genome.fa.s7711.2.7.7.80.10.50.1000.3.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: VEPZ01007711.1 Hibiscus syriacus cultivar Beakdansim tig00109926_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1768490

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 857 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)
413025--413064	21	1.9	21	94	0	71	30	15	7	47	1.72
413059--413157	33	3.0	33	94	1	164	32	7	15	45	1.73
413143--413197	13	4.2	13	75	13	58	34	3	12	49	1.59
413393--413449	21	2.7	21	91	0	96	19	26	26	28	1.99
425676--425716	3	14.0	3	80	14	50	63	0	0	36	0.95
425842--426328	76	6.4	76	98	0	929	36	21	20	21	1.95
426719--427706	113	8.8	113	89	4	1423	30	18	13	37	1.89
426734--427707	339	2.9	338	95	2	1726	29	19	13	37	1.89
428144--428198	22	2.5	22	90	0	92	34	14	16	34	1.89
430762--431046	103	2.6	107	84	10	384	33	20	14	31	1.92
433285--433329	6	7.5	6	82	9	56	0	20	0	80	0.72
433285--433329	17	2.5	19	85	7	58	0	20	0	80	0.72
439632--439672	3	14.0	3	80	14	50	63	0	0	36	0.95
443467--443848	90	4.3	90	86	3	524	22	21	16	39	1.92
445917--445948	16	2.0	16	93	0	55	50	9	9	31	1.66
446896--446926	2	15.5	2	93	0	53	45	0	3	51	1.17
448908--448953	23	2.0	23	82	0	56	45	6	8	39	1.61
450779--450839	29	2.1	29	81	6	70	45	13	11	29	1.78
451543--451586	15	2.9	16	76	13	56	52	0	25	22	1.48
452533--452571	19	2.2	18	86	9	53	33	7	0	58	1.26
455065--455099	17	2.0	18	94	5	63	42	0	0	57	0.99
460436--460533	49	2.0	49	97	0	187	35	20	14	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469314--469351	2	19.0	2	100	0	76	50	0	0	50	1.00
484844--484913	30	2.3	30	92	4	115	20	15	17	47	1.83
495004--495039	16	2.3	16	90	4	56	50	8	2	38	1.47
497710--497751	14	2.9	15	79	13	52	33	0	28	38	1.58
501825--501857	14	2.3	15	94	5	59	45	0	0	54	0.99
502169--502198	12	2.6	11	90	10	51	36	0	0	63	0.95
502195--502252	26	2.1	28	84	12	77	62	0	1	36	1.06
502334--502410	2	42.0	2	71	17	51	45	0	2	51	1.14
508792--508857	31	2.2	30	81	13	73	16	1	22	59	1.46
508812--508857	11	4.5	10	89	10	67	17	2	19	60	1.46
508802--508857	21	2.7	20	86	8	76	16	1	21	60	1.44
508799--508854	10	5.4	11	85	8	73	17	1	21	58	1.47
510443--510498	21	2.7	20	86	8	76	16	1	21	60	1.44
510453--510498	11	4.5	10	89	10	67	17	2	19	60	1.46
510440--510495	10	5.4	11	85	8	73	17	1	21	58	1.47
511330--511389	21	2.9	21	92	0	93	26	35	21	16	1.95
511912--511991	31	2.6	31	81	0	97	30	11	22	36	1.89
519034--519087	26	2.0	27	96	3	101	29	7	14	48	1.71
525712--525766	28	1.9	29	88	3	85	32	3	18	45	1.67
525806--525850	22	2.1	21	83	4	54	51	2	0	46	1.13
526267--526593	167	2.0	166	83	7	421	40	11	16	31	1.84
528622--529037	205	2.0	204	97	2	782	28	17	19	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539548--539596	2	24.5	2	95	0	89	51	0	2	46	1.12
540007--540127	60	2.0	60	87	6	174	38	13	16	31	1.87
540013--540148	60	2.3	60	83	10	163	38	12	15	33	1.85
543821--543849	13	2.2	13	100	0	58	6	62	31	0	1.22
544550--544659	3	36.7	3	79	13	120	60	1	0	37	1.07
544783--545957	76	15.5	76	94	2	2004	36	18	21	23	1.95
548871--549211	115	3.0	115	93	0	560	31	20	14	34	1.92
558125--558249	3	40.7	3	84	7	162	61	1	0	36	1.06
571270--571313	23	2.0	22	82	13	54	45	13	25	15	1.83
576845--576878	2	17.0	2	100	0	68	0	50	0	50	1.00
577836--577894	29	2.0	30	83	6	75	45	11	18	23	1.83
579542--579583	16	2.6	16	85	7	59	61	4	4	28	1.36
580183--580216	2	17.5	2	93	6	61	50	0	0	50	1.00
585033--585059	2	13.5	2	100	0	54	51	0	0	48	1.00
