genome.fa.s9639.2.7.7.80.10.50.1000.58.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  58  of  62  ( 7398 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)
13974543--13974674	19	7.1	19	75	11	130	14	22	17	45	1.84
13975979--13976014	14	2.6	14	95	0	63	33	0	22	44	1.53
13976121--13976181	19	3.5	18	72	21	58	44	19	22	13	1.85
13976121--13976200	33	2.4	33	89	0	124	46	21	21	11	1.82
13976206--13976303	19	5.7	19	70	22	90	14	23	17	44	1.85
13976215--13976303	33	2.7	33	94	3	153	13	23	17	44	1.84
13976276--13976330	19	2.8	21	81	13	71	18	21	20	40	1.92
13976215--13976323	33	3.1	35	81	15	120	14	23	18	43	1.87
13976297--13976369	20	3.6	20	71	10	67	21	20	23	34	1.97
13979553--13979778	20	11.3	19	87	3	245	26	19	20	33	1.96
13979553--13979778	40	5.7	40	86	4	271	26	19	20	33	1.96
13989663--13989733	6	11.8	6	100	0	142	33	49	0	16	1.47
13990770--13990830	2	30.5	2	100	0	122	49	0	0	50	1.00
13997800--13997846	18	2.6	18	82	0	58	19	19	25	36	1.95
13998733--13999268	81	6.6	81	89	1	815	36	11	20	31	1.89
14001011--14001060	14	3.5	14	86	5	73	26	26	22	26	2.00
14002842--14002971	66	2.0	66	86	3	181	20	20	22	36	1.95
14008977--14009545	81	7.1	81	88	3	774	36	10	20	32	1.87
14008977--14009537	239	2.3	238	87	2	791	36	11	20	32	1.87
14010464--14010653	39	4.9	39	85	3	240	15	25	23	35	1.94
14011234--14011276	18	2.5	17	85	7	61	25	4	2	67	1.22
14011218--14011348	62	2.2	59	79	11	137	31	3	3	62	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14015895--14016247	183	1.9	182	94	0	616	27	20	20	30	1.98
14017341--14017501	72	2.2	75	84	6	204	29	18	11	40	1.86
14017531--14017683	39	3.6	39	68	21	110	28	22	13	36	1.91
14017586--14017905	106	3.1	105	90	3	488	30	20	11	37	1.88
14017805--14017880	36	2.1	36	90	0	116	22	21	15	40	1.90
14018080--14018710	105	6.0	105	90	2	914	33	26	18	21	1.96
14019712--14019825	58	1.9	58	85	8	158	32	2	1	63	1.19
14024300--14024326	3	9.0	3	100	0	54	66	0	0	33	0.92
14025203--14025628	54	7.9	54	84	4	459	27	15	20	35	1.93
14025203--14025605	215	1.9	215	81	4	499	28	15	19	36	1.93
14028756--14028780	3	8.3	3	100	0	50	68	0	0	32	0.90
14031544--14031568	10	2.5	10	100	0	50	20	8	20	52	1.71
14034605--14034644	21	2.0	20	85	5	53	42	17	12	27	1.85
14034812--14034838	13	2.1	13	100	0	54	48	7	29	14	1.71
14043599--14043850	45	5.6	45	87	1	353	38	9	20	30	1.85
14049862--14049908	20	2.3	20	85	7	60	27	19	27	25	1.99
14049876--14050062	95	2.0	95	84	4	243	33	17	20	27	1.96
14050550--14050813	45	5.8	45	94	0	438	39	9	21	29	1.85
14051277--14051381	49	2.1	49	85	0	138	31	21	14	32	1.93
14051478--14051710	54	4.3	54	78	4	229	28	18	19	33	1.96
14051498--14051699	108	1.9	108	84	0	269	28	17	20	33	1.96
14054328--14054406	31	2.5	31	80	8	106	53	16	8	21	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14058304--14058341	19	2.0	20	85	15	53	68	0	21	10	1.19
14060912--14061239	54	6.1	54	89	0	467	39	16	10	32	1.83
14062280--14062377	31	3.1	31	80	14	103	30	23	30	15	1.95
14062373--14062417	21	2.1	21	91	0	72	28	26	31	13	1.94
14071220--14071244	10	2.5	10	100	0	50	28	52	0	20	1.47
14071402--14071442	22	1.9	22	85	5	57	39	7	34	19	1.80
14072395--14072669	72	3.8	72	77	2	257	16	26	14	42	1.87
14072394--14072735	72	4.8	72	76	6	255	16	27	14	41	1.87
14084505--14084540	19	1.9	19	88	5	56	41	19	8	30	1.81
14096097--14096149	19	2.8	19	91	0	88	30	24	15	30	1.95
14099500--14099543	18	2.4	18	92	7	72	34	34	20	11	1.88
14107881--14107937	28	2.1	28	96	3	107	14	17	17	50	1.77
14119383--14119528	45	3.2	45	85	5	206	19	19	11	48	1.79
14119891--14120093	95	2.1	96	84	8	263	25	20	12	41	1.88
14121634--14121691	30	1.9	30	100	0	116	27	20	13	37	1.91
