genome.fa.s8627.2.7.7.80.10.50.1000.5.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: VEPZ01008627.1 Hibiscus syriacus cultivar Beakdansim tig00111594_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1073793

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 615 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)
855275--855308	18	1.9	17	88	5	50	47	14	26	11	1.79
860714--860809	31	3.0	31	86	3	120	37	19	13	29	1.90
863420--863456	15	2.5	15	95	4	67	24	13	21	40	1.89
865329--865420	40	2.3	40	79	5	96	27	14	22	35	1.93
865457--865505	20	2.5	19	83	6	53	36	14	22	26	1.92
866126--866557	54	8.1	53	86	2	544	26	17	20	35	1.95
875120--875454	165	2.0	170	94	4	601	46	8	4	40	1.55
884537--884576	21	2.0	20	90	5	62	20	50	2	27	1.61
888436--888604	83	2.0	83	100	0	338	36	17	10	34	1.85
890235--890410	58	3.0	58	81	5	196	36	6	14	43	1.70
890299--890451	58	2.6	59	79	16	176	37	5	13	44	1.66
890463--890946	39	12.2	38	70	16	247	35	6	14	42	1.72
890605--890727	37	3.3	37	78	13	117	35	6	11	46	1.66
890606--890713	36	2.8	38	78	14	107	37	6	12	43	1.69
890759--890946	40	4.8	39	77	7	175	34	7	14	43	1.74
890997--891021	4	6.2	4	100	0	50	72	0	28	0	0.86
891693--892008	39	8.1	38	69	13	158	34	6	13	44	1.71
891838--892024	39	4.8	39	79	4	191	34	7	14	43	1.74
891884--892052	78	2.2	77	81	6	189	34	5	13	46	1.67
897795--897903	54	2.0	55	98	1	211	36	14	17	31	1.90
898748--898946	21	9.8	20	72	6	114	38	24	17	20	1.93
898871--899025	20	7.7	20	80	4	105	36	24	20	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
898829--898940	41	2.7	41	91	6	174	38	21	16	23	1.93
898913--899107	60	3.2	60	83	1	246	36	26	18	18	1.94
898913--899107	20	9.6	20	82	5	214	36	26	18	18	1.94
899488--899558	33	2.2	33	89	0	106	11	23	16	47	1.79
899636--899713	20	3.8	20	81	6	95	44	16	26	11	1.82
899637--899713	40	1.9	40	91	2	127	44	16	27	11	1.83
899700--899752	14	3.5	14	72	18	52	41	22	26	9	1.84
899692--899767	32	2.4	32	88	2	109	44	22	23	9	1.81
899763--899880	14	7.1	18	67	25	80	10	24	21	44	1.83
899785--899874	14	5.7	14	74	23	81	8	25	23	42	1.83
899768--899882	33	3.5	33	95	0	212	9	24	20	45	1.81
901520--901893	91	4.1	92	93	4	657	22	13	18	45	1.84
901937--902065	19	7.3	19	73	17	116	46	28	16	8	1.76
901973--902065	33	2.8	32	90	4	141	47	27	17	7	1.74
901937--902065	52	2.5	52	73	14	131	46	28	16	8	1.76
902061--902193	19	7.6	19	73	18	110	11	19	24	45	1.83
902066--902156	32	2.8	33	90	5	150	10	20	21	46	1.82
904084--904118	13	2.7	13	90	0	61	28	0	22	48	1.51
904222--904320	19	5.5	19	83	13	138	44	17	23	15	1.86
904222--904336	52	2.2	51	92	4	187	42	17	25	14	1.87
904326--904489	50	3.2	50	88	10	235	14	24	18	42	1.87
904326--904489	20	9.6	19	69	25	125	14	24	18	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
904548--904643	19	5.4	19	83	14	125	44	17	22	14	1.85
904548--904662	51	2.2	52	95	4	207	43	18	24	13	1.86
907159--907205	24	2.0	24	87	8	69	38	21	14	25	1.92
907887--908136	20	12.5	20	85	1	259	20	17	24	38	1.93
908123--908205	21	4.0	21	73	6	78	25	16	24	33	1.96
908103--908201	42	2.4	43	77	11	100	21	18	23	37	1.94
909568--909601	16	2.1	16	94	0	59	47	5	20	26	1.73
916004--916079	23	3.4	22	74	7	73	25	21	25	28	1.99
920223--920261	20	2.1	19	85	9	53	15	20	12	51	1.76
929448--929511	21	3.0	21	81	4	65	23	35	23	17	1.95
932215--932269	22	2.6	21	94	5	101	18	38	23	20	1.93
936016--936048	15	2.2	15	94	0	57	45	6	18	30	1.73
936098--936127	15	2.0	15	100	0	60	26	26	0	46	1.53
936279--936345	30	2.2	30	84	5	82	67	1	1	29	1.09
