genome.fa.s422.2.7.7.80.10.50.1000.3.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: VEPZ01000422.1 Hibiscus syriacus cultivar Beakdansim tig00000773_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2457469

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1325 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)
443690--443795	45	2.3	45	82	4	124	29	20	20	29	1.98
452736--452804	23	3.0	23	85	6	86	20	26	24	28	1.99
455304--455352	19	2.7	17	84	9	53	26	20	28	24	1.99
455300--455483	65	2.8	64	78	7	194	27	18	23	30	1.97
455324--455531	65	3.2	64	80	7	197	26	17	24	32	1.97
457060--457134	30	2.5	30	83	10	100	37	10	10	41	1.75
459562--459658	43	2.2	44	85	7	135	42	1	4	52	1.27
459738--459777	21	1.9	21	89	0	62	42	2	15	40	1.60
469464--469814	176	2.0	176	90	0	558	23	19	28	29	1.98
478956--478996	5	7.8	5	84	10	55	2	19	56	21	1.54
478949--478996	17	2.9	17	84	6	64	6	20	52	20	1.68
479009--479056	10	4.8	10	80	10	62	37	29	20	12	1.90
478999--479043	19	2.3	19	88	3	63	33	31	22	13	1.92
478993--479063	10	7.3	9	76	14	52	30	28	26	14	1.95
480145--480173	2	14.5	2	100	0	58	48	0	0	51	1.00
485464--485552	39	2.3	39	94	0	151	44	32	2	20	1.64
491120--491146	13	2.1	13	100	0	54	74	0	0	25	0.83
497111--497162	22	2.4	22	74	3	52	61	0	1	36	1.07
498989--499022	17	2.0	17	94	0	59	32	11	32	23	1.91
503551--503593	11	3.9	11	82	11	52	58	0	0	41	0.98
503915--503978	34	1.9	33	84	12	87	23	15	18	42	1.89
503874--504093	118	1.9	115	83	12	288	29	16	17	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505612--505926	157	2.0	157	96	3	582	22	23	21	31	1.98
506845--506900	26	2.1	28	80	12	73	42	5	10	41	1.62
506847--506900	27	2.1	25	86	6	72	44	5	9	40	1.60
513184--513337	65	2.4	64	86	3	202	30	18	20	30	1.96
513866--514112	20	12.4	20	88	0	341	32	21	19	26	1.97
513850--513936	40	2.2	40	78	0	93	36	24	16	22	1.94
522723--522783	28	2.2	28	81	0	68	21	4	37	36	1.75
530645--530689	17	2.6	17	92	0	72	35	28	17	17	1.93
531272--531322	20	2.5	21	90	3	77	47	1	0	50	1.12
531277--531339	33	1.9	33	83	6	83	46	3	0	50	1.17
531335--531453	38	3.1	38	95	3	204	51	4	9	35	1.53
532083--532185	50	2.1	49	87	5	152	55	0	4	38	1.28
532109--532193	22	3.3	27	74	15	83	55	1	2	41	1.20
533772--533824	21	2.5	21	96	0	97	32	24	22	20	1.98
548443--548487	19	2.4	19	88	3	65	40	8	15	35	1.79
548519--548559	21	2.0	21	100	0	82	24	26	24	24	2.00
549258--549318	22	2.8	22	89	0	95	26	26	19	27	1.99
553552--553615	11	6.4	11	70	17	50	54	4	0	40	1.21
563003--563035	17	1.9	17	93	0	57	12	24	30	33	1.91
563021--563063	21	2.0	21	82	8	52	18	20	23	37	1.94
565056--565164	48	2.3	49	83	3	134	20	11	16	52	1.73
565092--565164	24	3.0	24	81	0	92	20	6	16	56	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565482--565537	28	1.9	28	85	7	76	55	3	1	39	1.28
565512--565586	20	3.7	20	77	16	82	53	1	8	37	1.39
565527--565587	14	4.4	14	76	17	56	54	1	8	36	1.40
565557--565596	8	5.2	8	85	11	57	57	0	10	32	1.32
565509--565596	22	4.2	22	77	15	78	55	1	7	35	1.36
565591--566218	20	30.7	20	68	17	158	46	4	5	43	1.46
565629--565717	11	8.5	11	69	18	64	46	2	4	47	1.35
565670--565728	11	5.7	11	75	11	54	47	0	5	47	1.24
565802--565919	7	18.3	6	70	18	53	55	2	5	35	1.38
565804--565884	26	3.3	23	73	14	65	56	2	3	37	1.30
565891--565930	8	5.2	8	85	11	57	57	0	10	32	1.32
565874--565930	22	2.6	22	86	5	71	56	1	8	33	1.41
565942--566135	11	18.4	11	67	17	81	45	5	3	44	1.44
566008--566356	22	16.7	22	67	20	121	46	4	4	44	1.44
