genome.fa.s8075.2.7.7.80.10.50.1000.3.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: VEPZ01008075.1 Hibiscus syriacus cultivar Beakdansim tig00110577_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1947163

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

This is table  3  of  10  ( 1176 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)
434045--434083	14	2.8	13	88	11	51	23	7	2	66	1.30
434255--434289	17	2.1	17	88	0	52	42	5	0	51	1.25
434338--434372	2	17.5	2	100	0	70	48	0	0	51	1.00
434536--434615	40	2.0	40	86	9	112	31	5	8	55	1.52
434669--434702	9	3.8	9	92	7	52	20	2	0	76	0.92
434669--434703	13	2.6	14	90	4	54	20	2	0	77	0.90
435606--435663	2	29.0	2	100	0	116	50	0	0	50	1.00
441148--441188	5	8.0	5	89	5	64	0	24	0	75	0.80
446032--446063	2	16.0	2	93	0	55	46	0	3	50	1.17
448022--448116	48	2.0	49	93	2	165	45	7	14	32	1.73
448214--448291	31	2.5	31	85	0	111	24	14	12	48	1.78
449886--449961	30	2.5	31	91	2	118	47	15	13	23	1.81
452106--452160	23	2.4	23	88	8	78	21	14	10	52	1.72
487225--487267	2	21.5	2	100	0	86	51	0	0	48	1.00
493153--493206	22	2.5	22	82	5	67	27	18	20	33	1.96
492878--493530	322	2.0	325	88	3	974	24	18	19	37	1.94
493475--493528	22	2.5	22	82	5	67	22	20	25	31	1.98
495513--495559	22	2.1	23	84	4	60	63	21	4	10	1.43
495512--495566	22	2.5	22	78	0	56	60	21	5	12	1.53
495550--495653	24	4.5	24	76	9	99	45	15	13	25	1.83
507605--507977	126	2.9	128	77	8	325	27	17	5	48	1.70
507584--508031	84	5.3	84	76	6	325	27	17	5	49	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507586--508028	43	10.5	43	74	8	264	27	17	5	48	1.69
507817--508031	42	5.1	42	74	15	158	29	13	4	52	1.59
507920--507990	21	3.4	20	73	7	61	30	9	4	54	1.52
516116--516466	177	2.0	177	94	0	621	27	19	19	33	1.96
522902--522941	21	1.9	21	94	0	71	30	15	7	47	1.72
522936--523033	32	3.0	33	91	4	155	32	7	15	44	1.73
523019--523073	13	4.2	13	75	13	58	34	3	12	49	1.59
523469--523524	15	3.6	15	79	9	67	32	12	12	42	1.80
523488--523521	18	1.9	18	94	5	61	38	11	11	38	1.79
523616--523647	16	2.0	17	88	11	50	43	21	21	12	1.86
526337--526370	5	6.8	5	100	0	68	0	58	0	41	0.98
527104--527143	21	1.9	21	94	0	71	22	37	32	7	1.82
530081--530132	21	2.5	21	81	3	61	38	19	25	17	1.93
530121--530234	20	5.7	20	79	6	104	33	24	17	24	1.96
530118--530234	61	1.9	61	83	0	153	35	23	17	23	1.95
530844--530931	33	2.6	33	94	1	149	12	26	22	38	1.90
533105--533171	21	3.2	21	70	6	64	23	37	20	17	1.94
533053--533132	42	1.9	42	84	0	106	21	38	17	22	1.93
534529--534564	14	2.6	14	95	0	63	30	0	25	44	1.54
534671--534737	19	3.8	19	75	18	72	46	20	20	11	1.82
534746--534872	33	3.9	32	83	8	175	15	22	18	43	1.88
534739--534869	66	2.0	66	95	0	235	16	22	18	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537091--537115	12	2.1	12	100	0	50	0	28	0	72	0.86
538088--538138	20	2.5	20	93	0	93	31	19	29	19	1.97
538352--538440	20	4.5	20	98	1	171	33	25	24	15	1.95
538471--538524	14	3.5	14	75	22	54	11	22	20	46	1.82
538453--538523	33	2.2	33	81	0	79	19	21	21	38	1.94
538517--538555	20	2.0	20	94	0	69	12	10	30	46	1.75
538638--538674	14	2.6	14	86	0	56	48	21	0	29	1.50
540540--540607	20	3.5	20	78	6	68	39	22	22	16	1.92
540596--540653	14	3.9	14	79	16	71	48	24	17	10	1.78
540580--540658	32	2.4	33	93	2	133	46	21	18	12	1.82
540665--540746	18	4.6	19	79	14	104	13	20	20	45	1.85
540731--540785	20	2.8	19	83	8	65	16	23	23	36	1.94
540665--540766	33	2.8	34	76	23	102	13	22	21	42	1.88
541261--541305	18	2.5	18	88	0	72	13	15	44	26	1.83
