genome.fa.s7744.2.7.7.80.10.50.1000.4.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: VEPZ01007744.1 Hibiscus syriacus cultivar Beakdansim tig00110007_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4276731

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  4  of  16  ( 1862 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)
887876--888066	95	2.0	95	98	0	373	40	13	9	36	1.77
912492--913044	54	10.2	54	87	0	721	32	19	20	27	1.97
913366--913477	26	4.5	26	76	17	130	45	11	22	20	1.83
913346--913451	46	2.3	46	93	0	185	44	11	23	20	1.84
913366--913513	72	2.1	72	93	2	253	45	11	21	21	1.83
913438--913553	44	2.6	46	90	2	182	44	11	22	21	1.83
914148--914232	26	3.3	26	90	1	118	23	5	31	38	1.79
922082--922412	163	2.0	164	98	1	639	33	13	17	35	1.89
934525--934556	11	2.9	11	95	0	55	21	6	37	34	1.79
935915--935949	17	2.1	17	100	0	70	42	28	0	28	1.56
935887--936018	66	2.0	66	100	0	264	42	22	4	30	1.74
935981--936015	17	2.1	17	100	0	70	42	28	0	28	1.56
936018--936419	201	2.0	201	98	0	777	25	20	14	39	1.91
944245--944295	22	2.5	19	81	15	57	45	1	9	43	1.48
944314--944429	36	3.1	38	78	15	125	43	5	9	42	1.59
944275--944377	52	2.0	52	88	3	156	44	4	8	41	1.56
944381--944418	16	2.3	16	86	4	58	42	5	10	42	1.62
946397--946482	35	2.5	35	100	0	172	31	31	0	37	1.58
948742--948781	21	1.9	21	89	0	62	10	25	40	25	1.86
948764--948825	20	3.0	20	88	7	79	19	25	33	20	1.96
952630--952672	20	2.2	20	83	8	52	37	4	2	55	1.33
964974--965046	36	2.0	36	100	0	146	47	0	8	43	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
965037--965237	40	5.3	39	78	12	195	43	4	9	41	1.58
965035--965260	74	2.9	76	83	11	271	43	4	9	41	1.59
966082--966132	20	2.5	20	87	0	66	7	3	41	47	1.51
966636--966676	18	2.3	18	83	12	57	21	12	0	65	1.25
980828--980862	5	6.6	5	87	12	52	77	0	2	20	0.90
982348--982400	17	2.7	21	69	22	51	56	0	1	41	1.10
983066--983858	54	14.7	54	89	1	1094	25	16	19	37	1.93
987788--987824	16	2.2	17	90	4	58	35	5	24	35	1.78
992355--992413	30	2.0	30	89	0	91	25	16	27	30	1.97
993036--993073	16	2.4	16	90	0	58	28	18	15	36	1.92
993191--993247	8	6.8	8	75	11	51	57	3	0	38	1.16
996488--996534	20	2.3	20	82	13	53	55	6	2	36	1.37
998235--998288	28	1.9	28	81	7	65	70	0	1	27	0.98
1008031--1008073	2	21.5	2	100	0	86	48	0	0	51	1.00
1010030--1010871	143	6.0	144	77	7	732	38	15	10	35	1.81
1010998--1011450	231	2.0	231	83	5	576	38	16	12	32	1.86
1012071--1012240	83	2.0	84	93	2	288	37	8	15	37	1.79
1012756--1012980	98	2.3	99	84	2	283	34	13	10	41	1.79
1013403--1013445	18	2.4	17	81	11	50	23	30	4	41	1.74
1013764--1013793	2	15.0	2	100	0	60	50	0	0	50	1.00
1018275--1018326	20	2.6	19	77	16	61	36	7	9	46	1.66
1018388--1018678	103	2.9	100	83	6	379	40	11	12	35	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1020694--1020741	18	2.7	18	100	0	96	39	8	29	22	1.83
1022245--1022312	20	3.4	20	93	0	118	26	14	14	44	1.84
1022242--1022354	40	2.8	42	81	5	126	28	17	14	39	1.89
1023152--1023345	100	1.9	100	85	0	262	40	11	12	35	1.80
1023598--1023645	25	1.9	25	95	0	87	52	31	2	14	1.54
1024555--1024938	100	3.8	99	86	5	499	40	13	12	33	1.82
1024856--1025014	76	2.1	76	85	0	210	41	11	14	32	1.81
1025579--1025633	13	4.5	13	73	19	55	74	0	9	16	1.06
1026616--1026646	12	2.6	12	94	0	53	32	3	3	61	1.28
1028450--1028811	108	3.4	107	82	4	383	36	14	11	38	1.81
1029158--1029223	3	22.0	3	96	0	123	65	0	1	33	1.02
1037480--1037515	10	3.6	10	88	0	54	0	16	22	61	1.35
1037805--1037940	41	3.3	42	87	4	195	33	18	15	32	1.92
1041662--1041839	95	1.9	95	86	2	259	32	15	25	25	1.96
