genome.fa.s9611.2.7.7.80.10.50.1000.19.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   

This is table  19  of  27  ( 3214 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)
4931345--4931416	20	3.6	20	70	7	56	34	23	15	26	1.94
4931404--4931458	21	2.6	21	88	0	83	45	23	12	18	1.83
4932079--4932136	20	2.9	20	82	5	55	20	13	24	41	1.89
4933711--4933766	21	2.7	21	80	5	60	19	14	35	30	1.91
4933845--4933894	18	2.8	18	96	0	91	34	20	4	42	1.70
4934052--4934120	20	3.5	20	87	0	93	34	23	21	20	1.96
4934125--4934171	20	2.4	20	89	3	69	53	17	14	14	1.74
4934190--4934254	19	3.4	19	89	0	94	10	16	21	50	1.75
4934260--4934323	20	3.2	20	76	8	67	17	15	26	40	1.89
4934841--4934900	18	3.2	18	92	7	93	21	33	20	25	1.97
4934840--4934974	21	6.6	21	76	5	123	21	34	18	25	1.96
4936499--4936576	20	3.9	20	76	6	86	44	24	17	12	1.84
4936615--4936745	20	6.8	20	75	10	112	22	20	21	35	1.96
4936565--4936746	74	2.5	73	75	4	177	23	19	20	36	1.95
4936719--4936987	140	1.9	140	96	0	493	42	15	13	28	1.85
4939063--4939099	14	2.6	14	91	4	56	5	21	21	51	1.68
4939289--4939348	24	2.5	24	91	0	93	40	18	16	25	1.91
4939305--4939356	24	2.2	24	89	0	77	38	19	17	25	1.93
4940158--4940225	20	3.4	20	95	0	118	25	16	29	29	1.96
4940308--4940353	19	2.4	19	85	3	56	26	17	26	30	1.97
4940319--4940355	19	1.9	19	94	0	65	27	16	24	32	1.96
4941087--4941129	22	2.0	22	90	0	68	53	9	0	37	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4941092--4941649	80	6.9	80	85	8	786	53	12	0	33	1.41
4941145--4941218	22	3.2	22	65	26	53	56	16	0	27	1.40
4941189--4941694	32	16.4	32	69	23	236	53	12	0	34	1.40
4941253--4941295	22	2.0	22	95	0	77	51	11	0	37	1.39
4941077--4941694	54	11.4	55	73	15	423	53	12	0	34	1.40
4941255--4941303	22	2.2	22	85	3	62	55	12	0	32	1.37
4941078--4941649	166	3.5	164	88	7	812	53	12	0	33	1.40
4941309--4941383	22	3.2	23	75	17	82	54	17	0	28	1.43
4941387--4941451	22	3.0	22	90	0	112	52	10	0	36	1.37
4941495--4941537	22	2.0	22	90	0	68	48	11	2	37	1.52
4941092--4941667	242	2.4	242	94	1	1008	53	12	0	33	1.41
4941551--4941625	22	3.2	23	75	17	82	54	17	0	28	1.43
4941629--4941729	22	4.5	22	71	7	94	51	9	0	38	1.35
4941674--4941776	15	6.5	15	78	15	109	51	2	0	45	1.16
4941620--4941776	69	2.3	67	86	5	210	51	6	0	42	1.27
4941717--4941819	30	3.4	29	77	12	109	47	2	0	49	1.16
4943980--4944037	28	2.1	28	86	0	80	39	10	10	39	1.74
4945623--4945664	20	2.1	21	82	8	52	61	4	7	26	1.42
4946333--4946421	29	3.0	29	71	14	83	57	11	12	19	1.64
4948183--4948226	3	14.0	3	86	9	61	63	2	0	34	1.07
4948185--4948234	22	2.3	22	83	16	68	62	2	2	34	1.18
4948183--4948236	28	1.9	28	85	14	76	59	1	1	37	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4948389--4948516	52	2.5	52	97	0	238	30	14	26	28	1.95
4948823--4948946	44	2.9	43	75	8	128	22	21	23	32	1.98
4960911--4960991	23	3.8	21	80	7	92	25	29	22	22	1.99
4968884--4968927	3	14.0	3	86	9	61	63	2	0	34	1.07
4968886--4968935	22	2.3	22	83	16	68	62	2	2	34	1.18
4968884--4968937	28	1.9	28	85	14	76	59	1	1	37	1.19
4969192--4969232	17	2.4	17	84	8	57	51	26	2	19	1.59
4969249--4969399	81	1.9	81	91	0	248	25	7	18	49	1.73
4970248--4970300	16	3.2	16	72	17	54	18	5	28	47	1.72
4971179--4971228	19	2.5	21	80	9	68	20	6	8	66	1.40
4973463--4973512	21	2.4	21	96	0	91	20	24	10	46	1.81
4990712--4990764	20	2.7	20	100	0	106	33	20	18	26	1.96
4991270--4991314	23	2.0	22	91	4	72	37	0	22	40	1.54
4991298--4991335	14	2.7	14	80	11	51	31	0	28	39	1.57
4991473--4991512	21	1.9	21	94	0	71	22	17	30	30	1.97
