genome.fa.s8953.2.7.7.80.10.50.1000.6.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: VEPZ01008953.1 Hibiscus syriacus cultivar Beakdansim tig00112281_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2822058

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  6  of  15  ( 1787 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)
999586--999779	20	9.6	20	76	8	76	35	25	19	19	1.95
999582--999779	40	5.0	39	81	4	200	35	26	19	19	1.95
999586--999778	60	3.2	60	83	0	251	35	25	19	19	1.95
1000158--1000228	33	2.2	33	92	0	115	11	22	18	47	1.80
1000349--1000403	14	3.6	14	73	21	56	41	23	25	9	1.83
1000349--1000419	33	2.2	33	94	0	124	43	25	22	8	1.81
1000415--1000517	19	5.9	19	74	19	100	10	24	21	43	1.84
1000415--1000520	52	2.0	52	94	0	185	10	24	20	44	1.83
1002761--1002785	12	2.1	12	100	0	50	0	28	0	72	0.86
1002960--1003006	24	2.0	24	87	8	69	38	21	14	25	1.92
1003689--1004057	20	18.5	20	86	4	458	20	18	26	34	1.96
1006614--1006639	11	2.4	11	100	0	52	46	7	0	46	1.31
1007719--1007759	19	2.2	19	100	0	82	24	0	26	48	1.51
1007971--1008041	3	23.7	3	97	0	133	33	1	0	64	1.02
1008037--1008061	11	2.3	11	100	0	50	52	0	0	48	1.00
1011627--1011668	7	6.0	7	81	8	50	14	16	14	54	1.71
1011627--1011668	15	3.0	14	83	10	50	14	16	14	54	1.71
1011728--1011787	27	2.3	26	82	2	75	21	11	8	58	1.59
1013742--1013812	19	4.1	16	77	19	70	80	1	16	1	0.86
1013747--1013812	8	7.4	9	77	15	50	81	1	15	1	0.83
1013738--1013812	27	2.7	26	80	15	80	80	1	17	1	0.86
1013738--1013821	22	3.9	21	73	11	71	79	2	16	1	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1013754--1013821	10	6.4	10	75	11	55	80	2	14	1	0.89
1016049--1016313	83	3.2	83	95	1	460	27	13	21	36	1.92
1018551--1018630	40	2.0	40	95	0	142	33	16	21	28	1.95
1018966--1019020	22	2.5	22	90	0	92	34	12	14	38	1.84
1019428--1020438	116	8.9	115	92	4	1531	37	13	20	28	1.91
1019428--1020439	344	3.0	342	92	2	1614	37	13	20	28	1.91
1019428--1020438	228	4.4	230	91	4	1547	37	13	20	28	1.91
1020756--1020849	3	31.7	3	95	2	172	34	1	0	64	1.00
1020845--1020874	11	2.8	11	95	5	53	56	0	0	43	0.99
1023850--1023882	17	1.9	17	93	0	57	6	12	9	72	1.26
1024497--1024541	19	2.4	19	96	3	83	11	11	8	68	1.39
1027950--1028658	164	4.3	168	78	4	719	29	24	20	25	1.99
1027950--1028654	84	8.5	83	78	5	687	28	24	20	25	1.99
1027950--1028658	248	2.9	248	93	0	1206	29	24	20	25	1.99
1029779--1029835	4	13.8	4	89	7	78	29	0	0	70	0.88
1029777--1029860	38	2.4	37	84	11	113	27	1	0	71	0.93
1029977--1030040	33	2.0	33	81	9	78	17	7	1	73	1.14
1030440--1030959	209	2.4	209	83	7	611	53	7	11	27	1.64
1031053--1031170	13	7.9	14	74	16	64	46	5	5	42	1.50
1031055--1031106	18	2.8	19	85	8	72	46	5	1	46	1.38
1031059--1031114	18	3.0	20	80	15	66	46	5	3	44	1.43
1031068--1031170	13	7.3	13	74	17	82	46	5	5	41	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1031160--1031221	25	2.5	25	100	0	124	53	8	3	35	1.47
1031668--1031724	20	2.8	20	71	15	53	49	5	5	40	1.48
1031720--1031766	24	2.0	24	87	8	69	42	8	8	40	1.66
1031775--1032087	13	23.8	13	65	17	103	46	8	3	40	1.53
1031944--1032005	22	3.0	21	73	17	65	46	11	4	37	1.61
1031976--1032025	24	2.1	24	88	7	75	40	8	8	44	1.63
1031990--1032035	24	1.9	24	86	8	67	43	6	6	43	1.56
1031850--1032107	27	9.7	26	70	22	98	46	7	3	42	1.50
1032017--1032107	37	2.5	37	77	10	89	51	6	1	40	1.35
1032021--1032098	29	2.9	26	84	7	95	51	5	1	42	1.32
1032066--1032128	18	3.4	19	80	10	67	47	4	3	44	1.40
1032554--1032585	15	2.1	16	94	5	57	65	0	0	34	0.93
1036596--1036678	34	2.5	34	94	3	143	60	0	0	39	0.97
1036605--1036681	18	4.4	18	70	18	63	61	0	0	38	0.96
