genome.fa.s9579.2.7.7.80.10.50.1000.28.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   

This is table  28  of  29  ( 3390 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)
5937135--5937173	10	3.9	10	82	0	51	17	10	10	61	1.55
5954442--5954474	15	2.1	16	88	5	50	21	3	6	69	1.24
5956251--5956347	44	2.1	48	88	7	148	27	11	20	40	1.87
5965998--5966156	8	19.5	8	67	19	71	78	0	13	7	0.99
5965995--5966168	12	15.4	10	68	22	55	78	0	13	7	0.99
5966044--5966166	34	3.5	34	77	15	117	79	0	14	5	0.90
5966059--5966145	27	3.2	25	77	19	86	80	0	14	4	0.87
5966058--5966166	28	3.9	27	73	19	89	79	0	14	5	0.90
5966008--5966091	43	2.0	43	81	9	100	77	1	13	8	1.05
5966053--5966166	54	2.1	55	84	12	146	80	0	14	5	0.87
5966064--5966169	13	7.5	14	78	18	89	78	0	16	5	0.93
5967293--5967704	51	8.0	51	94	1	671	28	15	27	27	1.96
5967293--5967811	102	5.0	102	88	4	673	29	15	26	28	1.96
5967309--5967811	51	9.6	56	89	4	246	29	15	26	28	1.96
5967564--5967813	55	4.6	55	79	9	212	29	16	24	29	1.96
5967616--5967839	55	4.1	55	80	6	179	29	16	22	31	1.95
5969377--5969409	15	2.1	16	88	5	50	21	3	6	69	1.24
5979554--5979627	8	9.1	8	71	8	51	68	4	0	27	1.07
5979536--5979579	21	2.1	21	86	0	61	75	0	0	25	0.81
5979553--5979595	16	2.7	16	88	0	59	72	2	0	25	0.97
5979536--5979587	21	2.5	21	83	0	59	73	1	0	25	0.94
5979541--5979617	37	2.0	39	87	5	113	67	2	0	29	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5979536--5979617	21	4.0	21	72	18	57	69	2	0	28	1.01
5979595--5979628	17	1.9	18	94	5	61	64	5	0	29	1.17
5987219--5987328	40	2.8	40	95	0	202	23	19	20	36	1.95
5988397--5988470	29	2.6	29	91	2	114	40	18	24	16	1.90
5990217--5990258	18	2.3	18	80	15	50	52	0	2	45	1.13
5990488--5990529	19	2.2	19	95	0	75	42	16	16	23	1.88
5993584--5993617	17	2.0	17	94	0	59	58	2	0	38	1.13
5994980--5995079	34	2.9	34	83	7	112	46	18	5	31	1.70
5999571--5999692	38	3.3	36	83	7	147	45	16	1	36	1.57
6002760--6002820	20	3.0	20	100	0	122	36	19	14	29	1.92
6005001--6005032	15	2.0	17	88	11	50	50	6	0	43	1.27
6007029--6007055	2	13.5	2	100	0	54	51	0	0	48	1.00
6007498--6007575	21	3.7	21	98	0	147	23	20	29	26	1.99
6010249--6010402	45	3.4	47	82	10	185	30	20	18	30	1.96
6010278--6010403	47	2.7	47	90	4	186	29	20	17	32	1.96
6022886--6022931	20	2.3	20	96	0	83	36	4	17	41	1.69
6023841--6023870	2	15.0	2	100	0	60	50	0	0	50	1.00
6025440--6025501	30	2.1	31	84	6	83	14	8	17	59	1.58
6027349--6027422	37	2.0	37	86	7	105	35	5	14	44	1.69
6035153--6035192	2	20.0	2	100	0	80	50	0	0	50	1.00
6035321--6035478	21	7.8	20	70	7	77	38	24	17	19	1.92
6035445--6035599	40	3.8	40	82	4	186	37	26	18	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6035445--6035598	20	7.7	20	80	7	168	37	26	18	18	1.93
6035745--6035787	22	2.0	22	85	0	59	23	34	13	27	1.93
6035981--6036051	33	2.2	33	92	0	115	11	22	18	47	1.80
6036130--6036207	41	1.9	41	97	0	147	44	16	25	12	1.83
6036131--6036206	21	3.7	21	83	3	109	46	17	25	11	1.82
6036191--6036247	14	3.7	14	70	20	51	43	22	22	10	1.84
6036183--6036263	33	2.5	33	93	0	135	46	22	20	9	1.80
6036259--6036356	19	5.7	19	70	22	81	12	21	21	44	1.84
6036281--6036370	14	5.7	14	69	23	63	11	22	22	44	1.84
6036264--6036378	33	3.5	33	96	0	212	11	21	20	46	1.81
6038073--6038448	93	4.1	93	98	0	718	22	12	19	46	1.82
6038496--6038624	19	7.3	19	75	17	125	45	28	17	8	1.77
6038532--6038624	33	2.8	32	91	4	150	46	27	18	7	1.76
6038496--6038624	52	2.5	52	74	14	140	45	28	17	8	1.77
6038620--6038719	19	5.8	18	74	21	99	11	21	21	47	1.81
