genome.fa.s5946.2.7.7.80.10.50.1000.5.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: VEPZ01005946.1 Hibiscus syriacus cultivar Beakdansim tig00013960_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2465359

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

This is table  5  of  11  ( 1316 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)
950996--951108	33	3.2	33	81	7	109	44	24	20	10	1.83
951109--951153	19	2.4	19	84	0	63	8	15	22	53	1.69
951744--951797	20	2.7	20	97	0	99	25	18	24	31	1.97
951786--951837	20	2.5	21	87	3	70	19	25	17	38	1.93
951704--951818	61	1.9	61	83	3	151	22	20	22	34	1.96
951868--951908	21	2.0	21	85	0	55	34	31	17	17	1.93
952288--952352	20	3.1	21	75	6	78	40	0	0	60	0.97
952349--952394	24	1.9	25	82	8	60	13	8	32	45	1.73
953604--953633	14	2.1	14	93	0	51	30	0	0	70	0.88
953849--954024	88	2.0	88	97	0	334	27	22	23	25	2.00
956539--956579	20	2.0	20	90	0	64	46	4	2	46	1.37
959447--961084	549	3.0	547	83	2	2041	20	26	14	38	1.92
969676--969713	2	19.0	2	100	0	76	50	0	0	50	1.00
970056--970125	22	3.3	22	66	11	65	18	15	25	40	1.90
970056--970148	41	2.3	40	88	5	134	20	13	25	39	1.90
970225--970258	6	5.3	6	86	13	50	35	50	14	0	1.44
970225--970252	14	2.0	14	100	0	56	35	50	14	0	1.43
970733--970781	6	8.2	6	100	0	98	0	16	48	34	1.46
973005--973041	19	1.9	19	88	0	56	40	0	0	59	0.97
984152--984236	22	3.9	22	92	4	120	35	20	18	25	1.95
984470--984507	2	19.5	2	94	5	69	50	0	0	50	1.00
985666--985728	23	2.8	23	87	2	92	28	26	23	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
985744--986064	103	3.1	103	96	0	597	37	23	12	26	1.91
990806--990933	61	2.1	61	85	0	175	27	14	28	29	1.95
993089--993154	30	2.2	30	97	2	125	33	40	9	16	1.80
995590--995698	5	19.2	6	78	12	51	51	0	1	45	1.18
995632--995699	5	14.0	5	96	3	122	58	0	0	41	0.98
996206--996257	20	2.5	20	75	9	52	51	0	0	48	1.00
996220--996244	13	1.9	13	100	0	50	44	0	0	56	0.99
996707--996745	3	13.0	3	100	0	78	33	0	0	66	0.92
1001037--1001413	185	2.0	185	94	1	666	42	2	8	46	1.49
1003032--1003104	29	2.4	31	86	9	114	36	23	16	23	1.94
1003481--1003509	13	2.2	13	100	0	58	48	13	20	17	1.81
1006714--1006761	20	2.4	19	76	10	51	39	2	4	54	1.32
1007716--1007878	30	5.5	30	71	17	103	38	5	1	54	1.34
1009028--1009076	4	12.2	4	91	0	62	24	28	0	46	1.53
1009496--1009538	18	2.4	19	80	11	54	44	4	0	51	1.22
1015427--1015478	21	2.5	21	81	3	61	38	19	25	17	1.93
1015467--1015601	20	6.7	20	80	7	121	33	24	17	24	1.96
1015464--1015595	61	2.2	61	87	0	183	35	24	16	23	1.95
1016077--1016133	20	2.8	20	86	0	69	17	17	21	43	1.88
1016270--1016324	25	2.2	24	78	15	58	20	9	18	52	1.71
1017961--1018015	20	2.8	20	88	2	76	34	23	25	16	1.95
1018016--1018073	14	3.9	14	75	16	53	50	22	15	12	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1018000--1018090	32	2.8	33	91	3	148	48	20	17	13	1.81
1018107--1018197	14	5.9	14	69	20	65	9	16	24	49	1.76
1018102--1018213	33	3.4	33	92	1	190	10	17	23	48	1.79
1018123--1018213	19	5.4	19	67	25	78	12	17	21	48	1.80
1018198--1018241	20	2.2	20	88	4	63	18	25	18	38	1.92
1020122--1020157	14	2.6	14	90	0	54	30	0	22	47	1.52
1020650--1020741	20	4.6	20	71	2	67	21	18	20	39	1.93
1020726--1020777	20	2.5	21	87	3	70	21	23	17	38	1.93
1020974--1021007	12	2.9	12	86	4	52	17	41	5	35	1.74
1021564--1021617	24	2.2	24	90	0	81	22	16	20	40	1.91
1021792--1021816	12	2.1	12	100	0	50	72	0	28	0	0.86
1024110--1024164	19	3.2	19	70	24	66	45	18	21	14	1.85
1024166--1024226	19	3.5	19	68	21	60	16	24	16	42	1.88
1024333--1024369	14	2.6	14	91	0	65	45	24	0	29	1.53
