genome.fa.s8548.2.7.7.80.10.50.1000.4.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: VEPZ01008548.1 Hibiscus syriacus cultivar Beakdansim tig00111440_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1170587

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 723 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)
610441--610503	32	2.0	31	87	3	90	28	1	44	25	1.63
611928--612428	183	2.7	184	98	0	977	33	15	15	35	1.89
612420--612472	22	2.4	22	84	6	63	35	9	11	43	1.73
613879--613952	3	24.7	3	78	0	76	25	33	5	35	1.79
613887--613977	42	2.2	42	87	0	128	21	32	7	37	1.82
613892--613959	9	7.6	9	73	6	57	23	33	7	35	1.83
613883--613980	6	16.3	6	76	8	56	21	32	7	38	1.81
615415--616564	197	5.8	198	95	1	2076	31	15	14	38	1.87
618159--618196	19	2.1	19	85	5	51	34	0	13	52	1.40
620045--620114	35	2.0	35	94	0	122	21	30	30	18	1.97
623173--623238	2	33.5	2	96	3	125	48	0	0	51	1.00
626660--626723	30	2.0	33	85	8	89	28	10	7	53	1.64
628805--628860	28	2.0	28	85	0	76	30	23	16	30	1.96
629740--629782	20	2.1	20	87	12	61	41	2	13	41	1.57
630549--630573	7	3.6	7	100	0	50	44	16	16	24	1.86
631311--631533	20	11.1	20	78	11	167	20	15	22	41	1.90
631367--631582	100	2.2	100	90	3	337	20	17	22	39	1.92
631459--631557	40	2.5	41	75	11	105	22	20	21	36	1.95
631539--631577	20	2.0	20	94	0	69	23	20	23	33	1.97
631367--631622	100	2.6	100	84	3	293	21	17	24	37	1.94
632649--632675	14	1.9	14	100	0	54	55	0	0	44	0.99
632603--632756	83	1.9	83	91	0	254	36	9	12	41	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
632774--632803	14	2.1	14	93	0	51	40	10	6	43	1.64
632894--632958	22	2.9	22	95	2	112	49	3	0	47	1.17
633361--633418	24	2.4	24	80	8	64	46	1	1	50	1.22
635796--635876	3	27.0	3	71	14	60	30	2	29	37	1.71
635796--635874	12	6.9	11	78	16	81	30	2	29	37	1.71
635785--635874	24	3.9	23	77	17	64	30	2	32	35	1.70
639923--639947	11	2.3	11	100	0	50	72	0	0	28	0.86
640584--640615	16	2.0	16	100	0	64	31	31	18	18	1.95
642684--642709	7	3.7	7	100	0	52	84	0	0	15	0.62
646965--647082	45	2.6	45	84	0	173	38	8	19	33	1.82
647218--647280	23	2.7	22	77	18	65	17	25	19	38	1.93
647321--647401	24	3.4	24	98	0	153	19	27	20	32	1.97
647512--647573	21	3.0	21	82	0	88	35	1	24	38	1.65
651415--651478	23	2.8	23	72	9	58	21	25	21	31	1.98
652806--652916	26	4.3	26	97	0	204	37	0	26	36	1.57
653891--653962	16	4.7	15	72	14	58	37	2	19	40	1.66
653891--654017	45	2.8	46	89	5	188	35	6	19	38	1.77
653902--654039	45	3.1	45	86	2	143	36	7	19	36	1.80
657643--657686	19	2.3	19	84	0	61	31	18	31	18	1.95
658429--658470	20	2.1	20	100	0	84	21	9	9	59	1.57
664896--664934	20	2.0	20	94	0	69	30	35	15	17	1.91
664948--665130	64	2.8	64	79	4	199	31	19	17	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
665076--665118	18	2.3	20	80	15	56	25	23	18	32	1.97
664948--665124	65	2.7	64	78	9	189	31	20	16	32	1.95
670908--670989	23	3.6	23	75	11	80	26	26	21	24	2.00
673648--673717	19	3.7	19	100	0	140	21	37	15	25	1.93
673683--673851	64	2.6	64	83	4	216	28	23	19	27	1.98
678113--678194	3	28.0	3	95	4	150	67	0	0	32	0.91
679308--679351	22	2.0	22	95	0	79	29	18	9	43	1.80
680086--680128	15	2.9	15	89	6	61	30	0	2	67	1.03
680347--680528	59	3.1	58	75	13	149	39	6	1	53	1.33
680343--680526	30	6.2	29	74	12	151	38	5	1	54	1.32
686279--686318	21	2.0	20	85	5	53	50	0	2	47	1.14
688882--689072	93	2.0	94	94	1	339	35	7	27	29	1.85
698120--698174	20	2.6	21	82	8	76	20	23	40	16	1.91
