genome.fa.s8522.2.7.7.80.10.50.1000.6.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: VEPZ01008522.1 Hibiscus syriacus cultivar Beakdansim tig00111390_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1416293

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 906 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)
936125--936254	13	9.6	13	68	16	61	46	6	3	43	1.46
936251--936297	24	2.0	24	87	8	69	38	8	8	44	1.65
936375--936478	54	1.9	54	86	0	145	40	6	5	47	1.54
936436--936478	20	2.2	19	83	4	50	41	6	4	46	1.51
936375--936466	27	3.4	27	93	0	148	40	6	5	47	1.52
936593--936632	13	3.1	13	88	0	53	57	5	5	32	1.42
936616--936691	27	2.9	26	78	11	75	44	5	6	43	1.52
936656--936715	29	2.0	31	81	15	72	41	5	6	46	1.52
936688--936737	22	2.3	22	96	0	91	42	4	10	44	1.56
936732--936987	2	124.0	2	64	23	70	44	5	4	45	1.47
936732--936987	7	41.3	6	67	21	70	44	5	4	45	1.47
936777--937002	27	8.0	27	73	14	100	42	6	4	46	1.51
936983--937022	15	2.7	14	88	7	53	42	5	2	50	1.37
936892--937014	27	4.7	27	86	5	146	42	5	4	47	1.46
937331--937610	139	2.0	140	98	1	544	27	23	20	29	1.98
937905--937945	18	2.3	18	91	0	64	19	48	19	12	1.80
939224--939257	18	1.9	18	88	5	52	50	0	20	29	1.49
940411--940497	24	3.7	23	84	4	102	27	14	19	37	1.91
940411--940501	47	1.9	48	82	6	114	27	15	19	37	1.92
940429--940501	24	3.1	24	90	2	112	27	16	20	35	1.94
940580--940653	35	2.1	35	89	0	112	10	27	28	33	1.90
941324--941358	18	1.9	18	88	0	52	54	8	0	37	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
941334--941436	9	10.8	9	69	22	52	52	5	2	38	1.41
941334--941578	29	8.7	28	69	19	102	46	6	5	41	1.51
941489--941540	22	2.4	22	90	6	79	42	7	7	42	1.62
941392--941578	27	6.5	30	68	21	100	45	5	5	42	1.51
941548--941602	20	2.8	20	75	10	58	40	3	3	52	1.36
941550--941674	27	4.7	27	81	3	121	38	6	6	48	1.54
941701--941733	15	2.2	15	89	10	50	42	0	12	45	1.41
942642--942714	16	4.9	15	77	15	55	50	5	2	41	1.40
942641--942744	30	3.5	30	79	10	97	48	5	5	40	1.51
943381--943412	14	2.3	14	94	0	55	62	9	6	21	1.47
944768--944901	21	6.5	21	75	4	130	41	17	23	17	1.90
944768--944901	41	3.3	41	98	0	259	41	17	23	17	1.90
944890--945004	20	5.7	20	82	6	115	31	26	18	24	1.97
944887--945024	41	3.4	41	79	6	154	34	24	17	23	1.96
945230--945356	62	1.9	64	86	12	177	33	31	14	19	1.93
945530--945567	20	1.9	20	88	0	58	13	15	21	50	1.78
945704--945758	25	2.2	24	78	15	58	20	9	18	52	1.71
946878--946922	18	2.5	18	85	0	63	26	42	15	15	1.87
947393--947438	20	2.3	20	84	0	56	36	23	21	17	1.94
947404--947459	20	2.8	20	86	2	78	39	17	23	19	1.92
947432--947524	32	2.8	33	86	3	143	47	18	18	16	1.83
947444--947479	14	2.8	13	88	12	56	52	16	13	16	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
947539--947596	14	3.9	14	79	16	71	8	17	25	48	1.75
947534--947612	32	2.4	33	95	2	142	10	18	24	46	1.80
947534--947612	14	4.8	17	71	22	62	10	18	24	46	1.80
947597--947648	20	2.6	19	85	8	68	15	25	23	36	1.93
948454--948490	14	2.6	14	100	0	74	40	24	27	8	1.83
948431--948523	47	2.0	48	89	2	143	39	25	23	10	1.87
948514--948583	19	3.7	19	84	7	97	47	22	18	11	1.81
948467--948578	33	3.2	33	79	6	98	44	25	19	10	1.83
948579--948623	19	2.4	19	84	0	63	8	15	22	53	1.69
949168--949281	20	5.7	20	81	6	113	25	17	24	32	1.97
949168--949284	61	1.9	61	85	3	164	24	17	23	34	1.96
949965--950064	42	2.4	42	81	1	121	36	22	13	29	1.91
950575--951678	182	6.1	181	87	2	1520	43	12	15	27	1.84
950575--951678	365	3.0	363	89	2	1655	43	12	15	27	1.84
