genome.fa.s8826.2.7.7.80.10.50.1000.17.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: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3884024

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

This is table  17  of  18  ( 2089 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)
3647043--3647170	31	4.1	31	77	9	134	27	17	20	34	1.95
3648027--3648077	19	2.7	19	84	6	59	31	11	11	45	1.77
3648607--3648643	19	1.9	19	89	10	58	18	54	16	10	1.71
3648850--3648890	21	2.0	21	85	0	55	4	9	26	58	1.50
3649363--3649405	21	2.1	20	86	4	59	74	4	2	18	1.10
3649474--3649607	33	4.2	31	85	10	155	48	5	3	42	1.43
3649572--3649838	37	7.2	36	85	7	315	43	5	4	46	1.47
3649600--3649891	37	7.4	42	73	19	165	43	6	4	45	1.49
3649789--3649891	43	2.3	43	85	8	127	43	7	3	44	1.51
3657100--3657127	2	14.0	2	100	0	56	50	0	0	50	1.00
3662251--3662302	23	2.3	23	86	3	70	30	9	7	51	1.62
3679323--3679347	13	1.9	13	100	0	50	44	8	24	24	1.80
3680857--3680901	22	2.0	22	86	4	63	26	13	8	51	1.70
3689027--3689077	23	2.3	23	86	3	68	29	9	7	52	1.62
3692423--3692479	21	2.8	20	76	7	60	56	3	0	40	1.17
3697745--3697848	42	2.5	40	74	10	100	50	3	1	44	1.31
3700105--3700432	117	2.8	112	81	8	354	53	7	13	26	1.65
3700105--3700390	117	2.4	116	84	3	358	52	6	14	26	1.66
3701699--3701778	42	1.9	42	94	0	142	51	15	1	32	1.51
3711421--3711473	22	2.4	22	96	3	97	73	0	9	16	1.08
3711027--3713798	902	3.0	905	93	4	4542	28	15	17	39	1.90
3713263--3713308	19	2.3	20	96	3	85	67	4	8	19	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3720517--3720541	2	12.5	2	100	0	50	48	0	0	52	1.00
3722096--3722166	12	5.7	12	78	14	72	21	5	1	71	1.14
3722096--3722166	13	5.7	12	79	11	63	21	5	1	71	1.14
3722117--3722165	14	3.4	15	78	16	50	20	4	2	73	1.10
3722097--3722164	19	3.5	19	71	18	59	20	5	1	72	1.14
3722289--3722339	19	2.6	20	80	20	63	11	5	0	82	0.83
3722299--3722330	14	2.3	14	100	0	64	6	6	0	87	0.67
3725396--3725501	53	2.0	53	94	0	185	48	7	22	21	1.75
3729868--3729974	53	2.0	53	92	0	178	47	5	22	24	1.72
3730331--3730363	15	2.1	16	88	5	50	33	0	6	60	1.21
3732367--3732610	131	1.9	126	85	6	339	44	9	7	38	1.64
3736005--3736037	15	2.3	15	89	5	50	60	0	0	39	0.97
3739411--3739459	25	2.0	25	100	0	98	24	16	20	38	1.92
3739573--3739609	13	3.0	13	88	11	60	70	0	0	29	0.88
3739573--3739609	3	12.3	3	88	11	58	70	0	0	29	0.88
3739766--3740131	43	8.4	42	70	14	183	25	19	29	25	1.98
3739808--3740098	40	6.8	41	71	11	160	24	19	31	25	1.98
3739808--3740150	129	2.7	129	95	1	616	24	19	30	25	1.98
3739810--3740150	46	7.8	46	71	14	168	24	19	30	25	1.98
3740488--3740570	35	2.3	36	82	10	100	38	10	18	32	1.85
3740822--3740865	15	2.9	15	93	0	70	43	4	20	31	1.72
3741449--3741574	55	2.3	55	87	4	173	44	14	11	29	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3741449--3741586	28	4.9	28	85	6	172	45	14	11	28	1.80
3741871--3741940	36	1.9	36	85	5	97	41	11	15	31	1.83
3741940--3742128	105	1.8	105	81	4	238	38	9	19	32	1.84
3742103--3742239	36	3.9	34	81	6	148	35	11	20	32	1.89
3742584--3742629	4	12.2	4	82	13	62	26	0	21	52	1.47
3742586--3742621	18	2.1	17	94	5	63	25	0	22	52	1.47
3744498--3744579	26	3.4	26	69	19	86	40	9	25	24	1.86
3744486--3744579	46	2.1	45	87	2	134	38	9	25	26	1.87
3746995--3747056	32	2.0	32	96	3	117	61	9	14	14	1.57
3750757--3750805	25	2.0	25	100	0	98	24	16	20	38	1.92
3750919--3750955	13	3.0	13	88	11	60	70	0	0	29	0.88
3750919--3750955	3	12.3	3	88	11	58	70	0	0	29	0.88
3754005--3754085	37	2.2	36	84	2	108	38	4	16	40	1.70
3754483--3754517	16	2.1	17	94	5	63	34	0	22	42	1.54
