genome.fa.s7968.2.7.7.80.10.50.1000.3.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: VEPZ01007968.1 Hibiscus syriacus cultivar Beakdansim tig00110403_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1361854

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 589 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)
580214--580340	61	2.1	61	92	0	209	28	24	21	25	1.99
580214--580370	61	2.6	61	84	0	161	29	22	21	27	1.99
580503--580582	22	3.6	22	91	0	133	18	43	18	18	1.88
580962--581009	20	2.5	20	90	6	73	20	22	27	29	1.99
581016--581059	20	2.2	20	100	0	88	13	11	22	52	1.72
582913--583186	20	14.6	20	77	13	163	41	19	20	17	1.90
582947--583186	54	4.3	54	86	4	284	41	19	21	17	1.90
583182--583223	19	2.2	19	91	0	66	11	16	30	40	1.85
583231--583274	20	2.2	20	91	0	70	15	9	20	54	1.68
583756--583859	21	5.0	21	78	3	102	21	35	19	24	1.96
583752--583863	42	2.7	42	80	2	127	20	37	18	23	1.94
585230--585354	30	4.2	30	74	12	132	28	3	15	52	1.58
585260--585388	59	2.1	62	92	5	219	27	3	17	51	1.60
585445--585774	20	17.9	20	74	14	237	21	21	21	35	1.96
585465--585774	34	8.5	34	74	15	178	21	20	21	36	1.96
585485--585584	53	1.9	52	89	6	157	19	20	26	35	1.96
585578--585712	54	2.5	54	96	0	243	18	21	20	39	1.93
588215--588268	24	2.2	24	90	0	81	38	20	18	22	1.93
589087--589193	20	5.3	20	82	6	144	25	19	27	28	1.99
589140--589214	21	3.6	21	77	10	91	21	21	25	32	1.98
589087--589214	41	3.1	41	88	3	179	24	19	26	29	1.98
589309--589355	19	2.4	19	82	3	58	25	14	29	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589321--589357	19	1.9	19	94	0	65	21	16	29	32	1.95
590088--590119	17	1.9	16	93	6	55	53	0	15	31	1.43
590301--590398	39	2.5	39	81	3	117	48	10	16	24	1.76
590868--590915	23	2.0	25	84	12	64	39	0	0	60	0.97
592252--592346	46	2.0	48	93	6	167	53	8	6	31	1.56
601700--602160	42	11.1	42	72	14	266	49	6	18	26	1.70
601696--602079	209	1.8	209	87	4	569	47	6	19	27	1.74
602108--602214	43	2.6	43	82	10	116	65	3	7	23	1.35
602452--602547	40	2.4	39	86	5	122	51	11	12	25	1.73
602975--603023	25	2.0	25	84	4	64	38	2	2	57	1.22
604788--604816	6	5.0	6	91	8	51	68	0	0	31	0.89
604788--604816	9	3.3	9	95	4	51	68	0	0	31	0.89
604763--604816	23	2.2	25	83	9	67	64	0	3	31	1.11
608129--608169	18	2.2	19	95	4	75	7	4	51	36	1.51
608645--608692	18	2.7	18	78	15	55	31	25	8	35	1.85
608645--608688	17	2.6	16	82	13	52	31	25	9	34	1.87
610499--610569	21	3.4	21	78	7	90	49	18	19	12	1.79
610554--610634	33	2.5	33	89	0	117	48	20	19	11	1.79
610512--610604	19	4.9	19	69	21	79	47	18	20	13	1.82
610630--610742	19	6.1	19	76	13	119	11	23	19	46	1.82
612438--612816	94	4.1	94	92	1	602	22	12	17	46	1.82
612438--612816	187	2.0	187	90	2	600	22	12	17	46	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
613129--613225	39	2.5	39	86	6	126	57	8	11	22	1.60
613694--613824	42	3.1	41	86	5	129	50	6	17	25	1.69
613714--614154	43	10.7	41	72	19	282	52	5	16	25	1.64
613713--613851	44	3.3	43	85	3	183	47	5	18	28	1.71
613750--613969	121	1.8	118	84	10	304	51	5	17	25	1.67
614119--614182	23	3.0	21	75	8	65	70	0	4	25	1.06
614119--614180	31	2.0	30	81	9	72	70	0	4	24	1.06
615075--615176	40	2.5	40	85	9	145	52	8	12	25	1.68
615075--615177	39	2.6	40	87	7	147	52	9	12	25	1.69
618376--618432	29	2.0	29	89	0	87	24	10	0	64	1.24
619605--619907	43	7.1	43	80	10	241	50	4	19	25	1.66
619625--619994	130	2.9	126	81	9	346	50	4	18	26	1.66
619642--619926	87	3.4	83	81	9	330	49	4	20	25	1.68
