genome.fa.s7849.2.7.7.80.10.50.1000.4.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: VEPZ01007849.1 Hibiscus syriacus cultivar Beakdansim tig00110206_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3141433

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

This is table  4  of  12  ( 1357 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)
859209--859331	6	20.5	6	100	0	246	0	16	50	33	1.45
859410--859560	20	7.4	20	86	4	167	21	26	17	34	1.95
859408--859581	83	2.1	81	81	8	190	21	26	17	34	1.96
859408--859685	20	13.6	20	76	8	112	19	23	19	38	1.94
859635--859685	19	2.6	20	90	3	77	15	17	23	43	1.88
867319--867356	11	3.5	11	82	17	53	60	0	0	39	0.97
877105--877138	18	1.9	17	88	5	50	38	17	8	35	1.81
879641--879698	3	19.3	3	100	0	116	67	0	32	0	0.91
880701--880780	25	3.1	27	72	18	71	42	0	2	55	1.13
882291--882322	5	6.2	5	92	7	55	62	0	0	37	0.95
883585--883659	33	2.3	33	100	0	150	28	25	24	22	2.00
886340--886364	2	12.5	2	100	0	50	48	0	0	52	1.00
886340--886383	16	2.9	15	86	6	54	50	0	0	50	1.00
886705--886756	15	3.6	15	82	15	56	73	0	3	23	1.00
886724--886768	3	14.7	3	86	13	65	71	0	0	28	0.87
886708--886775	28	2.4	29	85	9	97	73	0	1	25	0.92
886709--886762	25	2.2	24	87	9	74	72	0	1	25	0.95
886790--886871	43	1.9	43	87	5	121	47	3	1	47	1.27
886832--886920	32	2.7	33	87	3	117	44	6	2	46	1.42
886813--887122	104	2.9	107	79	15	277	45	6	3	44	1.47
886898--887166	39	7.1	39	84	11	316	43	6	4	44	1.50
886898--887166	37	7.2	37	85	11	336	43	6	4	44	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
886785--887166	37	10.3	37	78	14	301	44	5	3	45	1.46
893216--893284	34	2.1	34	91	2	113	23	14	23	39	1.91
896819--897030	114	1.9	114	94	2	381	36	15	20	28	1.92
897025--897089	32	2.0	32	90	0	103	52	7	12	27	1.66
897863--897920	27	2.1	27	90	0	89	32	24	15	27	1.95
903574--903639	29	2.3	29	84	5	80	40	13	18	27	1.88
903623--903685	31	2.0	31	84	0	81	44	17	12	25	1.84
905552--905586	17	2.0	18	88	5	54	42	0	2	54	1.15
906363--906388	10	2.6	10	100	0	52	80	0	0	19	0.71
923632--923667	12	3.1	12	92	8	65	50	0	0	50	1.00
923706--923831	61	2.0	61	83	7	155	32	19	13	34	1.91
928884--928947	28	2.2	28	83	5	74	46	1	3	48	1.27
929178--929220	21	2.0	21	100	0	86	39	0	13	46	1.44
929189--929274	35	2.5	35	84	0	100	37	1	20	40	1.61
929405--929462	29	2.0	29	86	6	82	27	8	29	34	1.87
930893--930973	35	2.3	36	85	6	103	45	22	1	30	1.60
931764--931864	35	2.9	34	83	4	112	30	0	24	43	1.61
932437--932474	20	1.9	20	84	10	51	50	0	5	44	1.24
937769--937850	35	2.6	30	77	17	101	18	37	12	31	1.87
937771--937843	35	2.1	35	92	0	119	17	39	12	30	1.87
938400--938456	25	2.3	25	87	6	80	38	0	0	61	0.96
938396--938477	35	2.3	36	91	4	130	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
941428--941482	25	2.2	25	96	0	101	38	12	7	41	1.71
946336--946361	2	13.0	2	100	0	52	50	0	0	50	1.00
952459--952540	11	7.3	11	70	20	53	34	3	2	59	1.28
952583--952620	17	2.2	18	90	4	60	28	2	2	65	1.19
952710--952743	16	2.1	16	88	0	50	32	5	0	61	1.20
952724--952774	21	2.4	22	80	3	59	27	3	1	66	1.20
956109--956162	20	2.6	21	85	5	65	77	7	12	1	1.05
957651--957909	36	7.3	36	77	10	248	25	18	13	41	1.88
957651--957920	73	3.8	73	75	11	290	26	18	13	41	1.88
957599--957976	138	2.7	136	84	2	495	28	19	12	39	1.88
957687--957876	102	1.9	103	89	3	303	26	17	13	41	1.87
957790--957913	37	3.4	36	84	6	162	25	19	14	41	1.89
957871--958045	67	2.6	65	84	6	217	32	21	9	36	1.85
957862--958044	68	2.7	67	84	4	219	30	21	9	38	1.85
