genome.fa.s9605.2.7.7.80.10.50.1000.30.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   

This is table  30  of  35  ( 4090 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)
7516507--7516612	50	2.3	46	82	14	121	32	2	13	51	1.55
7520469--7520618	66	2.2	69	82	3	189	42	12	9	36	1.74
7520348--7521095	170	4.6	167	78	11	712	40	14	7	37	1.74
7520758--7520888	70	1.9	70	88	3	201	35	16	8	39	1.79
7520838--7520897	26	2.3	27	88	2	86	41	16	8	33	1.78
7522050--7522099	8	6.5	8	72	9	50	44	2	0	54	1.11
7522185--7522216	16	2.0	16	93	0	55	53	0	0	46	1.00
7524290--7524441	76	1.9	79	83	7	195	40	9	4	45	1.57
7526915--7526990	36	2.1	36	85	7	100	47	1	3	47	1.29
7527136--7527173	20	1.9	20	88	0	58	21	26	10	42	1.85
7538060--7538098	16	2.4	16	95	0	69	33	38	5	23	1.77
7540894--7540932	16	2.4	16	95	0	69	33	38	5	23	1.77
7543728--7543766	16	2.4	16	95	0	69	33	38	5	23	1.77
7572241--7572328	45	1.9	46	93	2	151	27	25	19	28	1.99
7582477--7583123	233	2.8	233	86	2	910	35	15	15	32	1.90
7582961--7583401	151	2.9	149	86	5	627	37	15	14	32	1.87
7582961--7583435	150	3.1	147	82	8	578	37	15	14	32	1.87
7583603--7583637	3	11.7	3	88	11	54	31	0	0	68	0.90
7584442--7584472	13	2.4	13	94	0	53	41	16	9	32	1.80
7584464--7584493	13	2.3	13	94	0	51	23	23	16	36	1.94
7584465--7584625	85	1.9	85	89	2	252	29	20	19	31	1.97
7584665--7584689	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7602724--7602765	22	1.9	22	90	0	66	50	11	2	35	1.52
7609017--7609053	2	18.5	2	100	0	74	0	0	48	51	1.00
7612743--7612803	26	2.3	26	88	0	86	29	14	4	50	1.64
7619521--7619602	3	27.3	3	94	0	146	31	2	0	65	1.05
7623644--7623713	27	2.6	26	76	17	63	25	20	7	47	1.75
7631958--7631995	17	2.3	17	86	13	53	78	10	2	7	1.04
7636591--7636623	12	2.7	13	90	9	52	33	0	21	45	1.52
7637943--7637973	15	2.1	15	93	0	53	54	0	0	45	0.99
7639029--7639085	28	2.0	30	83	13	75	26	5	12	56	1.57
7646790--7646814	12	2.1	12	100	0	50	40	8	44	8	1.63
7655687--7655722	13	2.8	13	86	0	54	38	5	36	19	1.75
7660990--7661153	90	1.8	90	93	0	283	35	10	7	46	1.66
7662004--7662070	20	3.2	22	64	23	63	34	8	8	47	1.66
7661990--7662070	40	2.0	40	100	0	162	37	9	7	45	1.66
7668024--7668201	90	2.0	90	92	0	293	37	11	6	44	1.65
7671118--7671160	2	21.5	2	100	0	86	51	0	0	48	1.00
7681794--7681892	46	2.2	46	83	1	119	47	5	19	28	1.70
7685780--7685820	19	2.2	19	86	0	55	36	14	19	29	1.92
7686140--7686651	54	9.5	54	85	0	684	29	17	18	34	1.94
7687126--7687287	45	3.6	44	75	5	130	43	10	20	24	1.83
7688312--7688679	55	6.7	55	91	1	569	35	17	11	36	1.85
7703227--7703272	21	2.2	21	92	0	74	47	28	8	15	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7704398--7704573	91	1.9	91	91	1	291	38	8	6	46	1.60
7710481--7710910	55	7.8	55	86	3	553	35	17	11	35	1.86
7710488--7710910	219	1.9	220	89	1	661	35	17	11	35	1.86
7711422--7711469	20	2.5	19	86	6	62	27	31	12	29	1.93
7713860--7714184	49	6.6	49	83	1	391	33	20	12	33	1.91
7718791--7718885	49	1.9	49	91	4	156	26	15	17	40	1.90
7718810--7719217	48	8.4	48	80	5	340	31	20	13	34	1.91
7718875--7719217	48	7.0	49	82	7	369	32	20	13	32	1.91
7719878--7719927	17	2.9	17	84	0	64	38	12	8	42	1.71
7724325--7724371	20	2.4	19	82	3	58	34	8	8	48	1.64
7729416--7729459	20	2.3	19	88	4	61	34	13	6	45	1.70
7734207--7734252	19	2.4	19	96	0	83	39	21	19	19	1.93
7736761--7736798	16	2.2	19	86	13	55	36	2	0	60	1.11
7737266--7737296	15	2.1	15	100	0	62	25	41	12	19	1.87
7738389--7738422	17	1.9	17	88	5	50	70	5	14	8	1.31
7738458--7738490	6	5.5	6	86	13	50	87	0	12	0	0.53