1025724--1025793	21	3.3	21	68	5	61	20	20	37	22	1.95
1025727--1025849	42	2.9	41	79	7	113	22	18	36	21	1.95
1026067--1026251	91	2.0	90	89	6	282	47	17	12	22	1.82
1027938--1028059	20	6.8	19	69	20	84	43	20	23	12	1.86
1027987--1028042	14	3.6	14	74	21	58	39	25	25	10	1.87
1027963--1028059	33	2.9	33	95	1	167	41	22	24	11	1.87
1028060--1028144	19	4.7	19	72	20	74	10	20	23	45	1.81
1028659--1028772	20	5.7	20	85	6	140	24	18	25	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1029685--1029838	60	2.5	60	79	5	150	45	2	17	34	1.62
1029851--1029901	27	1.9	26	88	4	75	45	0	5	49	1.26
1036743--1036782	21	2.0	21	90	5	64	30	0	5	65	1.14
1042618--1042679	3	19.3	3	84	15	72	32	0	0	67	0.91
1042617--1042677	10	6.2	10	88	11	99	31	0	0	68	0.89
1042618--1042679	19	3.2	19	93	6	99	32	0	0	67	0.91
1042621--1042687	16	4.4	15	83	14	84	31	0	1	67	1.00
1042618--1042691	19	4.2	17	85	13	80	32	0	1	66	1.00
1042966--1042990	12	2.1	12	100	0	50	32	36	16	16	1.90
1046541--1046602	32	2.0	32	96	3	117	14	14	9	61	1.57
1049037--1049114	26	3.2	25	67	22	76	24	23	10	42	1.85
1049052--1049126	20	3.5	20	70	20	62	26	25	10	37	1.89
1050951--1050998	22	2.1	22	88	11	71	45	25	4	25	1.71
1051453--1051690	105	2.3	101	82	5	264	31	18	12	38	1.87
1051637--1051717	36	2.3	36	80	6	94	32	20	9	37	1.86
1051652--1051755	36	3.0	36	81	4	124	32	20	11	35	1.88
1051994--1052175	29	6.4	29	85	5	210	28	10	14	46	1.77
1052004--1052160	56	2.8	57	83	4	212	29	10	15	44	1.80
1051997--1052160	85	1.9	85	87	4	242	28	10	15	45	1.80
1051997--1052175	56	3.2	56	81	7	200	29	10	14	45	1.78
1051993--1052175	85	2.2	85	81	4	235	28	10	14	46	1.77
1052171--1052274	52	2.0	53	94	3	183	32	13	17	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1052261--1052317	27	2.1	27	90	6	89	31	7	17	43	1.76
1052306--1052426	37	3.5	37	68	15	112	33	10	10	44	1.74
1052288--1052436	67	2.2	68	92	2	255	34	10	12	42	1.76
1052668--1052790	63	2.0	62	88	1	183	30	15	11	43	1.82
1052899--1052998	38	2.8	35	77	12	105	34	17	12	37	1.86
1053317--1053643	43	7.6	43	71	12	226	25	29	19	25	1.98
1053411--1053673	40	6.3	39	70	17	170	25	30	19	24	1.98
1053409--1053594	83	2.2	83	97	0	345	25	31	19	23	1.98
1053271--1053673	212	1.9	212	94	0	716	25	31	19	24	1.98
1053870--1053934	3	20.3	3	85	14	78	32	0	0	67	0.91
1053869--1053932	10	6.2	10	86	13	94	31	0	0	68	0.90
1053873--1053934	16	3.8	16	85	14	83	32	0	0	67	0.91
1054221--1054245	12	2.1	12	100	0	50	32	36	16	16	1.90
1059993--1060018	5	5.2	5	100	0	52	23	0	0	76	0.78
1062312--1062376	28	2.3	28	86	0	85	32	21	27	18	1.97
1065434--1065466	2	16.5	2	100	0	66	51	0	0	48	1.00
1065466--1065517	2	26.0	2	100	0	104	50	0	50	0	1.00
1071548--1071583	18	2.0	18	100	0	72	44	11	11	33	1.75
1085960--1085994	5	7.0	5	100	0	70	20	0	0	80	0.72
1087530--1088487	317	3.0	316	92	2	1577	25	7	23	43	1.80
1094235--1094278	23	1.9	23	86	9	63	52	0	2	45	1.13
1097326--1097396	34	2.1	34	97	0	133	43	26	9	19	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1097904--1097941	16	2.4	17	86	8	53	52	10	7	28	1.64
1100238--1100271	12	2.6	13	90	9	52	79	2	14	2	0.97
1101056--1101097	22	1.9	22	90	0	66	52	2	7	38	1.42
1101622--1101661	2	20.0	2	89	0	62	45	0	0	55	0.99
1102310--1102392	21	4.0	21	73	6	78	33	24	16	25	1.96
1102379--1102552	20	8.6	20	82	5	208	34	25	19	20	1.96
1103073--1103182	21	5.8	20	74	17	108	45	18	24	11	1.83
1103071--1103182	41	3.0	38	82	14	144	45	17	25	11	1.82
1103133--1103189	14	3.7	14	75	20	60	43	22	24	8	1.81
1103125--1103205	33	2.5	33	95	0	144	46	22	22	8	1.78

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