genome.fa.s2890.2.7.7.80.10.50.1000.15.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

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

This is table  15  of  21  ( 2516 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)
3499430--3499607	88	2.0	88	93	0	302	29	15	23	32	1.95
3499518--3499881	68	5.4	68	90	0	516	30	14	24	29	1.95
3501371--3501436	30	2.2	29	86	2	96	43	3	21	31	1.67
3503502--3503563	25	2.5	26	92	7	103	33	19	16	30	1.94
3509302--3509380	22	3.7	22	83	11	85	31	18	13	35	1.91
3509914--3509960	2	23.5	2	100	0	94	48	0	0	51	1.00
3511681--3526561	4	3744.8	4	90	1	18897	18	25	6	49	1.71
3526753--3526790	18	2.1	18	90	0	58	34	7	5	52	1.53
3527065--3527177	44	2.6	44	94	2	192	30	22	16	30	1.96
3527081--3527159	24	3.5	24	69	13	76	34	18	15	31	1.92
3527060--3527177	20	5.5	21	66	18	64	30	22	17	29	1.97
3532238--3532338	28	3.5	28	95	4	175	42	0	15	41	1.47
3534348--3534387	22	1.9	21	94	5	64	42	7	10	40	1.67
3534543--3534687	38	3.8	38	92	0	236	21	17	28	31	1.96
3540861--3540955	38	2.5	37	86	8	127	20	16	31	31	1.95
3543183--3543284	46	2.2	46	87	3	143	23	23	22	30	1.99
3543191--3543261	23	3.1	23	81	0	88	23	21	25	29	1.99
3543248--3543298	23	2.2	23	82	0	66	33	23	17	25	1.96
3548420--3548452	16	2.1	16	88	11	50	72	0	0	27	0.85
3553322--3553375	20	2.7	20	80	11	65	20	27	12	38	1.89
3553808--3553876	34	2.0	34	85	0	93	33	15	14	36	1.89
3556924--3556956	12	2.8	12	100	0	66	39	18	9	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3574793--3574842	23	2.1	24	92	3	84	56	0	4	40	1.18
3575210--3575243	2	17.0	2	100	0	68	50	0	0	50	1.00
3575606--3575705	44	2.3	45	73	5	105	27	16	23	34	1.95
3578850--3578948	41	2.4	41	84	0	126	32	21	19	27	1.97
3578969--3579061	41	2.3	41	92	0	150	31	19	21	27	1.97
3581800--3581837	19	2.0	20	89	5	60	36	2	18	42	1.64
3581866--3582043	2	91.0	2	66	13	68	39	3	8	48	1.50
3581866--3581910	19	2.4	19	92	0	72	48	4	0	46	1.22
3581864--3581914	17	3.1	17	86	8	61	49	5	0	45	1.26
3581956--3582043	38	2.4	38	82	3	108	39	2	9	48	1.47
3583803--3583842	21	1.9	21	100	0	80	25	20	20	35	1.96
3584312--3584345	12	2.7	13	86	9	52	41	5	8	44	1.60
3586611--3586670	23	2.8	21	74	16	68	35	15	18	31	1.91
3590947--3590973	13	2.1	13	100	0	54	55	14	14	14	1.70
3594734--3594813	21	3.8	21	98	0	142	17	20	26	36	1.94
3597867--3597931	8	8.1	8	81	10	71	0	15	1	83	0.73
3597852--3597933	25	3.4	24	86	8	112	1	17	1	80	0.84
3597860--3597933	12	6.0	13	92	6	111	0	16	1	82	0.74
3597857--3597941	20	4.2	20	79	11	86	0	18	1	80	0.79
3599529--3599580	2	26.5	2	92	3	88	50	0	1	48	1.12
3600058--3600145	33	2.7	32	86	10	115	30	7	23	37	1.84
3602098--3602161	33	1.9	33	83	0	83	31	7	25	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3602312--3603135	443	1.9	444	83	4	1097	31	16	17	34	1.93
3602754--3603722	471	2.1	474	80	4	1064	30	17	18	33	1.94
3604655--3604717	31	2.0	31	84	0	81	34	26	15	22	1.94
3605686--3605732	7	6.7	7	76	9	51	21	4	25	48	1.68
3605679--3605730	15	3.7	15	87	10	74	17	3	26	51	1.62
3605690--3605731	13	3.1	13	89	6	57	19	4	28	47	1.69
3606865--3606989	65	1.9	66	90	1	198	34	30	21	13	1.92
3607304--3607378	25	3.0	25	74	5	62	45	14	9	30	1.77
3617516--3617578	30	2.1	30	82	5	74	38	23	17	20	1.93
3617686--3617725	20	2.0	21	85	5	55	42	12	12	32	1.80
3618327--3618359	14	2.4	14	90	10	50	63	3	0	33	1.10
3619693--3619752	8	7.4	8	80	14	52	55	0	1	43	1.10
3619908--3619955	20	2.4	20	85	0	60	27	20	22	29	1.99
3619891--3620296	119	3.4	119	89	1	618	33	19	15	31	1.93
3620139--3620181	20	2.2	20	86	0	59	30	25	18	25	1.98
