genome.fa.s8143.2.7.7.80.10.50.1000.2.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: VEPZ01008143.1 Hibiscus syriacus cultivar Beakdansim tig00110705_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1142845

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 495 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)
482510--482550	21	2.0	21	85	0	55	21	0	26	51	1.48
482427--483194	332	2.3	332	92	0	1252	34	12	12	41	1.80
483182--483235	14	3.9	14	82	0	63	24	0	24	51	1.48
483170--483214	21	2.1	21	87	0	63	26	0	20	53	1.46
483175--483242	7	9.7	7	74	6	57	22	0	26	51	1.48
483714--483770	7	8.1	7	74	0	51	19	0	35	45	1.50
484195--484235	19	2.1	20	95	4	75	24	31	0	43	1.54
484513--484547	17	2.1	16	89	5	52	42	2	0	54	1.15
488459--488499	17	2.4	17	95	0	73	36	4	53	4	1.44
504150--504176	6	4.5	6	100	0	54	66	0	18	14	1.25
504394--504551	21	7.8	20	72	7	86	38	25	17	18	1.92
504518--504711	20	9.6	20	81	5	212	35	25	19	19	1.95
504518--504711	60	3.2	60	82	0	244	35	25	19	19	1.95
505094--505164	33	2.2	33	89	0	106	12	21	18	47	1.81
505302--505385	41	2.1	41	88	2	125	10	25	16	47	1.79
505301--505383	20	4.2	20	81	6	114	12	24	16	46	1.81
507084--507549	93	5.1	93	97	1	895	22	12	19	45	1.83
507597--507695	19	5.4	19	78	12	109	45	28	17	9	1.78
507633--507716	33	2.6	32	90	5	132	45	28	19	7	1.76
509414--509514	19	5.5	19	85	12	149	44	17	22	14	1.86
509506--509628	14	7.0	18	75	20	73	14	24	17	43	1.86
509531--509689	67	2.4	67	89	4	234	13	21	20	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509531--509670	33	4.2	33	90	6	230	12	22	19	45	1.84
512156--512210	24	2.3	24	83	0	65	38	20	14	27	1.91
512871--513100	20	11.5	20	85	1	237	19	18	24	36	1.94
513087--513169	21	4.0	21	75	6	78	25	15	24	34	1.95
513067--513165	42	2.4	43	77	11	100	21	17	23	38	1.93
514474--514499	13	2.0	13	100	0	52	23	46	23	7	1.78
517629--517666	13	2.8	14	92	4	60	10	0	39	50	1.37
517626--517663	20	1.9	20	88	0	58	10	0	39	50	1.37
517813--517867	25	2.2	26	83	9	69	47	3	3	45	1.38
518658--518702	23	2.0	23	90	0	72	24	26	26	22	2.00
518670--519135	149	3.1	149	96	1	862	34	20	15	28	1.94
520600--520644	21	2.1	21	87	0	63	15	24	28	31	1.96
523876--523920	23	2.0	23	90	0	72	24	26	26	22	2.00
523888--524202	149	2.1	149	95	1	578	34	20	16	27	1.95
524582--524612	2	15.0	2	93	6	53	48	3	0	48	1.17
525657--525701	21	2.1	21	83	0	54	15	22	28	33	1.95
528069--528094	13	2.0	13	100	0	52	30	7	7	53	1.57
528682--528712	15	2.1	15	94	5	55	64	0	25	9	1.24
528792--528836	21	2.2	20	88	4	63	31	0	24	44	1.54
529054--529088	17	2.1	17	88	0	52	62	0	0	37	0.95
529307--529371	31	2.1	31	85	5	87	47	16	15	20	1.82
535442--535489	2	24.0	2	100	0	96	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548587--548615	15	1.9	15	100	0	58	48	0	3	48	1.18
549927--549964	20	1.9	20	88	0	58	21	26	10	42	1.85
551935--551974	20	1.9	22	90	10	66	37	0	7	55	1.29
552031--552091	28	2.2	29	82	8	74	45	0	1	52	1.10
552717--552986	136	2.0	134	98	1	522	30	22	7	39	1.81
557553--557615	21	3.0	21	88	4	90	26	25	23	23	2.00
557552--557623	22	3.3	22	86	3	101	27	23	20	27	1.99
560047--560084	20	1.9	20	94	0	67	34	23	21	21	1.97
560906--560941	18	2.0	18	100	0	72	16	22	33	27	1.95
564805--564857	25	2.2	24	89	3	79	45	3	1	49	1.31
564815--564867	25	2.1	25	85	0	70	50	3	3	41	1.38
577074--577117	18	2.4	19	77	11	56	50	0	0	50	1.00
579010--579049	17	2.4	17	87	8	55	57	2	0	40	1.12
583370--583416	15	3.1	15	90	0	76	34	23	8	34	1.85
