genome.fa.s8274.2.7.7.80.10.50.1000.4.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: VEPZ01008274.1 Hibiscus syriacus cultivar Beakdansim tig00110931_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1661830

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 705 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)
933069--933149	42	1.9	42	94	0	144	37	11	2	49	1.52
937936--938027	46	2.0	45	81	6	105	41	8	3	46	1.51
943294--943387	31	3.0	31	93	3	154	18	18	24	39	1.92
944098--944181	35	2.4	34	84	7	105	44	21	1	33	1.60
950552--950583	15	2.1	15	100	0	64	62	21	15	0	1.32
960160--960204	24	2.0	23	82	8	56	55	13	8	22	1.65
960752--960909	79	2.0	80	90	3	248	25	13	1	58	1.45
960947--960982	18	2.1	16	90	10	54	30	5	5	58	1.44
960933--960996	31	2.1	31	90	0	101	31	6	4	57	1.44
960933--960982	16	3.2	16	76	20	52	30	6	6	58	1.46
961669--961729	31	2.0	31	87	6	88	55	9	6	27	1.57
961757--961887	38	3.4	37	68	14	111	61	3	12	23	1.45
961755--961916	79	2.1	78	96	1	297	56	2	14	26	1.50
965047--965098	20	2.5	21	90	6	88	26	25	23	25	2.00
965088--965162	21	3.6	21	94	0	123	22	22	26	28	1.99
965055--965417	134	2.7	131	82	9	407	25	23	20	29	1.99
965221--965275	21	2.6	21	91	0	83	20	20	27	32	1.97
965063--965402	113	3.0	113	88	5	485	25	24	20	30	1.99
965286--965340	21	2.6	21	100	0	110	27	32	18	21	1.96
965354--965422	21	3.3	22	73	15	56	26	23	18	31	1.97
966007--966050	6	7.5	6	97	2	81	0	15	52	31	1.44
969999--970047	22	2.3	22	82	13	66	44	2	0	53	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
972015--972169	81	1.9	81	100	0	310	21	10	14	53	1.71
973438--973478	21	1.9	22	90	5	66	48	0	0	51	1.00
973449--973491	20	2.1	21	83	12	54	51	0	2	46	1.13
973844--973890	19	2.5	18	80	16	51	38	2	0	59	1.09
973830--973883	19	2.7	20	78	15	58	37	1	0	61	1.07
973958--974001	22	2.1	22	87	8	65	56	0	4	38	1.20
974902--974927	2	13.0	2	100	0	52	50	0	0	50	1.00
979991--980121	60	2.2	59	81	9	151	40	6	22	31	1.78
980499--980563	29	2.2	30	83	8	80	35	16	4	43	1.69
980573--980619	13	3.6	13	88	0	67	29	8	19	42	1.80
981711--981743	14	2.4	14	90	10	50	18	3	0	78	0.87
982490--982514	2	12.5	2	100	0	50	52	48	0	0	1.00
1014029--1014079	23	2.2	23	79	6	59	33	9	25	31	1.88
1014153--1014253	50	2.0	50	88	0	148	31	27	8	31	1.87
1024190--1024228	17	2.2	18	86	4	53	51	0	0	48	1.00
1024958--1025031	31	2.4	31	80	10	89	35	32	18	13	1.90
1026718--1026766	2	25.0	2	95	4	91	51	0	0	48	1.00
1033049--1033073	6	4.2	6	100	0	50	16	16	32	36	1.90
1035023--1035090	22	3.1	22	82	4	75	41	5	0	52	1.25
1040848--1040982	66	2.0	67	88	1	200	26	24	15	33	1.95
1042975--1043189	111	1.9	110	86	4	308	37	25	12	25	1.90
1046278--1046311	16	2.1	16	100	0	68	55	26	11	5	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1046381--1046457	16	4.8	16	90	0	118	54	20	14	10	1.69
1048716--1048764	3	16.3	3	78	0	53	34	2	34	28	1.69
1051297--1051415	60	2.0	60	86	0	166	25	23	23	27	2.00
1053506--1053557	24	2.1	25	82	10	63	44	11	9	34	1.73
1067664--1067753	18	4.6	19	72	12	67	18	10	3	67	1.33
1067662--1067775	57	2.0	57	100	0	228	19	8	3	68	1.31
1067981--1068075	45	2.0	47	94	6	167	15	15	22	46	1.84
1072921--1072963	4	10.8	4	94	0	77	53	20	0	25	1.46
1072933--1073177	118	2.1	119	86	4	343	40	18	15	24	1.90
1076183--1076225	2	22.0	2	95	4	79	51	0	0	48	1.00
1079915--1079963	20	2.4	21	80	16	59	34	0	8	57	1.29
1081240--1081418	60	3.0	60	91	1	288	18	16	36	28	1.93
1093384--1093467	42	2.0	42	100	0	168	30	19	23	26	1.98
1096704--1096851	73	2.0	73	100	0	296	29	20	16	33	1.95
