genome.fa.s8105.2.7.7.80.10.50.1000.5.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  5  of  30  ( 3521 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)
777574--777735	54	3.1	54	81	6	190	22	22	15	38	1.92
785832--785885	14	3.8	14	80	2	54	50	9	14	25	1.73
787530--787579	18	3.2	16	83	13	52	74	0	2	24	0.93
787535--787579	16	2.7	16	82	6	54	73	0	2	24	0.95
789224--789255	15	2.1	15	94	0	55	0	21	0	78	0.76
789310--789346	19	1.9	19	89	10	58	5	24	10	59	1.52
789743--789847	3	35.0	3	86	0	147	60	0	0	39	1.04
792559--792676	7	17.4	7	67	23	58	56	0	0	42	1.05
792559--792652	26	3.6	26	79	12	104	58	0	0	41	0.98
792573--792676	19	5.3	19	69	18	61	57	0	0	41	1.05
792558--792688	33	4.2	32	79	14	118	54	0	0	44	1.05
795489--795616	60	2.1	60	80	5	143	34	21	5	38	1.77
795813--795932	61	2.0	61	81	3	143	49	3	15	31	1.61
796410--796434	13	1.9	13	100	0	50	40	0	0	60	0.97
796416--796481	35	1.9	33	85	11	89	51	0	3	45	1.16
796449--796511	23	2.8	22	76	9	65	52	0	0	47	1.00
796449--796511	22	2.8	21	80	9	63	52	0	0	47	1.00
797228--797267	21	1.9	21	85	10	55	62	2	0	35	1.09
797257--797299	22	1.9	23	90	4	70	48	0	0	51	1.00
797305--797338	17	2.0	17	88	0	50	44	2	0	52	1.16
797439--797497	30	2.0	29	83	9	75	52	1	1	44	1.21
809677--809721	19	2.4	19	80	0	54	4	62	4	28	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
810067--810104	12	3.2	12	82	17	53	68	0	0	31	0.90
810620--810725	37	3.0	37	63	20	100	46	13	13	27	1.80
810527--810725	63	3.0	66	81	10	262	48	12	12	27	1.76
812210--812243	18	1.9	17	88	5	50	29	2	0	67	1.05
812326--812375	21	2.4	21	86	6	66	42	12	10	36	1.76
823400--823445	21	2.2	21	84	3	58	34	4	10	50	1.57
823978--824617	210	3.1	208	83	6	721	33	21	13	32	1.92
834960--834994	2	18.0	2	94	5	63	48	0	0	51	1.00
836148--836229	22	3.7	22	81	12	96	32	20	20	25	1.97
836505--836553	18	2.5	20	80	6	57	26	24	20	28	1.99
839205--839236	2	16.0	2	93	0	55	46	0	0	53	1.00
839598--839652	16	3.4	16	71	14	51	25	10	1	61	1.39
839840--839874	18	1.9	18	88	0	52	42	2	5	48	1.41
844260--844293	16	2.1	16	100	0	68	11	23	52	11	1.70
861718--861934	110	2.0	110	91	1	355	31	19	11	37	1.87
864474--864511	4	9.5	4	100	0	76	76	0	23	0	0.79
865170--865217	9	5.4	9	90	5	80	81	0	0	18	0.70
865157--865217	17	3.6	17	89	6	88	78	0	3	18	0.88
866400--866446	12	3.8	12	76	15	51	74	0	2	23	0.93
866397--866438	16	2.7	15	85	10	50	73	0	2	23	0.94
866472--866571	38	2.6	37	80	12	114	48	4	1	47	1.27
866556--866634	29	2.6	30	88	6	106	43	5	2	49	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
867277--867316	21	1.9	21	84	0	53	35	20	17	27	1.95
870006--870057	21	2.5	21	80	0	59	46	9	3	40	1.55
875727--875785	2	29.5	2	100	0	118	50	0	0	49	1.00
876514--876578	14	4.6	14	77	7	60	12	10	15	61	1.56
876940--877005	23	2.9	23	83	0	69	12	10	13	63	1.52
880630--880669	19	2.1	19	85	0	53	42	12	17	27	1.85
885292--885338	20	2.4	19	82	10	58	40	8	17	34	1.79
885576--885611	11	3.5	11	85	14	58	44	8	0	47	1.33
885562--885611	20	2.5	21	90	6	77	46	10	0	44	1.37
886320--886380	32	1.9	31	83	3	77	54	8	9	27	1.62
886886--886923	19	2.0	20	89	5	60	31	18	5	44	1.72
887389--887422	15	2.3	15	89	0	50	0	20	0	79	0.73
888901--888927	2	13.5	2	100	0	54	48	0	0	51	1.00
889190--889214	2	12.5	2	100	0	50	52	0	0	48	1.00
889996--890196	63	3.2	63	99	0	393	41	12	12	33	1.80
890141--890235	41	2.3	41	96	1	172	41	11	15	31	1.83