584850--584905	22	2.5	21	75	16	51	30	8	1	58	1.39
584998--585034	18	2.1	18	90	5	58	62	0	2	35	1.10
585020--585044	13	1.9	13	100	0	50	76	0	0	24	0.80
585281--585374	20	4.7	20	80	2	116	37	19	20	23	1.94
585571--585629	18	2.9	21	70	17	61	27	37	15	20	1.92
585966--586053	20	4.4	20	86	1	97	14	17	22	45	1.85
586018--586061	20	2.2	20	87	0	61	13	13	20	52	1.74
587844--587967	20	6.5	20	84	10	179	40	20	20	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587867--587988	34	3.4	34	82	12	163	41	20	21	16	1.90
587844--587988	74	2.0	74	95	0	263	41	20	20	17	1.90
588014--588078	20	3.2	20	95	0	112	21	20	21	36	1.95
587995--588130	33	3.9	33	72	13	92	16	20	20	42	1.89
588613--588654	21	2.2	19	87	12	59	21	35	19	23	1.96
590074--590109	14	2.6	14	90	0	54	30	0	22	47	1.52
590294--590377	33	2.5	33	86	1	105	16	20	17	45	1.86
590360--590454	20	4.8	20	89	3	147	21	22	24	32	1.98
592866--592919	24	2.2	24	90	0	81	40	20	16	22	1.91
593931--594024	31	3.0	31	92	3	145	37	23	19	20	1.94
594614--594668	19	2.9	19	100	0	110	25	36	27	10	1.89
595354--595380	8	3.4	8	100	0	54	48	11	0	40	1.39
596578--596658	22	3.6	22	94	1	135	25	29	25	18	1.98
596592--596654	10	5.5	13	65	27	52	26	26	26	19	1.99
596958--597029	29	2.5	29	93	0	117	38	12	9	38	1.76
597462--597504	21	2.0	21	86	0	59	16	25	27	30	1.97
597333--597482	67	2.2	67	90	2	230	18	26	27	28	1.98
603548--603628	22	3.6	22	93	1	135	24	28	27	19	1.99
603930--604001	29	2.5	29	93	0	117	38	12	9	38	1.76
604433--604475	21	2.0	21	86	0	59	16	25	27	30	1.97
604312--604453	67	2.1	67	90	2	223	17	27	26	28	1.98
607589--607713	31	4.0	31	94	2	207	37	23	19	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609835--609981	20	7.3	19	83	6	141	23	19	19	37	1.94
609835--609981	40	3.7	40	85	2	179	23	19	19	37	1.94
616635--616680	22	2.1	21	88	4	65	21	6	13	58	1.57
616993--617018	2	13.0	2	100	0	52	50	0	0	50	1.00
623757--623784	2	14.0	2	100	0	56	0	0	50	50	1.00
625991--626106	58	2.0	57	93	5	198	40	6	12	41	1.67
628762--628816	24	2.3	24	82	14	62	45	1	1	50	1.22
629043--629081	14	2.8	14	88	0	60	35	2	2	58	1.25
634972--635017	24	1.9	24	90	0	74	45	19	4	30	1.70
639607--639975	20	18.5	20	85	4	458	34	26	18	20	1.96
640649--640695	24	2.0	24	87	8	69	25	14	21	38	1.92
640870--640894	12	2.1	12	100	0	50	72	0	28	0	0.86
643251--643305	14	3.6	14	73	21	56	45	20	23	10	1.82
643198--643501	33	8.8	33	77	14	276	47	19	19	13	1.83
643265--643605	52	6.5	52	78	13	278	47	19	19	14	1.83
643231--643550	177	1.8	177	91	4	538	46	18	20	13	1.83
643491--643613	33	3.6	33	83	9	149	47	17	19	15	1.83
643179--643605	210	2.0	210	95	2	761	47	19	19	13	1.83
643229--643629	19	22.8	19	73	18	217	46	18	19	14	1.84
643620--643702	20	4.6	19	81	15	113	14	24	18	43	1.87
643785--644294	93	5.5	93	99	0	1006	46	19	13	21	1.84
643785--644294	185	2.8	186	99	0	1006	46	19	13	21	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
643785--644294	278	1.8	278	100	0	1020	46	19	13	21	1.84
645999--646088	14	5.7	14	74	23	81	42	23	25	8	1.83
645991--646105	33	3.5	33	95	0	212	45	20	24	9	1.81
645998--646110	19	6.8	18	72	23	88	43	22	24	9	1.83
646122--646176	14	3.6	14	73	21	56	9	27	23	40	1.85
646297--646367	33	2.2	33	92	0	115	47	18	22	11	1.80
646548--646602	22	2.5	22	81	0	74	20	16	40	23	1.91
646748--646941	20	9.6	20	82	5	221	19	19	25	35	1.95
646748--646941	60	3.2	60	83	0	253	19	19	25	35	1.95
646934--647010	21	3.7	20	70	13	57	27	16	23	32	1.96

Tables:   1   2   3   4   5