566036--566219	61	3.0	61	79	8	187	45	4	4	44	1.46
565478--566174	334	2.0	332	86	8	949	48	4	5	41	1.46
565965--566239	11	26.4	11	67	18	88	46	4	4	44	1.45
566036--566215	63	2.9	63	81	4	206	45	5	5	44	1.47
566185--566314	11	12.8	10	65	25	51	45	2	3	49	1.30
566200--566285	45	1.9	45	83	4	111	44	3	1	51	1.26
566246--566313	28	2.4	29	85	7	86	42	1	4	51	1.31
566570--566596	13	2.1	13	100	0	54	22	25	14	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566615--566644	14	2.1	15	93	6	53	43	20	10	26	1.83
570941--572289	2	676.5	2	63	23	232	41	5	3	48	1.45
570816--571197	170	2.3	169	85	10	489	54	2	6	36	1.38
571725--572035	45	7.2	45	69	25	155	38	8	1	51	1.43
571507--572017	59	8.7	59	70	22	118	37	7	2	52	1.43
571863--572199	129	2.5	131	76	15	311	40	5	3	49	1.44
571944--572345	149	2.6	153	89	6	588	40	4	4	50	1.46
572633--572688	26	2.2	25	90	3	85	50	1	8	39	1.44
572643--572686	19	2.2	19	88	8	61	47	2	9	40	1.48
573040--573085	24	1.9	24	86	8	67	36	13	0	50	1.41
573190--573231	2	21.0	2	100	0	84	50	0	0	50	1.00
573245--573292	20	2.5	20	77	16	55	41	12	2	43	1.54
572509--573759	540	2.3	534	89	4	1878	34	11	6	47	1.66
573580--573625	24	1.9	24	86	8	67	34	10	2	52	1.49
573748--573918	22	7.9	21	75	17	97	52	1	9	35	1.45
573763--573919	14	10.9	14	70	21	71	52	1	10	35	1.46
573803--573918	8	16.0	7	72	23	73	54	2	8	34	1.45
573801--573919	52	2.3	49	84	9	143	53	2	8	35	1.45
572509--573946	540	2.7	540	83	7	1341	36	10	7	46	1.65
574651--574736	39	2.2	39	85	4	111	31	23	19	25	1.98
577806--577839	16	2.1	17	88	5	52	41	17	2	38	1.65
578491--578556	22	3.0	21	81	16	87	27	28	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578491--578558	24	2.9	24	87	10	97	26	27	19	26	1.99
581294--581347	21	2.6	21	82	2	74	33	25	18	22	1.97
584962--584999	17	2.2	17	100	0	76	55	0	34	10	1.34
596680--596723	22	2.0	22	100	0	88	31	22	4	40	1.74
600899--601332	144	3.0	144	99	0	861	43	15	18	22	1.87
600899--601333	143	3.0	143	99	0	854	43	15	18	22	1.87
615387--615658	55	5.0	55	86	1	341	27	24	14	33	1.94
615524--616620	55	20.3	53	81	7	1051	23	25	17	33	1.96
615629--616618	324	3.1	323	89	4	1430	23	25	17	33	1.96
619280--619330	21	2.4	22	78	15	63	11	15	0	72	1.12
619323--619362	17	2.4	17	87	8	55	0	25	0	75	0.81
619286--619362	12	6.5	11	72	20	57	6	20	0	72	1.06
619325--619382	25	2.5	23	78	13	64	3	27	0	68	1.05
621943--622059	21	5.6	21	90	2	164	12	23	20	42	1.87
627420--627581	65	2.5	65	85	1	218	30	26	15	27	1.96
634841--634884	21	2.1	21	86	0	61	9	36	15	38	1.80
635632--635671	20	2.0	21	85	14	57	42	5	7	45	1.54
635888--636049	65	2.5	64	84	1	207	31	25	15	27	1.96
640260--640301	19	2.2	19	100	0	84	59	9	4	26	1.48
640260--640311	19	2.7	19	91	5	70	61	9	3	25	1.44
642132--642413	36	8.0	36	73	13	201	45	2	4	47	1.39
642132--642407	37	7.8	36	71	16	168	45	2	5	46	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642239--642300	27	2.4	26	81	7	72	45	1	4	48	1.33
642165--642377	100	2.1	99	85	3	284	46	3	4	46	1.38
642277--642416	35	3.9	36	78	6	108	43	2	2	51	1.28
642408--642450	15	3.0	14	83	6	59	16	2	0	81	0.79
643756--643813	2	29.0	2	89	0	80	46	3	0	50	1.18
643865--643933	20	3.3	20	78	15	61	21	2	4	71	1.17
643896--643946	12	4.5	12	80	7	54	17	1	3	76	1.03
647897--648076	93	1.9	92	88	1	270	34	16	17	31	1.92
649287--650240	84	11.5	84	80	5	1059	30	24	19	25	1.98
649287--650240	165	5.8	164	83	4	1103	30	24	19	25	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12