genome.fa.s7897.2.7.7.80.10.50.1000.3.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: VEPZ01007897.1 Hibiscus syriacus cultivar Beakdansim tig00110283_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  862109

Tables:   1   2   3   4   

This is table  3  of  4  ( 426 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)
522755--522800	19	2.5	19	83	16	53	78	6	6	8	1.10
526909--526951	21	2.0	22	86	13	63	48	4	11	34	1.60
530746--530827	21	3.9	21	79	7	78	24	35	24	15	1.94
537133--537210	31	2.5	30	85	8	111	14	28	34	23	1.93
537773--537830	2	29.0	2	100	0	116	50	0	0	50	1.00
538115--538208	2	46.0	2	77	19	88	44	1	5	48	1.32
538115--538244	63	2.0	63	84	11	167	44	1	5	48	1.35
538202--538537	38	9.2	36	84	9	405	45	5	5	43	1.49
538202--538537	74	4.6	73	84	9	402	45	5	5	43	1.49
538451--538537	34	2.4	36	77	11	90	49	3	4	42	1.40
539152--539200	19	2.6	19	93	0	80	38	18	34	8	1.80
539764--539822	27	2.2	27	82	8	68	23	3	1	71	1.11
539774--539848	27	2.7	28	81	8	82	20	8	2	69	1.26
539893--539942	7	7.4	7	88	8	77	28	0	0	72	0.86
540084--540110	6	4.5	6	100	0	54	44	0	0	55	0.99
540342--540388	3	15.7	3	100	0	94	34	0	0	65	0.93
540647--540672	5	5.2	5	100	0	52	57	0	19	23	1.40
540877--540914	2	19.0	2	100	0	76	50	0	0	50	1.00
540937--540961	6	4.2	6	100	0	50	68	0	0	32	0.90
546393--546419	3	9.0	3	100	0	54	66	0	0	33	0.92
547125--547267	67	2.1	67	100	0	286	25	16	16	41	1.89
547669--547693	13	1.9	13	100	0	50	20	0	16	64	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553977--554038	29	2.1	29	90	0	97	17	16	48	17	1.82
556543--556617	35	2.1	35	90	0	114	44	21	0	34	1.53
556612--556689	35	2.2	34	80	6	84	41	1	14	43	1.53
560552--560596	19	2.4	19	85	10	58	15	17	0	66	1.25
563455--563520	27	2.3	30	80	17	77	63	0	1	34	1.04
563524--563613	19	4.7	19	69	6	58	72	1	5	21	1.12
563960--564019	6	9.5	6	83	15	52	66	0	0	33	0.92
563959--564020	20	2.9	22	81	16	76	64	0	0	35	0.94
564046--564091	8	5.8	8	86	0	65	50	8	0	41	1.33
564046--564091	4	11.5	4	90	0	56	50	8	0	41	1.33
564046--564091	16	2.9	16	93	0	74	50	8	0	41	1.33
568027--568086	27	2.2	26	77	16	61	60	1	0	38	1.07
569011--569078	18	3.7	18	76	23	79	50	30	14	4	1.63
572700--572854	82	1.9	82	82	2	195	38	17	9	34	1.83
573063--573106	18	2.3	19	80	11	54	29	0	4	65	1.12
576291--576321	16	1.9	16	93	0	53	35	0	12	51	1.40
582503--582548	21	2.2	21	92	0	74	28	34	19	17	1.94
582670--582696	2	13.5	2	100	0	54	48	0	0	51	1.00
584739--584764	13	2.0	13	100	0	52	15	0	0	84	0.62
584867--584916	18	2.6	19	82	14	59	52	2	4	42	1.31
584891--584949	31	1.9	31	86	10	86	52	5	3	38	1.40
588078--588110	16	2.1	16	94	0	57	39	0	21	39	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593150--593184	18	1.9	18	94	0	61	40	14	11	34	1.82
597045--597276	122	1.9	123	93	0	403	52	9	2	35	1.47
602913--602938	13	2.0	13	100	0	52	30	23	7	38	1.83
602959--602998	14	2.8	15	88	7	57	35	27	7	30	1.84
615024--615449	47	9.1	47	94	0	755	43	13	9	34	1.76
615024--615449	187	2.3	188	97	0	809	43	13	9	34	1.76
620878--620933	25	2.3	24	82	11	69	44	10	19	25	1.83
621894--621922	2	14.5	2	100	0	58	48	0	0	51	1.00
625504--625560	25	2.3	25	96	0	105	57	3	7	31	1.42
626006--626161	41	3.8	41	74	15	126	27	16	23	32	1.96
626067--626199	40	3.3	40	77	10	171	30	17	23	29	1.97
626049--626198	81	1.9	81	98	0	282	28	16	23	31	1.96
634045--634132	21	4.2	21	82	2	79	43	14	39	2	1.58
634054--634093	12	3.6	12	74	19	50	47	12	40	0	1.41
