genome.fa.s3924.2.7.7.80.10.50.1000.3.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: VEPZ01003924.1 Hibiscus syriacus cultivar Beakdansim tig00008483_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1466330

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 520 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)
657988--658252	132	2.0	133	82	3	320	20	23	23	32	1.98
670105--670180	24	3.2	24	86	0	62	47	21	10	21	1.80
670121--670232	24	4.7	23	87	4	134	37	20	16	25	1.93
670121--670233	48	2.3	49	85	5	151	37	20	16	25	1.93
672710--672749	19	2.1	19	90	0	62	17	17	47	17	1.83
675819--675885	31	2.2	31	88	0	98	20	49	14	14	1.79
675837--675891	18	2.9	18	86	8	65	20	47	16	16	1.83
675824--675859	13	2.8	13	95	0	63	19	50	13	16	1.79
678405--678474	12	5.8	12	71	6	52	18	14	18	48	1.81
678406--678478	24	3.0	24	85	0	101	20	12	17	49	1.79
680538--680569	13	2.5	13	89	0	55	21	46	18	12	1.82
683094--683164	24	3.0	24	77	4	81	22	11	15	50	1.75
690929--691057	24	5.4	24	82	5	109	41	20	12	25	1.87
690946--691061	24	4.8	24	84	6	137	39	19	13	26	1.89
697121--697229	9	11.4	9	68	11	56	19	25	25	29	1.98
697148--697229	19	4.4	19	87	3	114	18	26	25	29	1.98
697231--697273	22	2.0	22	100	0	86	18	46	23	11	1.82
704425--704480	20	2.8	20	82	15	71	19	25	26	28	1.99
704426--704486	10	6.3	9	78	14	50	18	27	26	27	1.98
704501--704538	17	2.2	17	90	0	58	21	44	23	10	1.83
708290--708342	18	2.9	18	91	0	79	16	45	20	16	1.86
708314--708406	8	11.5	8	71	15	75	15	34	24	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
708335--708406	15	4.6	15	81	10	90	13	33	25	27	1.94
708317--708393	33	2.3	33	100	0	154	14	35	24	25	1.93
708299--708375	18	4.4	18	79	9	88	15	38	22	23	1.92
717752--717801	25	2.0	25	100	0	100	36	28	4	32	1.76
728716--728790	29	2.6	29	89	0	114	38	22	5	33	1.77
728796--728831	13	2.8	13	95	4	65	8	25	50	16	1.73
728838--728911	19	3.9	19	89	0	103	20	32	28	18	1.96
733117--733158	17	2.5	17	88	0	57	33	30	23	11	1.91
738398--738435	5	8.0	5	82	11	53	18	57	21	2	1.52
738398--738449	13	3.8	13	82	5	59	17	55	21	5	1.62
738402--738449	18	2.6	19	77	9	55	16	56	20	6	1.62
742949--742988	16	2.4	17	83	8	55	17	27	27	27	1.98
742970--743019	10	4.6	11	73	14	50	18	32	26	24	1.97
771665--771713	20	2.5	20	100	0	98	26	14	6	53	1.64
778545--778618	29	2.5	28	82	8	85	39	25	5	29	1.78
778648--778693	13	3.2	13	78	21	56	13	21	47	17	1.81
778654--778747	17	5.4	17	93	3	161	10	22	48	18	1.78
778654--778747	35	2.7	34	93	3	161	10	22	48	18	1.78
786926--786960	17	2.1	17	100	0	70	31	11	17	40	1.85
788925--789184	58	4.4	58	74	15	198	30	20	10	38	1.86
788965--789183	58	3.7	58	76	11	212	29	21	10	37	1.88
788923--789184	117	2.2	116	86	1	353	30	20	11	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
796869--796929	24	2.5	24	81	0	68	21	11	16	50	1.76
796943--797309	7	53.9	7	94	5	664	42	0	14	43	1.45
797659--797689	13	2.3	14	94	5	55	51	0	9	38	1.35
800646--800903	58	4.4	58	75	6	200	29	21	10	38	1.87
800656--800904	117	2.1	117	88	0	365	29	22	10	37	1.88
807950--808086	59	2.3	59	81	2	177	29	17	24	28	1.97
808187--808393	47	4.5	47	95	1	357	35	7	22	34	1.83
813957--814093	59	2.3	59	81	2	177	29	17	24	28	1.97
814194--814366	47	3.8	46	88	3	226	36	5	23	34	1.79
824731--824775	2	22.5	2	100	0	90	48	0	0	51	1.00
826739--826772	17	2.0	17	88	0	50	29	26	14	29	1.95
829069--829137	24	2.9	24	84	0	93	20	14	15	49	1.80
832000--832036	16	2.3	16	100	0	74	5	35	24	35	1.78
