genome.fa.s8689.2.7.7.80.10.50.1000.3.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: VEPZ01008689.1 Hibiscus syriacus cultivar Beakdansim tig00111715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  959342

Tables:   1   2   3   4   

This is table  3  of  4  ( 476 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)
535699--535881	30	6.1	30	92	0	278	30	25	21	22	1.99
535876--535965	32	2.8	32	80	8	112	32	18	17	31	1.95
537160--537201	21	2.0	21	85	0	57	16	21	28	33	1.95
539125--539307	30	6.1	30	95	0	314	30	25	22	22	1.99
539296--539393	31	3.2	30	75	13	108	33	18	18	29	1.95
539299--539394	32	3.0	32	76	13	117	35	18	16	29	1.93
540591--540635	21	2.1	21	87	0	63	15	24	28	31	1.96
541377--541435	12	5.6	12	70	29	62	25	18	30	25	1.98
541369--541444	20	3.8	20	98	0	143	23	19	31	25	1.98
543950--544288	59	5.8	59	90	3	488	35	10	23	29	1.89
543949--544390	59	7.5	58	82	5	451	37	11	23	28	1.89
544371--544417	20	2.3	20	96	0	85	46	8	19	25	1.77
544612--544887	44	6.3	44	93	1	428	40	5	20	33	1.76
545291--545351	21	2.9	21	92	0	95	26	16	26	31	1.96
545437--545496	2	30.0	2	100	0	120	50	0	0	50	1.00
547027--547119	21	4.6	20	78	4	96	38	18	24	18	1.92
547024--547119	41	2.3	41	98	0	183	39	17	23	18	1.92
547027--547119	20	4.6	20	78	4	96	38	18	24	18	1.92
547108--547201	20	4.7	20	77	2	80	35	24	17	23	1.95
547105--547182	41	1.9	41	83	0	102	41	21	15	21	1.90
547755--547799	19	2.4	19	92	0	72	48	26	15	8	1.74
547795--547979	19	10.1	19	76	14	165	12	22	21	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547795--547884	39	2.3	38	94	1	153	12	20	22	45	1.83
547867--547954	33	2.6	33	89	1	131	12	25	23	38	1.90
547922--547979	20	2.9	20	80	10	64	13	24	18	43	1.87
549973--550095	42	2.9	42	80	2	122	22	36	17	22	1.95
550029--550095	21	3.2	21	66	6	55	23	35	20	19	1.95
551452--551487	14	2.6	14	95	0	63	30	0	25	44	1.54
551666--551783	19	6.7	19	65	19	67	14	23	19	42	1.88
551670--551763	33	2.8	33	96	0	170	13	24	18	43	1.86
554058--554094	12	3.1	12	100	0	74	0	27	0	72	0.84
555414--555457	19	2.3	19	100	0	88	45	22	20	11	1.83
555457--555529	14	4.5	15	74	22	60	13	20	19	46	1.83
555453--555519	18	3.8	19	83	16	92	13	22	17	46	1.83
555641--555677	14	2.6	14	86	0	56	48	21	0	29	1.50
557597--557654	14	3.9	14	79	16	62	48	24	17	10	1.78
557581--557671	32	2.8	33	93	3	157	47	21	18	12	1.81
557523--557676	19	8.6	19	74	17	123	42	23	20	13	1.87
557688--557777	14	5.9	14	72	19	72	8	18	24	47	1.77
557683--557793	32	3.4	32	93	1	186	9	19	23	46	1.80
557778--557832	20	2.8	19	83	8	65	16	23	23	36	1.94
558305--558349	18	2.5	18	85	0	63	15	15	42	26	1.87
560159--560273	20	5.7	20	76	5	79	23	16	23	36	1.94
560262--560337	21	3.7	21	78	3	91	17	25	18	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560262--560357	41	2.3	41	96	0	138	18	22	17	40	1.91
560281--560347	20	3.3	20	79	4	89	17	23	17	40	1.91
571439--571485	15	2.9	16	79	17	53	19	12	0	68	1.21
571483--571520	12	3.2	12	85	3	51	26	5	0	68	1.11
573506--573569	25	2.6	24	80	7	74	7	17	1	73	1.14
574261--574289	5	5.8	5	100	0	58	17	0	0	82	0.66
588345--588463	57	2.1	57	88	0	175	30	1	35	32	1.68
590532--590566	18	1.9	18	88	0	52	14	57	0	28	1.38
592210--593823	402	4.0	402	97	0	2989	28	13	21	35	1.92
605959--605998	6	6.7	6	94	0	71	0	80	0	20	0.72
606918--606946	3	9.7	3	100	0	58	68	0	0	31	0.89
610293--610372	30	2.7	30	98	0	151	21	12	36	30	1.90
610509--610547	21	1.9	21	84	5	53	53	10	2	33	1.48
