genome.fa.s6023.2.7.7.80.10.50.1000.7.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: VEPZ01006023.1 Hibiscus syriacus cultivar Beakdansim tig00014213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1315283

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 899 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)
947890--947920	9	3.6	9	95	4	55	9	9	0	80	0.90
951868--953059	84	14.3	84	84	2	1393	33	24	18	23	1.97
951868--953059	329	3.6	330	85	2	1484	33	24	18	23	1.97
953338--953537	83	2.4	83	87	0	283	33	23	18	25	1.97
954138--954573	37	11.6	36	81	10	423	44	3	6	46	1.44
954138--954573	38	11.6	38	81	9	405	44	3	6	46	1.44
954577--954615	3	13.0	3	100	0	78	33	0	0	66	0.92
955737--955822	16	5.3	16	73	15	63	16	8	2	73	1.18
955787--955826	21	2.0	21	85	5	55	17	5	2	75	1.10
957544--957568	12	2.1	12	100	0	50	24	16	16	44	1.86
958840--958882	2	20.5	2	86	9	59	46	2	2	48	1.27
958857--958998	7	19.8	8	72	20	52	35	9	2	52	1.45
958959--959027	29	2.4	29	85	4	86	43	7	0	49	1.30
959076--959118	22	2.0	21	86	4	59	41	4	4	48	1.44
959988--960048	23	2.7	23	89	5	97	34	27	22	14	1.94
963818--963858	20	2.1	20	90	4	66	17	36	29	17	1.92
966614--966676	20	3.1	20	86	8	92	20	39	26	12	1.89
966614--966676	21	3.0	21	88	6	85	20	39	26	12	1.89
969099--969159	23	2.7	23	89	5	88	32	24	24	18	1.97
970695--970751	24	2.4	24	100	0	114	29	28	17	24	1.97
974454--974531	23	3.4	23	90	0	129	33	25	23	17	1.96
981235--981451	103	2.1	102	95	0	389	26	13	23	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
981469--981535	23	2.9	23	88	0	89	22	28	23	25	1.99
983512--983570	23	2.6	22	84	7	82	30	22	25	22	1.99
984208--984258	20	2.6	19	93	6	84	43	11	7	37	1.71
985143--985204	24	2.6	24	89	5	99	27	29	16	27	1.97
986036--986081	2	22.5	2	87	12	67	47	2	2	47	1.26
994576--994825	31	8.3	31	66	12	101	41	4	1	52	1.32
994873--994951	29	2.7	30	82	7	101	50	0	7	41	1.31
998023--998081	29	2.0	29	86	0	82	50	0	8	40	1.33
998023--998216	101	1.9	100	81	10	236	50	0	5	43	1.29
998663--998755	20	4.7	20	91	0	141	24	29	20	25	1.99
999476--999529	24	2.2	24	90	0	81	22	16	20	40	1.91
999704--999728	12	2.1	12	100	0	50	72	0	28	0	0.86
1000706--1000784	39	2.1	38	90	2	122	45	20	21	12	1.84
1000706--1000784	19	4.1	19	88	3	122	45	20	21	12	1.84
1000780--1000831	20	2.7	20	78	3	61	11	19	25	44	1.84
1001353--1001438	20	4.3	20	81	12	106	26	22	19	31	1.98
1002760--1002791	3	10.7	3	93	0	55	65	0	3	31	1.08
1004110--1004171	3	19.7	3	80	9	70	62	0	0	37	0.95
1004110--1004171	16	3.9	16	87	4	81	62	0	0	37	0.95
1004368--1005627	123	10.8	123	80	11	840	29	18	13	38	1.89
1004368--1005627	112	10.8	120	79	12	767	29	18	13	38	1.89
1004759--1005626	112	7.7	110	83	9	1009	30	19	12	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1004393--1005627	456	2.7	457	83	8	1431	29	18	13	38	1.89
1005001--1005627	225	2.8	222	91	3	962	30	18	12	37	1.88
1006366--1006578	115	1.9	114	92	3	356	31	20	15	31	1.94
1007258--1007333	17	4.9	16	76	13	79	1	23	0	75	0.89
1007255--1007322	30	2.1	31	89	10	102	0	22	0	77	0.76
1007255--1007332	22	3.4	22	77	13	77	1	21	0	76	0.85
1014662--1014693	15	2.1	15	94	0	55	46	9	18	25	1.79
1018576--1018627	20	2.6	19	79	8	59	65	1	0	32	1.04
1018484--1018719	121	2.0	116	80	5	267	47	7	7	38	1.59
1018793--1018818	3	8.7	3	100	0	52	69	0	0	30	0.89
1020135--1020210	3	23.7	3	84	10	73	60	0	0	39	0.97
1020148--1020210	10	6.7	10	81	15	64	63	0	0	36	0.95
1023803--1023904	29	3.5	29	76	15	95	40	3	0	54	1.25
1025090--1025251	60	2.7	59	83	5	191	41	7	1	49	1.38
