genome.fa.s7823.2.7.7.80.10.50.1000.21.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   

This is table  21  of  33  ( 3920 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)
3852519--3852550	3	10.7	3	100	0	64	0	31	0	68	0.90
3853985--3854033	25	1.9	26	84	12	66	38	0	8	53	1.31
3854277--3854329	11	5.0	11	77	6	56	49	0	0	50	1.00
3854206--3854338	31	4.3	32	71	13	100	49	7	0	42	1.36
3878893--3878948	29	2.0	28	92	3	94	7	14	17	60	1.55
3879143--3879200	18	3.2	17	75	20	55	39	1	3	55	1.27
3879143--3879189	20	2.6	17	76	20	51	38	2	4	55	1.31
3879781--3879897	50	2.3	50	89	0	180	49	30	5	13	1.66
3884598--3884647	23	2.2	23	89	7	75	48	18	22	12	1.80
3888331--3888384	6	8.5	6	89	6	63	57	0	1	40	1.09
3888331--3888387	19	3.0	19	92	0	87	56	0	1	42	1.10
3888330--3888387	13	4.5	13	82	6	73	56	0	1	41	1.09
3888625--3888670	21	2.4	18	85	10	56	76	2	6	15	1.09
3890364--3890627	34	7.5	35	76	14	217	45	5	3	45	1.44
3890364--3890706	34	9.6	34	71	16	189	46	6	3	44	1.46
3890540--3890708	36	4.6	35	76	16	139	48	7	1	42	1.42
3890693--3890721	2	14.5	2	100	0	58	51	0	0	48	1.00
3891262--3892021	249	3.1	248	83	5	901	25	20	24	29	1.99
3891286--3892042	165	4.6	166	80	5	712	25	20	24	29	1.99
3898324--3898422	49	2.0	49	96	3	182	17	29	18	35	1.93
3898840--3898864	11	2.3	11	100	0	50	72	0	8	20	1.10
3899039--3899097	11	5.3	11	74	11	57	52	3	0	44	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3898867--3899096	33	7.0	31	74	19	166	46	3	3	46	1.36
3898859--3899112	34	7.6	34	72	18	117	47	4	2	45	1.38
3899091--3899161	38	1.9	38	88	5	110	47	11	2	38	1.54
3899977--3900315	170	2.0	170	100	0	678	27	25	10	36	1.89
3901561--3901608	20	2.4	20	89	0	69	37	20	10	31	1.87
3901573--3901612	20	2.0	20	100	0	80	40	25	10	25	1.86
3903080--3903106	2	13.5	2	100	0	54	51	0	0	48	1.00
3906817--3906847	12	2.6	12	100	0	62	54	6	9	29	1.57
3907979--3908059	34	2.4	34	100	0	162	19	16	13	50	1.77
3909747--3909790	2	22.0	2	100	0	88	50	0	0	50	1.00
3909893--3909923	2	15.5	2	100	0	62	51	0	0	48	1.00
3914956--3915030	31	2.3	32	88	6	107	54	16	9	20	1.68
3916739--3916789	25	2.0	25	100	0	102	39	29	7	23	1.83
3917816--3917844	4	7.2	4	100	0	58	51	24	0	24	1.48
3919568--3919811	133	1.9	132	83	6	307	28	18	18	34	1.95
3921214--3921276	8	8.0	8	73	16	51	6	12	0	80	0.88
3921214--3921276	15	4.1	14	78	15	63	6	12	0	80	0.88
3923502--3923996	246	2.0	248	99	0	976	34	6	27	31	1.82
3924559--3924588	14	2.1	15	93	6	53	26	6	20	46	1.75
3924973--3925023	15	3.5	15	91	2	77	29	9	25	35	1.88
3924983--3925057	30	2.5	28	80	16	80	30	12	22	34	1.91
3925135--3925230	23	4.3	23	80	6	99	16	23	25	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3925135--3925225	44	2.0	46	85	4	123	16	24	25	34	1.95
3925147--3925241	23	4.3	22	79	11	77	16	22	26	34	1.95
3925136--3925265	67	1.9	67	80	6	147	16	21	25	36	1.94
3935767--3935812	18	2.6	18	80	19	60	60	2	13	23	1.43
3935767--3935818	18	2.9	16	78	18	50	59	3	13	23	1.50
3939956--3940010	26	2.1	26	93	6	94	38	29	1	30	1.68
3941438--3941500	32	2.0	31	93	6	110	22	14	23	39	1.91
3948866--3948903	3	12.7	3	100	0	76	65	0	0	34	0.93
3949026--3949066	13	2.8	15	82	17	59	60	0	0	39	0.96
3949034--3949079	13	3.5	13	82	8	58	58	0	0	41	0.98
3951672--3951734	24	2.7	23	82	7	81	15	14	12	57	1.66
3952060--3952107	23	2.2	20	78	10	51	16	8	12	62	1.53
3952121--3952168	24	2.0	25	87	4	71	12	14	16	56	1.68
3953406--3953520	57	2.0	57	94	0	203	35	19	10	34	1.86
3956385--3956562	21	8.5	21	80	7	193	30	23	21	24	1.99
