genome.fa.s8716.2.7.7.80.10.50.1000.15.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  15  of  24  ( 2813 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)
3808352--3808404	22	2.4	22	93	0	97	37	28	16	16	1.91
3808393--3808531	21	6.7	21	66	3	102	32	25	17	24	1.97
3808404--3808510	41	2.6	41	92	0	187	32	24	18	24	1.97
3808494--3808539	21	2.2	21	88	0	65	34	30	15	19	1.93
3810543--3810614	3	24.3	3	81	8	85	37	2	0	59	1.12
3810543--3810606	20	3.1	21	86	8	87	37	3	0	59	1.13
3815658--3816502	106	8.0	106	93	0	1413	33	25	17	22	1.96
3816537--3816809	84	3.2	84	85	2	368	29	26	20	23	1.99
3817038--3817106	3	23.3	3	81	8	79	37	2	0	59	1.12
3819466--3819543	40	2.0	40	92	0	129	41	15	7	35	1.76
3824735--3824772	20	1.9	19	89	5	58	36	7	28	26	1.84
3831263--3831323	28	2.2	28	87	0	86	16	4	29	49	1.66
3831811--3831860	18	2.8	18	78	0	55	30	30	6	34	1.81
3835120--3835224	53	2.0	53	94	0	183	46	6	15	31	1.71
3847083--3847127	21	2.1	21	87	0	63	31	28	24	15	1.96
3848806--3848868	13	5.5	13	65	27	52	19	26	26	26	1.99
3848802--3848882	22	3.6	22	96	1	144	18	27	29	24	1.98
3862179--3862222	16	2.8	16	89	0	70	59	22	9	9	1.56
3862630--3862692	24	2.6	24	84	0	90	57	20	11	11	1.64
3866870--3867079	101	2.1	101	97	1	395	35	34	16	13	1.88
3870840--3870973	71	1.9	71	85	0	187	50	13	12	23	1.76
3879936--3879969	3	11.3	3	87	12	52	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3879934--3879962	13	2.2	13	100	0	58	68	0	0	31	0.89
3879936--3879966	16	1.9	16	100	0	62	70	0	0	29	0.87
3881282--3881330	8	5.7	9	81	13	59	53	0	0	46	1.00
3881865--3883481	106	15.5	106	89	3	2406	22	17	25	34	1.96
3883514--3883581	35	1.9	35	90	0	109	23	19	27	29	1.98
3887615--3887648	3	11.3	3	87	12	52	70	0	0	29	0.87
3887613--3887644	16	2.0	16	100	0	64	68	0	0	31	0.90
3887618--3887645	13	2.2	13	100	0	56	71	0	0	28	0.86
3888966--3889010	23	2.0	21	83	8	54	53	0	0	46	1.00
3888968--3889010	8	4.8	9	83	16	54	53	0	0	46	1.00
3889545--3891161	106	15.5	106	89	3	2415	23	17	25	34	1.96
3891194--3891261	35	1.9	35	90	0	109	23	19	27	29	1.98
3895297--3895330	3	11.3	3	87	12	52	70	0	0	29	0.87
3895295--3895326	16	2.0	16	100	0	64	68	0	0	31	0.90
3895300--3895327	13	2.2	13	100	0	56	71	0	0	28	0.86
3896646--3896684	16	2.5	16	84	15	55	53	0	0	46	1.00
3897467--3897541	38	2.0	36	84	5	96	48	1	4	46	1.29
3898207--3898255	24	2.0	24	84	0	62	10	16	26	46	1.78
3898217--3898255	14	3.1	14	72	27	50	7	15	25	51	1.70
3898217--3898265	24	2.0	24	96	0	89	10	14	22	53	1.71
3898223--3898278	24	2.3	24	87	0	76	14	10	17	57	1.65
3899354--3899420	16	4.3	16	88	3	93	10	10	20	58	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3899352--3899412	32	1.9	32	93	0	104	8	13	24	54	1.66
3899483--3899539	16	3.7	16	88	4	82	10	10	19	59	1.59
3902789--3902897	31	3.5	31	89	0	164	34	14	14	35	1.87
3906683--3906739	2	28.5	2	100	0	114	50	0	0	49	1.00
3906894--3906958	31	2.1	31	100	0	130	55	0	6	38	1.25
3910271--3910845	287	2.0	286	96	1	1053	38	24	13	23	1.90
3914586--3914933	173	2.0	173	96	0	642	31	22	18	26	1.97
3916798--3916842	21	2.1	21	83	0	54	24	24	15	35	1.94
3917060--3917125	22	3.0	22	88	0	96	24	37	15	22	1.92
3917462--3917531	20	3.5	20	86	1	97	12	15	21	50	1.78
3917495--3917538	20	2.2	20	87	0	61	15	13	15	54	1.71
3919260--3919300	21	1.9	22	85	5	57	26	12	17	43	1.84
3919420--3919471	20	2.6	20	93	0	86	40	25	17	17	1.90
3919443--3919532	32	2.7	34	79	6	103	44	23	18	13	1.85
3919518--3919577	20	3.0	20	87	0	84	38	16	20	25	1.93
3919625--3919768	20	7.2	20	95	0	207	22	20	22	35	1.96