895565--895765	63	3.2	63	98	0	384	41	13	11	33	1.81
895717--895804	41	2.1	41	93	0	149	42	13	12	31	1.82
897256--897438	58	3.2	58	98	0	348	37	6	9	45	1.63
898583--898655	19	3.8	19	83	7	60	41	16	6	35	1.75
898915--898945	14	2.2	14	94	0	53	41	9	3	45	1.53
899045--899090	2	23.5	2	95	4	85	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
899280--899340	19	3.5	19	70	25	62	40	3	8	47	1.49
899278--899341	32	2.0	32	93	0	110	40	3	7	48	1.48
899329--899402	30	2.5	30	91	4	114	45	6	5	41	1.53
899391--899508	2	62.5	2	68	22	69	44	5	2	48	1.38
900400--900520	64	1.9	63	85	8	165	33	15	23	28	1.95
900423--900562	64	2.2	65	82	11	164	28	15	25	30	1.96
900525--900562	20	1.9	20	94	0	67	18	15	34	31	1.92
901816--901879	32	2.0	32	87	0	92	42	4	7	45	1.54
901915--902031	2	61.5	2	69	21	74	44	5	1	48	1.35
901914--902033	29	4.0	29	70	19	93	44	5	1	49	1.34
901965--902033	23	2.9	25	78	8	72	43	8	1	46	1.43
903847--904162	153	2.1	153	100	0	632	51	7	8	32	1.60
904919--904951	15	2.2	15	94	0	57	78	0	15	6	0.93
905067--905095	12	2.3	13	94	5	51	51	3	6	37	1.46
906308--906336	15	1.9	15	100	0	58	34	0	20	44	1.52
911610--911691	36	2.2	37	80	4	94	67	2	7	23	1.28
912912--912957	18	2.4	19	79	17	51	71	0	2	26	0.97
913542--913608	22	3.0	22	100	0	134	26	26	26	19	1.99
913818--913880	30	2.1	30	88	5	92	36	22	6	34	1.80
913902--913973	29	2.5	29	90	0	108	40	12	9	37	1.76
914276--914427	68	2.2	68	86	3	200	18	27	26	26	1.98
914408--914449	21	2.0	20	86	4	57	16	26	26	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
914282--914449	68	2.5	67	83	6	180	18	28	24	28	1.98
920462--920512	22	2.3	22	93	0	84	31	25	25	17	1.97
920470--920514	22	2.0	22	100	0	90	26	26	26	20	1.99
920724--920786	30	2.1	30	88	5	92	36	22	6	34	1.80
920808--920879	29	2.5	29	90	0	108	40	12	9	37	1.76
921183--921334	68	2.2	69	87	2	209	18	27	26	26	1.98
921314--921356	21	2.0	21	86	0	59	16	25	27	30	1.97
921183--921356	67	2.6	67	84	5	190	18	27	26	27	1.98
922092--922258	38	4.6	38	78	13	176	43	5	1	48	1.38
922104--922234	36	3.6	35	79	8	111	45	7	1	45	1.41
922247--922278	2	16.5	2	93	6	57	46	0	0	53	1.00
922212--922310	49	2.1	46	88	11	146	44	2	2	51	1.24
922320--922384	28	2.5	26	87	7	87	43	9	3	44	1.51
922283--922424	62	2.2	64	85	7	180	41	7	4	47	1.50
922348--922464	40	2.9	40	94	0	207	41	6	3	48	1.46
922429--922493	27	2.4	27	89	2	103	44	6	3	46	1.44
922496--922558	27	2.4	26	77	15	67	61	9	4	23	1.45
925633--925710	31	2.5	31	82	0	102	52	16	11	19	1.74
931119--931211	21	4.5	21	75	4	91	39	17	24	18	1.91
931119--931211	41	2.3	41	96	0	177	39	17	24	18	1.91
931138--931272	41	3.3	41	81	6	123	38	20	21	20	1.94
931200--931294	20	4.7	20	80	2	91	34	24	17	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
931482--931525	22	2.0	22	95	0	79	20	45	15	18	1.85
931731--931781	19	2.7	19	100	0	102	41	27	21	9	1.84
931808--931845	20	1.9	20	88	0	58	13	15	21	50	1.78
933159--933203	18	2.5	18	88	0	72	26	44	15	13	1.83
933685--933751	20	3.4	20	81	2	73	38	23	22	14	1.92
933798--933919	14	7.9	14	75	20	109	9	18	25	47	1.77
933793--933935	32	4.4	32	98	0	268	9	18	24	46	1.79
933920--933974	20	2.8	19	89	5	83	16	25	23	34	1.95
935842--935877	14	2.6	14	90	0	54	30	0	22	47	1.52
935984--936037	14	3.5	14	77	22	63	48	20	20	11	1.80

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30