genome.fa.s761.2.7.7.80.10.50.1000.15.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  15  of  23  ( 2686 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)
3623855--3623903	21	2.3	21	89	3	71	28	30	6	34	1.82
3625581--3625606	6	4.3	6	100	0	52	50	0	0	50	1.00
3630671--3630850	94	1.9	95	89	1	281	39	13	22	24	1.90
3630666--3630868	94	2.1	94	84	5	275	38	13	23	24	1.90
3643736--3643773	19	2.0	19	89	0	58	55	13	0	31	1.38
3647921--3647985	21	3.0	21	93	2	103	16	43	26	13	1.86
3653338--3653436	45	2.2	44	79	12	114	31	23	16	29	1.96
3667448--3667489	17	2.5	17	92	0	66	23	23	14	38	1.92
3676880--3676968	38	2.4	38	96	1	162	12	11	38	38	1.79
3677543--3677621	16	4.6	18	87	9	121	30	24	6	39	1.80
3677543--3677621	34	2.3	34	95	0	140	30	24	6	39	1.80
3680101--3680182	31	2.7	30	88	5	112	41	4	8	45	1.56
3680293--3680398	30	3.6	29	79	6	113	46	11	3	38	1.58
3682226--3682258	2	16.5	2	100	0	66	48	0	0	51	1.00
3682698--3682830	42	3.1	42	82	1	158	34	18	19	27	1.95
3683685--3683785	3	33.7	3	100	0	202	33	0	0	66	0.92
3696911--3696948	16	2.4	16	86	8	51	28	7	10	52	1.64
3697685--3698114	84	5.1	84	90	2	670	28	13	20	37	1.90
3698722--3699343	113	5.6	112	88	6	862	37	14	18	29	1.90
3698722--3699343	331	1.9	328	89	5	968	37	14	18	29	1.90
3698722--3699343	218	2.8	220	90	4	943	37	14	18	29	1.90
3699658--3699745	3	29.7	3	94	2	151	35	1	0	63	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3710819--3710875	21	2.8	21	84	7	73	26	15	22	35	1.94
3710892--3710970	22	3.8	21	73	10	63	22	17	21	37	1.94
3721629--3722198	307	1.9	306	91	1	944	28	18	15	37	1.92
3729727--3730299	305	1.9	305	91	0	932	29	19	15	36	1.92
3732736--3732766	15	2.1	15	93	0	53	54	0	0	45	0.99
3738763--3738850	38	2.3	38	96	0	158	30	13	25	30	1.94
3738881--3738992	56	2.0	56	94	0	197	38	19	11	30	1.87
3738984--3739024	16	2.6	16	88	3	57	29	21	12	36	1.90
3753979--3754036	20	2.8	21	76	12	66	24	32	25	17	1.96
3761825--3761945	60	2.1	58	93	3	206	34	22	16	26	1.95
3764754--3764800	7	6.3	7	81	13	58	31	0	0	68	0.90
3764755--3764802	23	2.2	21	85	7	60	35	0	0	64	0.94
3764760--3764805	15	3.0	15	93	3	74	36	0	0	63	0.95
3765263--3765312	19	2.7	18	81	12	57	34	0	12	54	1.38
3768341--3768376	18	2.0	18	94	0	63	50	5	8	36	1.56
3768860--3768906	20	2.2	22	85	7	62	57	6	6	29	1.49
3771684--3771716	12	2.6	13	90	4	50	45	6	12	36	1.66
3772207--3772279	21	3.5	21	72	23	73	32	20	19	27	1.97
3778977--3779032	24	2.2	25	84	6	69	48	0	1	50	1.11
3779490--3779566	28	2.8	27	82	4	91	29	11	3	54	1.54
3780346--3780596	129	2.0	127	95	1	448	35	5	7	51	1.54
3781637--3781686	24	2.1	24	88	3	75	34	4	18	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3798410--3798465	20	2.8	19	78	7	67	35	7	21	35	1.81
3798625--3798675	21	2.5	21	78	9	61	45	11	3	39	1.59
3800071--3800284	107	2.0	107	100	0	428	25	27	28	18	1.98
3801858--3801997	43	3.3	42	78	4	109	29	16	25	28	1.97
3801874--3802141	43	6.3	43	74	10	165	27	20	21	30	1.98
3801985--3802126	42	3.3	42	79	8	119	22	22	19	35	1.96
3802480--3802588	21	5.2	21	80	2	94	2	41	16	39	1.63
3807427--3807521	41	2.3	42	85	7	124	29	16	16	36	1.92
3811415--3811474	26	2.3	26	97	0	111	3	18	3	75	1.09
3812295--3812457	64	2.6	63	78	8	177	31	22	21	25	1.98
3813233--3813450	103	2.1	103	93	0	373	26	13	23	36	1.92
3813457--3813534	23	3.3	23	76	1	75	26	20	20	32	1.97
3818199--3818488	64	4.5	65	73	8	254	32	20	20	26	1.97
3818206--3818488	128	2.2	128	96	0	530	32	21	19	26	1.97
3819274--3819491	103	2.1	103	95	0	391	26	13	22	37	1.91
