genome.fa.s1711.2.7.7.80.10.50.1000.3.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: VEPZ01001711.1 Hibiscus syriacus cultivar Beakdansim tig00003454_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4148933

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  3  of  13  ( 1546 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)
712261--712357	36	2.7	36	95	1	169	28	5	37	28	1.79
716625--716674	19	2.5	20	90	3	75	46	4	12	38	1.60
725556--725666	35	3.2	35	85	2	143	27	36	3	33	1.74
726364--726424	26	2.3	26	94	0	104	27	34	0	37	1.57
729883--729988	35	3.0	35	78	1	122	29	33	2	34	1.72
730391--730441	19	2.6	20	93	3	86	45	5	13	35	1.68
737194--737245	19	2.6	19	84	6	68	48	5	13	32	1.66
737194--737243	21	2.5	21	87	6	68	50	6	12	32	1.64
741293--741344	19	2.6	21	90	6	81	46	5	13	34	1.67
743110--743194	11	7.2	11	72	22	66	31	35	3	29	1.75
743107--743211	36	2.9	36	91	1	167	29	35	4	30	1.78
745019--745050	9	3.7	9	95	4	57	0	18	0	81	0.70
747050--747160	35	3.2	35	85	2	143	28	35	3	32	1.75
747524--747783	127	2.0	127	98	0	502	30	17	8	44	1.77
748745--748790	20	2.3	20	85	3	58	39	13	6	41	1.70
749208--749256	19	2.5	20	78	21	59	24	8	0	67	1.18
749511--749568	18	3.2	18	81	11	57	75	0	18	5	0.98
749514--749571	19	2.9	20	73	21	59	74	0	20	5	1.01
750839--750903	24	2.7	25	83	9	82	41	12	18	27	1.86
751937--751996	30	2.0	31	86	3	86	28	8	10	53	1.63
752893--752943	20	2.6	20	90	3	77	37	13	5	43	1.69
753356--753404	19	2.5	20	78	21	59	24	8	0	67	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
761758--761805	15	3.1	14	83	16	60	58	0	25	16	1.38
761754--761807	26	2.1	24	83	16	65	59	0	22	18	1.38
768625--768689	27	2.4	28	80	12	80	61	10	16	10	1.56
769988--770030	23	1.9	21	81	13	50	32	18	13	34	1.90
771529--771585	12	4.8	12	83	12	73	26	8	47	17	1.77
773666--773719	16	3.1	17	81	10	65	14	18	0	66	1.25
781555--781600	15	2.9	15	87	6	56	52	0	28	19	1.47
781760--781845	13	7.2	12	72	22	58	29	3	37	30	1.74
781742--781846	36	2.9	36	94	1	176	29	4	36	29	1.78
785780--785818	14	2.8	14	81	14	53	0	17	2	79	0.84
785762--785818	28	2.0	28	86	13	80	1	17	5	75	1.07
786232--786317	13	7.2	12	72	22	58	29	3	37	30	1.74
786214--786318	36	2.9	36	94	1	176	29	4	36	29	1.78
789769--789830	13	4.9	13	72	18	51	32	37	1	29	1.67
789771--789846	35	2.1	37	90	4	120	32	36	1	28	1.66
789771--789846	11	6.4	11	73	23	57	32	36	1	28	1.66
790292--790338	14	3.1	15	75	12	51	72	6	19	2	1.17
795476--795532	11	5.0	11	76	19	55	35	35	1	28	1.68
801388--801440	16	3.2	16	77	17	56	66	0	18	15	1.26
813324--813380	23	2.5	23	97	0	105	24	22	7	45	1.77
815065--815096	14	2.3	14	94	0	55	34	6	28	31	1.82
824857--824925	23	2.8	23	80	10	66	11	17	13	57	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
835937--835996	30	2.0	31	86	3	86	53	10	8	28	1.63
837031--837091	24	2.5	24	86	5	79	31	18	11	39	1.86
838363--838418	19	2.8	19	70	24	53	3	21	0	75	0.96
839133--839181	19	2.5	20	90	3	73	44	6	14	34	1.70
840078--840137	30	2.0	31	86	3	86	53	10	8	28	1.63
847059--847111	20	2.8	18	83	13	70	39	5	15	39	1.70
847995--848054	30	2.0	31	86	3	86	53	10	8	28	1.63
848458--848508	20	2.6	20	93	3	86	35	13	5	45	1.68
850192--850225	13	2.6	13	85	0	50	32	0	35	32	1.58
852636--852697	24	2.7	23	73	16	65	66	8	16	9	1.44
861527--861620	49	2.0	47	83	10	120	13	23	27	35	1.93
876100--876132	16	2.1	16	100	0	66	42	6	18	33	1.75
879337--879370	16	2.1	16	94	0	59	41	14	14	29	1.86
880055--880114	24	2.6	23	81	7	77	8	18	10	63	1.50