3621330--3621460	65	2.0	65	87	0	190	28	19	20	32	1.97
3624424--3624476	3	17.7	3	81	14	65	66	0	3	30	1.10
3625933--3625957	11	2.3	11	100	0	50	0	36	0	64	0.94
3628875--3628916	21	2.0	21	90	4	68	52	4	11	30	1.59
3640631--3640663	16	2.1	16	100	0	66	45	0	18	36	1.49
3640786--3640831	3	16.0	3	91	8	78	69	0	0	30	0.89
3643359--3643400	22	2.0	22	85	4	59	52	7	9	30	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3646624--3646655	16	2.0	16	93	0	55	34	6	25	34	1.81
3651181--3651259	40	2.0	40	94	0	140	37	16	6	39	1.74
3656055--3656088	6	5.7	6	100	0	68	0	35	14	50	1.44
3657478--3657649	86	2.0	86	98	0	335	28	22	22	26	1.99
3659376--3659401	6	4.3	6	100	0	52	50	50	0	0	1.00
3660526--3660569	15	2.8	15	82	6	52	52	4	4	38	1.42
3671022--3671067	19	2.4	19	85	10	58	32	2	10	54	1.47
3671739--3672076	166	2.0	171	97	2	641	34	10	15	39	1.82
3674794--3674858	2	32.5	2	100	0	130	49	0	0	50	1.00
3677044--3677142	34	3.1	34	71	21	113	20	9	17	53	1.70
3677023--3677142	62	1.9	62	93	0	204	19	11	16	52	1.74
3679420--3679460	16	2.4	18	80	8	50	29	4	14	51	1.63
3681094--3681125	16	1.9	17	93	6	57	46	3	0	50	1.17
3682058--3682275	44	5.0	44	89	0	328	40	10	23	25	1.86
3685161--3685204	18	2.3	20	92	7	74	34	13	25	27	1.93
3689949--3690051	52	2.0	52	98	0	197	35	14	22	27	1.93
3696817--3696850	15	2.2	16	90	10	54	44	2	0	52	1.16
3702791--3703012	43	5.2	43	74	6	171	42	19	14	22	1.88
3702791--3703000	86	2.4	86	78	1	251	42	19	14	23	1.88
3704336--3704392	30	1.9	29	82	10	71	49	8	15	26	1.74
3706472--3706523	22	2.4	22	96	0	95	26	25	23	25	2.00
3706613--3706667	22	2.4	23	84	3	76	21	25	14	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3713236--3713365	57	2.3	57	77	6	147	30	17	25	26	1.97
3713478--3713516	21	1.9	20	89	5	60	43	5	25	25	1.75
3719975--3720011	3	12.0	3	88	5	56	67	0	29	2	1.04
3719983--3720032	9	5.3	9	79	9	55	74	2	22	2	1.03
3723201--3723268	20	3.3	20	67	18	50	20	19	25	35	1.96
3723194--3723275	42	2.0	42	85	4	112	24	19	23	32	1.97
3723924--3723998	9	8.2	9	74	12	64	28	0	0	72	0.86
3723934--3723999	3	23.0	3	80	9	57	31	0	0	68	0.90
3723935--3724014	37	2.2	37	91	8	128	37	0	0	62	0.95
3726007--3726069	31	2.0	31	100	0	126	33	15	19	31	1.93
3731559--3731619	32	1.9	32	87	9	90	47	0	6	45	1.28
3735168--3735219	25	2.2	24	86	13	72	28	1	0	69	0.99
3735168--3735229	23	2.5	25	82	10	74	27	4	0	67	1.10
3741891--3741924	16	2.0	17	88	11	52	20	5	2	70	1.21
3745481--3745597	60	1.9	61	82	5	148	52	9	23	13	1.69
3745576--3745623	6	7.7	6	82	17	62	83	0	16	0	0.65
3745582--3745623	13	3.2	13	93	6	75	83	0	16	0	0.65
3746450--3746685	60	3.7	61	82	7	242	38	19	14	27	1.91
3746445--3746685	65	3.7	64	81	10	260	38	19	14	26	1.91
3746445--3746683	125	1.8	130	86	7	353	38	19	14	26	1.91
3747503--3747536	3	11.3	3	93	0	59	0	29	0	70	0.87
3751027--3751134	35	3.1	36	72	6	105	35	21	19	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3757556--3757603	24	2.0	24	95	0	87	35	22	8	33	1.84
3758634--3758669	15	2.4	14	86	13	54	22	19	44	13	1.86
3759766--3759962	55	3.6	55	86	3	263	32	19	18	28	1.96
3760513--3760610	23	4.3	23	84	3	119	22	23	23	30	1.99
3760582--3760648	22	3.1	22	70	12	66	25	14	23	35	1.94
3766779--3766969	55	3.5	55	89	0	292	30	19	19	29	1.97
3767242--3767267	13	2.0	13	100	0	52	30	0	7	61	1.24
3767463--3767509	21	2.2	21	84	0	58	25	14	25	34	1.94
3768445--3768697	118	2.2	117	86	2	346	26	20	14	38	1.91
3768266--3768971	321	2.2	319	88	1	1063	26	20	16	36	1.94

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