genome.fa.s7782.2.7.7.80.10.50.1000.17.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: VEPZ01007782.1 Hibiscus syriacus cultivar Beakdansim tig00110065_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3900615

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  17  of  19  ( 2174 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)
3511007--3511091	28	2.9	29	87	3	109	43	9	3	43	1.54
3511065--3511156	40	2.3	41	87	7	138	46	7	3	42	1.48
3511065--3511169	39	2.7	38	83	4	138	46	7	2	42	1.47
3511143--3511203	28	2.2	28	88	11	90	39	9	3	47	1.53
3513259--3513287	5	5.8	5	100	0	58	82	0	0	17	0.66
3516852--3516955	42	2.5	42	77	12	115	38	17	21	23	1.93
3516926--3516963	20	1.9	20	94	0	67	34	21	21	23	1.97
3516831--3517622	242	3.3	240	85	2	1038	37	16	16	29	1.91
3517334--3517439	42	2.5	42	86	3	151	38	18	19	22	1.93
3519846--3519904	29	2.0	29	86	0	82	32	13	25	28	1.94
3527534--3527568	18	1.9	18	94	0	61	45	0	0	54	0.99
3529235--3529282	6	7.7	6	80	13	53	16	16	14	52	1.76
3531984--3532079	11	9.3	10	70	17	54	80	2	13	4	0.95
3532009--3532069	18	3.3	19	82	11	56	78	0	16	4	0.91
3532039--3532079	19	2.2	19	91	4	66	80	2	17	0	0.82
3535026--3535202	45	4.0	45	78	8	157	27	15	17	39	1.90
3535088--3535208	44	2.7	43	74	11	109	29	15	13	41	1.85
3535174--3535269	51	1.9	51	85	10	135	25	20	16	37	1.93
3535961--3536336	55	6.9	55	85	3	481	30	22	18	28	1.98
3535950--3536336	109	3.5	109	84	4	483	30	22	18	28	1.97
3541334--3541701	131	2.8	131	84	1	470	39	16	10	32	1.83
3543832--3543954	3	39.7	3	75	8	104	58	6	1	33	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3543832--3543954	26	4.8	26	79	6	126	58	6	1	33	1.33
3547429--3547473	23	2.0	23	90	0	72	15	15	46	22	1.83
3553940--3554037	23	4.3	23	81	3	99	37	23	20	18	1.94
3553950--3554037	23	3.9	23	83	3	106	38	26	19	15	1.92
3555681--3555839	64	2.5	63	85	5	203	28	19	23	28	1.98
3564313--3564470	64	2.5	63	88	3	226	28	19	22	29	1.98
3566342--3566382	19	2.2	19	86	0	55	31	0	2	65	1.05
3567871--3567910	17	2.4	17	100	0	80	35	5	12	47	1.63
3569158--3569250	46	2.0	47	83	6	118	32	11	23	32	1.91
3578649--3578686	20	1.9	20	94	0	67	28	34	26	10	1.90
3582318--3582366	22	2.2	23	85	7	73	36	8	16	38	1.78
3585337--3585444	38	3.2	38	59	33	89	47	6	4	41	1.50
3585318--3585447	64	2.0	64	100	0	260	46	7	4	40	1.53
3586150--3586188	19	2.1	18	86	13	53	71	5	5	17	1.23
3589818--3589893	22	3.5	22	75	0	80	30	26	17	26	1.97
3594170--3594211	19	2.2	19	100	0	84	14	21	23	40	1.90
3594170--3594218	19	2.6	19	93	3	73	14	18	22	44	1.85
3598638--3598737	40	2.5	40	90	0	155	26	16	22	36	1.94
3599554--3599857	46	6.6	46	91	0	437	21	22	11	44	1.84
3601656--3602004	46	7.5	46	84	3	430	42	12	23	21	1.86
3601656--3601834	26	7.4	26	65	18	109	41	12	24	21	1.87
3601775--3601945	20	7.7	20	67	21	81	41	11	25	21	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3602444--3602508	16	4.1	16	93	0	103	55	23	12	9	1.65
3603585--3603694	24	4.6	24	90	0	157	53	21	11	12	1.70
3603609--3603683	14	5.9	14	66	23	58	52	24	12	12	1.72
3603643--3603717	34	2.2	34	81	13	84	49	22	14	13	1.78
3607654--3607684	15	2.1	14	94	5	53	32	6	6	54	1.51
3607724--3607853	66	2.0	66	100	0	260	36	12	13	37	1.83
3608202--3608226	2	12.5	2	100	0	50	52	0	0	48	1.00
3611900--3611955	21	2.8	19	74	10	58	55	0	0	44	0.99
3611909--3611956	21	2.3	21	88	0	69	56	0	0	43	0.99
3614905--3614944	14	2.9	13	79	13	53	20	2	5	72	1.15
3617133--3617213	29	2.7	30	90	3	137	64	13	0	22	1.28
3629175--3629218	23	2.0	23	82	13	56	50	9	2	38	1.47
3629333--3629388	22	2.5	22	97	0	103	17	42	23	16	1.88
