genome.fa.s9592.2.7.7.80.10.50.1000.25.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   

This is table  25  of  39  ( 4673 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)
4848278--4848346	14	4.7	15	87	5	106	39	0	2	57	1.13
4848278--4848346	29	2.4	29	100	0	138	39	0	2	57	1.13
4859495--4859534	2	20.0	2	89	0	62	50	0	45	5	1.23
4859495--4859535	14	2.9	14	100	0	82	48	0	43	7	1.30
4862019--4862046	2	14.0	2	100	0	56	50	0	0	50	1.00
4862589--4862627	17	2.3	17	86	0	51	56	0	0	43	0.99
4863841--4863891	22	2.3	22	100	0	102	47	3	3	45	1.40
4868292--4868337	23	2.0	23	91	0	74	54	0	2	43	1.12
4868557--4868630	20	3.7	20	98	0	139	25	27	9	37	1.87
4869648--4870304	220	3.0	219	83	6	802	42	18	16	22	1.89
4879175--4879226	19	2.7	19	93	0	95	30	28	21	19	1.97
4882289--4882348	21	2.9	21	90	5	86	36	31	10	21	1.87
4888781--4888840	30	2.0	30	93	6	104	33	6	16	43	1.74
4888930--4888992	20	3.1	20	93	2	99	22	36	28	12	1.91
4889026--4889069	21	2.1	21	100	0	88	13	45	27	13	1.81
4889106--4889148	21	2.0	21	86	0	59	27	20	23	27	1.99
4889176--4889215	20	1.9	22	90	10	66	37	40	10	12	1.77
4889430--4889499	34	2.1	32	86	5	95	31	15	30	22	1.95
4892315--4892374	30	2.0	30	93	6	104	33	6	16	43	1.74
4892464--4892542	21	4.1	21	78	18	91	22	37	26	12	1.90
4892490--4892519	15	2.0	15	100	0	60	26	33	26	13	1.93
4892470--4892540	35	2.0	36	91	2	117	23	35	26	14	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4892576--4892618	21	2.0	21	95	0	77	16	44	25	13	1.85
4892654--4892696	21	2.0	21	90	0	68	25	20	25	27	1.99
4892725--4892764	20	1.9	22	90	10	66	37	40	10	12	1.77
4892979--4893048	34	2.1	32	89	5	104	31	15	31	21	1.95
4893790--4893886	44	2.2	44	83	7	117	28	23	19	27	1.98
4893803--4893890	23	3.8	23	71	19	67	28	23	20	27	1.99
4895899--4895969	2	35.5	2	100	0	142	49	0	0	50	1.00
4896616--4896774	65	2.5	64	89	5	232	30	23	16	28	1.96
4896746--4896794	19	2.6	19	84	9	57	24	30	18	26	1.98
4902187--4902256	30	2.3	30	92	0	113	32	22	20	24	1.97
4905988--4906296	138	2.3	139	79	6	337	44	15	11	28	1.81
4907330--4907395	29	2.4	27	76	16	71	40	33	3	22	1.69
4907903--4907936	13	2.5	13	90	9	50	64	5	0	29	1.17
4908304--4908345	17	2.6	17	92	7	70	69	0	0	30	0.89
4910242--4910295	13	4.3	13	76	4	58	46	0	0	53	1.00
4910498--4910544	21	2.1	23	84	7	62	48	0	0	51	1.00
4911849--4911891	19	2.3	19	81	14	54	32	0	2	65	1.06
4916561--4916718	19	8.3	19	88	0	226	56	12	13	17	1.66
4917887--4917965	37	2.2	37	88	2	115	37	21	18	21	1.94
4918826--4918883	26	2.3	24	80	11	71	58	1	10	29	1.41
4920115--4920155	2	20.5	2	100	0	82	51	0	0	48	1.00
4922008--4922167	64	2.5	65	88	2	232	40	10	20	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4922137--4922561	36	12.5	36	74	15	325	41	10	19	28	1.84
4921941--4922418	171	2.8	172	85	5	613	41	9	19	29	1.83
4922453--4922548	33	2.8	34	84	12	133	43	11	18	26	1.84
4922168--4922579	135	3.1	135	95	1	720	42	10	18	28	1.83
4924748--4925000	36	7.2	37	75	14	207	42	11	17	28	1.85
4924911--4924970	19	3.3	19	65	25	56	45	6	20	28	1.76
4926341--4926552	95	2.4	89	75	16	215	33	16	17	31	1.93
4929350--4929393	21	2.2	19	84	8	52	72	0	9	18	1.10
4930649--4930679	2	15.5	2	100	0	62	51	0	0	48	1.00
4935972--4936042	28	2.6	28	97	2	135	29	4	18	47	1.67
4940329--4940494	83	2.0	83	91	0	269	26	31	12	29	1.92
4940882--4940917	2	18.0	2	100	0	72	50	0	0	50	1.00
4941532--4941557	2	13.0	2	100	0	52	50	0	0	50	1.00
4942636--4942688	4	13.8	4	82	11	58	26	0	1	71	0.96
4942696--4942734	2	19.5	2	100	0	78	48	0	0	51	1.00