1097917--1098105	60	3.2	59	77	13	165	33	19	5	41	1.74
1099947--1100045	38	2.6	38	87	4	128	43	10	1	45	1.44
1107173--1107226	27	2.0	27	88	0	81	35	27	3	33	1.75
1107624--1107686	3	21.3	3	75	12	51	28	0	0	71	0.86
1107626--1107689	6	10.3	6	78	11	58	26	0	0	73	0.84
1107624--1107686	18	3.8	17	79	16	78	28	0	0	71	0.86
1107626--1107689	31	2.1	32	88	11	98	26	0	0	73	0.84
1107945--1108235	153	1.9	153	100	0	582	25	27	12	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109049--1109082	15	2.3	15	95	5	61	20	5	0	73	1.04
1109049--1109109	15	3.9	15	81	14	54	18	9	0	72	1.11
1109069--1109108	16	2.4	17	83	8	55	17	12	0	70	1.18
1109150--1109188	11	3.5	11	80	13	53	12	7	0	79	0.93
1120322--1120664	186	1.8	186	84	3	467	27	20	15	36	1.92
1120704--1120743	20	2.0	20	100	0	80	55	30	0	15	1.41
1123166--1123194	14	2.0	15	93	6	51	65	0	0	34	0.93
1131152--1131280	66	2.0	66	88	0	195	31	19	19	30	1.96
1131150--1131293	66	2.2	66	84	0	180	31	19	20	29	1.97
1133131--1133378	125	2.0	123	97	1	469	31	15	12	41	1.84
1137699--1137771	21	3.5	21	88	1	103	39	16	21	21	1.92
1137760--1137907	20	7.3	20	83	4	145	29	25	18	26	1.98
1137802--1137907	20	5.3	20	91	0	158	24	27	19	28	1.99
1138070--1138101	12	2.8	12	95	4	57	15	37	6	40	1.73
1138657--1138710	24	2.2	24	90	0	81	22	16	20	40	1.91
1140313--1140680	182	2.0	181	97	2	711	33	15	23	27	1.95
1141313--1141430	19	6.7	19	70	19	85	44	20	23	11	1.83
1141313--1141391	19	4.4	19	76	16	87	44	20	22	12	1.85
1141332--1141426	33	2.9	33	95	0	163	46	18	23	11	1.82
1141441--1141539	33	2.8	33	86	10	119	13	18	21	47	1.82
1141474--1141547	38	1.9	38	91	0	121	14	20	18	45	1.85
1141436--1141539	19	5.7	19	83	11	130	12	18	21	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141646--1141682	14	2.6	14	91	0	65	45	21	0	32	1.52
1143631--1143726	19	4.9	19	88	5	147	45	19	21	12	1.83
1143739--1143805	19	3.5	19	79	4	71	10	17	25	46	1.80
1143750--1143802	19	2.7	19	91	2	79	11	20	24	43	1.85
1143750--1143809	20	3.0	20	87	2	95	11	20	21	46	1.82
1144352--1144457	20	5.2	20	81	2	113	24	20	16	37	1.93
1144405--1144466	20	3.1	20	88	0	79	29	20	17	32	1.96
1146490--1146583	40	2.4	40	83	7	111	45	0	12	41	1.42
1146617--1146669	24	2.2	24	86	0	70	66	3	1	28	1.20
1158018--1158225	107	1.9	107	100	0	416	30	16	15	37	1.90
1160189--1160218	15	1.9	16	93	6	53	16	3	0	80	0.85
1173101--1173129	2	14.5	2	100	0	58	48	0	0	51	1.00
1173372--1173440	36	1.9	36	100	0	138	40	7	20	31	1.80
1176421--1176462	2	21.0	2	100	0	84	50	0	0	50	1.00
1179122--1180055	214	4.3	214	80	6	955	38	24	12	25	1.90
1179900--1180290	165	2.4	164	83	4	475	39	26	10	23	1.87
1188941--1189022	21	3.9	21	86	9	114	31	20	23	24	1.98
1191363--1191419	29	1.9	30	92	3	98	56	17	10	15	1.67
1192716--1192758	22	2.0	22	100	0	86	51	13	0	34	1.42
1192718--1192766	22	2.2	22	88	3	71	55	14	0	30	1.40
1192706--1193439	54	13.4	54	75	12	689	52	13	0	33	1.42
1192738--1193293	32	19.7	32	72	22	393	52	13	0	33	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192822--1192879	18	3.4	18	70	18	61	56	13	0	29	1.38
1192738--1193239	112	4.5	112	71	17	459	52	13	0	33	1.44
1192872--1192915	22	2.0	22	82	8	54	54	4	0	40	1.21
1192882--1192924	22	2.0	22	95	0	77	51	11	0	37	1.39
1192884--1192932	22	2.2	22	85	3	62	55	12	0	32	1.37
1193006--1193059	14	3.6	14	72	18	54	57	5	0	37	1.22
1193048--1193090	22	2.0	22	100	0	86	51	13	0	34	1.42
1193050--1193098	22	2.2	22	88	3	71	55	14	0	30	1.40
1193218--1193260	22	2.0	22	95	0	77	53	11	0	34	1.37
1192706--1193439	166	4.5	166	94	3	1299	52	13	0	33	1.42

Tables:   1   2   3   4   5   6