genome.fa.s2647.2.7.7.80.10.50.1000.19.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: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7027529

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   

This is table  19  of  26  ( 3011 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)
4908136--4908440	62	4.9	62	78	6	260	36	14	20	29	1.92
4908136--4908445	124	2.5	123	87	3	417	36	13	20	30	1.91
4915445--4915599	80	1.9	80	93	0	265	49	10	11	27	1.73
4918324--4918803	238	2.0	239	99	0	953	29	16	16	37	1.91
4920778--4920844	2	33.5	2	100	0	134	50	0	0	49	1.00
4922400--4922754	36	9.9	36	79	2	275	40	16	12	29	1.86
4922400--4922754	108	3.3	108	79	3	365	40	16	12	29	1.86
4923933--4923979	20	2.3	20	96	0	85	53	4	17	25	1.62
4927754--4927792	21	1.9	20	84	5	51	35	20	15	28	1.93
4942915--4942976	21	3.0	20	76	17	63	29	19	29	22	1.98
4943484--4943703	45	4.9	45	83	3	253	40	9	18	31	1.83
4943488--4943702	91	2.4	90	81	2	243	40	9	18	32	1.83
4951398--4951467	20	3.5	20	78	1	70	40	7	18	34	1.78
4952764--4952811	19	2.5	20	86	3	62	47	6	14	31	1.69
4960022--4960057	18	2.0	18	100	0	72	38	16	27	16	1.90
4964825--4964912	17	5.1	18	70	21	55	38	0	2	59	1.10
4964831--4964919	34	2.7	33	77	10	85	39	0	2	58	1.11
4966640--4966687	21	2.3	21	85	0	60	25	39	12	22	1.89
4966691--4966784	21	4.5	21	92	5	145	18	34	27	20	1.95
4967305--4967399	33	2.9	34	84	4	122	54	4	3	37	1.36
4967799--4968403	254	2.4	255	95	1	1081	31	19	25	23	1.98
4967799--4968403	128	4.8	128	95	1	1065	31	19	25	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4971098--4971157	31	1.9	31	89	0	93	28	11	10	50	1.71
4972441--4972596	85	1.8	85	90	2	251	29	1	12	56	1.45
4973269--4973347	10	8.3	10	71	21	55	24	5	1	69	1.16
4973275--4973305	15	2.0	16	93	6	55	29	0	0	70	0.87
4980724--4980860	73	1.9	73	87	3	204	29	1	14	54	1.49
4981158--4981243	42	2.0	42	100	0	172	31	18	15	34	1.92
4981523--4981566	19	2.4	18	88	3	61	22	6	0	70	1.11
4988656--4988730	20	3.8	20	78	5	71	38	9	16	36	1.80
4990009--4990084	18	4.2	18	86	0	98	23	27	10	38	1.88
4990910--4990952	18	2.4	18	92	0	68	25	34	20	18	1.96
4991380--4991442	31	2.0	31	84	0	81	33	26	30	9	1.88
4992415--4992542	29	4.4	29	90	1	195	50	20	0	28	1.54
4999221--4999293	23	3.3	22	76	7	76	32	17	21	27	1.96
5003086--5003125	21	1.9	21	90	10	64	30	5	7	57	1.48
5005057--5005212	65	2.4	64	90	3	242	30	17	21	30	1.96
5009202--5009333	29	4.6	29	85	2	178	46	21	0	31	1.56
5012520--5012625	46	2.3	46	86	3	142	32	16	19	31	1.95
5016616--5016742	29	4.4	29	88	1	193	51	18	0	30	1.46
5017256--5017455	103	1.9	103	95	0	364	26	12	33	28	1.92
5020788--5020943	65	2.4	64	89	3	224	30	17	23	28	1.97
5023530--5023584	23	2.4	23	96	0	101	30	18	25	25	1.98
5023530--5023629	23	4.4	23	76	9	82	30	19	22	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5026289--5026338	19	2.6	19	96	0	91	36	18	24	22	1.95
5027404--5027443	21	1.9	21	94	0	71	30	5	10	55	1.54
5029282--5029337	21	2.7	21	97	0	103	26	19	30	23	1.98
5029397--5029552	65	2.4	64	93	3	260	29	18	23	28	1.98
5033306--5033439	29	4.6	29	80	10	166	49	16	0	33	1.51
5034294--5034352	3	20.3	3	89	6	95	35	1	0	62	1.05
5036478--5036545	28	2.5	27	83	9	77	33	4	1	60	1.26
5038888--5038960	22	3.4	22	73	16	62	19	15	9	56	1.66
5045547--5045623	22	3.5	22	92	0	136	32	11	15	40	1.84
5046137--5046629	166	3.0	166	93	1	828	35	13	11	39	1.81
5046632--5047207	76	7.6	76	91	0	922	23	19	22	34	1.96
5047141--5047243	45	2.3	45	91	0	170	24	21	18	35	1.95
5047363--5047409	3	16.3	3	86	8	71	36	2	0	61	1.08
5048815--5049058	129	1.9	129	83	7	316	38	9	9	42	1.70
