genome.fa.s8017.2.7.7.80.10.50.1000.5.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: VEPZ01008017.1 Hibiscus syriacus cultivar Beakdansim tig00110483_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3132588

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

This is table  5  of  15  ( 1748 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)
875705--875769	23	2.8	23	90	0	103	23	23	23	30	1.99
875706--875769	11	5.6	11	80	7	74	23	23	21	31	1.99
877275--877555	113	2.6	105	78	10	298	20	16	23	39	1.92
885749--885783	2	17.5	2	100	0	70	48	0	0	51	1.00
895352--895392	8	5.2	8	82	5	57	34	0	29	36	1.58
895463--895835	128	2.9	128	98	0	728	23	25	19	31	1.98
896090--896119	14	2.1	14	93	0	51	30	0	10	60	1.30
896235--896334	33	3.0	34	83	2	139	39	1	4	56	1.25
896856--896949	21	4.5	21	92	5	129	20	26	35	18	1.95
896953--897000	21	2.3	21	85	0	60	22	12	39	25	1.89
898725--898808	33	2.7	30	73	10	78	60	2	0	36	1.10
900120--900160	16	2.6	16	100	0	82	39	0	0	60	0.96
900371--900698	5	67.6	5	89	8	486	40	0	0	59	1.00
901977--902032	12	4.8	12	85	10	57	21	3	0	75	0.96
901990--902032	4	11.0	4	85	14	63	25	0	0	74	0.82
901990--902050	23	2.6	23	80	12	70	27	1	1	68	1.08
905675--905741	24	2.8	24	75	8	82	32	28	14	23	1.95
910518--910559	21	2.0	22	85	4	59	28	28	16	26	1.97
911301--911352	23	2.2	23	79	3	59	28	23	25	23	1.99
914988--915022	18	1.9	18	94	0	61	28	25	22	22	1.99
917274--917349	31	2.5	31	82	0	89	26	19	21	32	1.97
917982--918010	6	4.8	6	100	0	58	48	0	17	34	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
920620--920664	23	2.0	23	90	0	72	24	26	26	22	2.00
922261--922301	21	2.0	21	85	0	55	17	24	29	29	1.97
929504--929568	23	2.8	23	88	0	85	35	24	16	23	1.95
929549--929583	18	1.9	18	94	0	61	31	34	20	14	1.92
933295--933610	2	166.0	2	71	21	191	42	2	4	51	1.34
933365--933555	71	2.7	68	83	12	217	42	1	2	53	1.21
933374--933615	98	2.4	101	79	10	275	41	1	3	53	1.27
933425--933617	13	14.1	13	76	17	119	41	1	2	54	1.21
934878--934912	18	1.9	18	88	0	52	34	2	0	62	1.10
937196--937227	15	2.0	17	88	11	50	31	15	6	46	1.71
937355--937393	16	2.4	16	86	4	51	79	7	2	10	1.02
938210--938272	29	2.2	29	100	0	126	41	0	3	55	1.16
944523--944599	37	2.1	37	100	0	154	35	12	10	41	1.78
946998--947068	31	2.3	31	82	4	90	39	15	16	28	1.89
947744--947931	64	2.9	64	79	11	163	31	22	18	27	1.97
947722--947931	65	3.3	63	78	10	201	30	23	18	26	1.98
950038--950107	34	2.1	32	86	5	95	22	30	15	31	1.95
950390--950431	21	2.0	21	95	0	75	26	28	21	23	1.99
950537--950603	19	3.5	19	91	0	89	35	13	10	40	1.79
950668--950758	31	3.0	31	96	3	168	42	17	6	32	1.75
953560--953629	34	2.1	32	86	5	95	22	30	15	31	1.95
953660--953732	31	2.4	31	97	2	139	42	17	6	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
954002--954051	23	2.2	21	80	13	55	60	2	4	34	1.27
954122--954154	14	2.4	14	90	10	50	75	3	0	21	0.93
959600--959655	28	2.0	28	96	0	103	37	17	8	35	1.82
961950--962087	70	2.0	70	95	0	249	41	18	18	21	1.91
974505--974537	17	1.9	17	88	11	50	30	0	3	66	1.06
974505--974573	28	2.5	29	82	13	92	30	1	1	66	1.09
974533--974570	16	2.3	17	86	13	53	26	2	0	71	1.00
974505--974584	28	2.9	27	78	7	90	28	1	1	68	1.05
976586--976661	32	2.4	31	76	10	82	21	23	27	27	1.99
982148--982228	40	2.0	40	95	0	144	41	12	9	35	1.76
990395--990433	20	2.0	20	84	0	51	20	2	2	74	1.06
990526--990550	13	1.9	13	100	0	50	20	0	8	72	1.10
995004--995045	21	2.0	21	100	0	84	38	4	4	52	1.44
995012--995057	21	2.2	21	84	7	58	43	4	6	45	1.49