3920254--3920295	21	2.2	19	87	12	59	21	35	19	23	1.96
3920277--3920359	42	2.0	42	83	4	105	22	38	18	20	1.93
3921739--3921774	14	2.6	14	90	0	54	30	0	22	47	1.52
3921918--3921981	33	1.9	33	93	0	110	15	23	17	43	1.87
3921965--3922058	20	4.7	20	90	2	145	18	21	25	35	1.95
3924441--3924494	24	2.2	24	93	0	90	40	20	18	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3925336--3925402	20	3.3	20	95	0	116	22	19	26	31	1.98
3925389--3925505	20	5.8	20	96	0	207	20	18	19	41	1.91
3925501--3925543	21	2.0	22	90	4	70	39	16	23	20	1.92
3928888--3928918	14	2.2	14	100	0	62	32	16	19	32	1.94
3932003--3932053	24	2.1	24	100	0	102	33	19	29	17	1.95
3937535--3937628	31	3.0	31	95	3	163	38	24	19	18	1.93
3941598--3941691	31	3.0	31	95	3	163	38	24	19	18	1.93
3943575--3943792	103	2.1	103	97	0	409	36	23	14	25	1.93
3944544--3944764	64	3.5	64	83	7	245	27	19	19	33	1.96
3949328--3949405	23	3.3	23	78	1	84	34	21	17	25	1.96
3949412--3949628	103	2.1	102	93	0	371	37	22	13	26	1.92
3950380--3950600	64	3.5	64	83	7	245	27	19	19	33	1.96
3969022--3969088	29	2.3	29	100	0	134	29	23	22	23	1.99
3971439--3971486	20	2.4	20	96	0	87	22	14	8	54	1.67
3985284--3985403	60	2.0	60	90	3	188	25	23	24	26	2.00
3992535--3992586	22	2.4	21	84	9	61	30	7	1	59	1.36
4015050--4015136	23	3.3	26	76	16	83	37	2	2	57	1.24
4024032--4024124	21	4.5	21	78	4	100	39	18	24	17	1.91
4024032--4024124	41	2.3	41	100	0	186	39	18	24	17	1.91
4024051--4024185	41	3.3	41	84	4	148	37	21	20	20	1.94
4024113--4024206	20	4.7	20	80	7	91	32	25	17	24	1.96
4024394--4024437	22	2.0	22	95	0	79	20	45	15	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4024701--4024738	20	1.9	20	88	0	58	13	15	21	50	1.78
4026058--4026104	18	2.6	18	83	6	60	25	44	14	14	1.84
4026629--4026686	14	3.9	14	79	16	71	48	25	17	8	1.75
4026613--4026703	32	2.8	33	94	3	166	47	23	18	10	1.80
4026575--4026708	19	7.6	19	72	18	92	42	23	20	12	1.87
4026720--4026777	14	3.9	14	79	16	71	8	17	25	48	1.75
4026715--4026793	32	2.4	33	95	2	142	10	18	24	46	1.80
4026734--4026851	20	6.4	19	77	11	95	13	20	24	41	1.88
4028841--4028931	14	5.8	14	75	22	83	50	18	19	10	1.76
4028826--4028936	14	6.7	16	71	26	81	47	19	20	11	1.80
4028826--4028936	33	3.4	33	97	0	204	47	19	20	11	1.80
4028955--4029012	20	2.9	20	94	0	98	17	22	22	37	1.93
4030067--4030125	24	2.5	24	82	0	73	28	16	18	35	1.93
4030300--4030324	12	2.1	12	100	0	50	72	0	28	0	0.86
4032614--4032744	19	7.7	19	64	23	85	42	19	22	15	1.88
4032614--4032740	33	3.8	33	87	4	193	42	18	22	15	1.89
4032615--4032747	66	2.0	66	95	0	239	41	18	22	17	1.90
4032924--4032960	14	2.6	14	91	0	65	45	24	0	29	1.53
4034348--4034414	21	3.2	21	68	4	55	19	20	35	23	1.95
4034348--4034470	42	2.9	41	80	7	113	22	17	36	22	1.95
4036451--4036537	33	2.6	33	90	3	129	37	26	24	11	1.89
4036426--4036591	19	9.1	19	74	16	127	43	21	22	12	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4036587--4036653	19	3.5	19	85	2	89	10	16	25	47	1.78
4037175--4037222	20	2.4	20	92	0	78	25	18	29	27	1.98
4037177--4037264	20	4.3	20	76	8	70	25	14	25	35	1.94
4037190--4037285	41	2.3	41	78	3	104	21	17	22	37	1.94
4045003--4045057	21	2.6	21	77	8	58	34	21	20	23	1.97
4045045--4045293	20	12.4	20	83	5	236	37	25	17	19	1.93
4045986--4046032	24	2.0	24	87	8	69	25	14	21	38	1.92
4046207--4046231	12	2.1	12	100	0	50	72	0	28	0	0.86
4048516--4048766	33	7.2	33	71	17	186	46	17	22	13	1.83
4048530--4048766	53	4.5	53	97	1	440	46	17	22	13	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24