1041737--1041790	22	2.6	20	75	11	54	27	12	27	31	1.93
1041647--1041865	95	2.3	95	82	4	257	34	15	23	25	1.95
1042215--1042645	59	7.3	59	92	0	709	32	11	21	34	1.89
1042919--1043223	59	5.2	59	86	1	423	34	10	18	35	1.86
1042341--1043478	578	2.0	578	96	0	2116	37	10	20	32	1.86
1043482--1043829	81	4.3	81	94	0	579	37	13	21	28	1.91
1043843--1044219	59	6.4	59	89	0	565	33	10	20	35	1.87
1044478--1044882	81	5.0	81	92	0	621	37	12	21	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1045016--1045066	2	25.5	2	100	0	102	50	0	0	49	1.00
1046836--1046864	2	14.5	2	100	0	58	51	0	0	48	1.00
1049111--1049394	59	4.8	59	90	0	435	32	11	20	36	1.88
1049366--1049422	28	2.0	28	93	0	96	33	14	14	38	1.85
1049307--1049472	84	1.9	87	89	3	257	31	10	18	39	1.85
1049394--1049506	56	2.0	58	87	6	169	30	11	21	36	1.89
1049774--1050158	79	4.8	81	86	4	550	37	10	22	29	1.87
1050282--1050323	2	21.5	2	95	4	77	50	0	0	50	1.00
1050383--1050447	25	2.9	23	76	21	82	38	13	27	20	1.90
1050383--1050443	20	2.8	21	81	16	70	37	13	29	19	1.90
1052796--1052828	17	1.9	17	93	0	57	45	0	6	48	1.27
1053155--1053202	24	2.0	24	84	8	62	35	14	2	47	1.56
1053284--1053346	27	2.3	26	86	5	81	50	6	7	34	1.57
1053363--1053503	22	6.9	20	75	20	132	53	2	7	36	1.42
1053331--1053516	44	4.3	42	75	16	132	53	2	8	36	1.43
1053286--1053516	28	8.1	28	72	22	121	52	3	8	36	1.47
1053418--1053509	35	2.6	36	93	5	152	54	1	7	36	1.36
1053373--1053517	14	10.2	13	70	25	59	54	2	7	35	1.41
1054096--1054288	39	5.0	39	83	2	142	30	25	26	17	1.97
1054100--1054291	78	2.5	78	81	2	217	30	26	27	16	1.97
1055031--1055060	15	1.9	16	93	6	53	36	6	10	46	1.64
1055281--1055314	18	1.9	18	94	5	61	61	0	20	17	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055694--1055746	16	3.3	16	75	0	52	33	13	26	26	1.93
1056300--1056704	181	2.2	182	91	1	670	40	14	17	28	1.88
1059145--1059211	33	2.0	33	94	0	116	29	1	44	23	1.62
1059393--1059449	18	3.2	18	100	0	114	56	0	38	5	1.22
1060792--1060830	15	2.6	15	91	0	60	38	23	12	25	1.90
1060938--1061960	199	5.1	198	85	3	1327	36	13	17	32	1.89
1060939--1061966	401	2.6	401	90	1	1558	36	14	17	32	1.89
1062620--1062665	2	23.0	2	100	0	92	50	0	0	50	1.00
1064824--1064860	18	2.1	18	89	0	56	32	5	10	51	1.60
1064816--1064868	24	2.2	24	86	0	70	35	3	13	47	1.61
1065096--1065858	200	3.8	198	83	5	903	40	13	15	30	1.86
1069538--1070061	200	2.6	197	84	5	653	39	13	14	32	1.85
1070062--1070262	86	2.3	86	94	0	348	34	12	9	43	1.75
1070139--1070195	23	2.5	23	85	0	78	35	14	7	43	1.72
1070231--1070295	23	2.8	23	90	0	112	36	20	7	35	1.81
1070547--1071069	200	2.6	199	81	5	585	39	13	14	33	1.84
1071070--1071277	86	2.4	86	93	0	353	33	13	10	43	1.77
1071153--1071197	23	2.0	23	90	0	72	37	17	8	35	1.81
1071239--1071303	23	2.8	23	90	0	112	36	20	7	35	1.81
1074709--1074744	16	2.2	17	90	5	56	13	33	30	22	1.93
1078178--1078211	2	17.0	2	87	0	50	50	5	0	44	1.26
1078172--1078215	12	3.7	12	79	11	54	45	9	0	45	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1078638--1078732	22	4.4	21	70	18	54	49	7	3	40	1.47
1078685--1078815	36	3.8	34	68	17	83	51	3	5	38	1.43
1078651--1078856	22	9.4	21	70	17	86	50	4	3	40	1.42
1078802--1078858	30	2.0	29	83	13	73	50	7	1	40	1.40
1078870--1079192	23	14.5	21	71	20	89	54	3	6	35	1.44
1078912--1079001	27	3.3	27	93	4	146	46	5	6	41	1.53
1079025--1079194	8	23.1	8	75	20	131	57	1	6	34	1.35
1079023--1079200	23	8.1	23	77	17	182	56	1	6	35	1.34
1079023--1079196	58	2.9	58	80	11	174	56	1	6	35	1.35
1079212--1079295	14	6.1	13	79	12	80	34	10	1	53	1.43

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16