genome.fa.s7940.2.7.7.80.10.50.1000.2.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: VEPZ01007940.1 Hibiscus syriacus cultivar Beakdansim tig00110356_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1348078

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 521 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)
362393--362569	74	2.4	75	82	2	205	32	14	9	44	1.76
362622--362845	79	2.9	77	80	4	227	39	14	8	36	1.78
370901--370948	8	5.5	8	77	18	51	58	20	14	6	1.58
370901--370948	18	2.7	18	86	0	69	58	20	14	6	1.58
371940--371964	2	12.5	2	100	0	50	52	0	48	0	1.00
381635--381689	25	2.3	24	82	11	69	76	0	10	12	1.02
382642--382881	120	2.0	120	89	3	367	53	7	3	35	1.48
392368--392454	42	2.1	41	87	6	122	37	10	6	44	1.65
392578--392635	15	3.9	15	72	18	50	46	5	0	48	1.24
394210--394540	165	2.0	165	100	0	662	38	12	22	26	1.90
395655--395740	21	4.3	20	68	11	59	54	6	1	37	1.35
395632--395754	60	2.1	56	91	7	194	53	7	1	37	1.39
396491--396619	64	2.0	64	100	0	258	24	29	24	21	1.99
401808--401847	18	2.2	18	86	0	53	17	52	15	15	1.75
401870--402117	72	3.4	72	94	1	399	27	44	11	16	1.83
402125--402201	36	2.2	35	81	6	86	22	38	15	23	1.92
404925--404965	21	2.0	21	85	0	55	29	19	21	29	1.98
405792--405867	32	2.4	32	90	0	116	32	19	17	30	1.95
405762--405885	32	3.9	32	74	11	112	33	19	17	29	1.95
417581--417609	14	2.1	14	100	0	58	37	6	0	55	1.27
421607--421636	2	15.0	2	100	0	60	50	0	0	50	1.00
427413--427438	5	5.2	5	100	0	52	0	19	0	80	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433303--433348	23	2.0	22	84	12	58	50	0	2	47	1.13
445664--445762	21	4.8	20	76	9	101	31	22	22	24	1.98
445752--445807	21	2.8	20	78	10	69	23	21	19	35	1.96
445751--445839	42	2.2	40	80	10	99	26	20	17	34	1.95
446518--447031	42	12.2	42	93	0	875	36	23	19	20	1.95
449258--449328	15	4.7	15	73	11	56	63	1	1	33	1.12
451181--451223	22	2.0	21	86	8	61	74	0	0	25	0.82
467689--467722	7	4.9	7	100	0	68	29	14	41	14	1.86
471185--471247	30	2.1	31	90	3	101	28	9	6	55	1.56
473683--473787	29	3.6	29	94	0	165	11	35	30	22	1.90
473841--473874	14	2.4	14	95	0	59	5	35	38	20	1.77
483752--483779	2	14.0	2	100	0	56	50	0	0	50	1.00
484063--484191	60	2.2	60	78	5	136	44	3	16	36	1.63
486743--486797	22	2.5	22	75	13	60	45	29	0	25	1.54
492565--492634	3	23.3	3	97	0	131	0	35	0	64	0.94
495454--495499	16	2.8	17	87	6	60	56	2	0	41	1.11
496476--496667	59	3.3	58	94	2	323	42	15	10	30	1.81
498478--498530	21	2.5	21	96	0	97	28	26	24	20	1.99
498539--498613	21	3.6	21	92	0	123	22	22	25	29	1.99
498766--498807	2	21.0	2	100	0	84	50	0	0	50	1.00
501680--501711	4	8.0	4	92	0	55	71	3	0	25	1.00
502531--502560	6	5.0	6	91	0	51	0	30	53	16	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516923--516954	15	2.1	15	100	0	64	50	15	12	21	1.77
523817--523877	29	2.0	28	81	12	68	67	18	4	9	1.37
527774--527824	24	2.1	24	96	0	93	19	7	41	31	1.80
528317--528455	21	6.8	20	71	8	73	37	25	16	20	1.93
528461--528615	20	7.7	20	83	4	204	32	25	19	21	1.97
528422--528616	40	4.9	39	80	3	183	36	25	18	19	1.94
528422--528615	60	3.2	60	80	3	228	36	25	18	19	1.95
528999--529069	33	2.2	33	92	0	115	11	22	18	47	1.80
529147--529224	41	1.9	41	97	0	147	44	16	25	12	1.83
529148--529223	21	3.7	21	83	3	109	46	17	25	11	1.82
529208--529263	14	3.7	14	78	17	67	41	23	25	10	1.86
529296--529385	14	5.7	14	72	23	72	10	24	22	43	1.83
529280--529393	33	3.5	33	95	1	203	10	23	20	45	1.82
529275--529371	19	5.7	18	72	21	84	11	23	21	43	1.85