542625--542682	20	2.9	20	81	0	62	43	20	17	18	1.89
542927--542971	23	2.0	23	90	0	72	20	15	44	20	1.87
543139--543234	20	4.7	21	73	10	90	22	17	20	38	1.93
543139--543236	41	2.4	40	87	3	151	22	17	20	39	1.92
543139--543254	41	2.8	41	83	5	119	21	19	20	37	1.94
558472--558569	20	4.8	20	77	3	88	36	23	18	21	1.95
558413--558569	41	3.9	41	70	11	126	38	25	17	18	1.93
558556--558726	20	8.6	20	84	5	107	35	26	18	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558536--558745	60	3.5	58	80	7	208	37	25	17	20	1.94
558590--558745	20	7.8	20	87	4	174	35	25	17	21	1.95
558556--558745	40	4.8	40	86	5	208	36	25	17	20	1.94
559428--559474	24	2.0	24	87	8	69	25	14	21	38	1.92
559649--559673	12	2.1	12	100	0	50	72	0	28	0	0.86
561950--562223	19	15.4	19	81	15	354	47	17	21	14	1.83
561950--562245	33	8.4	38	87	10	354	46	17	21	14	1.83
562183--562237	14	3.6	14	76	21	56	47	20	21	10	1.80
561978--562245	52	5.0	52	89	8	375	46	16	22	14	1.83
562252--562353	19	5.6	19	81	12	133	15	22	16	45	1.85
562318--562361	19	2.3	19	84	0	52	20	18	13	47	1.82
562460--562496	14	2.6	14	91	0	65	45	21	0	32	1.52
564403--564513	19	6.3	19	73	20	98	46	25	18	9	1.79
564440--564496	14	3.7	14	72	20	51	45	28	19	7	1.76
564421--564513	33	2.8	33	91	0	159	47	24	19	8	1.77
564515--564561	19	2.4	19	85	3	58	10	17	27	44	1.81
564609--565076	93	5.1	93	98	0	895	46	18	12	22	1.83
564609--565076	185	2.5	186	97	1	895	46	18	12	22	1.83
566777--566866	14	5.7	14	72	23	72	43	23	24	8	1.82
566769--566883	33	3.5	33	96	0	212	46	20	22	9	1.79
566791--566888	19	5.7	19	70	22	81	44	22	22	10	1.82
566899--566955	14	3.7	14	75	20	60	8	24	22	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566913--567001	19	4.9	19	72	15	80	11	23	21	43	1.84
566894--567001	33	3.1	33	89	8	153	10	24	21	44	1.83
567093--567163	33	2.2	33	94	0	124	47	16	23	11	1.79
567345--567399	22	2.5	22	81	0	74	20	16	40	23	1.91
567546--567739	20	9.6	20	78	5	194	20	20	24	35	1.96
567546--567739	60	3.2	60	81	0	226	20	20	24	35	1.96
567706--567803	20	4.8	20	77	3	79	21	18	23	36	1.95
567706--567803	41	2.4	41	77	6	110	21	18	23	36	1.95
569166--569227	21	3.0	21	85	4	72	72	3	9	14	1.23
569214--569240	11	2.5	11	100	0	54	92	0	7	0	0.38
569705--569764	25	2.3	26	75	13	70	36	3	1	58	1.25
572723--572755	16	2.0	17	88	5	50	63	0	3	33	1.10
573768--573817	22	2.2	22	82	3	55	38	4	2	56	1.30
575037--575079	18	2.5	17	85	7	61	67	2	4	25	1.22
576231--576954	105	7.0	105	93	1	1158	22	17	26	33	1.96
576231--576954	207	3.5	208	91	2	1150	22	17	26	33	1.96
576232--576954	312	2.3	313	91	2	1152	22	17	26	33	1.96
577597--577753	67	2.4	65	84	5	199	35	8	22	32	1.86
577729--577852	36	3.4	36	82	6	160	40	13	20	25	1.89
578818--578860	22	2.0	22	90	9	70	27	9	23	39	1.85
579473--579543	15	4.7	15	77	18	67	1	14	7	77	1.04
580680--580718	8	5.0	8	84	6	53	58	12	17	10	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
580680--580718	15	2.5	15	87	4	51	58	12	17	10	1.61
583312--583376	12	5.4	12	92	0	85	55	0	0	44	0.99
583314--583371	2	29.0	2	92	0	98	53	0	0	46	1.00
583857--583899	18	2.5	17	85	7	61	67	2	4	25	1.22
592897--592933	2	20.0	2	84	15	53	48	0	0	51	1.00
593798--594013	68	3.2	66	81	9	249	30	20	25	24	1.99
593910--594135	70	3.3	69	83	4	269	28	19	22	29	1.98
594303--594343	2	20.5	2	100	0	82	48	0	0	51	1.00
598690--598768	23	3.7	21	77	14	81	21	18	35	24	1.96
602030--602106	38	2.0	40	87	10	115	32	25	2	38	1.70

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