611114--611157	16	2.8	16	73	13	54	15	11	22	50	1.76
617138--617276	40	3.3	40	66	24	106	23	26	19	30	1.98
617108--617282	86	2.0	86	97	0	332	26	25	18	28	1.98
617257--617361	21	5.1	21	66	4	79	17	21	24	36	1.95
617261--617361	41	2.5	41	95	0	175	17	22	23	35	1.95
617286--617358	20	3.6	20	70	3	65	13	26	23	36	1.92
617491--617546	5	10.3	6	94	5	70	32	50	17	0	1.47
618034--618075	5	8.6	5	97	2	77	0	40	21	38	1.53
618072--618144	6	12.2	6	95	0	92	4	16	41	38	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
620527--620639	35	3.2	35	86	5	156	34	0	22	42	1.60
621029--621376	112	3.1	112	90	2	536	32	11	12	44	1.77
621786--622050	112	2.4	112	94	0	458	32	10	11	44	1.76
620853--622467	674	2.4	677	91	3	2598	38	9	9	42	1.70
622031--622076	20	2.2	22	84	7	60	36	10	10	41	1.75
628842--629128	143	2.0	143	98	0	556	33	18	20	27	1.96
630449--630490	13	3.0	14	80	13	50	14	2	4	78	1.01
631637--631682	13	3.0	15	82	17	51	80	0	17	2	0.81
631645--631683	14	2.6	14	84	8	51	84	0	15	0	0.62
647378--647440	2	31.5	2	100	0	126	49	0	0	50	1.00
648159--648197	13	3.2	12	82	10	53	61	0	0	38	0.96
648168--648201	16	2.1	17	94	5	61	67	0	0	32	0.91
648242--648269	2	14.0	2	100	0	56	50	0	0	50	1.00
650094--650160	18	3.4	21	72	14	70	43	13	20	22	1.87
650087--650335	37	6.9	39	69	14	130	39	14	19	26	1.90
650178--650489	37	8.8	37	73	11	285	38	13	20	28	1.90
650052--650335	103	2.7	103	79	9	306	38	13	19	27	1.90
650180--650489	73	4.4	73	81	10	293	38	13	20	28	1.90
650077--650489	175	2.4	172	91	2	648	38	13	19	28	1.90
654395--654435	5	7.8	5	84	10	55	80	0	4	14	0.87
656510--656562	21	2.7	19	83	13	63	66	1	0	32	1.03
656525--656558	16	2.1	17	94	5	61	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
658831--658915	36	2.4	36	90	5	129	45	8	3	42	1.51
658728--658995	145	1.8	145	99	0	527	45	6	5	42	1.54
659573--659637	29	2.2	30	89	8	98	46	12	3	38	1.57
659749--659786	19	2.0	20	89	5	60	34	0	18	47	1.49
659832--659868	2	18.5	2	100	0	74	51	0	0	48	1.00
663656--663703	18	2.7	17	72	12	51	35	2	2	60	1.20
666234--666280	24	2.0	24	83	8	60	44	0	19	36	1.51
667901--667930	2	15.0	2	100	0	60	50	0	0	50	1.00
668752--668811	29	2.1	29	100	0	120	23	13	13	50	1.77
673434--673493	29	2.1	29	100	0	120	23	13	13	50	1.77
677531--677914	193	2.0	192	96	3	711	31	15	16	36	1.90
678935--679009	31	2.4	31	80	4	80	53	5	2	38	1.38
682121--682158	19	2.1	19	95	5	69	47	0	15	36	1.46
683946--684473	42	12.9	42	73	9	315	30	20	17	31	1.96
684078--684226	40	3.7	39	77	8	129	32	18	17	32	1.94
684049--684225	80	2.2	81	83	8	209	32	20	15	30	1.94
683915--684395	245	2.0	247	83	2	619	31	19	18	30	1.96
683946--684474	124	4.3	124	77	6	491	30	20	17	31	1.96
685586--685631	20	2.3	20	100	0	92	36	15	15	32	1.88
687667--687725	21	2.8	21	86	0	73	18	3	20	57	1.54
687894--688105	43	5.0	43	84	5	243	30	22	21	25	1.98
692571--692618	22	2.2	22	100	0	96	29	27	10	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
694446--694707	90	2.9	90	82	1	319	27	29	17	25	1.97
694446--694707	45	5.8	45	77	9	221	27	29	17	25	1.97
697737--697788	21	2.5	20	75	6	59	17	26	36	19	1.94
706401--706465	28	2.3	28	80	17	73	72	4	4	18	1.20
707670--707835	39	4.4	37	80	9	176	44	4	4	46	1.44
707802--707878	25	3.0	25	72	7	73	46	5	2	45	1.39
707711--707945	126	1.9	127	95	2	429	43	6	5	44	1.51
707821--707850	15	1.9	16	93	6	53	53	6	0	40	1.27
707690--707836	35	3.9	37	81	11	167	44	5	4	45	1.45
707855--707945	38	2.4	38	80	5	96	43	7	4	43	1.53

Tables:   1   2   3   4