genome.fa.s6607.2.7.7.80.10.50.1000.3.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: VEPZ01006607.1 Hibiscus syriacus cultivar Beakdansim tig00016212_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1995858

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 925 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)
534226--534456	115	2.0	115	100	0	462	18	26	19	34	1.95
536087--536132	18	2.6	18	96	0	83	32	30	21	15	1.94
536746--536867	64	1.9	64	82	0	154	26	16	20	36	1.93
539427--539559	58	2.3	58	88	2	198	39	7	5	47	1.54
539641--539692	20	2.5	21	78	3	52	46	3	0	50	1.20
540582--540657	20	3.7	20	78	15	82	26	18	31	23	1.97
540582--540659	21	3.7	21	79	16	81	26	17	30	24	1.97
540696--540733	20	1.9	20	100	0	76	21	18	36	23	1.95
540619--540811	76	2.6	76	89	4	275	25	18	25	30	1.98
540619--540833	76	2.9	76	82	8	183	26	17	23	31	1.97
543371--543481	44	2.5	45	78	14	131	30	17	23	28	1.97
543357--543481	21	5.8	21	76	15	114	29	17	24	28	1.97
547067--547106	21	1.9	21	85	10	55	35	10	2	52	1.48
548974--549051	21	3.7	21	77	16	72	25	17	30	25	1.97
549011--549203	76	2.5	74	90	4	280	25	20	24	29	1.99
549064--549221	76	2.1	76	81	2	183	29	18	20	31	1.96
549968--550105	73	1.9	70	91	7	224	43	12	2	41	1.57
550112--550156	2	23.5	2	91	8	76	51	0	0	48	1.00
550093--550157	27	2.4	27	77	7	71	53	1	0	44	1.09
551038--551104	20	3.3	20	79	4	89	41	17	22	17	1.90
551055--551121	21	3.2	21	76	4	82	43	17	22	16	1.88
551038--551130	41	2.3	41	94	0	159	41	17	22	18	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
551397--551440	22	2.0	22	90	0	70	20	43	15	20	1.88
551699--551734	19	1.9	19	88	5	56	13	16	19	50	1.79
553037--553080	18	2.5	18	85	3	63	27	43	15	13	1.85
553564--553619	20	2.8	20	81	2	69	39	21	23	16	1.92
553608--553665	14	3.9	14	79	16	71	48	24	17	10	1.78
553592--553682	32	2.8	33	94	3	166	47	21	18	12	1.81
553592--553687	19	5.6	19	69	25	88	45	21	19	12	1.83
553699--553756	14	3.9	14	75	16	62	8	15	25	50	1.73
553694--553772	32	2.4	33	93	2	133	10	17	24	48	1.78
553756--553811	20	2.9	19	81	5	76	17	23	21	37	1.94
556117--556207	31	3.0	31	96	3	168	32	6	17	42	1.75
556272--556336	19	3.6	18	83	10	78	40	10	13	35	1.80
556440--556481	21	2.0	21	95	0	75	23	21	28	26	1.99
556510--556549	20	1.9	21	85	10	55	37	37	10	15	1.80
556752--556822	34	2.2	32	87	5	97	30	15	32	21	1.94
557980--558079	33	3.0	32	81	11	121	42	23	22	13	1.88
557959--558135	19	9.8	19	72	19	139	45	21	20	12	1.84
558053--558135	36	2.2	37	91	6	132	49	21	18	10	1.77
558139--558180	19	2.2	19	91	0	66	9	14	26	50	1.73
558721--558760	20	2.0	20	100	0	80	30	20	30	20	1.97
558722--558770	20	2.6	19	90	9	75	24	22	30	22	1.99
558883--558923	21	2.0	21	85	0	55	34	31	17	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562876--562934	31	1.9	31	89	0	91	42	6	10	40	1.65
562949--563453	54	9.6	54	70	15	353	52	13	0	33	1.42
562981--563080	32	3.5	30	70	26	99	52	10	1	37	1.42
563013--563055	22	2.0	22	95	0	77	51	11	0	37	1.39
563015--563063	22	2.2	22	85	3	62	55	12	0	32	1.37
563035--563475	32	15.3	32	72	19	313	53	13	0	33	1.40
563018--563172	84	1.9	82	89	5	242	51	15	0	32	1.44
562949--563360	116	3.6	114	82	9	465	52	13	0	33	1.43
563257--563310	14	3.6	14	72	18	54	57	5	0	37	1.22
563035--563394	116	3.1	116	94	2	631	52	14	0	32	1.42
563301--563375	22	3.2	23	71	17	73	54	18	0	26	1.44
563381--563429	22	2.2	22	85	3	62	57	12	0	30	1.36
563406--563464	18	3.5	18	71	17	63	54	11	0	33	1.37