1038812--1038853	22	1.9	22	85	9	59	69	7	0	23	1.13
1044479--1044560	30	2.8	29	80	9	85	21	13	7	57	1.61
1045805--1045848	16	2.8	16	96	0	79	6	25	4	63	1.38
1047503--1047558	2	28.0	2	100	0	112	50	0	0	50	1.00
1047737--1047805	30	2.3	30	83	16	83	76	4	15	2	1.06
1047735--1047789	13	3.8	14	78	11	58	78	1	16	3	0.98
1047751--1047795	13	3.5	13	82	8	56	82	4	11	2	0.91
1049659--1049782	65	1.9	65	85	3	169	39	18	14	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1049667--1049818	65	2.4	62	80	7	166	37	19	15	27	1.92
1050065--1050374	85	3.6	85	91	0	494	34	20	19	26	1.96
1052202--1052263	30	2.1	30	82	11	74	24	11	6	58	1.56
1052211--1052283	30	2.4	29	84	10	94	20	10	6	61	1.51
1052270--1052333	21	3.3	18	77	12	56	25	3	0	71	1.00
1053560--1053654	3	30.7	3	70	6	64	31	7	2	58	1.37
1053560--1053637	40	1.9	41	84	2	104	32	8	2	56	1.44
1054730--1055068	139	2.4	138	78	5	351	45	12	15	26	1.82
1056024--1056055	8	4.1	8	92	8	57	0	12	0	87	0.54
1056024--1056056	15	2.2	15	100	0	66	0	15	0	84	0.61
1056029--1056063	15	2.3	15	90	0	52	0	17	0	82	0.66
1056323--1056399	37	2.1	36	82	2	91	35	7	22	35	1.83
1056328--1056598	103	2.6	104	82	2	330	34	11	20	33	1.89
1056357--1056488	67	2.0	66	82	7	162	35	12	18	32	1.89
1056322--1056634	36	8.9	35	67	15	139	35	10	19	33	1.87
1056528--1056873	142	2.5	137	84	6	426	38	9	19	32	1.85
1061882--1061935	24	2.2	24	90	0	90	9	24	31	35	1.87
1063236--1063277	23	2.0	22	86	13	61	66	0	21	11	1.23
1063275--1063318	20	2.2	20	95	0	79	63	2	22	11	1.38
1065429--1065624	100	2.0	100	100	0	392	35	20	22	20	1.96
1069432--1069530	48	2.1	48	100	0	198	31	6	31	31	1.82
1074923--1074969	13	3.5	13	77	13	51	55	0	4	40	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1076311--1076337	2	13.5	2	100	0	54	48	0	0	51	1.00
1076338--1076437	3	33.0	3	83	2	128	60	0	2	38	1.09
1076338--1076437	27	3.7	27	95	1	164	60	0	2	38	1.09
1076709--1076895	92	2.1	90	83	5	234	29	17	16	36	1.92
1076799--1077126	107	2.9	112	82	8	391	29	19	14	36	1.91
1077061--1077203	72	2.0	73	87	1	207	35	19	15	29	1.93
1076930--1077316	185	2.1	186	88	1	580	31	19	14	34	1.91
1077110--1077593	113	4.3	112	85	4	641	29	19	13	38	1.90
1077110--1077593	225	2.2	225	88	2	713	29	19	13	38	1.90
1078337--1078637	83	3.7	83	94	1	552	37	24	13	24	1.92
1078337--1078637	164	1.8	164	98	0	584	37	24	13	24	1.92
1079780--1079840	9	6.8	9	85	7	70	0	11	0	88	0.51
1079791--1079839	5	8.8	6	91	8	54	0	8	0	91	0.41
1079799--1079840	1	42.0	1	90	0	66	0	4	0	95	0.28
1079782--1079843	6	9.3	7	91	5	78	0	11	0	88	0.51
1091082--1091121	14	3.1	13	82	10	55	60	0	0	40	0.97
1092482--1092574	3	31.3	3	82	2	116	59	0	2	38	1.10
1096703--1096829	60	2.1	60	85	2	166	35	20	4	39	1.74
1097474--1097536	28	2.2	29	81	10	76	39	3	11	46	1.55
1097754--1097989	51	4.7	49	80	8	210	49	13	11	25	1.76
1097792--1097981	101	1.9	102	86	1	274	50	12	11	25	1.74
1098646--1098757	57	2.0	57	98	0	215	40	21	11	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1098780--1098856	37	2.1	37	97	0	145	45	29	6	18	1.74
1101524--1101705	18	10.1	18	69	16	67	73	2	5	19	1.14
1101502--1101705	6	32.5	6	68	19	60	72	2	5	19	1.17
1101556--1101586	3	10.3	3	100	0	62	67	0	0	32	0.91
1101614--1101689	21	3.6	21	75	20	54	72	2	10	14	1.22
1101640--1101696	21	2.8	19	78	21	62	75	1	8	14	1.11
1101690--1101747	3	20.0	3	76	13	59	67	1	3	27	1.17
1101956--1102029	8	9.4	8	71	11	55	70	1	2	25	1.09
1101956--1102040	22	3.6	23	72	18	66	68	1	3	27	1.13
1102801--1102867	14	5.1	13	74	12	57	82	2	4	10	0.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15