3956385--3956583	42	4.8	41	76	9	163	29	23	22	24	1.99
3956385--3956577	63	3.1	63	82	4	221	30	23	21	24	1.99
3956488--3956818	21	15.9	21	75	16	158	25	21	22	30	1.99
3956613--3956832	62	3.5	62	88	3	291	24	20	23	32	1.98
3956552--3956815	83	3.2	83	82	6	313	24	20	22	32	1.98
3956592--3956832	21	11.6	21	80	9	244	23	20	23	32	1.98
3958437--3958466	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)
3966570--3966595	5	5.2	5	100	0	52	0	19	57	23	1.40
3967444--3967490	18	2.7	18	83	3	60	27	27	8	36	1.86
3968063--3968099	16	2.3	16	90	0	56	51	21	2	24	1.61
3968235--3968690	55	8.3	55	85	5	559	24	19	18	36	1.94
3968234--3968690	110	4.2	110	88	1	648	24	19	18	36	1.94
3968232--3968690	165	2.8	164	91	2	695	24	19	18	36	1.94
3974274--3974299	13	2.0	13	100	0	52	38	0	23	38	1.55
3978656--3979060	55	7.3	55	89	3	584	24	17	19	38	1.93
3982141--3982170	13	2.3	13	94	0	51	23	0	30	46	1.52
3982298--3982420	52	2.4	52	84	1	158	25	0	36	37	1.62
3982298--3982421	26	4.8	25	68	7	79	25	0	36	37	1.62
3983050--3983134	24	3.5	24	70	12	66	37	3	14	44	1.62
3983145--3983181	18	2.1	18	94	0	65	59	13	0	27	1.35
3983833--3983865	12	2.8	12	95	0	57	18	27	18	36	1.94
3985453--3985523	35	2.0	36	86	10	103	52	2	0	45	1.15
3985493--3985555	22	2.8	23	82	2	83	55	3	1	39	1.25
3987229--3987334	42	2.5	42	84	0	131	48	28	5	17	1.70
3990449--3990497	22	2.2	23	92	3	82	63	20	6	10	1.47
3990449--3990493	13	3.8	13	77	22	62	62	22	6	8	1.48
3990912--3990944	15	2.2	15	100	0	66	60	18	6	15	1.54
3995378--3995410	15	2.2	15	94	0	57	60	15	6	18	1.54
3995548--3995620	14	5.5	14	76	18	75	63	16	8	12	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3998100--3998243	45	3.2	45	89	2	209	34	21	4	38	1.75
3998534--3998651	58	2.1	57	93	1	200	38	21	9	30	1.85
3998789--3998837	24	2.0	24	96	0	89	42	10	12	34	1.76
4002919--4002977	29	2.0	30	86	3	84	32	13	8	45	1.74
4004905--4004950	23	2.0	23	87	12	67	2	17	2	78	0.96
4004906--4005019	14	8.4	13	74	18	67	4	14	2	78	1.00
4004916--4005011	28	3.6	26	73	18	81	3	13	3	80	0.96
4004930--4005011	25	3.4	24	81	6	78	3	13	2	80	0.95
4004907--4005011	54	2.0	52	83	10	133	3	14	2	79	1.00
4004913--4005011	17	5.8	16	75	21	62	3	14	3	79	0.96
4004902--4005011	12	10.1	10	75	16	78	3	14	2	79	0.99
4007717--4007815	45	2.2	45	90	0	153	34	21	5	39	1.75
4008106--4008231	58	2.2	58	88	1	182	37	19	11	32	1.87
4010420--4010471	19	2.5	20	87	12	79	46	5	0	48	1.26
4012832--4012875	7	6.3	7	100	0	88	27	0	29	43	1.55
4014164--4014239	32	2.4	31	84	2	98	47	11	9	31	1.72
4021321--4021398	28	2.8	28	92	0	138	30	5	24	39	1.77
4032798--4032869	16	4.4	16	80	3	81	22	22	15	40	1.91
4036176--4036446	120	2.3	120	90	2	420	50	18	11	20	1.76
4036665--4036714	24	2.1	23	81	7	55	14	6	34	46	1.69
4036693--4036738	19	2.4	19	92	0	74	13	2	32	52	1.52
4036726--4036888	12	13.7	12	73	8	84	13	3	37	46	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4036741--4036863	6	20.8	6	81	6	99	14	1	39	43	1.55
4036742--4036863	18	6.9	18	77	12	110	13	1	40	44	1.54
4037569--4037631	14	4.5	13	78	20	65	44	1	0	53	1.10
4037590--4037734	31	4.7	30	77	18	113	48	2	3	44	1.33
4037629--4037675	24	1.9	25	82	4	60	53	6	2	38	1.39
4037685--4037746	14	4.4	14	74	11	54	43	1	8	46	1.42
4037687--4037777	43	2.2	40	88	7	128	46	3	6	43	1.46
4037707--4037799	29	3.0	29	70	19	78	48	3	5	43	1.42
4037789--4037828	20	2.0	20	95	0	71	52	10	5	32	1.56
4037693--4037840	65	2.3	64	78	10	156	47	4	6	41	1.49

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