3762943--3763051	57	1.9	57	92	0	182	33	24	13	27	1.93
3764176--3764218	16	2.7	16	92	0	68	20	27	9	41	1.83
3764433--3764482	23	2.1	24	92	3	84	46	0	4	50	1.20
3764652--3764699	14	3.4	14	85	0	60	27	0	20	52	1.47
3764798--3764830	15	2.2	15	94	0	57	39	0	9	51	1.34
3765288--3765334	4	11.8	4	86	0	67	46	25	4	23	1.70
3765462--3765488	13	2.1	13	100	0	54	55	0	0	44	0.99
3765462--3765504	13	3.1	14	86	6	52	55	0	2	41	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3765965--3766017	13	4.2	13	75	22	51	52	0	0	47	1.00
3765970--3766023	22	2.3	25	87	12	87	59	0	0	40	0.98
3765443--3766521	518	2.1	506	85	9	1492	35	8	12	43	1.73
3766956--3767164	2	108.0	2	63	23	56	45	4	1	47	1.33
3766953--3766994	15	3.1	14	83	13	52	52	0	0	47	1.00
3767016--3767060	13	3.1	15	81	12	58	42	4	4	48	1.43
3767025--3767060	13	2.8	13	95	0	63	41	5	5	47	1.50
3767041--3767146	13	8.4	13	70	15	53	48	3	1	46	1.31
3770567--3770630	29	2.2	29	100	0	128	12	17	3	67	1.35
3771082--3771362	37	7.4	37	82	10	352	45	2	7	44	1.45
3771082--3771359	39	7.3	38	83	9	352	46	2	7	43	1.46
3771326--3771377	23	2.2	25	93	6	90	44	0	7	48	1.31
3771420--3771472	11	4.7	11	77	11	54	22	0	5	71	1.06
3771440--3771488	21	2.2	23	89	7	75	20	0	2	77	0.87
3771442--3771484	16	2.6	16	85	10	52	18	0	2	79	0.85
3771430--3771494	21	3.2	20	80	10	69	20	0	3	76	0.91
3771447--3771493	16	2.9	15	84	12	58	19	0	2	78	0.85
3786060--3786380	37	8.7	37	88	6	406	44	3	7	44	1.49
3786060--3786380	75	4.3	73	89	6	461	44	3	7	44	1.49
3786427--3786468	17	2.4	17	84	11	50	9	0	9	80	0.89
3786413--3786473	26	2.3	27	80	2	70	16	0	8	75	1.03
3786431--3786483	10	5.2	10	80	10	63	9	0	9	81	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3786435--3786501	32	2.1	32	86	10	93	10	2	5	80	0.99
3786443--3786502	6	9.5	6	74	16	50	10	3	5	81	0.95
3786427--3786490	27	2.3	27	79	12	76	10	0	7	81	0.88
3789947--3790098	17	8.8	17	77	12	139	39	11	15	33	1.83
3789947--3790074	52	2.5	51	82	11	154	39	10	14	35	1.81
3789947--3790098	35	4.4	34	81	8	164	39	11	15	33	1.83
3789939--3790074	69	2.0	69	84	5	177	41	11	13	33	1.79
3791000--3791053	27	2.0	27	82	13	67	51	7	7	33	1.58
3794760--3794807	20	2.5	20	79	3	53	31	20	22	25	1.98
3801243--3801289	21	2.2	21	92	0	76	34	8	27	29	1.87
3802341--3802396	29	1.9	29	88	0	85	44	14	7	33	1.72
3804953--3804984	14	2.2	15	94	5	57	34	25	15	25	1.95
3807119--3807282	60	2.7	60	76	2	150	31	23	6	38	1.81
3808087--3808118	16	2.0	16	100	0	64	37	6	12	43	1.68
3808944--3808999	28	2.0	27	82	3	67	53	0	7	39	1.28
3809346--3809379	2	17.0	2	100	0	68	50	0	0	50	1.00
3810076--3810137	17	3.3	19	76	17	67	30	4	4	59	1.39
3810314--3810391	26	3.0	26	78	15	72	35	1	5	57	1.29
3811986--3812058	21	3.5	21	73	0	65	24	31	21	21	1.98
3818335--3818416	23	3.7	22	82	9	87	23	31	24	20	1.98
3825529--3825582	20	2.7	19	80	8	54	44	16	18	20	1.87
3826315--3826767	226	2.0	226	89	3	687	35	8	20	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3827822--3827867	21	2.2	21	88	3	67	30	19	10	39	1.86
3828002--3828044	19	2.2	19	83	4	50	20	6	23	48	1.73
3828240--3828312	20	3.6	20	87	7	94	52	10	13	23	1.72
3834723--3834749	12	2.2	12	100	0	54	51	11	14	22	1.73
3835251--3835287	2	18.5	2	100	0	74	51	0	0	48	1.00
3835359--3835401	13	3.3	13	96	0	77	44	6	18	30	1.76
3835359--3835413	26	2.1	26	86	0	74	41	9	18	30	1.81
3835470--3835521	13	4.0	13	87	0	77	30	15	21	32	1.94
3835379--3835582	111	1.8	112	85	3	286	30	18	20	30	1.96
3836058--3836316	66	3.9	66	90	0	385	32	17	12	37	1.88

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