585407--585447	15	2.7	16	75	24	52	29	7	0	63	1.21
586080--586213	59	2.3	59	86	0	187	42	7	22	27	1.80
587786--587843	31	1.9	29	96	0	89	55	10	10	24	1.65
588100--588172	3	24.3	3	97	0	137	64	0	1	34	1.02
589787--589825	17	2.3	17	86	8	53	12	5	5	76	1.11
589845--589890	23	2.0	23	86	0	65	21	15	10	52	1.73
591835--591878	20	2.2	20	83	0	52	47	29	9	13	1.74
593483--593550	29	2.3	29	82	0	91	20	25	16	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593731--593755	12	2.1	12	100	0	50	40	0	0	60	0.97
601278--601359	29	2.8	29	94	1	137	32	14	9	42	1.79
606042--606123	29	2.8	29	94	1	137	32	14	9	42	1.79
607736--607778	23	1.9	23	95	4	79	41	4	9	44	1.57
609162--609281	35	3.3	36	86	5	163	45	19	4	31	1.69
609213--609273	21	3.2	20	65	29	53	44	19	4	31	1.72
613785--613903	35	3.3	36	86	6	152	43	19	4	32	1.70
613832--613896	20	3.5	20	67	28	61	46	18	4	30	1.69
615551--615589	19	2.0	20	90	5	62	43	12	33	10	1.77
617023--617110	42	2.1	42	85	4	115	27	17	17	38	1.91
617039--617127	21	4.2	21	73	11	83	28	15	13	42	1.85
618687--618730	18	2.4	18	80	0	52	56	0	2	40	1.11
622648--622706	23	2.6	23	91	0	91	18	8	11	61	1.55
628642--628682	22	1.9	21	85	5	55	46	14	4	34	1.66
630798--630833	18	2.0	18	94	0	63	63	13	5	16	1.47
632342--632382	2	20.5	2	100	0	82	51	0	0	48	1.00
636039--636089	26	2.0	26	100	0	102	15	31	9	43	1.80
642038--642079	2	21.0	2	100	0	84	50	0	0	50	1.00
643495--643647	60	2.5	61	83	5	177	41	2	21	34	1.67
643507--643666	60	2.7	60	78	12	175	41	3	20	35	1.68
647434--647509	37	2.1	37	100	0	152	35	15	10	38	1.82
653709--653768	31	1.9	31	86	0	84	51	15	11	21	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
655525--655590	3	22.0	3	76	11	64	37	0	28	33	1.58
657485--657631	70	2.1	72	97	2	280	31	10	17	40	1.84
658223--658257	16	2.2	16	90	10	54	22	2	22	51	1.61
675800--675837	20	1.9	20	88	0	58	50	23	0	26	1.50
675836--675872	14	2.6	14	91	0	56	32	43	0	24	1.55
694655--694835	59	3.0	61	74	9	183	33	20	3	41	1.69
696316--696348	9	3.7	9	95	0	57	0	30	9	60	1.27
699518--699788	143	1.9	142	95	2	436	33	12	20	32	1.90
706216--706523	105	3.1	98	89	7	469	38	20	11	28	1.88
710882--710923	13	3.2	13	83	12	50	54	2	0	42	1.13
713800--713883	43	2.0	43	92	0	141	30	11	16	40	1.85
738509--738568	23	2.6	23	86	0	84	40	8	16	35	1.79
738496--738746	87	2.9	87	89	1	387	43	9	13	33	1.76
738790--739104	156	2.0	156	92	0	522	41	14	13	31	1.84
739278--739339	23	2.7	23	97	0	115	35	17	12	33	1.88
739379--739463	23	3.7	23	90	0	125	34	18	7	40	1.78
739243--739443	110	1.8	110	93	2	350	33	13	11	40	1.82
741473--741514	21	2.0	21	90	0	66	42	0	11	45	1.41
749385--750134	375	2.0	374	96	0	1383	35	16	17	30	1.92
751705--751737	17	1.9	17	93	0	57	60	0	0	39	0.97
751703--751747	17	2.6	16	80	13	54	55	0	0	44	0.99
752179--752230	18	3.1	17	78	8	61	21	11	36	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
758602--758672	31	2.3	31	90	0	106	38	9	14	38	1.79
759365--759441	31	2.5	31	82	0	100	36	11	11	40	1.78
760504--760545	21	2.0	20	90	4	66	11	11	11	64	1.51
766216--766540	132	2.5	132	95	1	580	24	26	24	24	2.00
768620--768694	38	2.1	37	82	7	91	50	12	12	25	1.73
773681--773710	16	1.9	16	93	6	53	53	0	6	40	1.27
781596--781659	23	2.8	23	80	0	74	31	15	28	25	1.96
781764--781804	14	2.9	14	92	3	64	24	17	9	48	1.76
783026--783056	4	7.8	4	100	0	62	77	0	0	22	0.77
784475--784529	18	3.0	17	77	15	56	58	0	1	40	1.09

Tables:   1   2   3   4   5   6   7   8