531072--531715	92	7.1	93	96	3	1186	21	13	19	46	1.83
531762--531888	18	7.3	19	71	20	91	45	29	16	8	1.77
531779--531888	18	6.4	18	71	25	96	46	29	17	7	1.74
531796--531888	32	2.9	31	88	7	132	46	29	17	7	1.75
531762--531888	51	2.5	51	71	14	127	45	29	16	8	1.77
531884--532002	19	6.8	19	74	18	114	10	20	21	47	1.79
531906--531962	14	3.7	14	77	20	60	10	21	22	45	1.82
531889--531981	33	2.8	33	95	0	168	10	20	21	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533667--533701	13	2.6	14	90	4	54	31	0	22	45	1.53
533806--533850	19	2.4	19	100	0	90	46	17	20	15	1.84
533875--534026	33	4.5	33	72	20	143	13	23	17	46	1.83
533897--534091	19	11.1	19	78	16	217	13	22	16	48	1.80
533875--534130	52	5.0	52	91	6	411	13	23	16	46	1.82
533916--534077	33	4.8	33	76	15	161	12	22	17	47	1.81
535830--535854	12	2.1	12	100	0	50	0	28	0	72	0.86
536723--536931	20	10.6	20	82	5	210	20	19	24	36	1.95
536918--537000	21	4.0	21	73	6	78	25	16	24	33	1.96
536898--536996	42	2.4	43	77	11	100	21	18	23	37	1.94
537210--537262	23	2.3	23	83	6	63	30	1	3	64	1.22
537224--537270	23	2.0	23	87	0	67	34	2	2	61	1.20
549309--549731	214	2.0	209	97	2	801	30	14	26	29	1.95
556817--556873	29	1.9	30	96	3	107	19	31	28	21	1.97
573195--573238	20	2.4	18	85	14	56	25	22	11	40	1.87
573206--573245	20	2.0	20	95	0	71	22	32	10	35	1.87
575092--575125	13	2.8	12	87	12	52	47	0	0	52	1.00
575829--575873	2	22.5	2	100	0	90	48	0	0	51	1.00
576366--576425	31	1.9	31	86	0	84	20	28	3	48	1.65
581936--581988	21	2.5	21	87	0	70	20	20	30	28	1.98
582144--582248	46	2.3	46	93	1	176	32	19	6	41	1.77
587371--587411	12	3.4	12	86	0	55	51	9	24	14	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587371--587409	8	4.9	8	90	0	60	51	10	25	12	1.71
592248--592354	56	1.9	56	82	3	135	40	2	21	35	1.68
600707--600777	36	2.0	36	86	8	101	47	4	0	47	1.21
602845--602950	39	2.7	39	76	11	108	45	0	16	37	1.54
603547--603666	22	5.5	22	81	11	156	48	10	0	40	1.38
603547--603666	44	2.7	44	85	5	179	48	10	0	40	1.38
605919--605959	19	2.2	18	86	4	55	41	0	2	56	1.13
606534--606587	11	4.2	13	77	17	51	64	0	1	33	1.04
606533--606573	13	2.9	14	77	22	50	63	0	2	34	1.08
608839--608874	17	2.1	17	90	10	56	36	0	0	63	0.94
608838--608877	20	2.0	21	90	5	64	40	0	0	60	0.97
609009--609046	6	6.3	6	100	0	76	15	34	15	34	1.90
610682--610715	9	3.8	9	96	0	59	8	67	23	0	1.18
612311--612387	36	2.1	36	87	0	109	23	32	16	27	1.96
620085--620118	2	17.0	2	100	0	68	50	0	0	50	1.00
620152--620201	22	2.3	21	80	10	55	44	16	12	28	1.83
626046--626076	2	16.0	2	93	6	55	48	0	0	51	1.00
626516--626572	21	2.7	21	97	0	105	22	22	29	24	1.99
628313--628341	14	2.1	14	100	0	58	6	6	0	86	0.72
635261--635592	165	2.0	165	99	0	655	32	21	15	30	1.94
639134--639167	17	2.0	17	88	0	50	23	0	5	70	1.09
639395--639437	18	2.3	18	88	8	59	20	6	0	72	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639313--639650	157	2.2	156	78	5	342	28	17	5	49	1.68
639340--639638	157	1.9	157	80	3	343	27	17	4	50	1.66
645232--645269	20	1.9	20	94	0	67	26	28	5	39	1.78
646552--646671	20	5.6	20	72	14	87	56	13	15	15	1.67
646542--646665	24	5.5	24	72	14	102	57	13	14	14	1.66
646559--646675	44	2.7	44	97	0	216	56	11	14	17	1.67
648134--648733	149	4.0	151	98	1	1147	46	16	11	25	1.81
648134--648733	300	2.0	299	97	1	1141	46	16	11	25	1.81
664253--664470	108	2.0	109	99	0	429	33	21	12	33	1.91
664490--664542	21	2.5	21	81	6	72	20	26	18	33	1.96

Tables:   1   2   3   4   5