4942854--4942904	12	4.2	12	78	9	50	5	11	3	78	1.06
4942916--4942975	15	4.2	14	74	16	52	21	1	3	73	1.07
4942911--4942972	24	2.6	25	76	20	69	20	1	3	74	1.05
4942901--4942975	29	2.6	28	74	16	71	20	2	2	74	1.06
4942998--4943069	22	3.5	21	71	15	53	18	8	6	66	1.40
4945107--4945170	29	2.2	29	83	5	76	48	6	9	35	1.61
4953645--4953762	44	2.7	44	85	0	155	28	26	8	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4953733--4953780	18	2.7	18	90	0	69	20	35	10	33	1.87
4956836--4956862	14	1.9	14	100	0	54	59	0	3	37	1.15
4957225--4957267	18	2.3	18	80	4	50	51	4	9	34	1.55
4959321--4959355	8	4.1	8	92	7	52	17	0	0	82	0.66
4959319--4959369	22	2.3	22	86	0	66	19	0	1	78	0.85
4959386--4959431	22	2.0	23	84	16	60	15	15	8	60	1.57
4959847--4959900	27	2.1	25	83	16	67	55	5	1	37	1.34
4968582--4968725	71	2.0	71	100	0	288	27	19	18	34	1.95
4971992--4972041	23	2.1	23	81	3	55	44	8	14	34	1.74
4973373--4973427	28	2.0	28	81	0	65	45	5	10	38	1.63
4973606--4973643	16	2.2	18	90	9	62	50	0	0	50	1.00
4973550--4973677	60	2.2	59	88	1	184	49	3	2	44	1.33
4976803--4976882	20	3.9	20	79	9	90	12	22	23	41	1.88
4976989--4977014	6	4.3	6	100	0	52	34	50	15	0	1.45
4977527--4977713	91	2.0	92	97	1	358	33	17	15	33	1.92
4977714--4977767	22	2.5	22	87	0	90	37	27	16	18	1.93
4977790--4978052	41	6.4	41	97	0	481	37	23	20	19	1.94
4985194--4985245	15	3.4	15	76	12	52	63	1	0	34	1.06
4985194--4985252	31	2.0	30	83	12	77	62	1	0	35	1.05
4986944--4987013	34	2.1	34	86	5	97	38	22	2	35	1.69
4989761--4989820	29	2.1	29	96	0	111	26	20	40	13	1.89
4990486--4990524	15	2.6	15	88	8	53	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4996538--4996566	14	2.1	14	100	0	58	13	6	58	20	1.58
5004651--5004683	16	2.0	17	88	5	50	39	9	18	33	1.82
5005233--5005291	21	2.8	21	97	0	109	20	8	20	50	1.73
5015796--5015833	20	1.9	20	84	10	51	18	0	21	60	1.36
5021647--5021711	21	2.9	22	73	24	71	56	4	0	38	1.20
5024506--5024542	17	2.2	17	90	4	58	48	5	2	43	1.40
5024820--5024910	29	3.1	29	87	0	128	36	7	10	45	1.68
5024991--5025065	29	2.6	29	84	2	105	36	6	13	44	1.70
5024863--5025170	142	2.2	139	87	4	440	37	9	11	41	1.73
5025433--5025470	17	2.3	17	90	4	60	44	2	7	44	1.47
5026150--5026202	24	2.2	24	82	0	70	20	11	28	39	1.87
5026276--5026302	14	1.9	14	100	0	54	62	0	0	37	0.95
5026823--5027028	104	2.0	104	97	0	385	23	18	23	33	1.97
5027915--5027951	15	2.5	15	95	0	65	48	8	5	37	1.56
5029763--5029793	15	2.1	15	93	0	53	38	0	16	45	1.47
5044120--5044148	15	1.9	15	100	0	58	13	3	0	82	0.79
5044901--5044948	14	3.7	14	73	21	59	14	12	14	58	1.64
5044901--5044953	24	2.2	24	96	0	97	15	11	15	58	1.63
5045131--5045209	24	3.3	24	76	1	88	10	11	17	60	1.57
5045586--5045622	2	18.5	2	100	0	74	51	0	0	48	1.00
5046416--5046465	25	2.0	26	92	4	84	16	20	8	56	1.65
5047007--5047064	31	1.9	30	83	13	75	50	8	22	18	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5047801--5047838	19	2.0	19	100	0	76	36	10	10	42	1.74
5048477--5048590	58	2.0	58	92	0	192	36	13	24	25	1.92
5050870--5050917	24	2.0	24	95	0	87	27	33	14	25	1.94
5059005--5059112	1	108.0	1	66	0	54	0	14	1	83	0.73
5059005--5059112	9	11.4	9	76	13	101	0	14	1	83	0.73
5059005--5059112	21	5.0	19	76	21	90	0	14	1	83	0.73
5059005--5059109	29	3.6	28	76	12	113	0	15	1	82	0.75
5061573--5061697	64	2.0	63	81	9	146	27	17	23	32	1.97
5067347--5067386	21	1.9	21	90	10	64	32	7	5	55	1.50
5070577--5070726	40	3.8	40	91	0	246	33	28	16	22	1.95

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