genome.fa.s9461.2.7.7.80.10.50.1000.3.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: VEPZ01009461.1 Hibiscus syriacus cultivar Beakdansim tig00113724_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2346588

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

This is table  3  of  12  ( 1395 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)
478039--478111	36	2.0	37	84	10	96	43	0	9	46	1.36
478130--478158	13	2.2	13	100	0	58	37	0	6	55	1.27
478220--478260	22	1.9	22	95	5	75	26	0	14	58	1.37
478462--478548	30	2.9	31	89	6	135	40	1	11	47	1.47
477761--478501	382	1.9	376	87	6	1068	38	1	12	47	1.51
478498--478544	15	3.1	15	70	11	51	42	0	10	46	1.38
479833--479876	23	1.9	23	85	0	61	38	4	2	54	1.33
480989--481264	59	4.8	58	82	9	334	47	7	0	44	1.33
481033--481131	21	4.9	21	72	16	93	51	6	0	42	1.26
481079--481228	14	10.8	14	70	15	64	46	6	0	46	1.32
481048--481182	14	9.9	14	69	20	54	48	5	0	44	1.32
481082--481185	24	4.3	24	67	19	72	48	5	0	45	1.33
480984--481270	110	2.5	109	87	5	358	47	6	0	44	1.35
481113--481195	27	3.2	27	66	10	73	45	7	1	45	1.38
481572--481698	49	2.5	52	78	12	138	45	7	2	44	1.45
481627--481814	60	3.3	59	72	19	191	46	10	1	42	1.45
481616--481814	111	1.8	110	87	1	299	45	10	1	42	1.45
481686--481861	48	3.6	50	76	14	152	47	10	1	40	1.46
484916--484975	21	3.0	20	82	4	84	48	8	3	40	1.50
485037--485095	17	3.3	17	80	13	73	49	8	0	42	1.33
485547--485609	28	2.2	30	94	5	112	57	12	0	30	1.36
485551--485674	28	4.4	28	72	18	103	53	17	0	29	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485586--485629	21	2.1	21	86	0	61	52	18	0	29	1.46
486126--486196	29	2.4	29	97	0	133	14	39	26	19	1.90
486585--486624	19	2.1	19	90	0	62	55	0	2	42	1.13
486973--487001	2	14.5	2	100	0	58	48	0	0	51	1.00
487045--487087	14	3.1	13	90	6	59	51	0	2	46	1.13
488311--488401	19	4.7	18	69	26	62	52	4	2	40	1.33
488384--488423	19	2.0	19	85	9	53	57	0	2	40	1.12
488432--488492	23	2.6	24	70	14	56	50	3	3	42	1.34
489312--489346	18	2.0	17	88	5	52	37	17	5	40	1.73
489369--489423	28	2.0	27	92	3	92	43	14	3	38	1.63
489667--489712	23	2.0	23	82	0	56	36	6	0	56	1.25
490484--490620	73	1.9	73	86	3	195	44	8	6	40	1.61
491197--491263	31	2.2	31	94	0	116	23	19	8	47	1.77
492621--492670	26	1.9	26	84	15	68	60	4	8	28	1.43
493345--493374	3	10.0	3	100	0	60	66	0	0	33	0.92
502478--502583	43	2.4	43	81	7	117	26	14	5	53	1.62
502546--502812	42	6.4	42	77	12	196	26	19	6	47	1.73
502546--502812	84	3.2	81	79	13	244	26	19	6	47	1.73
502889--502951	27	2.3	27	97	0	117	23	14	30	31	1.94
506521--506591	28	2.6	28	78	13	67	59	8	4	28	1.46
507820--507891	36	2.0	36	100	0	144	33	2	27	36	1.72
513025--513082	30	2.0	29	90	10	91	31	20	8	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523130--523237	54	2.0	54	88	0	162	27	16	5	50	1.68
523802--523858	30	1.9	30	88	0	87	38	5	14	42	1.68
524008--524087	42	2.0	40	83	14	101	48	1	0	50	1.08
524110--524159	17	2.6	19	84	15	68	58	0	0	42	0.98
524273--524331	27	2.1	27	82	14	68	61	1	3	33	1.23
524377--524407	15	2.1	15	100	0	62	54	12	0	32	1.38
528103--528393	105	2.8	105	82	2	377	25	19	16	38	1.92
529340--529408	12	6.1	11	80	10	77	10	13	0	76	1.01
529340--529403	23	2.9	22	84	13	87	10	12	0	76	1.02
529378--529417	13	3.2	13	83	16	57	7	15	0	77	0.98
529340--529403	21	3.0	20	88	9	83	10	12	0	76	1.02
529355--529420	33	2.0	33	90	3	105	10	13	0	75	1.04
529379--529437	26	2.3	26	82	5	66	11	20	0	67	1.21