563456--563612	15	10.5	15	76	18	150	52	1	0	46	1.08
563424--563599	54	3.5	48	78	10	140	52	2	0	44	1.15
563518--563595	39	2.0	39	100	0	156	53	0	0	46	1.00
563456--563610	54	2.9	54	84	4	192	52	1	0	46	1.08
563456--563612	69	2.3	66	86	5	217	52	1	0	46	1.08
565413--565542	50	2.6	49	76	14	129	50	10	7	30	1.65
565429--565539	50	2.2	50	85	7	145	51	9	8	30	1.64
566463--566980	43	12.1	44	90	3	654	31	24	26	17	1.97
566463--566980	86	6.0	86	90	2	765	31	24	26	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566463--566980	129	4.0	129	91	1	799	31	24	26	17	1.97
569472--569546	18	4.4	18	70	16	70	16	21	45	17	1.85
569462--569539	31	2.5	30	81	6	93	19	23	42	15	1.89
571554--572072	43	12.1	43	91	3	696	31	24	27	17	1.97
571554--572072	86	6.0	87	91	3	784	31	24	27	17	1.97
571554--572072	215	2.4	215	91	2	812	31	24	27	17	1.97
573076--573111	15	2.4	15	90	0	54	33	25	27	13	1.94
573085--573117	8	4.2	8	88	7	50	24	24	33	18	1.97
582508--582564	2	30.5	2	79	13	68	45	0	3	50	1.18
582501--582564	16	4.0	16	91	6	103	45	0	4	50	1.22
583668--583729	3	20.7	3	76	0	61	30	0	3	66	1.08
583638--583729	6	15.5	6	78	4	62	27	2	2	68	1.13
583781--583882	53	1.9	53	82	7	127	22	5	2	68	1.25
583835--583884	15	3.4	14	78	13	55	20	2	2	76	0.99
583776--583911	6	21.2	6	71	16	60	22	5	2	69	1.20
583943--583993	23	2.2	24	82	10	61	11	9	5	72	1.27
585474--585792	159	2.0	159	100	0	638	31	18	23	26	1.97
588060--588250	96	2.0	96	87	2	276	32	17	18	30	1.94
590140--590236	36	2.7	36	91	0	149	29	19	11	39	1.87
590331--590437	36	3.0	36	80	0	133	28	20	12	39	1.88
590143--590734	216	2.9	205	87	5	827	26	19	12	41	1.87
590505--590622	42	3.0	42	80	13	149	25	19	11	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
590550--590653	36	2.9	36	86	2	138	27	23	11	37	1.89
590568--590632	21	3.4	21	66	24	61	27	23	9	40	1.85
590310--590791	216	2.3	215	88	2	697	25	20	13	40	1.89
590666--590791	36	3.5	36	82	2	162	23	20	15	40	1.91
590547--590929	138	2.8	138	91	0	588	25	21	12	40	1.88
590806--590964	37	4.4	36	80	3	167	25	20	11	41	1.87
590806--590964	73	2.2	73	83	1	194	25	20	11	41	1.87
591017--591106	35	2.6	35	87	0	126	40	16	7	35	1.78
591103--591299	84	2.4	84	85	2	254	30	24	18	26	1.98
591858--591901	16	2.6	17	85	10	63	40	0	9	50	1.34
593034--593064	3	10.3	3	92	0	53	35	0	0	64	0.94
593054--593121	35	1.9	35	82	11	86	17	7	2	72	1.21
593137--593171	2	17.5	2	100	0	70	48	0	0	51	1.00
593271--593318	25	1.9	25	87	8	71	16	6	6	70	1.28
598860--599044	87	2.1	87	95	0	334	29	14	18	37	1.90
599737--599767	14	2.1	15	94	5	55	48	0	6	45	1.28
600615--600676	23	2.7	23	92	2	97	32	12	16	38	1.86
603190--603285	48	2.0	49	91	2	158	41	7	17	33	1.77
618768--618820	26	2.0	26	100	0	106	50	22	0	26	1.49
619051--619112	32	1.9	33	93	3	108	48	16	16	19	1.81
624331--624370	15	3.0	13	89	10	55	60	2	2	35	1.24
625476--625589	60	1.9	60	83	3	149	35	22	4	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626539--626586	23	2.2	20	78	10	51	39	2	2	56	1.23
626581--626651	19	3.7	20	74	10	67	47	1	1	49	1.18
626752--626851	50	2.0	49	80	5	112	50	0	4	46	1.20
627784--627815	16	2.0	16	100	0	64	31	6	6	56	1.49
628562--628614	27	2.0	27	100	0	106	45	0	9	45	1.36
628693--628965	62	4.4	62	86	4	367	46	4	18	30	1.69
628862--629244	137	2.7	141	79	10	440	45	5	18	30	1.72
629202--629379	61	3.1	55	75	17	164	43	4	19	32	1.71
629259--629618	61	6.2	62	68	18	200	46	4	20	29	1.69
629293--629506	111	1.9	110	87	3	315	47	3	21	27	1.66

Tables:   1   2   3   4   5   6   7   8