genome.fa.s9592.2.7.7.80.10.50.1000.18.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  18  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)
3654701--3654769	23	3.0	23	78	0	75	34	23	23	18	1.96
3681535--3681583	20	2.3	21	82	10	64	28	4	0	67	1.09
3681652--3681681	15	1.9	16	93	6	53	13	6	3	76	1.11
3681649--3681717	35	1.9	36	88	8	106	13	11	2	72	1.23
3682932--3682969	16	2.3	16	83	16	51	7	13	2	76	1.11
3684868--3684942	15	5.0	14	80	11	62	73	9	12	5	1.24
3684878--3684942	14	4.5	13	78	17	58	75	7	12	4	1.17
3685974--3686061	32	2.8	31	84	8	106	27	17	21	34	1.95
3687088--3687147	30	2.0	30	93	6	104	33	6	16	43	1.74
3687243--3687314	36	2.0	36	91	0	117	22	34	27	15	1.94
3687264--3687293	15	2.0	15	100	0	60	26	33	26	13	1.93
3687237--3687315	21	4.0	21	76	18	89	21	36	27	13	1.92
3687349--3687392	21	2.1	21	100	0	88	13	45	27	13	1.81
3687428--3687470	21	2.0	21	95	0	77	23	20	27	27	1.99
3687498--3687537	20	1.9	22	90	10	66	37	40	10	12	1.77
3688681--3688728	19	2.5	20	82	3	62	52	6	12	29	1.63
3689991--3690049	30	2.0	31	93	6	104	33	5	16	44	1.70
3690139--3690216	20	4.1	20	73	18	85	21	35	28	14	1.92
3690165--3690194	15	2.0	15	100	0	60	26	33	26	13	1.93
3690250--3690293	21	2.1	21	100	0	88	13	45	27	13	1.81
3690329--3690371	21	2.0	21	95	0	77	23	20	27	27	1.99
3690399--3690438	20	1.9	22	90	10	66	37	40	10	12	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3691951--3691993	18	2.4	18	92	0	68	20	6	0	72	1.08
3692062--3692091	15	1.9	16	93	6	53	13	6	3	76	1.11
3692060--3692128	36	1.9	36	88	5	104	13	10	4	72	1.25
3693164--3693222	3	19.7	3	80	13	68	61	1	1	35	1.16
3697419--3697449	2	15.5	2	100	0	62	51	0	0	48	1.00
3708533--3708577	22	2.0	22	83	8	56	42	11	0	46	1.39
3718945--3719007	32	2.0	32	83	0	81	31	9	25	33	1.88
3720463--3720521	2	30.0	2	96	3	111	50	0	0	49	1.00
3720509--3720970	36	12.5	35	80	11	396	46	2	5	45	1.40
3720509--3720970	73	6.2	72	82	9	463	46	2	5	45	1.40
3720964--3721019	13	4.2	13	70	17	51	28	0	5	66	1.14
3728554--3729587	165	6.3	162	83	6	972	30	24	20	25	1.98
3728554--3729573	249	4.1	248	80	6	1075	30	24	19	25	1.98
3728611--3729594	330	3.0	328	84	4	1167	30	24	20	25	1.99
3730181--3730600	37	11.6	36	80	11	416	45	2	5	45	1.41
3730594--3730649	13	4.5	13	73	13	55	28	0	5	66	1.14
3731905--3731975	5	13.6	5	74	14	63	22	5	0	71	1.06
3731905--3731986	21	3.9	22	76	16	59	24	4	0	70	1.06
3732050--3732111	29	2.1	29	85	5	81	22	9	1	66	1.30
3732044--3732134	33	2.9	31	75	14	80	20	10	1	67	1.28
3736408--3736466	31	1.9	31	86	6	84	47	1	6	44	1.39
3741129--3741164	16	2.2	16	90	0	54	52	27	0	19	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3741547--3741611	31	2.3	29	78	17	75	53	0	0	46	1.00
3741563--3741610	15	3.0	17	79	14	66	52	0	0	47	1.00
3746376--3746406	2	15.5	2	100	0	62	51	0	0	48	1.00
3758853--3759032	90	2.0	90	98	0	351	36	8	13	41	1.76
3761520--3761557	14	2.4	16	87	12	53	60	15	2	21	1.47
3763599--3763639	21	2.0	21	95	0	73	46	0	12	41	1.41
3779714--3779774	20	2.9	20	85	7	59	24	32	26	16	1.96
3779735--3779797	23	2.8	22	80	4	63	25	38	22	14	1.92
3782032--3782123	27	3.4	27	98	0	175	33	0	31	34	1.58
3782507--3782544	20	1.9	19	94	5	67	21	42	23	13	1.88
3790259--3790336	13	6.1	13	72	3	59	80	6	12	0	0.88
3790240--3790336	25	4.0	23	71	17	72	80	6	11	2	0.97
3790239--3790337	19	5.4	19	67	18	57	78	6	13	2	1.01
3790240--3790336	10	10.2	9	71	15	54	80	6	11	2	0.97
3790242--3790333	38	2.4	38	77	12	98	79	6	11	2	1.01
3791591--3791992	54	7.5	54	90	2	605	34	22	24	19	1.97
