genome.fa.s8719.2.7.7.80.10.50.1000.15.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: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4817204

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

This is table  15  of  18  ( 2140 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)
3851990--3852040	22	2.3	22	93	0	84	31	25	25	17	1.97
3851998--3852043	22	2.1	22	100	0	92	26	26	28	19	1.99
3852254--3852312	30	2.0	30	93	0	100	33	23	3	38	1.72
3852678--3852828	68	2.2	68	88	1	214	17	27	27	27	1.98
3853716--3854743	84	12.3	83	78	6	903	24	19	23	31	1.98
3853714--3854733	164	6.1	165	80	6	1016	25	19	23	31	1.98
3860035--3860073	5	7.8	5	88	8	53	82	2	2	12	0.89
3860021--3860075	10	5.7	9	82	8	56	81	3	3	10	0.93
3861322--3861478	63	2.5	61	82	5	179	45	5	5	43	1.49
3861402--3861734	37	9.2	38	76	15	239	45	6	3	44	1.47
3861619--3861688	28	2.5	28	97	0	131	50	4	4	41	1.42
3861749--3861793	24	2.0	24	86	8	67	64	4	0	31	1.13
3864372--3864420	21	2.3	22	82	6	57	51	0	0	48	1.00
3865554--3865702	65	2.3	66	78	11	155	34	17	22	26	1.96
3865681--3865757	20	3.8	20	89	0	118	32	15	23	28	1.95
3866296--3866372	22	3.5	22	96	0	136	18	27	27	27	1.98
3872076--3872127	27	2.0	26	84	3	68	44	0	19	36	1.51
3872278--3872320	22	2.1	21	87	12	63	37	2	27	32	1.70
3872396--3872563	66	2.5	67	79	10	186	33	17	21	27	1.96
3872529--3872601	20	3.7	20	88	5	112	34	15	21	28	1.94
3872892--3872921	2	15.0	2	100	0	60	50	0	0	50	1.00
3873156--3873255	22	4.5	22	87	0	146	14	25	30	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3877999--3878035	3	12.7	3	88	11	51	70	0	0	29	0.88
3878046--3878128	2	42.0	2	81	11	73	50	3	1	44	1.27
3878112--3878195	26	3.1	24	70	21	60	40	10	1	47	1.46
3879502--3879542	21	2.0	21	95	0	73	36	29	19	14	1.92
3879622--3879662	21	2.0	21	85	0	55	39	17	14	29	1.89
3882381--3882414	16	2.1	17	88	5	52	41	17	2	38	1.65
3882604--3882653	21	2.4	21	96	0	91	8	34	6	52	1.55
3883009--3883058	25	2.0	25	84	0	64	60	4	6	30	1.39
3884035--3884068	17	2.0	17	100	0	68	52	23	5	17	1.66
3884309--3884358	21	2.4	21	82	0	55	36	20	18	26	1.95
3894193--3894249	18	3.2	18	88	9	82	45	1	7	45	1.40
3894449--3894493	2	22.5	2	100	0	90	51	0	0	48	1.00
3896873--3896937	33	2.0	33	87	6	96	52	3	1	43	1.26
3898665--3898695	10	3.1	10	100	0	62	19	9	19	51	1.74
3914038--3914064	7	3.9	7	100	0	54	11	14	0	74	1.08
3916304--3916360	23	2.4	23	88	2	78	75	1	7	15	1.10
3916302--3916352	13	4.1	13	75	17	54	74	0	9	15	1.06
3927147--3927196	17	3.1	17	68	26	54	20	6	22	52	1.68
3927721--3927749	12	2.4	12	100	0	58	58	13	6	20	1.58
3929387--3929432	15	3.2	15	75	12	60	36	0	6	56	1.25
3929376--3929432	28	2.0	28	100	0	114	35	0	7	57	1.26
3929376--3929421	13	3.4	13	77	11	56	32	0	6	60	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3930332--3930372	20	2.1	20	95	4	75	80	14	4	0	0.87
3940369--3940403	15	2.3	15	95	0	61	51	8	0	40	1.33
3944317--3944348	12	2.7	12	90	0	55	46	6	3	43	1.44
3952657--3952698	19	2.2	19	95	0	75	26	4	19	50	1.67
3952981--3953020	16	2.6	16	84	15	57	40	10	20	30	1.85
3952992--3953026	16	2.2	16	100	0	70	37	14	17	31	1.89
3952995--3953033	16	2.6	15	92	8	62	38	10	20	30	1.86
3953141--3953198	21	2.7	21	76	15	55	22	18	25	32	1.97
3953140--3953231	44	2.1	43	82	7	114	26	17	23	32	1.97
3967608--3967640	16	2.1	16	100	0	66	33	6	6	54	1.50
3969101--3969138	21	2.0	20	85	15	53	34	13	2	50	1.55
3970980--3971009	2	15.0	2	92	0	51	3	0	46	50	1.18
3977039--3977093	24	2.4	23	87	6	76	36	20	5	38	1.75
3977079--3977111	12	2.8	12	95	0	57	30	18	15	36	1.91