5051532--5052138	215	2.8	214	87	1	851	37	12	12	37	1.82
5052328--5052488	77	2.1	77	88	3	238	41	9	14	33	1.80
5052532--5053304	200	3.9	200	83	4	968	39	12	13	34	1.83
5052532--5053304	401	1.9	401	86	3	1108	39	12	13	34	1.83
5071051--5071102	23	2.3	23	100	0	104	25	11	23	40	1.88
5074758--5074813	27	2.1	27	96	0	103	42	21	1	33	1.63
5074953--5075241	145	2.0	146	96	2	535	30	16	14	37	1.89
5076960--5077013	27	2.0	27	92	0	90	38	3	31	25	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5077816--5077881	23	3.0	23	84	4	82	31	28	13	25	1.94
5078113--5078156	21	2.1	21	95	0	79	31	0	15	52	1.44
5078133--5078223	28	3.2	28	95	3	155	30	0	13	56	1.38
5078715--5078754	17	2.4	17	95	0	71	45	0	10	45	1.37
5081892--5082241	35	10.0	35	67	18	142	40	0	11	47	1.41
5081902--5082278	14	30.8	13	67	25	82	41	0	11	46	1.42
5081938--5082278	13	27.8	11	67	25	81	42	0	11	46	1.42
5081903--5082150	59	4.1	59	90	2	370	41	0	12	46	1.41
5081976--5082170	21	9.3	21	66	20	88	41	0	11	47	1.39
5082172--5082256	21	4.2	21	69	19	72	41	0	11	47	1.40
5082011--5082250	102	2.3	106	88	7	354	41	0	10	47	1.42
5082232--5082329	52	1.9	51	82	2	124	43	4	8	43	1.53
5085027--5085129	40	2.6	40	79	11	113	48	10	1	38	1.49
5085141--5085180	21	1.9	21	94	0	71	57	12	0	30	1.36
5085453--5085527	24	3.2	24	88	1	107	36	13	29	21	1.91
5088376--5088455	2	40.0	2	100	0	160	50	0	0	50	1.00
5109073--5109127	25	2.1	27	90	6	87	61	12	14	10	1.56
5109113--5109167	5	11.0	5	92	7	94	78	0	21	0	0.76
5111534--5111576	21	2.1	20	86	4	59	11	25	0	62	1.29
5111767--5111823	6	9.0	6	80	16	53	84	1	14	0	0.71
5111775--5111821	19	2.3	19	85	14	58	87	0	12	0	0.55
5111950--5112006	21	2.6	22	79	17	66	82	3	14	0	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5111715--5112081	183	2.0	182	97	1	698	57	12	16	13	1.65
5138004--5138075	17	4.2	17	87	3	99	44	6	11	37	1.67
5138014--5138096	17	4.6	19	84	13	79	45	9	10	33	1.72
5138357--5138414	25	2.3	25	87	0	89	18	24	20	36	1.95
5141727--5141779	17	3.1	17	88	0	79	41	5	15	37	1.70
5141730--5141797	17	3.9	18	84	5	61	41	8	11	38	1.73
5146521--5146571	20	2.6	20	84	3	68	35	13	7	43	1.73
5150493--5150542	19	2.6	19	93	0	82	34	16	6	44	1.72
5155294--5155357	19	3.3	20	82	10	64	3	20	3	73	1.11
5157207--5157248	19	2.2	19	91	8	68	26	14	0	59	1.35
5161704--5161746	23	1.9	21	81	13	50	34	13	18	32	1.90
5167704--5167757	23	2.3	24	87	3	83	62	11	16	9	1.52
5167704--5167763	24	2.6	23	81	7	77	63	10	18	8	1.50
5183737--5183816	35	2.3	33	83	10	90	31	37	2	28	1.71
5184431--5184482	16	3.3	15	77	17	52	15	17	0	67	1.24
5187543--5187622	35	2.3	33	83	10	90	31	37	2	28	1.71
5188048--5188089	19	2.2	19	91	8	68	59	0	14	26	1.35
5193631--5193679	19	2.5	20	78	21	59	67	0	8	24	1.18
5204409--5204460	25	2.1	25	81	0	59	9	11	17	61	1.55
5206485--5206732	123	2.0	123	97	0	469	28	21	18	31	1.97
5207289--5207339	24	2.1	24	92	0	84	31	15	11	41	1.83
5209108--5209151	14	3.2	13	87	12	61	0	15	2	81	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5216439--5216491	19	2.7	19	88	2	70	45	5	15	33	1.69
5218584--5218616	10	3.5	10	88	12	52	6	21	0	72	1.05
5218609--5218634	6	4.3	6	100	0	52	0	15	0	84	0.62
5218631--5218681	24	2.1	25	81	3	59	15	11	9	62	1.53
5225094--5225136	23	1.9	21	81	13	50	32	18	13	34	1.90
5227891--5227996	43	2.3	47	84	11	130	33	1	14	50	1.53
5228189--5228297	50	2.2	49	77	8	112	24	17	19	38	1.93
5228777--5228809	10	3.5	10	84	16	52	78	9	12	0	0.95
5228771--5228826	17	3.2	18	82	12	73	80	10	7	1	0.97
5228771--5228826	8	6.5	8	75	20	51	80	10	7	1	0.97

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