3792586--3792842	127	2.0	130	97	2	493	26	35	20	17	1.95
3793455--3793489	17	2.1	17	89	5	54	45	2	22	28	1.67
3793984--3794101	58	2.0	59	95	1	211	34	9	10	45	1.70
3794975--3795022	19	2.5	19	93	6	80	39	0	0	60	0.97
3796164--3796188	2	12.5	2	100	0	50	52	0	0	48	1.00
3796657--3796708	27	1.9	27	88	7	79	40	34	5	19	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3796759--3796792	14	2.5	13	86	13	50	0	20	0	79	0.73
3798170--3798254	21	4.3	20	72	15	70	42	18	20	18	1.90
3798478--3798521	22	2.0	22	95	0	79	20	45	15	18	1.85
3800103--3800147	18	2.5	18	85	0	63	26	42	15	15	1.87
3800612--3800678	20	3.4	20	81	2	73	38	23	22	14	1.92
3800667--3800724	14	3.9	14	79	16	71	48	25	17	8	1.75
3800651--3800740	32	2.8	32	96	1	162	46	23	18	11	1.81
3800756--3800824	33	2.2	33	92	5	115	11	18	24	44	1.83
3800756--3800808	14	3.6	14	75	20	54	9	16	26	47	1.77
3800765--3800880	18	6.4	19	74	11	84	14	19	24	41	1.89
3802683--3802718	14	2.6	14	90	0	54	30	0	22	47	1.52
3802835--3802883	19	2.6	19	100	0	98	48	16	20	14	1.80
3802920--3802976	20	2.8	20	94	0	96	21	22	17	38	1.93
3803919--3803954	14	2.6	14	90	0	54	30	0	22	47	1.52
3805078--3805113	14	2.6	14	90	0	54	30	0	22	47	1.52
3805645--3805680	14	2.6	14	90	0	54	30	0	22	47	1.52
3802940--3807196	578	7.4	587	95	4	7678	31	12	19	36	1.89
3808012--3808070	24	2.5	24	82	0	73	28	16	18	35	1.93
3810496--3810581	33	2.6	33	98	0	163	44	18	25	11	1.84
3810490--3810585	19	5.7	18	69	22	75	43	19	25	11	1.84
3810585--3810656	19	4.1	18	73	20	71	13	20	19	45	1.84
3812155--3812242	41	2.1	42	82	2	106	22	17	38	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3814239--3814335	33	2.9	33	89	1	140	39	21	25	13	1.90
3814307--3814374	18	3.7	19	90	7	113	44	22	22	11	1.85
3814370--3814436	19	3.5	19	83	2	80	10	16	23	49	1.77
3814984--3815063	21	3.9	21	75	6	65	18	18	20	42	1.89
3814947--3815040	20	4.7	20	80	2	89	23	18	24	34	1.96
3814968--3815102	41	3.3	41	81	4	130	20	20	20	38	1.94
3815029--3815121	21	4.6	20	79	4	105	18	23	18	39	1.92
3815029--3815124	41	2.3	41	96	0	174	18	22	17	40	1.91
3815665--3815703	14	2.8	14	84	0	51	35	28	12	23	1.91
3816474--3816509	2	18.0	2	100	0	72	50	0	0	50	1.00
3823470--3823634	31	5.6	30	78	9	117	42	4	10	41	1.61
3827793--3827851	20	2.8	20	78	17	66	54	5	8	32	1.53
3828023--3828065	20	2.1	20	83	12	52	55	2	2	39	1.25
3832008--3832036	15	2.0	15	93	6	51	55	0	6	37	1.27
3832248--3832282	6	5.5	6	87	12	52	65	0	0	34	0.93
3832247--3832282	14	2.8	13	91	8	56	63	0	0	36	0.94
3832835--3832947	60	1.9	59	85	5	156	38	11	13	37	1.81
3834563--3834605	14	3.1	14	86	0	50	23	0	25	51	1.49
3842403--3842444	15	2.8	15	100	0	84	19	7	26	47	1.74
3845159--3845191	3	10.7	3	93	6	57	33	0	3	63	1.10
3848685--3848720	2	18.0	2	100	0	72	50	0	0	50	1.00
3852328--3852931	305	2.0	306	98	0	1183	41	13	14	31	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3864333--3864466	60	2.2	60	81	5	146	36	14	13	35	1.85
3869339--3869363	12	2.1	12	100	0	50	60	0	16	24	1.36
3872341--3872378	5	7.6	5	96	0	67	0	15	18	65	1.27
3872376--3872529	5	31.0	5	67	25	62	16	6	3	74	1.16
3872398--3872540	19	8.3	16	67	19	67	16	7	2	73	1.18
3872376--3872497	64	1.9	65	85	8	169	17	4	4	73	1.16
3872371--3872497	9	13.9	9	71	20	77	16	4	4	74	1.17
3873885--3873917	13	2.5	13	100	0	66	27	24	18	30	1.98
3877397--3877435	11	3.6	11	79	6	53	48	10	15	25	1.76
3877394--3877447	21	2.6	21	100	0	108	48	9	12	29	1.73

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