880062--880114	23	2.2	24	90	3	81	9	16	11	62	1.54
887272--887306	12	2.8	12	91	4	52	2	0	11	85	0.69
890880--890912	15	2.1	16	88	5	50	3	0	15	81	0.80
901519--901571	11	4.5	11	74	21	54	33	33	3	28	1.75
901536--901588	22	2.3	23	93	3	90	32	35	3	28	1.75
901497--901568	36	2.0	36	97	0	135	30	37	5	26	1.79
903411--903495	11	7.2	11	72	22	66	31	36	3	28	1.74
903408--903512	36	2.9	36	95	1	185	30	36	4	28	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
903952--903993	15	2.9	15	79	13	52	78	2	16	2	0.96
908259--908363	36	2.9	36	91	1	167	30	33	6	29	1.83
908805--908831	9	3.0	9	100	0	54	88	0	11	0	0.50
912772--912843	11	6.2	11	70	27	51	33	34	4	27	1.76
912808--912860	22	2.3	23	90	3	81	33	33	3	28	1.75
912769--912840	36	2.0	36	97	0	135	31	34	5	27	1.80
914194--914262	24	2.9	23	82	4	75	23	20	23	33	1.97
915978--916038	26	2.4	25	77	15	63	4	16	4	73	1.18
916000--916046	16	2.7	17	83	9	51	2	14	4	78	0.99
915991--916048	19	3.2	19	83	13	77	1	15	3	79	0.95
917701--917726	2	13.0	2	100	0	52	50	0	0	50	1.00
918803--918848	19	2.3	20	88	3	67	36	13	8	41	1.75
918812--918853	20	2.2	19	95	4	75	38	11	4	45	1.62
919349--919381	6	5.7	6	92	3	50	9	33	0	57	1.30
921621--921678	25	2.3	25	87	0	89	39	22	8	29	1.84
922626--922655	14	2.1	14	100	0	60	40	26	20	13	1.89
932129--932172	21	2.1	21	86	0	61	65	6	20	6	1.39
931895--932942	525	2.0	525	98	0	2019	34	17	17	30	1.93
936719--936825	50	2.1	50	79	6	119	19	19	22	38	1.94
936922--936963	22	1.9	22	90	9	68	14	11	4	69	1.34
941600--941641	22	1.9	22	90	9	68	14	11	4	69	1.34
947027--947087	16	3.9	16	72	12	54	18	19	0	62	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
953913--953968	27	2.1	26	83	9	69	7	16	14	62	1.52
958464--958511	24	2.0	24	83	0	60	39	12	16	31	1.86
974684--974750	33	2.1	33	81	18	79	56	0	26	16	1.40
974906--975005	35	2.8	35	84	1	128	34	1	36	29	1.64
980407--980654	130	1.9	130	94	0	433	35	14	12	36	1.85
980421--980685	130	2.0	129	82	4	318	39	12	13	34	1.83
980982--981044	28	2.3	27	78	8	63	46	1	3	49	1.27
981124--981157	16	2.0	18	88	11	54	64	5	2	26	1.30
981280--981322	21	2.0	21	100	0	86	39	0	13	46	1.44
981291--981376	35	2.5	35	86	0	109	38	1	19	40	1.60
998191--998230	20	2.0	21	85	5	55	5	12	5	77	1.09
1001638--1001689	24	2.2	25	79	10	63	59	15	17	7	1.58
1006995--1007025	13	2.5	13	94	5	55	67	0	16	16	1.23
1024932--1024986	26	2.1	26	89	0	83	41	0	32	25	1.56
1025259--1025302	6	7.2	6	82	12	54	0	18	2	79	0.83
1025259--1025302	13	3.6	12	82	11	54	0	18	2	79	0.83
1025477--1025543	33	2.1	33	81	18	79	56	0	26	16	1.40
1025687--1025801	35	3.3	35	79	3	124	31	2	35	30	1.71
1032470--1032509	15	2.7	15	88	3	55	27	25	20	27	1.99
1038994--1039024	13	2.5	13	94	5	55	67	0	16	16	1.23
1041353--1041398	24	1.9	24	81	0	56	32	21	15	30	1.94
1041360--1041406	24	2.0	24	86	0	67	29	21	14	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041377--1041422	24	1.9	24	82	8	58	34	21	10	32	1.88
1042746--1042775	13	2.3	13	94	0	51	0	20	0	80	0.72
1042957--1042987	13	2.5	13	94	5	55	67	0	16	16	1.23
1048476--1048509	17	2.0	17	100	0	68	41	29	11	17	1.85
1051617--1051662	22	2.1	22	95	0	83	32	15	26	26	1.95
1052062--1052097	18	2.0	18	88	0	54	47	8	13	30	1.73
1058445--1058495	20	2.5	20	93	0	84	43	9	5	41	1.62
1065602--1065626	2	12.5	2	100	0	50	48	0	0	52	1.00
1074521--1074563	23	1.9	22	86	13	61	32	13	18	34	1.90
1075771--1075804	14	2.5	13	90	4	50	0	20	0	79	0.73

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13