3982658--3982692	2	17.5	2	100	0	70	51	0	0	48	1.00
3987048--3987101	22	2.4	22	78	3	54	40	20	16	22	1.91
3987137--3987204	24	2.9	24	86	6	77	39	20	16	23	1.91
3987132--3987215	23	3.6	23	80	3	87	41	19	16	22	1.90
3989795--3989833	17	2.3	17	86	8	53	38	0	17	43	1.50
4003848--4004127	137	2.1	136	90	0	434	42	18	12	26	1.86
4008563--4008606	2	22.0	2	100	0	88	50	0	0	50	1.00
4011293--4011360	29	2.3	29	87	0	91	23	32	19	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4011307--4011372	15	4.5	15	77	5	55	24	28	19	27	1.99
4011371--4011428	28	2.1	27	90	3	89	18	22	18	39	1.92
4011375--4011428	14	4.0	13	85	7	72	18	20	20	40	1.91
4015446--4015521	36	2.1	36	100	0	152	39	15	25	19	1.91
4016553--4016771	15	14.7	15	72	12	157	62	11	2	22	1.42
4016560--4016782	30	7.5	30	76	9	181	62	12	2	22	1.42
4019916--4019976	26	2.3	26	97	0	113	19	9	19	50	1.75
4022689--4022762	21	3.5	21	78	5	78	31	14	13	40	1.85
4027729--4027776	2	24.0	2	100	0	96	50	0	0	50	1.00
4028396--4028559	59	2.7	60	83	4	197	34	20	4	40	1.73
4028691--4028871	60	3.0	59	79	5	175	38	5	22	34	1.77
4041831--4041870	21	2.0	20	95	5	71	32	5	0	62	1.17
4041813--4041866	12	4.8	12	71	17	53	33	7	1	57	1.37
4045802--4045866	17	3.6	17	73	15	67	29	30	20	20	1.97
4045818--4045887	21	3.5	20	71	15	56	30	25	21	22	1.99
4045802--4045892	38	2.4	38	92	0	146	28	28	19	23	1.98
4051326--4051392	34	2.1	31	86	8	89	31	16	28	23	1.96
4052885--4052922	19	2.0	20	94	5	69	44	5	13	36	1.66
4054366--4054409	22	2.0	22	91	8	72	15	40	27	15	1.88
4054758--4054827	34	2.1	32	86	5	95	30	15	31	22	1.95
4055683--4055762	20	4.0	20	90	0	124	15	30	32	22	1.94
4055683--4055762	40	2.0	40	95	0	142	15	30	32	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4056100--4056153	24	2.4	22	78	9	56	18	48	0	33	1.49
4058094--4058163	34	2.1	32	89	5	104	21	30	15	32	1.94
4058446--4058487	21	2.0	21	95	0	75	26	28	21	23	1.99
4058601--4058638	20	1.9	20	94	0	67	15	31	34	18	1.92
4059828--4059888	23	2.7	22	77	7	68	36	9	1	52	1.45
4060514--4060572	12	5.1	11	83	4	64	81	5	13	0	0.85
4060504--4060568	20	3.2	20	82	4	69	80	7	12	0	0.91
4060515--4060568	19	2.8	18	83	13	63	81	5	12	0	0.85
4064425--4064475	12	4.2	12	80	5	59	17	15	21	45	1.86
4064675--4064715	22	1.9	21	85	5	55	58	7	7	26	1.51
4064754--4064863	24	4.5	23	76	16	98	46	15	13	24	1.82
4068456--4068491	2	18.0	2	100	0	72	50	0	0	50	1.00
4068793--4068834	20	2.0	22	86	9	61	45	0	0	54	0.99
4075816--4075941	63	2.0	63	85	0	171	21	24	31	22	1.98
4082482--4082643	60	2.7	59	82	4	200	37	6	25	30	1.80
4088011--4088062	26	2.0	26	92	7	88	32	0	3	63	1.12
4089761--4089792	2	17.0	2	87	12	50	50	0	0	50	1.00
4090633--4091290	182	3.6	182	88	3	853	41	14	16	27	1.87
4096010--4096092	23	3.8	22	76	6	87	21	22	30	25	1.99
4104294--4104341	24	2.0	24	83	0	60	33	2	12	52	1.51
4105678--4106445	200	3.8	198	85	3	1006	39	13	15	31	1.87
4105678--4106445	400	1.9	399	87	3	1116	39	13	15	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4108103--4108265	87	1.9	87	94	0	290	33	14	11	41	1.81
4108187--4108231	23	2.0	23	86	0	63	40	17	6	35	1.76
4110657--4110724	23	3.0	22	79	12	75	38	27	0	33	1.57
4110873--4110946	21	3.4	21	79	3	76	35	25	17	21	1.95
4114302--4114350	20	2.5	20	86	0	62	30	16	18	34	1.93
4117243--4117320	41	1.9	40	84	7	104	26	14	20	38	1.91
4122089--4122165	39	2.0	39	89	2	120	18	12	12	55	1.68
4122194--4122228	17	2.2	15	90	10	52	34	0	8	57	1.29
4123980--4124046	33	2.0	33	100	0	134	32	13	26	26	1.94
4128397--4128431	16	2.1	17	89	5	54	45	11	8	34	1.71

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