4995358--4995385	13	2.2	13	100	0	56	39	17	28	14	1.89
4996355--4996383	1	29.0	1	100	0	58	0	0	0	100	0.00
4999706--4999739	15	2.3	15	89	0	50	32	0	5	61	1.20
5001290--5001430	12	12.6	10	72	19	54	20	4	1	73	1.10
5001292--5001389	15	6.3	15	72	19	51	20	6	1	72	1.12
5001352--5001400	3	16.7	3	83	12	66	32	2	0	65	1.04
5020435--5020611	95	1.9	95	90	0	282	48	23	16	11	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5020401--5020612	48	4.5	48	85	2	261	48	22	16	12	1.80
5025274--5025463	94	2.0	95	93	1	328	37	16	9	36	1.82
5025372--5025528	68	2.3	68	95	1	280	40	16	6	36	1.74
5025260--5025569	162	1.9	163	93	0	541	38	16	8	37	1.78
5025301--5025487	94	2.0	94	84	4	245	40	16	7	35	1.77
5025483--5025648	80	2.1	80	93	2	280	37	15	7	39	1.75
5025752--5025805	26	2.0	27	86	10	76	42	16	7	33	1.76
5025321--5025822	248	2.0	242	85	4	677	39	15	7	37	1.76
5025341--5025947	248	2.5	243	79	8	562	39	15	7	36	1.76
5025563--5025989	169	2.5	169	86	2	619	40	15	7	37	1.76
5025853--5026216	94	3.9	94	89	3	572	37	17	9	35	1.82
5026406--5026436	12	2.6	12	100	0	62	45	16	16	22	1.85
5028013--5028066	24	2.2	24	96	0	99	25	33	11	29	1.91
5030479--5030534	26	2.1	27	83	3	69	35	16	5	42	1.70
5030677--5030803	66	1.9	66	82	3	157	40	13	7	38	1.72
5030692--5030834	66	2.2	66	79	5	164	41	12	6	39	1.68
5030470--5030872	159	2.5	159	85	4	511	38	14	7	39	1.75
5030743--5030956	96	2.3	95	89	2	315	38	15	7	37	1.77
5030470--5030897	160	2.6	159	81	6	489	38	14	7	39	1.75
5030909--5030966	26	2.2	27	81	12	75	37	15	13	32	1.87
5030972--5031046	29	2.6	29	95	2	132	33	6	14	45	1.71
5033996--5034030	7	5.0	7	100	0	70	14	28	28	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5035459--5035583	59	2.1	61	81	11	152	52	2	2	43	1.27
5043826--5044055	30	7.3	30	68	21	100	39	1	0	58	1.08
5043826--5043903	13	6.2	13	71	20	51	39	0	0	60	0.97
5043973--5044067	13	6.6	16	75	22	86	36	1	0	62	1.03
5043973--5044067	16	5.6	17	73	23	67	36	1	0	62	1.03
5043940--5044063	13	9.5	13	69	15	69	36	1	0	62	1.05
5044132--5044223	3	30.7	3	70	23	52	36	1	1	60	1.11
5044132--5044220	16	5.9	16	69	27	61	37	1	1	60	1.11
5043784--5044235	159	2.9	160	90	4	690	39	2	0	57	1.14
5046244--5046278	2	18.0	2	94	5	63	51	0	0	48	1.00
5046642--5046702	31	2.0	31	90	0	95	9	9	32	47	1.70
5047241--5047303	17	3.6	17	84	2	72	33	28	6	31	1.82
5047589--5047995	203	2.0	202	98	0	787	44	6	6	42	1.55
5048109--5048146	20	1.9	20	88	0	58	21	26	10	42	1.85
5048559--5048584	2	13.0	2	100	0	52	50	0	0	50	1.00
5049200--5049274	37	2.0	37	87	5	107	48	0	2	49	1.15
5049435--5049506	20	3.6	20	80	10	76	31	19	1	47	1.58
5049492--5049522	15	2.1	15	100	0	62	32	0	6	61	1.21
5050971--5051003	15	2.1	16	94	5	59	0	3	48	48	1.17
5055134--5055241	47	2.2	49	82	14	127	28	22	23	25	1.99
5055265--5055392	51	2.5	50	82	3	141	20	28	32	17	1.96
5058574--5058795	47	4.9	47	90	3	298	24	3	5	66	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5058644--5058768	24	5.3	23	68	15	76	26	4	4	64	1.31
5058662--5058791	24	5.5	24	69	16	92	22	4	5	67	1.30
5058574--5058856	91	3.1	94	82	9	227	23	2	7	65	1.32
5084699--5084736	16	2.3	17	86	4	51	15	44	5	34	1.69
5088489--5088530	21	2.0	22	90	4	68	38	9	0	52	1.34
5091271--5091312	21	2.0	21	85	0	57	47	16	26	9	1.77
5097348--5097381	18	1.9	17	94	5	59	29	0	2	67	1.05
5099181--5099232	18	2.9	18	88	0	86	32	25	17	25	1.97
5100338--5100445	51	2.1	51	81	6	121	25	27	30	16	1.97
5100353--5100458	51	2.1	51	80	3	115	23	28	30	17	1.97

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