genome.fa.s1162.2.7.7.80.10.50.1000.4.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: VEPZ01001162.1 Hibiscus syriacus cultivar Beakdansim tig00002317_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1560963

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 971 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)
621991--622242	116	2.2	117	81	7	282	38	15	21	25	1.92
624795--624829	9	3.8	9	88	3	52	0	31	0	68	0.90
624790--624831	18	2.3	19	91	4	68	0	30	0	69	0.89
625830--625861	12	2.7	12	100	0	64	53	0	18	28	1.45
626666--626725	30	2.0	30	90	0	93	45	3	26	25	1.69
631572--631662	39	2.3	39	98	0	173	20	8	27	42	1.82
634508--634584	14	6.1	14	70	22	71	15	6	15	62	1.52
634492--634583	24	3.9	24	87	4	116	16	6	14	63	1.50
634846--635003	10	14.1	10	70	20	91	12	10	18	58	1.61
634846--634997	23	6.7	23	75	9	125	11	11	18	58	1.62
634876--634902	13	2.1	13	100	0	54	22	7	7	62	1.46
634866--635000	47	2.9	47	91	3	213	11	11	17	59	1.61
634940--634970	14	2.2	14	94	0	53	3	12	25	58	1.50
635072--635101	16	1.9	15	93	6	51	13	6	13	66	1.43
635898--635968	28	2.6	28	91	4	119	32	16	38	12	1.87
636092--636144	23	2.3	24	77	9	56	35	18	1	43	1.62
636586--636654	30	2.2	30	85	15	95	34	5	17	42	1.73
636595--636654	30	2.0	30	93	6	104	33	6	16	43	1.74
636734--636790	21	2.7	21	91	0	96	22	38	17	21	1.93
636810--636884	20	3.7	20	83	3	96	20	25	25	29	1.99
636810--636892	41	2.0	41	92	0	139	20	24	27	27	1.99
640079--640147	30	2.2	30	82	15	86	36	5	15	42	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640088--640147	30	2.0	30	90	6	95	35	6	15	43	1.72
640227--640283	21	2.7	21	80	0	78	22	35	17	24	1.95
640303--640398	21	4.7	20	84	2	93	20	23	26	29	1.99
640303--640398	41	2.3	41	82	7	106	20	23	26	29	1.99
640764--640833	34	2.1	32	81	5	77	34	14	27	24	1.94
641428--641475	2	24.5	2	91	4	80	52	0	0	47	1.00
642432--642475	19	2.4	18	80	3	52	75	0	4	20	0.98
642596--642705	2	58.5	2	73	15	65	58	0	0	40	1.11
642604--642717	21	5.0	23	75	19	89	59	1	1	36	1.18
644916--645089	65	2.6	65	85	6	217	37	9	21	31	1.85
644993--645216	123	1.8	123	88	0	340	41	12	18	27	1.86
645168--645359	36	5.5	36	75	12	184	38	11	19	30	1.88
645089--645446	102	3.5	101	85	3	396	39	12	18	29	1.87
645283--645359	37	2.1	36	85	2	100	41	12	20	24	1.88
645174--645446	102	2.7	102	90	0	404	37	12	19	31	1.88
647087--647141	13	4.0	13	75	25	51	5	16	3	74	1.15
651209--651246	7	5.6	7	81	6	51	13	13	13	60	1.59
658826--658885	18	3.3	18	72	9	59	38	3	21	36	1.70
659619--659972	116	3.1	116	87	1	485	35	15	23	25	1.94
660345--660537	44	4.4	43	70	8	122	27	21	15	35	1.94
659838--660675	353	2.4	350	83	5	994	31	17	18	31	1.95
661333--661370	3	12.7	3	100	0	76	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661834--661958	55	2.3	54	80	4	151	32	23	12	32	1.91
667710--667785	21	3.7	20	82	8	75	28	21	18	31	1.97
667731--667785	21	2.7	21	85	2	76	30	18	20	30	1.96
668244--668276	12	2.6	13	90	4	50	36	12	6	45	1.66
668312--668359	3	16.0	3	91	0	78	35	0	2	62	1.07
669691--669747	3	20.3	3	77	16	52	26	1	1	70	1.07
669691--669744	11	4.9	11	80	13	58	25	1	1	70	1.07
669654--669744	48	1.9	47	82	6	112	25	5	2	67	1.24
669759--669806	2	25.0	2	87	8	73	54	0	0	45	0.99
670068--670105	17	2.2	17	90	0	58	42	0	0	57	0.98
677485--677822	114	3.0	114	92	0	525	33	15	20	31	1.93
680367--680421	22	2.5	22	85	5	76	34	12	14	38	1.84
681268--681823	76	7.3	76	95	0	959	23	18	21	36	1.95
682005--682046	3	14.0	3	89	0	66	35	0	2	61	1.09