952042--952090	19	2.6	19	93	6	82	40	0	18	40	1.50
952340--952378	18	2.2	18	86	9	53	51	5	5	38	1.46
954054--954092	18	2.2	18	95	0	69	53	0	41	5	1.23
955566--955614	19	2.6	19	90	3	73	30	2	10	57	1.43
955959--957250	199	6.5	199	94	0	2172	41	16	14	28	1.87
957605--957641	15	2.4	16	82	13	51	18	48	2	29	1.62
960181--960226	21	2.3	21	88	7	69	50	15	13	21	1.78
960186--963625	199	17.3	197	87	2	4861	42	14	14	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
960186--963625	398	8.6	397	92	1	5367	42	14	14	28	1.86
960186--963625	795	4.3	796	92	1	5502	42	14	14	28	1.86
966355--966807	182	2.5	182	94	1	775	43	13	16	26	1.85
967427--967474	23	2.1	23	88	0	69	37	14	8	39	1.76
971572--972187	127	4.9	127	93	0	1027	21	23	20	34	1.96
972473--972502	14	2.1	14	100	0	60	33	0	6	60	1.23
972616--972716	34	3.0	34	79	5	114	40	1	3	53	1.31
973240--973309	21	3.3	20	90	5	104	22	24	34	18	1.96
975093--975140	25	1.9	25	87	8	71	60	0	0	39	0.97
975114--975194	30	2.6	30	82	7	83	55	0	1	43	1.07
975181--975224	19	2.6	16	77	19	52	63	4	0	31	1.14
975407--975541	61	2.2	60	81	6	157	28	28	23	19	1.98
976645--976757	60	1.9	60	81	3	138	44	12	9	33	1.75
977574--977706	5	25.6	5	68	23	55	74	3	6	15	1.17
977570--977706	18	7.3	17	70	19	71	74	3	6	15	1.16
977573--977706	11	11.8	11	69	22	50	74	3	6	14	1.16
977758--977805	18	2.7	17	83	6	60	72	4	2	20	1.11
977795--977846	15	3.5	15	80	19	56	80	0	13	5	0.88
977807--977853	10	4.7	10	84	10	69	80	0	17	2	0.80
977793--977892	22	4.6	22	73	19	70	78	1	10	11	1.03
979873--979993	51	2.6	45	73	17	129	19	25	19	35	1.95
979884--979983	51	2.0	51	88	4	148	18	27	20	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
984381--984412	17	1.9	16	93	6	55	34	0	3	62	1.11
993336--993584	42	5.9	41	78	6	214	33	18	21	26	1.97
993356--993584	127	1.8	127	88	0	350	33	18	20	27	1.96
996196--996363	41	4.1	40	71	15	119	30	16	20	32	1.95
998906--998977	32	2.2	32	80	0	81	26	29	27	16	1.97
999918--999986	27	2.6	27	88	4	86	20	14	18	46	1.84
1001060--1001443	189	2.0	191	98	1	747	27	24	27	19	1.99
1002880--1003131	54	4.7	54	88	0	333	36	19	17	26	1.93
1003475--1003645	87	2.0	87	96	0	315	30	10	19	39	1.85
1003698--1003724	14	1.9	14	100	0	54	55	7	14	22	1.64
1006030--1006081	27	1.9	27	92	0	86	21	13	17	48	1.81
1007067--1007108	22	1.9	22	90	0	66	33	26	19	21	1.97
1007066--1007114	22	2.2	22	81	0	62	32	24	22	20	1.98
1007156--1007193	9	4.1	9	93	3	58	13	13	50	23	1.76
1010214--1010252	11	3.2	12	85	14	53	35	0	2	61	1.10
1011261--1011305	18	2.7	16	79	6	54	42	0	0	57	0.98
1013630--1013654	13	1.9	13	100	0	50	40	8	8	44	1.63
1013630--1013884	38	6.9	38	75	12	194	43	5	9	41	1.60
1013773--1013884	37	3.0	39	77	13	110	47	6	8	38	1.58
1013630--1013884	75	3.5	75	75	11	206	43	5	9	41	1.60
1013965--1014000	17	2.1	18	89	5	56	30	0	2	66	1.06
1013984--1014039	4	13.8	4	81	10	69	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1013984--1014037	24	2.2	24	90	3	81	29	0	0	70	0.88
1013977--1014039	28	2.3	28	91	8	103	30	0	0	69	0.88
1015161--1015197	19	1.9	19	89	10	58	27	5	0	67	1.12
1016245--1016280	12	3.0	12	87	0	54	27	2	0	69	1.02
1017333--1017429	22	4.5	22	94	2	162	39	14	18	27	1.90
1017753--1018154	55	7.3	55	87	5	564	38	19	16	26	1.92
1024275--1024320	19	2.4	19	100	0	92	30	32	21	15	1.94
1025884--1025912	15	1.9	15	100	0	58	27	6	37	27	1.82
1032441--1032493	26	2.0	26	100	0	106	47	7	7	37	1.60
1032441--1032481	14	3.1	14	72	13	50	48	7	7	36	1.59

Tables:   1   2   3   4   5   6   7   8