genome.fa.s8236.2.7.7.80.10.50.1000.3.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: VEPZ01008236.1 Hibiscus syriacus cultivar Beakdansim tig00110882_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1100419

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 612 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)
474765--474840	39	1.9	39	89	0	116	28	18	17	35	1.93
474768--474874	37	2.8	38	84	2	126	28	19	16	35	1.94
474973--475044	36	2.0	36	91	0	117	25	20	13	40	1.90
475011--475306	129	2.3	130	89	4	436	29	17	13	39	1.88
475235--475306	38	1.9	37	86	8	101	20	19	15	44	1.86
476780--476859	37	2.1	38	84	9	101	25	5	2	67	1.23
477274--477466	98	2.0	98	88	0	287	33	12	17	36	1.88
477484--477522	10	3.9	10	82	0	51	5	2	53	38	1.37
478180--478310	2	70.0	2	76	13	118	47	0	0	52	1.00
478377--478448	35	2.0	35	86	7	101	22	37	9	30	1.86
481655--481679	2	12.5	2	100	0	50	48	0	0	52	1.00
486102--486169	27	2.6	27	90	4	113	41	17	11	29	1.85
486188--486212	12	2.1	12	100	0	50	44	8	32	16	1.76
489769--489836	27	2.6	27	93	4	113	42	16	10	30	1.81
494982--495076	31	3.0	31	84	6	111	30	10	21	37	1.87
495388--495445	23	2.6	22	71	10	55	55	0	1	43	1.10
495389--495452	30	2.1	30	83	11	78	51	0	1	46	1.10
495550--496039	201	2.5	199	83	6	607	39	13	16	31	1.86
496034--496195	87	1.9	87	92	0	270	33	13	10	41	1.79
496118--496162	23	2.0	23	90	0	72	35	20	11	33	1.88
503115--503153	20	2.0	19	85	5	51	46	5	5	43	1.48
505466--505518	22	2.4	23	87	9	83	28	22	26	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
506142--506172	4	7.8	4	100	0	62	48	25	0	25	1.52
509818--509845	2	14.0	2	100	0	56	50	0	0	50	1.00
509818--510099	144	1.9	147	87	3	410	43	6	9	40	1.62
517734--517789	21	2.7	21	83	8	62	50	0	3	46	1.19
517747--517789	19	2.2	20	87	8	61	55	0	0	44	0.99
517758--517798	19	2.0	21	86	13	59	56	0	0	43	0.99
521221--521245	9	2.8	9	100	0	50	44	8	0	48	1.32
522517--522554	2	19.0	2	100	0	76	50	0	0	50	1.00
524180--524231	23	2.3	22	76	3	59	48	7	3	40	1.50
531173--531218	20	2.3	20	92	0	74	30	4	13	52	1.59
531181--531223	20	2.2	20	91	0	68	30	6	13	48	1.69
531187--531311	20	6.1	20	75	13	83	24	11	13	50	1.74
531213--531311	21	4.7	21	80	8	103	24	12	14	49	1.77
531202--531311	43	2.6	41	80	7	123	24	11	13	50	1.75
537175--537221	19	2.5	19	100	0	94	25	21	31	21	1.98
537255--537312	20	2.9	20	92	0	98	18	15	34	31	1.93
537611--537651	13	3.2	13	93	3	66	43	9	14	31	1.78
545895--545944	26	1.9	26	95	0	91	32	18	22	28	1.97
549363--549445	38	2.2	38	80	0	103	43	13	19	24	1.86
555248--555305	22	2.6	22	75	8	55	20	6	17	55	1.65
557113--557190	38	2.1	38	100	0	156	33	17	21	26	1.96
559766--559905	70	2.0	70	91	2	228	37	11	22	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562011--562052	2	21.0	2	100	0	84	50	0	0	50	1.00
562766--562797	2	16.0	2	100	0	64	50	0	0	50	1.00
565684--565741	29	2.0	29	93	0	98	22	27	29	20	1.99
565752--565826	35	2.1	35	100	0	150	26	34	18	20	1.95
565804--565848	22	2.0	22	100	0	90	26	42	13	17	1.86
565769--565883	57	2.0	57	100	0	230	26	37	17	19	1.93
565826--566020	35	5.8	35	75	15	189	25	32	23	17	1.97
566007--566062	26	2.2	26	100	0	112	19	37	25	17	1.94
566085--566164	29	2.8	29	92	3	126	15	31	32	21	1.94
566227--566258	13	2.5	13	94	0	55	18	46	3	31	1.65
566412--566463	25	2.1	25	92	0	86	28	9	32	28	1.89
566525--566586	4	15.5	4	77	9	56	64	0	35	0	0.94
566526--566578	21	2.5	21	100	0	106	64	0	35	0	0.94
