23	13	1.84
659602--659626	12	2.1	12	100	0	50	0	28	0	72	0.86
659801--659847	24	2.0	24	87	8	69	38	21	14	25	1.92
660530--660779	20	12.5	20	87	1	268	19	18	24	37	1.94
660766--660848	21	4.0	21	73	6	78	25	16	24	33	1.96
660746--660844	42	2.4	43	77	11	100	21	18	23	37	1.94
666127--666254	66	1.9	66	95	0	229	36	8	5	49	1.57
668960--668992	13	2.4	14	90	5	50	27	0	3	69	1.03
672662--672701	19	2.0	20	85	4	55	40	0	7	52	1.30
672935--672994	22	2.8	21	78	14	77	25	30	21	23	1.99
676846--677003	79	2.0	79	97	0	298	44	8	13	32	1.75
677971--678000	15	2.0	15	93	0	51	56	6	6	30	1.51
680029--680124	48	2.0	48	100	0	192	27	20	16	35	1.94
690035--690177	70	2.0	70	94	0	250	46	11	7	34	1.68
693696--693737	20	2.1	20	86	0	57	42	23	19	14	1.87
693726--693805	40	2.0	40	92	0	133	43	17	13	25	1.86
693729--693802	20	3.7	20	74	3	69	43	18	14	22	1.87
693740--693818	20	3.8	21	71	10	72	43	15	15	26	1.86
693938--694012	20	3.7	20	72	10	71	26	26	17	29	1.97
694439--694467	14	2.1	14	100	0	58	44	0	6	48	1.29
694594--694646	20	2.5	20	74	17	54	43	0	1	54	1.11
694632--694700	29	2.3	31	83	14	83	46	0	1	52	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
694742--694792	23	2.2	23	82	0	57	45	1	1	50	1.24
694925--694975	23	2.2	23	86	6	68	41	1	3	52	1.31
697009--697045	3	12.7	3	94	5	67	32	0	0	67	0.91
697672--697722	17	3.0	17	75	16	52	31	3	0	64	1.11
697677--697722	8	5.6	8	82	12	58	30	4	0	65	1.12
717721--717796	36	2.1	36	85	7	100	47	1	3	47	1.29
724996--725056	31	2.0	31	90	3	97	42	14	6	36	1.72
727757--727803	20	2.3	20	88	0	67	31	21	27	19	1.97
727981--728041	31	2.0	31	96	3	115	42	18	6	32	1.76
729905--729933	12	2.3	13	94	5	51	51	0	10	37	1.36

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17