genome.fa.s7298.2.7.7.80.10.50.1000.3.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: VEPZ01007298.1 Hibiscus syriacus cultivar Beakdansim tig00019423_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  730416

Tables:   1   2   3   

This is table  3  of  3  ( 350 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)
476244--476276	9	3.7	9	95	0	57	39	9	27	24	1.85
480200--480224	2	12.5	2	100	0	50	48	0	0	52	1.00
501407--501454	22	2.2	22	81	3	53	50	0	2	47	1.12
503099--503178	35	2.3	36	80	10	94	51	0	3	45	1.19
503100--503187	25	3.5	26	71	21	71	52	0	3	44	1.18
503251--503312	25	2.5	25	83	0	79	48	0	3	48	1.17
511107--511142	16	2.2	16	90	0	54	41	5	2	50	1.40
517660--517725	23	3.0	23	65	12	57	31	4	24	39	1.75
518204--518406	32	6.3	32	83	2	255	29	16	18	34	1.93
518405--518437	9	3.7	9	95	0	57	39	9	27	24	1.85
520874--520938	32	2.1	32	94	2	114	60	6	6	27	1.45
522386--522414	2	14.5	2	100	0	58	48	0	0	51	1.00
524359--524537	88	2.0	88	98	0	349	39	21	8	30	1.83
543820--543883	22	3.0	22	78	10	55	46	0	1	51	1.10
544006--544049	21	2.0	23	86	8	65	47	0	4	47	1.22
545123--545212	26	3.5	26	73	18	89	52	0	3	44	1.17
545952--545995	23	1.9	23	90	0	70	34	22	13	29	1.93
548441--548465	13	1.9	13	100	0	50	48	0	0	52	1.00
550804--550853	21	2.6	19	75	12	57	54	0	2	44	1.11
550829--550857	13	2.1	14	93	6	51	51	0	0	48	1.00
553890--553928	16	2.4	16	91	0	60	41	7	2	48	1.45
561760--562110	32	11.0	32	88	2	508	28	17	19	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562334--562381	3	15.7	3	95	4	87	33	0	0	66	0.92
562706--562758	22	2.4	23	84	9	74	26	22	28	22	1.99
566735--567139	32	12.9	32	84	3	493	28	16	19	34	1.94
567349--567386	3	12.7	3	100	0	76	34	0	0	65	0.93
567704--567756	22	2.4	22	81	6	63	28	20	26	24	1.99
568846--569092	127	2.0	125	88	5	367	44	4	9	41	1.56
571529--571557	11	2.6	11	100	0	58	27	34	0	37	1.57
573502--573555	23	2.3	23	90	0	81	29	20	16	33	1.95
576275--576318	22	2.0	22	100	0	88	13	18	31	36	1.90
584149--584191	18	2.4	18	92	0	77	39	27	0	32	1.57
587403--587558	78	2.0	78	98	0	303	25	25	10	38	1.88
598467--598493	14	1.9	14	100	0	54	51	7	11	29	1.64
600387--600429	22	2.0	22	86	9	61	65	6	0	27	1.18
601265--602108	114	7.4	114	95	0	1505	29	18	13	38	1.90
601265--602118	227	3.8	227	97	0	1559	29	18	13	38	1.90
601265--602108	341	2.5	340	96	0	1544	29	18	13	38	1.90
602850--603507	83	7.9	84	95	2	1138	35	20	14	29	1.92
604258--604299	19	2.2	20	91	4	68	52	11	4	30	1.59
604634--604672	17	2.3	17	100	0	78	0	10	0	89	0.48
604634--604671	8	4.6	8	93	6	67	0	10	0	89	0.49
616123--616165	22	2.0	22	86	9	61	65	6	0	27	1.18
617391--617432	3	14.0	3	94	0	75	66	2	0	30	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619668--619727	24	2.5	24	97	0	111	10	33	28	28	1.89
627173--627233	23	2.8	23	75	7	65	22	36	22	18	1.95
630639--630669	16	2.0	15	93	6	53	45	12	3	38	1.59
636662--636738	31	2.5	31	78	0	91	45	12	14	27	1.81
640038--640153	21	5.6	21	67	7	58	33	25	18	22	1.97
640182--640436	40	6.3	40	90	0	330	39	22	18	19	1.93
640182--640433	20	12.4	20	77	7	222	38	23	18	19	1.93
640141--640436	80	3.7	80	83	2	324	39	22	18	19	1.93