566781--566869	44	2.0	46	86	8	130	40	0	12	47	1.41
566740--566869	44	3.0	43	80	15	128	40	0	12	47	1.41
569239--569305	24	3.0	22	74	18	75	46	7	4	41	1.52
569460--569875	26	16.7	26	73	11	316	43	10	2	43	1.53
569460--569933	124	3.8	124	97	0	894	43	10	2	43	1.52
569535--569878	150	2.3	145	83	10	403	42	10	2	44	1.53
572748--572806	26	2.3	24	78	16	64	40	3	8	47	1.51
573601--573850	28	8.2	28	67	24	125	54	11	0	32	1.42
573640--573778	21	6.2	21	71	22	97	55	13	1	29	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573623--573777	71	2.2	71	98	0	301	55	12	1	30	1.46
573805--573885	8	10.4	8	68	24	57	58	12	0	29	1.35
573806--573885	34	2.3	36	91	4	128	58	12	0	28	1.34
573711--573910	21	9.4	21	73	18	121	54	12	0	33	1.42
574203--574273	36	2.0	36	100	0	142	28	22	26	22	1.99
574396--574524	15	8.1	15	72	16	107	17	52	7	21	1.69
574369--574532	48	3.3	48	75	12	136	17	51	8	21	1.72
576984--577017	17	2.0	17	88	0	50	26	17	0	55	1.42
578169--578235	14	4.4	14	81	17	80	19	37	28	14	1.91
578164--578227	19	3.6	19	78	20	84	17	37	29	15	1.91
578164--578235	33	2.2	33	97	0	135	18	37	29	15	1.91
578972--579039	29	2.3	29	100	0	136	19	38	29	13	1.89
579283--579324	2	21.0	2	100	0	84	50	0	0	50	1.00
579543--579572	15	2.0	15	100	0	60	40	26	6	26	1.81
579861--579961	37	2.7	37	85	0	121	40	10	13	34	1.80
580401--580438	2	19.0	2	100	0	76	50	0	0	50	1.00
580537--580644	22	4.9	23	72	21	88	27	5	0	65	1.21
580663--580703	11	3.6	11	87	6	55	24	4	4	65	1.32
580822--580856	11	3.3	11	92	8	63	20	8	0	71	1.11
580820--580853	10	3.3	10	92	8	59	20	8	0	70	1.13
581209--581251	2	21.5	2	100	0	86	48	0	0	51	1.00
581268--581338	17	4.0	17	77	14	63	19	2	1	76	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581281--581347	23	2.7	25	73	17	59	17	5	1	74	1.09
581272--581338	35	1.9	35	81	6	82	19	2	1	76	1.00
582482--582519	19	2.0	20	89	5	60	7	23	0	68	1.16
585921--585968	19	2.6	17	75	15	51	85	6	8	0	0.74
585919--585982	26	2.5	24	78	14	67	81	7	9	1	0.94
586581--586657	22	3.5	22	85	0	109	38	27	12	20	1.89
587493--587531	16	2.4	17	87	8	55	25	2	0	71	0.98
589255--590147	399	2.2	399	80	3	956	29	21	19	30	1.97
589002--590151	201	5.7	200	79	4	1073	28	21	19	30	1.98
590602--590680	33	2.4	33	82	0	86	27	25	17	29	1.98
590770--590848	33	2.4	33	84	0	95	26	25	17	30	1.97
590576--591079	168	3.0	168	94	0	875	24	26	20	28	1.99
590791--590885	33	2.9	33	80	4	93	26	24	16	32	1.96
591080--591159	33	2.4	33	83	6	99	27	30	12	30	1.93
602456--602531	23	3.2	22	76	16	64	27	5	1	65	1.22
602516--602562	2	24.0	2	85	12	62	44	4	0	51	1.21
602592--602681	41	2.3	40	82	5	103	26	5	3	64	1.31
602697--602734	13	3.1	13	85	11	53	15	7	0	76	1.01
602835--602878	18	2.4	17	82	14	52	15	6	0	77	0.97
602937--602968	3	10.7	3	93	0	55	28	0	0	71	0.86
603737--603783	20	2.3	20	92	0	76	34	23	17	25	1.96
603999--604036	16	2.5	15	84	12	51	28	5	0	65	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604730--604789	24	2.5	24	83	0	84	25	18	18	38	1.93
607054--607094	18	2.3	18	91	0	64	56	21	2	19	1.54
607465--607513	20	2.5	20	82	0	71	16	18	22	42	1.88
607934--607970	18	2.1	18	89	0	56	32	5	10	51	1.60
607926--607978	24	2.2	24	86	0	70	35	3	13	47	1.61
608282--608368	39	2.2	39	95	0	156	48	20	13	17	1.81
608607--608644	20	1.9	20	94	0	67	13	15	26	44	1.83
608753--608806	28	1.9	28	84	0	72	48	22	0	29	1.51
608770--608806	14	2.6	14	95	0	65	48	24	0	27	1.51
610204--610302	21	4.7	21	73	13	87	22	20	33	24	1.97

Tables:   1   2   3   4   5   6