836112--836187	38	2.0	38	97	0	143	31	22	13	32	1.92
837529--837615	24	3.6	24	85	0	111	25	6	17	50	1.70
845760--845793	17	2.1	16	88	5	50	76	0	8	14	1.01
860284--860332	22	2.2	23	85	10	66	20	2	28	48	1.60
862843--862895	12	4.4	12	80	4	54	9	15	20	54	1.68
868196--868316	29	4.2	29	78	6	122	30	4	19	44	1.72
868236--868318	28	2.9	27	81	11	96	28	3	19	48	1.66
868190--868318	57	2.2	57	84	9	163	30	4	18	46	1.69
868321--868355	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
880984--881035	15	3.2	16	81	8	61	13	28	30	26	1.94
881073--881144	15	4.7	15	83	6	99	18	27	33	20	1.96
889159--889219	28	2.1	28	82	8	70	49	3	6	40	1.45
889166--889267	29	3.6	28	74	4	87	36	3	12	47	1.60
889271--889296	2	13.0	2	100	0	52	50	0	0	50	1.00
895178--895252	24	3.2	24	75	5	64	44	20	10	25	1.83
895192--895278	24	3.7	23	81	6	84	41	19	13	25	1.88
898646--898720	35	2.1	35	92	0	123	34	25	29	10	1.90
898780--898832	24	2.2	24	82	0	61	41	18	11	28	1.85
898795--898873	24	3.3	23	78	1	86	36	18	16	27	1.93
902927--902976	24	2.1	24	96	0	91	44	24	2	30	1.65
904715--904739	13	1.9	13	100	0	50	16	20	48	16	1.82
904717--904781	18	3.6	18	76	0	76	12	21	44	21	1.85
906727--906800	35	2.1	35	92	0	121	33	27	28	10	1.90
906860--906958	24	4.2	24	80	2	74	40	21	13	25	1.89
906874--906960	24	3.7	23	81	6	102	37	21	14	25	1.92
910515--910712	29	6.8	29	88	4	274	31	3	14	50	1.59
913942--914005	29	2.2	30	82	2	76	37	4	23	34	1.76
915422--915547	47	2.8	45	86	5	173	38	7	23	30	1.83
922625--922750	47	2.8	45	86	5	173	38	7	23	30	1.83
929609--929770	61	2.7	61	97	0	299	20	16	30	31	1.95
929879--930004	47	2.8	45	86	5	173	38	7	23	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
934514--934652	24	5.8	24	80	7	149	26	15	16	41	1.88
934572--934669	24	4.1	23	85	5	97	26	11	18	43	1.83
934514--934652	48	2.9	48	82	6	174	26	15	16	41	1.88
942572--942598	13	2.1	13	100	0	54	14	22	29	33	1.94
945549--945660	24	4.7	24	73	8	93	28	13	16	41	1.87
945623--945672	24	2.1	24	84	0	64	30	12	20	38	1.88
945875--945905	2	15.5	2	100	0	62	48	0	0	51	1.00
950351--950486	48	2.8	48	88	2	193	26	14	18	40	1.89
950351--950486	24	5.7	24	83	5	168	26	14	18	40	1.89
955107--955220	24	4.8	24	78	4	113	28	12	17	41	1.86
957413--957453	17	2.4	17	87	0	55	17	26	26	29	1.97
959815--959929	24	4.8	24	84	6	135	26	13	19	41	1.87
972445--972512	27	2.5	28	80	2	84	42	22	11	23	1.86
973929--974026	44	2.2	45	81	1	108	23	22	21	32	1.98
974012--974116	39	2.7	39	83	0	129	20	30	23	25	1.98
974108--974314	43	4.8	43	87	0	288	23	23	19	32	1.97
974108--974344	86	2.7	86	83	0	294	22	23	19	34	1.96
978855--978934	41	2.0	41	82	0	97	22	10	15	52	1.71
985315--985340	12	2.2	12	100	0	52	30	19	0	50	1.48
986073--986114	18	2.3	18	91	0	66	16	23	42	16	1.88
988771--988823	18	2.9	18	88	0	79	16	20	45	16	1.86
988778--988802	13	1.9	13	100	0	50	12	24	48	16	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
999613--999719	24	4.5	24	69	0	79	46	16	12	24	1.81
1002127--1002151	10	2.5	10	100	0	50	40	28	20	12	1.87
1002147--1002684	289	1.9	279	86	4	772	29	22	21	26	1.99
1004386--1004490	24	4.4	24	71	4	86	48	16	12	22	1.79
1009011--1009117	24	4.5	24	70	4	81	49	15	12	22	1.78
1012806--1012912	24	4.5	24	70	4	81	49	15	12	22	1.78
1016604--1016710	24	4.5	24	68	4	72	49	15	10	24	1.76
1025583--1025641	21	2.7	21	78	5	64	27	22	23	27	1.99
1031491--1031626	69	2.0	68	84	7	177	28	19	19	33	1.96
1032413--1032480	27	2.5	28	82	2	84	45	22	10	22	1.82

Tables:   1   2   3   4   5