641904--641975	20	3.5	20	84	5	92	12	16	19	51	1.76
642538--642706	20	8.5	20	72	14	118	20	17	23	39	1.93
642539--642767	40	5.8	40	78	8	207	20	17	22	39	1.92
642539--642706	41	4.2	38	83	6	167	20	17	22	39	1.92
642715--642767	20	2.7	20	93	0	88	13	16	24	45	1.83
644630--644707	38	2.1	38	100	0	156	24	15	26	33	1.95
648672--648716	23	2.0	23	100	0	90	31	17	24	26	1.97
648765--648803	16	2.6	15	88	8	53	33	5	25	35	1.78
654441--654519	23	3.4	23	91	3	124	18	16	17	46	1.84
656729--656853	60	2.1	60	82	5	146	36	2	24	36	1.68
656745--656882	60	2.3	60	80	9	165	39	3	20	36	1.70
662472--662525	2	27.0	2	100	0	108	50	0	0	50	1.00
672796--672899	40	2.6	40	89	0	163	24	16	12	47	1.81
679720--679786	16	4.3	16	88	3	93	11	10	17	59	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679718--679782	10	6.7	10	68	25	50	10	12	20	56	1.65
679846--679878	16	2.1	16	100	0	66	6	12	24	57	1.57
683124--683169	2	23.0	2	100	0	92	50	0	0	50	1.00
684621--684661	20	2.0	20	100	0	82	34	19	4	41	1.73
695718--695810	48	2.0	47	91	2	150	35	24	17	22	1.95
700650--700693	21	2.1	21	86	0	61	36	6	2	54	1.40
702716--702787	35	2.1	35	100	0	144	22	15	22	40	1.91
705984--706025	21	2.0	21	81	9	50	50	7	9	33	1.62
706008--706096	31	2.9	31	96	0	160	57	7	14	20	1.62
706664--706689	3	8.7	3	100	0	52	69	0	30	0	0.89
708633--708722	31	3.1	28	83	10	110	40	8	11	40	1.72
708633--708737	28	3.6	29	76	11	106	38	10	11	40	1.76
708821--708919	31	3.4	29	81	9	123	39	13	11	36	1.80
708790--708950	60	2.7	56	74	16	139	41	11	12	34	1.78
708908--708985	31	2.5	31	97	0	147	43	7	14	34	1.74
713927--713979	21	2.5	21	81	6	72	20	26	18	33	1.96
713989--714083	20	4.7	20	80	7	102	32	27	18	21	1.97
714271--714313	22	2.0	22	90	0	68	20	41	16	20	1.90
714737--714791	25	2.2	24	78	15	58	20	9	18	52	1.71
716466--716511	20	2.3	20	84	0	56	36	23	21	17	1.94
716477--716521	20	2.3	20	88	3	74	37	17	24	20	1.93
716485--716566	19	4.5	19	75	16	75	41	21	21	14	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
716580--716638	14	3.9	14	74	20	55	11	15	23	49	1.77
716596--716654	19	3.4	19	68	22	65	15	16	20	47	1.83
716582--716654	33	2.2	33	97	0	137	13	16	21	47	1.81
716641--716691	20	2.5	20	93	0	84	13	23	23	39	1.91
716661--716719	20	3.0	20	84	0	73	23	15	25	35	1.94
717067--717135	21	3.3	20	74	6	66	24	40	15	18	1.90
717057--717147	41	2.2	42	88	2	139	21	41	15	20	1.89
718684--718758	34	2.2	34	90	0	114	41	25	21	12	1.87
718782--718837	20	2.8	20	97	0	103	14	21	25	39	1.91
719060--719136	20	3.8	20	96	0	136	27	20	28	23	1.99
719124--719179	21	2.7	21	100	0	112	14	16	25	44	1.84
719069--719199	20	6.4	20	88	5	122	22	18	27	32	1.97
719105--719222	62	1.9	62	85	3	166	19	18	23	38	1.93
719188--719235	20	2.3	21	85	3	62	20	22	14	41	1.89
720239--720352	60	1.9	60	83	7	151	42	3	22	30	1.70
720612--720644	14	2.4	14	90	10	50	66	0	3	30	1.06
722136--722199	27	2.3	28	81	10	78	32	7	9	50	1.64
722548--722626	39	2.1	39	87	2	115	56	7	7	27	1.54
722842--722904	28	2.2	28	81	8	74	7	15	20	55	1.65
722843--722909	14	4.8	14	83	3	64	8	16	20	53	1.69
727334--727454	60	2.0	60	98	0	233	40	4	10	43	1.61
729723--729772	2	26.0	2	92	8	86	50	0	0	50	1.00

Tables:   1   2   3

The End!