936289--936347	30	2.0	30	90	6	93	64	1	1	32	1.13
937570--937615	10	4.5	10	83	5	56	69	0	4	26	1.07
937578--937615	11	3.6	11	82	13	53	68	0	5	26	1.11
937570--937615	20	2.2	21	88	3	67	69	0	4	26	1.07
938221--938276	20	2.8	20	81	10	60	23	3	1	71	1.11
938221--938277	10	5.6	10	80	12	53	22	3	1	71	1.10
941528--941562	18	1.9	18	88	0	52	28	17	0	54	1.43
942884--942932	18	2.7	18	93	0	89	12	16	53	18	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
942868--942932	23	3.0	23	78	21	95	13	15	52	18	1.75
942858--942911	13	4.4	13	79	13	60	16	16	48	18	1.82
944328--944374	20	2.3	20	92	0	76	36	21	19	23	1.95
944368--944653	20	14.3	20	79	12	261	41	23	15	19	1.89
944327--944675	60	5.8	61	79	10	328	40	22	15	20	1.90
946959--947058	42	2.4	41	75	8	103	17	13	38	32	1.87
947439--947534	21	4.6	21	76	7	88	23	32	20	22	1.98
947485--947534	21	2.4	21	96	3	93	22	28	26	24	1.99
949408--949443	18	2.0	18	94	0	63	16	2	25	55	1.55
950396--950432	18	2.1	18	89	0	56	51	8	8	32	1.61
950931--950972	20	2.1	20	95	0	75	16	21	26	35	1.94
951276--951311	18	2.0	18	94	0	63	19	2	22	55	1.56
953726--953759	12	2.8	12	90	0	50	14	0	29	55	1.40
954354--954391	16	2.5	15	84	12	51	65	0	5	28	1.14
954579--954637	18	3.1	18	78	9	55	35	10	18	35	1.85
954726--954779	20	2.7	19	75	8	63	24	14	33	27	1.94
955872--955944	36	2.0	36	89	0	110	32	4	19	43	1.70
969183--969221	20	2.0	20	89	0	60	33	23	10	33	1.88
983100--983233	67	2.0	67	88	0	196	21	21	20	36	1.95
988618--988683	7	9.7	7	76	18	59	75	1	21	1	0.96
988610--988684	14	4.9	15	77	16	57	76	1	20	2	0.99
988641--988683	20	2.2	20	91	0	68	79	2	18	0	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
995596--995661	29	2.3	29	94	0	114	62	13	6	18	1.51
997416--997458	2	19.5	2	82	17	50	46	0	9	44	1.35
997416--997460	7	7.0	7	83	16	62	44	0	11	44	1.39
997417--997458	18	2.3	18	100	0	84	45	0	9	45	1.36
999240--999309	30	2.2	33	76	19	78	41	8	8	41	1.66
1002971--1003011	21	2.0	22	90	9	68	2	14	0	82	0.76
1002970--1003012	14	2.8	15	86	13	61	2	13	0	83	0.74
1003367--1003731	91	4.0	90	81	1	397	26	21	13	38	1.91
1004140--1004882	36	21.1	36	78	9	629	39	14	20	25	1.90
1004229--1004487	137	1.9	137	86	0	365	41	14	20	23	1.89
1004180--1004559	209	1.8	211	89	1	602	41	14	20	23	1.89
1004404--1004802	103	3.8	103	85	6	459	39	14	21	25	1.90
1010020--1010054	15	2.2	17	90	10	56	0	17	0	82	0.66
1010020--1010063	21	2.1	21	83	8	54	0	15	2	81	0.78
1016154--1016190	13	2.7	14	84	16	51	83	2	8	5	0.88
1016143--1016190	14	3.5	13	83	13	53	81	2	12	4	0.93
1016879--1016908	16	1.9	15	93	6	51	60	0	33	6	1.23
1018602--1018640	20	2.0	20	89	0	60	33	15	10	41	1.81
1020931--1021118	96	2.0	96	82	4	236	34	14	22	27	1.94
1020963--1021138	96	1.8	95	82	3	228	32	15	24	27	1.95
1021460--1021698	46	5.2	46	92	0	390	46	9	21	22	1.79
1021460--1021698	20	10.4	25	67	25	143	46	9	21	22	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1027801--1027998	95	2.1	96	83	7	244	35	14	22	26	1.93
1028341--1028618	46	6.1	46	89	3	411	44	11	20	22	1.84
1028390--1028458	22	3.2	22	66	22	56	47	10	17	24	1.78
1028349--1028611	20	11.9	20	69	20	141	44	11	22	21	1.84
1029179--1029217	19	2.1	19	85	0	51	28	7	5	58	1.47
1029274--1029307	18	1.9	17	94	5	59	26	11	11	50	1.73
1030277--1030315	20	2.0	20	84	0	51	35	15	17	30	1.91
1031686--1031732	2	23.5	2	100	0	94	51	0	0	48	1.00
1036323--1036364	18	2.3	19	91	4	68	54	0	0	45	0.99
1036330--1036373	18	2.9	14	76	23	52	45	0	0	54	0.99

Tables:   1   2   3   4   5   6