1025134--1025253	30	4.0	31	85	5	183	38	8	1	51	1.42
1030921--1031002	26	3.2	26	62	25	64	50	9	18	21	1.76
1030901--1031005	52	2.0	52	100	0	210	46	11	19	22	1.81
1032811--1032862	9	5.8	9	77	8	52	28	7	21	42	1.80
1032808--1032862	18	3.0	19	78	10	69	29	9	20	41	1.82
1040469--1040586	24	4.9	24	85	4	166	27	13	20	38	1.90
1043479--1043537	30	2.0	30	83	6	75	38	6	20	33	1.79
1044704--1044753	9	5.6	9	83	9	66	32	6	22	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1045371--1045405	2	17.5	2	100	0	70	48	0	0	51	1.00
1045737--1045778	17	2.4	18	80	4	50	26	2	4	66	1.23
1056811--1056907	48	2.0	48	100	0	194	50	10	12	26	1.72
1056811--1056894	27	3.3	27	60	19	63	50	8	11	29	1.68
1057141--1057186	19	2.5	19	76	16	51	50	4	6	39	1.48
1059250--1059279	6	5.0	6	95	0	51	83	3	0	13	0.77
1062118--1062147	16	1.9	16	93	6	53	33	13	6	46	1.69
1069086--1069139	26	2.1	26	92	0	90	35	9	20	35	1.85
1070024--1070063	21	1.9	21	89	0	62	37	17	12	32	1.87
1070189--1070232	15	2.9	15	100	0	88	27	27	6	38	1.82
1073007--1073040	2	17.5	2	93	6	61	50	0	0	50	1.00
1082103--1082253	64	2.4	64	85	8	204	28	19	19	32	1.96
1082068--1082226	32	4.9	33	87	3	209	27	18	20	33	1.96
1084258--1084317	31	1.9	31	83	12	79	41	8	5	45	1.56
1086413--1086453	22	2.0	22	85	9	59	17	19	9	53	1.70
1092099--1092147	19	2.5	20	80	6	57	55	2	8	34	1.41
1095098--1095345	125	2.0	126	90	9	398	28	12	11	47	1.76
1100496--1100655	78	2.0	79	98	1	313	31	21	13	34	1.91
1104019--1104043	11	2.3	11	100	0	50	60	8	0	32	1.26
1107204--1107272	26	2.8	25	84	6	95	55	5	7	31	1.51
1118400--1118565	8	18.3	9	67	22	73	77	0	18	4	0.95
1118398--1118553	25	6.3	25	76	10	133	78	0	16	5	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1118395--1118574	11	14.8	12	70	20	115	77	0	17	5	0.95
1118395--1118574	30	6.1	29	70	21	101	77	0	17	5	0.95
1118398--1118550	7	20.7	7	68	25	77	78	0	16	5	0.92
1118398--1118550	18	8.3	18	73	18	111	78	0	16	5	0.92
1118397--1118573	24	7.5	24	72	20	115	77	0	17	5	0.94
1118398--1118551	57	2.7	57	81	10	172	78	0	16	5	0.92
1118405--1118567	16	9.6	16	73	19	111	77	0	17	4	0.94
1120963--1121090	44	2.9	44	82	2	132	28	19	18	32	1.96
1121440--1121509	33	2.2	32	80	7	79	75	0	14	10	1.04
1128017--1128079	32	2.0	32	81	6	74	44	1	0	53	1.10
1129584--1129755	85	2.0	85	98	0	335	40	8	19	30	1.82
1141267--1141406	43	3.2	42	82	8	147	28	15	27	28	1.96
1141488--1141627	44	3.2	44	87	1	201	27	15	25	31	1.96
1145448--1145520	21	3.4	21	90	1	110	15	32	28	23	1.95
1146227--1146269	17	2.5	17	84	3	50	62	2	25	9	1.37
1146915--1146974	32	2.0	31	87	9	88	25	21	20	33	1.97
1146888--1146974	36	2.6	34	83	7	106	26	20	19	33	1.97
1150113--1150238	63	2.0	63	92	3	209	44	11	10	33	1.75
1151733--1151769	18	2.1	17	95	5	65	70	16	5	8	1.30
1155988--1156069	20	3.9	21	78	9	78	14	24	36	24	1.93
1159862--1159901	21	1.9	21	85	10	55	35	10	2	52	1.48
1164425--1164484	20	3.0	20	87	4	95	30	33	21	15	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1168359--1168401	17	2.5	17	84	3	50	62	2	25	9	1.37
1169025--1169116	32	2.7	34	85	6	116	25	19	22	32	1.97
1170527--1170596	36	1.9	36	82	0	86	32	20	15	31	1.94
1172245--1172275	16	1.9	16	93	0	53	45	3	0	51	1.17
1179215--1179247	15	2.2	15	94	0	57	15	69	9	6	1.34
1185270--1185430	59	2.7	59	80	7	148	38	6	23	31	1.80
1187552--1187604	15	3.3	15	85	14	79	13	22	35	28	1.92
1187555--1187617	18	3.7	18	91	6	96	12	25	36	25	1.91
1192288--1192411	60	2.1	60	82	10	148	31	9	20	38	1.85
1198903--1198958	30	1.9	28	82	7	67	33	10	1	53	1.46

Tables:   1   2   3   4   5   6   7   8