634058--634130	21	3.4	22	82	14	82	42	16	38	2	1.63
634487--634719	43	5.4	43	78	2	164	32	24	18	24	1.97
634475--634693	86	2.6	85	77	2	206	31	23	20	24	1.98
637135--637190	25	2.3	24	82	11	69	44	10	19	25	1.83
637492--637518	13	2.1	13	100	0	54	77	7	0	14	0.97
638148--638174	2	13.5	2	100	0	54	48	0	0	51	1.00
640615--640656	22	1.9	22	90	0	66	64	9	0	26	1.24
641759--641815	25	2.3	25	93	0	96	57	1	7	33	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642207--642362	41	3.8	41	71	15	117	28	17	22	31	1.96
642250--642399	81	1.9	81	95	0	273	30	16	22	31	1.96
642213--642400	40	4.6	41	74	10	163	29	17	22	30	1.96
650308--650416	21	5.2	21	85	2	85	43	15	40	0	1.53
650317--650356	12	3.6	12	74	19	50	47	12	40	0	1.41
650321--650414	42	2.2	42	86	7	127	42	17	39	1	1.56
650797--650977	86	2.1	85	81	1	200	29	23	20	25	1.99
650771--651003	43	5.4	43	78	2	173	31	24	19	24	1.98
651672--651709	14	2.6	15	88	12	53	42	0	0	57	0.98
653412--653467	25	2.3	24	82	11	69	44	10	19	25	1.83
656879--656919	21	2.0	21	90	0	64	63	9	0	26	1.25
658022--658078	25	2.3	25	93	0	96	57	1	7	33	1.36
658267--658309	2	22.0	2	90	4	70	53	0	0	46	1.00
658548--658791	41	6.0	41	75	12	207	29	15	22	32	1.94
658609--658823	41	5.3	40	75	12	197	31	15	21	30	1.95
658554--658822	81	3.3	82	87	5	359	30	15	22	31	1.95
666695--666759	21	3.1	22	84	4	73	41	15	41	1	1.56
666708--666780	21	3.4	22	81	7	87	41	17	39	1	1.58
667114--667356	129	1.9	129	82	7	307	30	23	21	25	1.99
667156--667364	86	2.4	85	82	3	249	30	23	20	25	1.99
667114--667373	86	3.0	84	77	9	231	30	23	21	25	1.99
667129--667373	43	5.7	43	77	7	194	31	23	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
673995--674135	51	2.8	52	84	4	164	6	26	3	63	1.35
674025--674162	51	2.7	52	83	7	131	7	25	3	63	1.36
675940--676006	22	3.0	22	100	0	134	26	26	26	19	1.99
676226--676285	30	2.0	31	90	3	95	33	23	6	36	1.81
676300--676371	29	2.5	29	93	0	117	38	12	9	38	1.76
676674--676825	68	2.2	68	87	1	207	19	26	26	26	1.99
676805--676847	21	2.0	21	86	0	59	16	25	27	30	1.97
676675--676847	68	2.6	67	83	6	197	19	27	26	27	1.99
694767--694834	31	2.2	31	97	0	127	25	2	14	57	1.52
698723--698772	11	4.1	12	77	17	50	58	0	0	42	0.98
698712--698779	6	9.0	8	71	26	51	60	0	0	39	0.97
698917--698994	33	2.4	34	80	6	97	33	11	14	41	1.81
699050--699113	24	2.8	24	80	15	64	71	0	0	28	0.86
699074--699113	14	2.9	14	82	17	57	70	0	0	30	0.88
699454--699703	83	3.1	81	82	7	250	25	20	24	30	1.99
699713--699768	29	1.9	29	88	0	85	33	12	17	35	1.88
699770--699976	37	5.8	36	82	9	219	38	13	21	27	1.90
701194--701300	32	3.3	32	81	3	126	37	22	10	29	1.87
702211--702348	69	2.0	69	88	2	206	26	13	21	38	1.91
702421--702473	27	2.0	27	88	3	81	5	11	3	79	1.03
702409--702484	38	2.0	38	82	7	91	3	13	2	80	0.96
702459--702489	11	2.8	11	95	0	53	0	16	3	80	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
702404--702484	12	6.6	12	72	18	60	3	14	2	79	0.98
705374--705428	24	2.2	25	81	9	69	61	0	0	38	0.96
705566--705641	33	2.3	33	90	4	118	27	13	22	36	1.91
705701--705760	31	1.9	31	86	6	86	71	0	0	28	0.86
705904--705939	2	18.5	2	88	5	56	52	0	0	47	1.00
709369--709482	57	2.0	57	96	0	210	26	24	15	33	1.95
710139--710198	29	2.1	29	90	0	93	35	5	13	46	1.65
713255--713476	111	2.0	111	96	0	408	45	10	7	36	1.68
713538--713578	18	2.3	18	91	4	66	63	2	4	29	1.28
713618--713658	10	4.1	10	84	12	57	39	0	29	31	1.57

Tables:   1   2   3   4