6038642--6038698	14	3.7	14	77	20	60	10	21	22	45	1.82
6038625--6038717	33	2.8	33	95	0	168	10	20	21	47	1.80
6038620--6038735	19	6.6	19	70	19	72	12	19	22	45	1.83
6040661--6040696	14	2.6	14	95	0	63	33	0	22	44	1.53
6040803--6040900	19	5.4	19	84	13	143	45	17	22	14	1.84
6040803--6040919	53	2.2	53	96	1	218	43	17	24	13	1.86
6040909--6041188	19	15.7	19	80	15	348	15	21	17	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6040909--6041188	52	5.2	52	82	11	343	15	21	17	45	1.85
6040915--6041160	91	2.8	91	95	3	432	14	22	16	46	1.83
6043633--6043679	24	2.0	24	87	8	69	38	21	14	25	1.92
6044361--6044630	20	13.5	20	86	1	281	20	17	24	37	1.94
6044617--6044699	21	4.0	21	73	6	78	25	16	24	33	1.96
6044597--6044695	42	2.4	43	77	11	100	21	18	23	37	1.94
6045123--6045189	15	4.5	15	79	3	73	38	7	17	35	1.78
6045117--6045189	30	2.5	30	90	2	121	41	6	19	32	1.78
6045533--6045603	28	2.6	28	85	14	89	54	1	0	43	1.08
6045531--6045707	29	6.5	27	71	21	106	50	1	0	47	1.12
6045649--6045691	22	2.0	22	86	9	61	55	0	0	44	0.99
6045659--6045725	23	3.0	22	85	10	75	52	0	0	47	1.00
6045615--6045762	52	2.9	52	76	10	135	49	0	2	47	1.15
6045897--6046053	42	3.7	42	90	0	242	48	17	15	19	1.81
6045897--6046057	84	1.9	83	92	1	268	49	16	15	18	1.80
6047000--6047060	30	2.0	30	84	12	81	47	8	8	36	1.63
6047235--6047288	23	2.4	22	79	14	56	57	7	0	35	1.27
6057270--6057327	29	2.0	29	96	0	107	36	13	17	32	1.89
6061162--6061188	14	1.9	14	100	0	54	33	0	0	66	0.92
6061416--6061468	21	2.5	21	77	17	56	50	3	1	43	1.30
6061419--6061466	20	2.4	19	80	12	60	50	4	2	43	1.33
6073691--6073760	4	17.5	4	87	0	77	2	48	7	41	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6073693--6073752	24	2.5	24	91	0	93	3	50	6	40	1.45
6073691--6073760	28	2.5	28	97	0	131	2	48	7	41	1.45
6073697--6073759	24	2.6	24	89	0	90	3	49	7	39	1.48
6079827--6079892	33	2.0	33	96	0	123	56	9	6	28	1.54
6080904--6080931	2	14.0	2	100	0	56	50	0	0	50	1.00
6083167--6083224	28	2.1	28	100	0	116	48	10	0	41	1.37
6088114--6088153	20	2.0	20	85	4	55	45	7	22	25	1.78
6089075--6089151	37	2.1	37	85	4	102	48	1	3	46	1.28
6091657--6091696	21	2.0	20	85	14	55	45	22	5	27	1.73
6091599--6091943	171	2.0	173	97	2	660	43	16	13	26	1.85
6092509--6092537	2	14.5	2	100	0	58	51	0	0	48	1.00
6092536--6092619	42	2.0	42	100	0	168	40	11	16	30	1.85
6092776--6092846	10	6.7	10	75	23	65	23	38	26	11	1.89
6092779--6092806	14	2.0	14	100	0	56	21	42	28	7	1.79
6092793--6092846	20	2.7	20	97	0	99	24	37	27	11	1.89
6092793--6092846	10	5.4	10	81	16	67	24	37	27	11	1.89
6092871--6092940	10	6.4	10	71	18	50	25	27	38	8	1.85
6092846--6092917	33	2.2	33	84	0	99	26	30	34	8	1.86
6092878--6092940	23	2.7	23	92	4	101	26	26	36	9	1.87
6092847--6092954	56	1.9	56	86	3	155	26	27	37	8	1.85
6092958--6093041	28	2.9	29	77	10	109	20	32	34	13	1.91
6095748--6095917	83	2.0	83	89	2	261	36	11	11	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6098052--6098076	12	2.1	12	100	0	50	52	0	16	32	1.44
6101860--6101925	29	2.2	30	83	5	80	40	7	0	51	1.30
6107923--6107999	34	2.3	34	93	4	129	50	3	7	37	1.50
6109591--6109635	22	2.0	22	87	8	65	22	2	2	73	1.05
6109586--6109636	16	3.3	15	78	10	50	25	1	1	70	1.08
6110932--6110960	14	2.1	14	100	0	58	44	6	6	41	1.58
6111761--6112230	247	1.9	246	86	8	666	28	11	18	40	1.86
6121359--6121447	36	2.5	36	92	0	142	41	8	10	39	1.70
6122569--6122593	12	2.1	12	100	0	50	60	16	0	24	1.36
6134130--6134169	19	2.2	18	86	4	53	37	2	10	50	1.50

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