958649--959102	106	4.3	105	83	5	535	33	24	19	22	1.97
958649--959102	206	2.2	210	83	8	541	33	24	19	22	1.97
960322--960355	16	2.1	16	88	0	50	32	5	0	61	1.20
960336--960386	21	2.4	22	80	3	59	27	3	1	66	1.20
960375--960412	2	19.5	2	89	5	60	44	0	0	55	0.99
963996--964041	6	7.8	6	76	13	51	63	0	2	34	1.07
966065--966089	4	6.2	4	100	0	50	24	0	0	76	0.80
968141--968181	2	21.0	2	85	5	57	48	2	2	46	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
973721--973901	88	2.1	88	95	0	326	45	3	3	46	1.39
974117--974160	16	2.7	15	80	13	52	50	2	0	47	1.13
976583--976629	20	2.3	20	88	0	67	40	17	10	31	1.83
995359--995431	23	3.2	23	92	0	119	34	4	21	39	1.73
995777--995821	22	2.0	22	82	0	54	40	8	8	42	1.67
995839--995911	23	3.2	23	88	0	101	34	4	21	39	1.73
994938--996784	484	3.8	478	93	2	3150	41	7	10	41	1.66
996261--996305	22	2.0	22	82	0	54	44	8	6	40	1.62
996323--996395	23	3.2	23	86	0	101	36	5	19	38	1.75
999010--999051	13	3.2	13	86	3	57	69	4	0	26	1.08
1005711--1005778	32	2.1	32	89	5	102	32	13	16	38	1.87
1006262--1006292	13	2.4	13	100	0	62	29	0	0	70	0.87
1009699--1009738	20	2.1	19	85	4	53	50	2	2	45	1.28
1009792--1009825	16	2.2	16	89	5	52	58	2	0	38	1.13
1013420--1013463	17	2.6	18	82	10	56	43	0	2	54	1.12
1015136--1015168	2	16.5	2	100	0	66	48	0	0	51	1.00
1017167--1017195	14	2.1	14	100	0	58	58	20	13	6	1.58
1017323--1017361	2	19.5	2	83	0	51	51	7	0	41	1.31
1024504--1024528	12	2.1	12	100	0	50	24	32	0	44	1.54
1029042--1029097	28	2.0	28	100	0	112	25	32	21	21	1.98
1030616--1030731	54	2.1	54	79	3	126	31	25	16	25	1.96
1038366--1038396	16	1.9	16	93	0	53	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1039748--1039786	20	2.0	19	85	5	51	35	2	7	53	1.43
1040723--1040845	41	3.0	41	78	3	106	36	20	18	24	1.95
1040741--1040839	20	4.9	20	80	4	119	39	19	19	22	1.93
1041406--1041459	24	2.2	24	93	0	90	20	18	20	40	1.91
1043875--1043984	20	5.5	21	89	6	167	34	25	21	18	1.96
1044196--1044232	14	2.6	14	86	0	56	48	21	0	29	1.50
1045606--1045698	42	2.2	42	80	3	107	22	17	39	20	1.92
1046175--1046258	33	2.5	33	82	1	105	47	22	19	10	1.80
1046245--1046351	20	5.3	20	93	0	151	34	21	19	24	1.96
1046398--1046501	20	5.5	20	78	13	121	20	18	22	39	1.92
1046360--1046498	54	2.6	54	88	1	199	18	20	20	40	1.92
1048382--1048451	20	3.5	20	90	0	86	41	25	17	15	1.89
1048381--1048494	33	3.2	33	73	17	95	43	24	18	13	1.85
1049037--1049110	20	3.7	19	77	21	80	28	20	22	28	1.99
1054691--1054717	2	13.5	2	100	0	54	51	0	0	48	1.00
1057321--1057369	23	2.2	21	79	10	62	59	0	4	36	1.17
1064023--1064074	15	3.5	15	86	0	68	11	17	63	7	1.50
1067024--1067076	2	27.5	2	77	7	56	50	0	0	49	1.00
1069017--1069872	428	2.0	428	98	0	1658	38	13	19	28	1.89
1070755--1070850	39	2.5	39	81	6	113	23	22	14	38	1.92
1070830--1070919	39	2.3	39	82	0	108	23	22	12	42	1.87
1070860--1070947	39	2.3	39	82	4	97	28	18	13	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1078839--1078881	20	2.2	20	91	0	68	32	11	20	34	1.89
1087605--1087642	19	2.0	19	94	0	67	34	13	21	31	1.91
1095833--1095897	29	2.3	29	78	7	71	35	6	0	58	1.23
1101839--1101950	42	2.7	42	100	0	224	15	21	18	44	1.86
1102142--1102201	20	3.0	20	85	2	66	45	0	0	55	0.99
1102152--1102313	29	5.6	29	71	17	122	45	1	1	51	1.16
1102477--1102526	20	2.5	20	100	0	100	34	16	10	40	1.81
1102509--1102590	15	5.5	15	88	2	121	35	19	7	37	1.80
1102509--1102590	30	2.8	30	94	1	139	35	19	7	37	1.80
1102509--1102595	45	2.0	44	93	2	147	33	19	6	40	1.78

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