619646--619973	43	7.8	41	76	16	171	49	5	19	25	1.69
619999--620124	44	2.9	43	75	11	132	65	3	7	23	1.35
620039--620112	21	3.5	21	75	8	69	71	0	4	24	1.03
620039--620109	31	2.3	30	78	11	72	70	0	4	25	1.05
620887--620925	15	2.6	15	100	0	78	25	25	12	35	1.92
621983--622025	23	1.9	23	86	13	63	62	4	6	25	1.40
622281--622322	12	3.5	12	90	0	66	16	30	16	35	1.92
626692--626729	20	1.9	19	89	5	58	18	0	5	76	0.97
626738--626803	21	3.3	18	80	17	69	6	4	9	80	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626738--626791	21	2.5	21	81	3	72	3	5	9	81	0.97
626768--626824	25	2.3	24	85	8	71	10	5	7	77	1.12
629184--629254	36	2.0	36	100	0	142	33	2	11	52	1.52
629188--629264	36	2.1	36	90	4	120	35	3	9	51	1.52
630771--631026	42	6.1	42	80	11	247	49	5	19	26	1.70
631147--631403	39	6.9	38	79	9	255	46	3	5	43	1.45
631314--631376	25	2.5	25	73	0	63	46	3	4	46	1.40
631440--631481	2	21.0	2	90	9	68	47	0	2	50	1.14
638237--638285	18	2.8	17	84	3	62	8	10	42	38	1.68
638776--638823	17	2.7	18	90	3	71	31	29	8	31	1.87
641931--641963	3	11.0	3	100	0	66	66	0	0	33	0.92
650404--650534	65	2.0	66	96	1	246	22	19	25	32	1.97
656954--656985	3	11.0	3	93	6	57	68	0	0	31	0.90
668023--668089	16	4.3	16	88	3	93	11	10	17	59	1.60
668021--668081	32	1.9	32	93	0	104	9	13	21	55	1.66
679984--680008	13	1.9	13	100	0	50	48	0	0	52	1.00
684833--685273	219	2.0	221	99	0	868	28	14	33	24	1.94
687814--687959	74	2.0	73	95	2	267	47	8	11	32	1.70
697454--697599	74	2.0	72	94	4	258	47	8	11	32	1.70
703616--703657	20	2.0	22	86	9	61	52	4	0	42	1.22
703621--703673	22	2.4	21	81	9	54	58	3	1	35	1.27
711778--711886	24	4.6	24	83	2	139	55	19	14	11	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
711778--711887	47	2.3	47	84	1	139	54	19	14	11	1.70
711778--711914	47	2.9	47	82	1	130	55	16	13	14	1.69
712082--712122	14	2.9	14	88	0	55	60	14	9	14	1.57
723697--723736	13	3.2	12	86	10	53	32	0	2	65	1.06
723705--723746	17	2.4	17	92	4	66	35	0	2	61	1.09
729839--730193	177	2.0	177	98	1	694	29	9	21	38	1.85
733588--733660	29	2.5	29	79	0	92	57	9	10	21	1.61
738600--738705	53	2.0	53	100	0	212	37	20	13	28	1.90
741458--741494	2	19.5	2	89	10	60	54	0	0	45	1.00
747355--747393	19	2.0	20	85	5	53	48	0	0	51	1.00
748912--748952	21	2.0	21	85	0	55	43	2	2	51	1.28
751175--751239	29	2.2	29	94	0	112	33	12	15	38	1.85
751383--751479	48	2.0	48	95	0	176	52	4	14	28	1.60
753054--753088	11	3.3	11	92	4	54	57	8	34	0	1.29
754340--754435	40	2.3	40	77	13	106	35	13	15	35	1.87
754422--754534	46	2.5	46	97	0	208	15	13	21	49	1.79
754513--754547	14	2.5	14	95	0	61	14	11	17	57	1.66
754456--754535	24	3.4	24	73	13	94	16	11	20	52	1.73
754826--754866	14	3.2	14	74	25	54	4	17	24	53	1.63
756077--756111	16	2.2	16	100	0	70	5	45	17	31	1.71
758225--758673	229	2.0	228	95	0	808	44	8	7	39	1.62
758739--758784	20	2.3	19	89	10	74	54	10	17	17	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
758906--758952	20	2.4	19	82	10	67	53	10	17	19	1.72
758915--758957	20	2.3	19	88	11	63	51	11	16	20	1.75
761839--761902	23	2.8	23	87	0	92	35	6	20	37	1.78
761839--761911	23	3.2	23	82	7	85	34	5	20	39	1.76
762264--762336	23	3.2	23	84	7	94	35	5	20	38	1.76
761760--762605	425	2.0	415	95	2	1282	39	8	12	39	1.73
770064--770093	13	2.3	13	100	0	60	40	6	13	40	1.71
775055--775091	19	1.9	19	94	0	65	45	0	0	54	1.00
777537--777602	33	2.0	33	100	0	132	18	15	9	57	1.63
779471--779501	16	2.0	15	93	6	53	58	6	3	32	1.40

Tables:   1   2   3   4   5