7738458--7738493	18	2.0	18	94	0	63	86	0	13	0	0.58
7741328--7741370	2	22.0	2	90	4	70	48	2	0	48	1.14
7742691--7742734	16	2.7	15	86	10	52	15	18	0	65	1.27
7743920--7743958	19	2.1	19	85	9	53	2	12	7	76	1.09
7744003--7744036	12	2.7	13	81	9	52	5	0	11	82	0.83
7749464--7749510	21	2.3	20	79	10	51	14	2	6	76	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7750460--7750499	20	2.0	21	90	5	64	37	15	30	17	1.90
7752032--7752068	15	2.5	15	86	0	56	27	18	8	45	1.77
7755233--7755296	20	3.2	20	100	0	128	34	29	9	26	1.88
7755808--7755922	61	1.9	61	83	3	151	31	24	18	26	1.97
7760483--7760521	19	2.1	19	100	0	78	20	15	38	25	1.92
7760487--7760530	19	2.3	19	92	0	70	22	25	31	20	1.98
7766881--7766919	20	2.0	20	84	0	51	23	7	23	46	1.78
7773981--7774021	15	2.7	15	100	0	82	19	19	7	53	1.68
7780253--7780291	19	2.1	19	85	0	51	20	15	38	25	1.92
7780346--7780535	94	2.0	94	100	0	380	36	13	18	31	1.90
7797949--7797980	12	2.7	12	95	0	55	37	18	12	31	1.88
7799975--7800550	54	10.7	54	88	2	782	33	13	16	36	1.87
7806499--7806533	17	2.1	17	100	0	70	54	5	17	22	1.64
7812985--7813144	65	2.5	64	81	8	182	27	17	22	32	1.96
7813625--7814081	4	114.8	4	93	0	765	47	24	2	25	1.64
7817992--7818023	2	16.0	2	100	0	64	50	0	0	50	1.00
7824057--7824105	24	2.0	24	100	0	98	32	12	12	42	1.79
7824422--7824584	40	4.1	40	82	4	206	25	16	26	31	1.96
7824633--7824661	14	2.1	14	100	0	58	13	0	24	62	1.32
7831388--7831480	40	2.4	40	87	7	120	24	15	27	32	1.95
7837662--7837696	16	2.2	16	90	5	54	80	11	5	2	1.00
7849732--7849983	94	2.7	94	85	1	335	26	21	17	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7849895--7850008	38	3.2	38	67	24	113	25	20	21	32	1.98
7849895--7850050	67	2.3	67	91	2	242	26	19	19	33	1.96
7849962--7850635	94	7.2	94	86	3	883	27	18	18	35	1.94
7849732--7850226	252	2.0	254	85	2	672	27	20	18	33	1.96
7850677--7850852	82	2.1	82	86	0	253	42	21	17	18	1.89
7854604--7854646	19	2.1	21	87	8	63	62	0	25	11	1.29
7855911--7855957	23	2.1	22	84	4	58	31	0	0	68	0.90
7856043--7856098	22	2.5	22	100	0	112	39	12	0	48	1.41
7856937--7857003	21	3.2	21	100	0	134	32	10	14	41	1.80
7857179--7857288	52	2.1	52	94	0	193	40	10	12	36	1.79
7869432--7869567	4	34.0	4	93	0	236	27	0	22	50	1.49
7869860--7869909	25	2.0	25	100	0	100	12	20	20	48	1.80
7872027--7872086	8	8.1	7	77	17	59	1	28	0	70	0.97
7872029--7872086	23	2.6	22	76	13	64	1	29	0	68	0.99
7877464--7877535	22	3.3	23	77	14	80	23	18	20	37	1.94
7877521--7877591	22	3.2	22	84	11	92	23	11	21	43	1.84
7880448--7880492	13	3.5	13	84	0	63	28	22	15	33	1.95
7880414--7880485	26	2.7	26	78	4	72	33	18	15	33	1.92
7882093--7882197	3	34.3	3	84	7	140	32	0	3	62	1.19
7887712--7887759	17	2.7	18	81	9	55	43	8	8	39	1.65
7887979--7888025	24	1.9	25	83	12	62	34	6	19	40	1.77
7894887--7894938	18	2.9	18	76	0	59	15	7	42	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7897035--7897066	10	3.2	10	100	0	64	31	9	21	37	1.85
7899036--7899114	31	2.5	31	89	0	122	53	3	13	29	1.58
7902489--7902565	22	3.5	22	90	0	118	33	31	19	15	1.93
7909253--7909324	22	3.5	21	73	21	71	26	30	25	18	1.98
7909242--7909319	40	2.0	40	86	0	111	26	30	21	20	1.98
7909834--7909993	64	2.5	64	84	5	198	26	20	18	34	1.96
7913808--7913847	14	2.9	14	88	7	55	40	25	7	27	1.82
7920084--7920136	17	3.1	16	83	5	61	45	5	11	37	1.64
7923680--7923800	23	5.3	23	97	0	224	21	17	20	40	1.91
7932545--7932585	20	2.0	20	95	0	73	53	0	12	34	1.38

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