3819498--3819575	23	3.3	23	80	1	84	24	21	21	32	1.98
3825292--3825325	18	1.9	18	88	5	52	23	32	29	14	1.94
3842381--3842412	13	2.3	15	89	10	50	9	21	3	65	1.35
3842481--3842549	2	34.5	2	100	0	138	50	0	0	49	1.00
3861373--3861428	30	1.9	29	86	13	80	42	10	3	42	1.56
3861440--3861505	29	2.3	29	86	5	89	39	6	3	51	1.42
3866260--3866326	24	2.7	26	84	8	88	44	0	1	53	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3866230--3866384	62	2.5	62	91	4	240	40	0	2	56	1.18
3866281--3866363	38	2.2	37	87	8	114	43	0	1	55	1.07
3866379--3866440	19	3.3	19	78	15	58	37	1	0	61	1.06
3866903--3866962	31	1.9	31	93	0	102	43	10	6	40	1.64
3868813--3868869	28	2.0	29	89	3	89	57	12	14	15	1.65
3870402--3870449	12	4.5	10	80	19	53	66	0	0	33	0.92
3870397--3870442	13	4.0	12	78	18	53	65	2	0	32	1.05
3870402--3870441	3	14.0	3	80	19	50	67	0	0	32	0.91
3870419--3870449	12	2.5	13	94	5	55	67	0	0	32	0.91
3870764--3871105	130	2.6	129	84	4	375	26	16	31	26	1.97
3871266--3871480	62	3.4	61	82	10	263	41	14	14	29	1.85
3873091--3873125	2	17.5	2	100	0	70	48	0	0	51	1.00
3875740--3875797	30	1.9	30	83	13	75	65	10	10	13	1.47
3877398--3877480	31	2.7	31	76	12	91	63	6	10	19	1.46
3877424--3877584	29	5.6	28	73	10	103	58	8	12	20	1.60
3878657--3878706	18	2.8	18	93	0	82	30	34	20	16	1.94
3878611--3878730	64	1.9	64	94	0	213	35	29	17	17	1.93
3879561--3879611	19	2.7	19	96	0	93	21	43	17	17	1.88
3881732--3881771	18	2.2	18	86	4	53	62	0	2	35	1.09
3881749--3881779	12	2.5	13	94	5	55	64	0	0	35	0.94
3892067--3892131	12	5.1	12	71	20	51	63	3	1	32	1.19
3892061--3892136	29	2.5	31	77	18	79	64	2	1	31	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3892104--3892137	17	1.9	18	88	5	52	64	5	0	29	1.17
3894667--3894899	75	3.2	76	76	10	191	29	27	15	27	1.96
3898393--3898475	21	3.9	21	98	1	157	27	15	14	42	1.86
3899915--3899964	20	2.6	19	84	9	57	30	14	4	52	1.59
3900452--3900504	3	18.0	3	78	3	54	5	30	1	62	1.29
3901770--3901810	21	1.9	22	85	5	57	31	17	9	41	1.82
3902044--3902101	11	5.6	11	68	15	52	34	12	10	43	1.76
3902047--3902100	20	2.7	20	100	0	108	35	12	9	42	1.75
3912153--3912208	12	4.3	12	81	16	67	10	1	39	48	1.49
3912161--3912217	6	9.8	6	81	7	73	10	1	38	49	1.48
3912158--3912203	10	4.8	10	84	10	69	8	0	41	50	1.33
3912158--3912219	28	2.2	28	97	0	115	9	1	40	48	1.46
3913316--3913359	23	1.9	23	85	0	61	34	18	18	29	1.94
3914193--3914228	18	1.9	19	88	5	56	25	5	0	69	1.10
3919495--3919533	20	2.1	19	86	13	55	12	12	7	66	1.43
3921639--3921670	8	4.0	8	95	0	55	59	0	3	37	1.13
3924106--3924178	21	3.5	20	78	10	76	31	15	23	30	1.95
3924051--3924269	96	2.3	96	81	3	239	28	13	26	31	1.94
3924219--3924274	22	2.7	20	84	10	76	26	12	30	30	1.93
3924677--3924906	79	2.9	79	88	0	334	37	10	23	28	1.87
3924848--3925031	45	4.1	44	78	4	170	40	9	20	29	1.84
3924883--3925052	90	1.9	89	79	7	191	43	8	17	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3931109--3931161	19	2.6	20	79	11	63	28	15	24	32	1.95
3931225--3931277	22	2.5	20	82	11	70	33	15	24	26	1.95
3931680--3931922	79	3.1	79	94	0	405	37	10	24	27	1.88
3931847--3932034	45	4.2	45	83	1	189	39	9	20	29	1.84
3931886--3932051	45	3.7	45	82	3	156	42	8	17	31	1.79
3931886--3932055	90	1.9	89	81	7	209	43	8	17	31	1.78
3932492--3932531	20	2.0	20	85	0	53	32	12	12	42	1.80
3932624--3932661	15	2.4	16	82	8	51	42	7	2	47	1.46
3934237--3934300	31	2.1	31	94	2	112	14	28	14	43	1.83
3934383--3934417	17	2.1	16	89	5	52	2	20	0	77	0.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23