995377--995419	17	2.5	17	100	0	86	55	0	4	39	1.20
996677--996720	21	2.0	23	86	8	65	31	2	0	65	1.05
998447--998536	42	2.2	42	91	2	146	24	4	17	53	1.62
998659--998692	17	1.9	18	94	5	61	11	0	32	55	1.36
1000266--1000290	11	2.3	11	100	0	50	36	0	0	64	0.94
1001061--1001107	24	1.9	25	91	4	78	80	10	6	2	0.96
1005375--1005608	117	2.0	117	98	0	450	28	26	11	32	1.91
1006021--1006082	29	2.1	29	100	0	124	22	9	20	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009318--1009406	29	3.0	29	85	1	115	33	22	15	28	1.95
1010298--1010400	31	3.3	30	78	8	109	35	17	19	27	1.94
1011823--1011880	18	3.0	19	80	14	82	51	10	10	27	1.68
1012319--1012367	19	2.7	18	81	12	55	51	10	6	32	1.61
1014091--1014154	25	2.6	25	100	0	128	32	34	0	32	1.58
1015272--1015332	20	2.9	21	85	7	70	16	26	32	24	1.96
1019194--1019417	117	1.9	117	86	3	317	29	14	7	48	1.71
1021879--1021909	16	1.9	16	100	0	62	58	22	12	6	1.58
1021976--1022009	16	2.1	16	88	0	50	58	20	8	11	1.59
1023128--1023157	14	2.1	14	100	0	60	53	26	13	6	1.64
1032932--1032971	21	1.9	22	90	10	66	12	10	40	37	1.77
1033150--1033192	20	2.2	20	91	0	68	34	20	13	30	1.92
1036919--1037077	83	1.9	83	89	2	248	44	12	4	38	1.63
1040981--1041007	8	3.4	8	100	0	54	25	0	11	62	1.28
1041653--1041681	7	4.1	7	100	0	58	27	0	58	13	1.36
1042691--1042791	31	3.3	31	81	2	125	42	0	8	47	1.41
1042970--1043015	24	1.9	24	86	8	67	45	2	2	50	1.26
1052802--1052848	13	3.5	13	72	16	51	51	0	2	46	1.13
1058306--1058337	15	2.1	15	94	0	55	15	0	6	78	0.95
1058448--1058502	23	2.3	24	81	12	69	50	0	7	41	1.30
1060733--1060769	3	12.3	3	100	0	74	64	0	0	35	0.94
1061324--1061350	3	9.0	3	100	0	54	33	0	33	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064310--1064374	27	2.3	28	81	5	78	44	3	4	47	1.39
1065367--1065392	3	8.7	3	100	0	52	69	0	0	30	0.89
1074562--1074619	20	2.8	21	71	10	57	68	3	6	20	1.27
1074913--1075029	2	61.5	2	73	18	72	56	0	4	38	1.25
1076327--1077512	106	11.2	106	92	0	1872	22	17	24	34	1.96
1078511--1078565	22	2.5	22	96	0	101	25	10	27	36	1.89
1079158--1079231	23	3.3	21	78	12	67	1	13	8	77	1.06
1083666--1083754	42	2.1	42	83	8	110	66	0	4	29	1.11
1083667--1083795	21	6.1	22	70	14	76	66	0	4	27	1.16
1084433--1084525	37	2.5	37	85	0	114	31	12	13	41	1.83
1108277--1108346	21	3.3	20	75	14	70	62	4	1	31	1.23
1108259--1108323	21	3.0	21	86	6	76	64	4	0	30	1.14
1108247--1108313	8	8.8	8	70	20	54	64	2	0	32	1.09
1108507--1108554	19	2.5	19	96	0	87	47	10	8	33	1.68
1114774--1114819	23	2.0	23	87	12	67	21	0	26	52	1.47
1115420--1115478	25	2.4	25	82	0	64	32	13	10	44	1.77
1115648--1115697	17	2.7	18	84	12	66	26	0	6	68	1.13
1115668--1115721	23	2.2	25	77	9	58	33	0	3	62	1.12
1115830--1115870	21	2.0	21	95	0	73	26	21	24	26	2.00
1117391--1117457	31	2.2	31	84	15	86	41	0	2	55	1.15
1118576--1118607	4	8.0	4	92	0	55	71	0	28	0	0.86
1122999--1123032	13	2.7	13	90	4	52	17	41	23	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1123034--1123066	14	2.4	14	94	0	57	18	24	30	27	1.98
1123067--1123227	29	5.6	29	88	1	216	34	4	18	42	1.72
1130085--1130139	29	1.9	28	85	3	74	20	32	23	23	1.98
1130150--1130304	29	5.3	29	92	1	240	34	6	15	43	1.72
1139369--1139454	15	5.8	15	77	2	93	39	5	16	38	1.72
1139367--1139454	30	3.0	29	86	5	113	39	5	17	37	1.73
1139437--1139486	20	2.5	20	96	0	91	42	10	14	34	1.78
1139551--1139584	17	1.9	17	88	5	50	47	0	0	52	1.00
1139560--1139647	31	2.8	32	75	17	94	51	0	0	48	1.00
1139563--1139656	23	3.6	26	71	23	72	48	0	0	51	1.00

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