14124360--14124455	40	2.4	40	87	1	131	32	22	23	20	1.98
14128270--14128749	81	5.9	81	85	1	631	36	12	20	30	1.90
14131096--14131339	81	3.0	80	89	3	348	37	11	22	29	1.88
14131443--14131491	24	2.0	24	96	0	89	38	22	12	26	1.89
14141464--14142159	54	12.9	54	81	1	725	34	20	17	27	1.95
14147774--14148273	54	9.4	54	84	4	568	34	19	19	27	1.96
14147938--14148077	27	5.2	27	62	24	80	32	20	18	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14147873--14148325	54	8.4	53	83	4	469	33	19	19	27	1.96
14147902--14148301	217	1.8	216	86	1	577	34	18	19	27	1.95
14149309--14149358	20	2.5	20	96	0	91	26	18	22	34	1.96
14159230--14159579	81	4.3	81	87	1	470	36	10	22	29	1.88
14159656--14159726	3	23.7	3	81	16	69	30	1	1	66	1.09
14159655--14159726	17	4.1	18	79	15	71	31	1	1	65	1.10
14159687--14159724	14	2.7	15	92	8	55	31	0	0	68	0.90
14160206--14160263	23	2.5	23	88	0	80	48	20	27	3	1.66
14160225--14160278	23	2.3	23	87	6	72	48	27	20	3	1.66
14161171--14161566	157	2.6	149	78	13	394	38	8	8	44	1.65
14162743--14162776	5	6.8	5	93	0	59	20	0	0	79	0.73
14171350--14171407	22	2.6	22	86	0	80	34	15	10	39	1.81
14172871--14172969	3	34.0	3	82	9	125	32	1	1	65	1.06
14175474--14175513	19	2.1	19	100	0	80	45	10	20	25	1.81
14178612--14179207	55	10.9	55	87	0	804	27	17	18	36	1.94
14178587--14179202	274	2.3	274	85	2	864	27	17	18	36	1.94
14185567--14186022	55	8.3	55	84	3	517	28	19	18	34	1.95
14187036--14187227	81	2.4	81	93	0	330	34	12	21	31	1.91
14187191--14187249	22	2.7	22	91	0	91	40	10	15	33	1.81
14187110--14187330	103	2.1	103	91	1	354	35	11	19	32	1.88
14187213--14187408	81	2.4	81	83	1	241	39	10	20	30	1.85
14187036--14187408	184	2.0	184	87	1	541	36	11	21	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14195598--14195631	15	2.2	16	89	5	52	41	5	5	47	1.52
14200050--14200126	38	2.0	38	97	0	145	24	16	12	45	1.83
14213747--14213785	18	2.3	18	86	8	55	35	0	5	58	1.20
14216903--14217202	55	5.5	55	89	2	442	35	11	20	33	1.88
14227119--14227196	37	2.2	37	90	4	124	16	17	25	39	1.91
14229643--14230189	57	9.5	57	90	1	752	36	12	19	31	1.89
14230541--14230694	81	1.9	81	83	2	202	37	10	22	29	1.87
14230748--14230806	2	29.5	2	100	0	118	50	0	0	49	1.00
14235054--14235435	57	6.6	57	89	1	460	38	11	17	32	1.86
14240477--14240529	23	2.4	23	90	6	83	26	15	26	32	1.95
14246336--14246387	25	2.0	26	88	3	79	82	11	5	0	0.82
14250684--14250726	23	1.9	22	90	4	68	13	11	4	69	1.33
14259484--14259515	15	2.1	15	94	0	55	43	21	15	18	1.87
14261218--14261243	2	13.0	2	100	0	52	50	0	0	50	1.00
14262135--14262186	20	2.6	20	87	6	70	26	19	28	25	1.98
14262154--14262296	54	2.6	53	84	4	178	28	16	23	31	1.96
14262821--14262895	23	3.3	22	78	9	80	24	26	21	28	1.99
14269086--14269208	54	2.3	53	81	4	131	31	14	20	33	1.93
14269753--14269860	21	5.0	21	72	18	80	21	21	25	31	1.98
14275304--14275361	26	2.2	26	82	11	66	8	17	13	60	1.58
14284039--14284067	2	14.5	2	100	0	58	48	0	0	51	1.00
14297264--14297293	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14297311--14297384	16	4.7	15	75	14	60	35	2	1	60	1.19
14297387--14297418	15	2.1	15	94	0	55	12	9	0	78	0.97
14297388--14297441	21	2.6	20	80	13	56	14	5	5	74	1.19
14298526--14298550	9	2.8	9	100	0	50	12	0	0	88	0.53
14307683--14307721	16	2.4	17	91	4	62	82	5	12	0	0.83
14308680--14308883	110	1.9	110	90	0	327	35	23	19	21	1.96
14310303--14310327	2	12.5	2	100	0	50	48	0	0	52	1.00
14310386--14310419	2	17.0	2	100	0	68	50	0	0	50	1.00
14310392--14310509	20	6.5	18	68	23	70	37	4	0	57	1.24
14310514--14310544	14	2.2	14	94	0	53	12	9	0	77	0.99

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   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62