3631311--3631350	21	1.9	21	89	0	62	55	7	7	30	1.56
3635162--3635240	22	3.7	21	77	9	79	26	27	22	22	1.99
3641194--3641240	21	2.2	21	92	0	76	29	27	8	34	1.87
3649042--3649794	166	4.5	168	76	7	657	34	19	15	31	1.92
3651749--3651935	94	2.0	94	92	0	311	45	6	15	32	1.73
3652998--3653069	31	2.4	31	82	13	80	44	5	12	37	1.66
3655138--3655184	24	2.0	24	86	0	67	44	12	14	27	1.82
3657091--3657178	45	1.9	46	93	2	151	28	19	25	27	1.99
3665299--3665386	45	1.9	46	88	2	133	27	18	26	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3669359--3669390	15	2.0	17	88	11	50	46	6	15	31	1.71
3676589--3676664	23	3.3	23	72	17	86	59	1	10	28	1.39
3676574--3676664	45	2.0	45	100	0	182	58	2	13	26	1.47
3676814--3676854	22	1.9	21	85	14	57	51	2	2	43	1.28
3678492--3678540	22	2.2	22	85	0	62	44	26	16	12	1.82
3678549--3678612	32	2.0	32	90	3	101	40	25	12	21	1.88
3678647--3678703	18	3.0	20	72	23	52	57	0	5	36	1.21
3679292--3679374	32	2.6	32	82	3	96	43	22	12	21	1.86
3680253--3680508	37	6.9	36	76	10	223	46	4	6	43	1.48
3680494--3680561	34	2.0	34	88	0	100	48	4	5	41	1.47
3680621--3680694	23	3.3	23	81	12	66	28	1	0	70	0.96
3680640--3680694	3	18.7	3	82	17	55	25	1	0	72	0.94
3680640--3680677	14	2.9	14	88	7	53	26	0	0	73	0.83
3680633--3680695	30	2.1	30	85	11	85	25	1	0	73	0.93
3680646--3680698	14	4.2	13	77	20	58	22	1	0	75	0.90
3680634--3680694	17	3.6	17	78	14	65	26	1	0	72	0.94
3681823--3681853	16	1.9	16	100	0	62	22	0	0	77	0.77
3681824--3681855	12	2.6	13	85	14	50	21	0	0	78	0.76
3681981--3682012	3	10.7	3	100	0	64	31	0	0	68	0.90
3683809--3683853	19	2.4	19	96	3	83	11	11	8	68	1.39
3687256--3687974	164	4.4	165	90	3	1090	29	24	21	25	1.99
3687256--3687974	332	2.2	329	89	3	1106	29	24	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3688585--3688788	74	2.8	74	83	6	229	45	3	5	44	1.46
3688588--3688811	37	6.1	35	75	12	182	46	3	6	43	1.46
3688787--3688818	12	2.7	12	100	0	64	46	0	9	43	1.35
3688841--3688906	32	2.1	32	88	0	96	46	4	6	42	1.48
3688985--3689044	3	20.7	3	83	16	74	26	1	0	71	0.95
3688988--3689044	10	5.5	11	80	16	68	26	1	0	71	0.95
3688979--3689048	25	2.8	25	81	16	83	25	1	0	72	0.92
3690886--3690910	10	2.5	10	100	0	50	60	0	0	40	0.97
3694780--3694859	42	1.9	42	97	0	151	50	12	6	31	1.65
3697054--3697101	19	2.5	19	93	0	78	39	20	6	33	1.78
3698295--3698326	15	2.1	15	100	0	64	12	21	37	28	1.90
3704340--3704411	35	2.1	35	97	0	135	40	9	20	29	1.85
3704870--3704915	2	23.5	2	95	4	85	50	0	0	50	1.00
3705080--3705112	2	16.5	2	100	0	66	48	0	0	51	1.00
3705230--3705306	41	1.9	39	86	5	109	16	28	6	48	1.71
3705389--3705424	2	18.0	2	100	0	72	50	0	0	50	1.00
3705475--3705550	9	8.3	9	72	13	57	17	9	0	73	1.08
3705475--3705560	18	4.8	17	77	11	73	16	10	1	72	1.18
3705483--3705544	14	4.5	14	75	16	58	16	8	0	75	1.02
3713696--3714424	103	7.2	99	75	13	423	34	22	19	23	1.96
3713720--3714424	293	2.3	292	80	9	769	34	22	19	23	1.96
3714012--3714395	103	3.7	105	82	7	464	34	21	20	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3714919--3714988	34	2.1	35	94	5	126	38	11	22	27	1.89
3715648--3715682	2	17.5	2	100	0	70	48	0	0	51	1.00
3715791--3715865	41	1.9	38	86	10	107	17	28	6	48	1.72
3715948--3716006	2	30.5	2	89	6	95	49	0	1	49	1.11
3715949--3716007	21	2.8	20	92	7	100	49	0	1	49	1.11
3715948--3716006	25	2.4	25	94	0	100	49	0	1	49	1.11
3716078--3716122	14	3.3	14	87	3	56	15	8	0	75	1.03
3716077--3716121	13	3.2	13	82	17	54	13	8	0	77	0.98
3724325--3724361	2	18.5	2	100	0	74	48	0	0	51	1.00
3728853--3728889	2	18.5	2	100	0	74	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19