683373--683437	3	23.3	3	77	17	61	24	1	1	72	1.02
683373--683438	8	9.0	8	75	21	65	24	1	1	72	1.01
683386--683438	11	4.9	10	76	13	52	22	1	1	73	1.03
683374--683438	22	3.0	22	78	10	71	24	1	1	72	1.02
683438--683473	17	2.2	16	90	5	54	61	0	0	38	0.96
683735--683772	17	2.2	17	90	0	58	42	0	0	57	0.98
686203--686347	55	2.6	54	85	3	193	29	26	14	28	1.95
686826--686941	52	2.2	52	98	1	223	29	25	14	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
692297--692336	21	1.9	21	89	0	62	25	40	25	10	1.86
698193--698350	76	2.1	76	90	0	244	50	9	14	25	1.73
698564--698666	51	2.0	51	98	0	197	35	1	3	58	1.28
699835--699930	2	48.0	2	100	0	192	50	0	0	50	1.00
703123--703166	22	2.0	22	100	0	88	40	13	22	22	1.89
704483--704525	23	2.0	21	86	9	59	67	0	6	25	1.15
706254--706490	84	2.8	84	85	1	332	21	18	25	34	1.96
706736--706988	101	2.4	101	82	9	294	39	12	20	28	1.88
706858--706958	21	5.4	21	64	26	73	39	11	22	25	1.88
706593--706960	137	2.6	138	83	5	427	40	11	20	27	1.87
706593--706988	36	11.1	36	83	5	484	39	12	19	27	1.88
711071--711138	22	2.9	24	80	12	79	72	0	4	23	1.03
718449--718486	18	2.1	18	90	0	58	21	10	36	31	1.87
721992--722095	55	1.9	55	100	0	208	42	12	25	19	1.86
729298--729374	3	25.7	3	86	0	109	61	0	3	35	1.15
729318--729381	12	5.3	12	79	3	67	57	0	7	34	1.27
729624--730171	113	4.8	113	89	0	821	28	19	13	38	1.90
730690--730951	82	3.2	82	96	1	463	36	22	13	27	1.92
732073--732166	18	5.4	17	75	23	90	2	18	0	79	0.82
732105--732161	5	11.8	5	83	14	75	0	15	0	84	0.63
732073--732166	38	2.5	38	83	10	113	2	18	0	79	0.82
744483--744507	12	2.1	12	100	0	50	0	24	8	68	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
744976--745064	3	29.7	3	88	0	133	61	0	3	34	1.12
753084--753776	105	6.6	105	95	0	1179	22	22	18	36	1.95
754699--754774	8	10.0	8	88	8	106	13	10	0	76	1.02
754699--754774	15	5.0	15	85	6	100	13	10	0	76	1.02
754686--754774	7	12.3	7	85	11	83	11	11	0	77	0.99
754686--754793	37	3.0	35	77	10	103	11	12	0	75	1.04
758288--758314	14	1.9	14	100	0	54	66	3	22	7	1.33
761952--762018	30	2.2	30	97	2	125	16	31	10	41	1.82
777340--777459	62	1.9	63	83	11	158	45	2	5	46	1.38
781290--781337	22	2.4	21	86	13	66	66	0	6	27	1.15
783660--783728	24	2.9	24	80	0	75	27	14	28	28	1.95
789529--789640	59	1.9	59	90	3	181	58	10	14	16	1.64
789529--789638	30	3.7	30	85	2	159	57	10	14	17	1.65
789528--789659	30	4.4	29	80	6	122	59	10	14	15	1.62
791332--791669	134	2.5	134	86	1	446	23	17	34	25	1.96
793226--793271	13	3.5	13	90	3	65	4	10	6	78	1.08
795645--795686	17	2.5	17	92	0	66	50	14	4	30	1.63
796846--796976	57	2.2	59	82	6	160	56	11	13	18	1.67
796844--796976	30	4.6	29	78	7	135	56	11	14	18	1.67
797516--797551	14	2.6	14	90	0	54	50	0	50	0	1.00
802264--802337	20	3.7	19	73	18	60	25	35	20	18	1.96
802262--802318	19	2.9	18	80	15	60	26	36	17	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
808091--808190	23	4.5	22	81	10	116	26	26	15	33	1.95
808091--808213	44	2.8	44	83	10	139	24	28	14	32	1.95
808091--808190	21	4.6	21	80	13	105	26	26	15	33	1.95
813625--813727	21	5.0	21	81	4	113	28	25	20	26	1.99
814959--814997	18	2.2	18	85	0	51	20	2	0	76	0.90
814970--815016	23	2.0	23	83	8	58	27	2	0	70	0.99
814957--815052	4	24.2	4	74	21	53	29	1	0	69	0.95
815301--815363	18	3.6	18	74	16	60	14	11	0	74	1.07
815313--815371	20	2.9	19	85	10	64	13	11	0	74	1.07
816205--816248	21	2.2	19	84	8	52	18	9	0	72	1.10

Tables:   1   2   3   4   5   6   7   8   9