699147--699185	20	2.0	20	94	0	69	23	15	30	30	1.95
701832--701910	23	3.5	22	75	8	79	24	21	27	26	1.99
707306--707429	65	1.9	65	85	3	160	30	18	22	28	1.97
716006--716264	29	9.0	29	90	5	343	50	16	1	30	1.56
716006--716267	58	4.5	57	90	5	386	50	17	1	30	1.57
716005--716267	87	3.0	86	91	3	413	49	17	1	30	1.58
724443--724606	29	5.7	29	88	0	229	34	6	17	42	1.74
724443--724606	87	1.9	87	94	2	294	34	6	17	42	1.74
724443--724632	58	3.3	57	84	1	191	35	6	16	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
725545--725832	117	2.5	117	91	2	454	16	16	34	32	1.91
728084--728126	19	2.3	19	79	0	50	41	0	2	55	1.12
729030--729108	41	1.9	41	100	0	158	39	15	17	27	1.90
729571--729633	32	1.9	33	90	3	101	38	9	12	39	1.76
730399--730454	14	4.1	14	71	13	53	39	0	7	53	1.28
730417--730465	16	3.2	16	80	11	57	40	0	6	53	1.26
730405--730466	14	4.5	14	67	25	51	40	0	4	54	1.22
733295--733346	16	3.2	16	78	10	70	28	17	3	50	1.64
733294--733360	32	2.1	32	97	0	125	29	16	4	49	1.65
733993--734504	30	17.2	29	71	15	194	39	7	2	51	1.41
734019--734192	89	1.9	90	84	1	233	36	10	1	51	1.47
733948--734211	119	2.2	117	80	6	273	37	9	1	51	1.44
734001--734201	89	2.2	88	80	5	224	39	9	1	49	1.44
734180--734228	25	2.0	25	83	0	62	42	6	2	48	1.39
734201--734278	39	2.2	37	80	17	94	35	3	1	58	1.24
734230--734318	28	3.2	27	77	15	92	38	2	2	57	1.24
734410--734506	29	3.3	29	84	2	113	37	11	2	49	1.50
734375--734508	59	2.3	58	83	3	171	36	8	2	52	1.45
735381--735429	22	2.2	22	96	3	89	61	30	4	4	1.33
738500--738584	43	2.0	43	90	0	134	55	21	1	22	1.51
739380--739425	23	2.0	23	87	8	67	50	2	0	47	1.13
739380--739430	18	3.0	18	72	13	54	49	3	0	47	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
739352--739447	29	3.2	29	78	15	97	47	3	0	48	1.17
739484--739542	22	2.5	23	79	17	68	49	0	1	49	1.11
739547--739576	15	2.0	15	93	0	51	36	0	3	60	1.14
756876--757007	66	2.0	66	100	0	264	31	15	24	28	1.95
757369--757692	158	2.0	157	97	2	612	46	20	9	24	1.80
766714--766770	24	2.4	24	96	0	105	26	15	33	24	1.95
778072--778120	25	2.0	25	84	8	64	42	14	20	22	1.88
780722--781188	139	3.4	138	78	5	386	43	13	13	29	1.82
781331--781410	29	2.8	28	79	9	81	56	6	12	25	1.59
781177--781742	282	2.0	284	98	1	1109	53	8	10	27	1.64
781613--781692	29	2.8	28	79	9	81	56	6	12	25	1.59
781774--781837	29	2.2	28	81	10	76	62	4	14	18	1.48
782002--782093	47	2.0	47	100	0	184	38	21	18	21	1.94
786947--786988	5	8.4	5	89	10	52	35	0	0	64	0.94
786948--787002	3	18.3	3	78	17	53	36	0	0	63	0.95
786948--787002	13	4.3	13	80	17	53	36	0	0	63	0.95
788358--788425	22	3.2	20	70	17	57	16	11	5	66	1.42
789150--789191	20	2.1	20	95	0	75	30	16	14	38	1.89
790476--790526	23	2.2	24	80	16	63	13	11	7	66	1.43
792171--792479	147	2.1	146	88	1	474	35	22	14	27	1.93
792421--793012	121	4.9	121	90	0	907	35	25	15	23	1.94
792495--792939	55	7.5	55	66	19	196	35	25	15	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
794683--794775	43	2.2	42	85	12	127	23	9	3	63	1.39
794701--794769	22	3.2	21	73	19	70	18	11	4	65	1.41
799600--799668	28	2.5	28	86	9	88	20	11	8	59	1.58
800268--800628	130	2.8	129	85	2	485	32	11	16	39	1.85
802466--802586	60	2.0	60	93	0	206	31	10	19	38	1.86
803068--803116	20	2.5	19	93	6	80	20	22	18	38	1.93
811146--811176	2	15.5	2	100	0	62	51	0	0	48	1.00
813284--813309	2	13.0	2	100	0	52	50	0	0	50	1.00
817978--818008	14	2.2	14	100	0	62	35	6	51	6	1.53
825524--825567	22	2.0	23	86	4	63	43	0	2	54	1.12

Tables:   1   2   3   4   5   6   7