532951--532984	14	2.4	14	85	5	50	67	0	17	14	1.23
536178--536219	21	2.0	21	81	9	50	35	11	9	42	1.74
537420--537725	149	2.1	148	87	0	441	18	20	16	44	1.87
540938--541077	64	2.2	64	83	2	174	25	17	27	29	1.98
541769--541818	18	2.8	18	88	8	59	54	4	0	42	1.19
541778--541917	18	7.3	18	68	17	77	48	5	2	42	1.41
541867--542047	18	9.9	18	69	16	77	48	5	3	42	1.44
541785--541962	95	1.9	95	91	4	295	46	5	4	43	1.47
541859--541925	18	3.8	17	80	9	71	49	4	1	44	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541912--541980	13	4.9	15	70	13	56	44	5	7	42	1.56
542003--542177	2	88.0	2	69	19	100	46	4	4	45	1.42
542007--542061	17	3.4	16	85	9	67	49	5	1	43	1.36
541955--542107	77	2.0	77	86	0	216	47	5	3	43	1.44
542414--542484	18	3.6	18	67	20	52	42	7	11	39	1.68
542391--542500	42	2.6	42	97	0	202	39	7	12	40	1.71
542616--542665	20	2.5	19	87	9	64	42	26	2	30	1.66
544388--544436	22	2.2	22	96	0	89	16	26	4	53	1.61
544460--544563	33	3.1	33	90	2	145	15	13	12	58	1.63
544735--544962	102	2.3	99	89	2	339	21	8	18	51	1.73
548087--548134	14	3.7	14	71	21	50	52	4	0	43	1.20
548085--548135	24	2.1	24	92	7	86	49	3	0	47	1.20
548393--548472	33	2.5	32	89	2	115	40	12	27	20	1.88
548385--548472	16	5.4	16	87	2	113	38	14	27	19	1.91
551658--551712	3	18.0	3	78	10	58	65	1	0	32	1.03
551675--551722	25	2.0	24	84	12	62	72	2	0	25	0.95
551674--551718	21	2.1	22	91	4	74	73	2	0	24	0.95
551940--552258	124	2.6	123	89	4	477	25	19	15	39	1.90
552198--552296	44	2.4	41	88	8	139	20	21	8	50	1.73
552215--552302	44	2.0	43	95	2	158	17	22	7	52	1.70
552238--552535	113	2.6	113	94	4	510	24	20	15	39	1.91
557874--557906	11	3.0	11	95	0	57	0	12	0	87	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
557879--557921	18	2.4	18	80	3	52	2	16	0	81	0.79
559844--559927	14	6.2	14	66	13	50	58	4	13	23	1.54
559844--559903	27	2.3	27	82	2	86	61	5	11	21	1.49
559963--560004	7	6.0	7	78	10	50	54	14	16	14	1.71
561486--561542	19	3.0	17	80	19	60	73	0	1	24	0.92
561486--561540	11	4.2	13	75	17	51	74	0	1	23	0.91
568783--568837	3	18.0	3	78	10	58	65	1	0	32	1.03
568799--568843	21	2.1	22	91	4	74	73	2	0	24	0.95
569809--569850	22	2.0	21	90	4	66	69	2	0	28	1.01
574590--574760	80	2.1	82	86	4	233	30	12	10	46	1.76
574974--575017	23	2.0	23	86	4	63	54	0	13	31	1.39
575020--575067	22	2.2	22	81	7	53	60	2	0	37	1.09
589003--589063	21	3.0	21	81	9	83	18	21	31	29	1.96
592345--592411	18	3.7	17	76	20	64	80	0	7	11	0.90
592348--592411	19	3.5	18	77	10	58	81	0	6	12	0.87
593126--593151	11	2.4	11	100	0	52	69	19	11	0	1.18
603611--603649	20	2.0	20	89	0	60	33	23	10	33	1.88
604466--604771	153	2.0	151	91	2	497	26	13	15	44	1.84
610205--610244	19	2.1	19	100	0	80	35	37	5	22	1.76
610840--610908	32	2.2	32	86	0	93	20	31	27	20	1.97
612502--612546	19	2.4	19	96	0	81	20	64	11	4	1.42
617365--617410	18	2.5	19	86	6	60	67	0	4	28	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617366--617432	14	4.9	13	75	20	57	64	0	2	32	1.09
617394--617431	5	7.6	5	82	11	51	57	0	2	39	1.12
617434--617659	5	45.0	5	93	6	395	40	0	0	59	0.97
618593--618636	21	2.2	20	83	4	52	54	2	0	43	1.12
618919--618960	17	2.4	18	88	4	59	54	4	0	40	1.21
619288--619338	19	2.6	20	82	11	61	0	31	0	68	0.90
619658--619702	23	2.0	23	86	0	63	17	17	44	20	1.87
619811--619930	40	3.0	40	88	1	159	30	21	27	20	1.98
623746--623834	44	2.0	44	91	0	142	48	20	17	13	1.81
626367--626446	30	2.7	30	84	1	108	28	20	17	33	1.95

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